Rule 52: (3, lift 18.8) ecoli_theo_pI > 9.62 amino_acid_pairs_mn > 0 [ss_coil( A ,gt,1),nss_coil( A , B ,lteq,6),nss_coil( B , C ,gt,1)] = 0 -> class 'Laterally acquirred elements' [0.800] Evaluation on test data (712 items): ecoli1683 - 2,2,1 Macromolecule metabolism Macromolecule synthesis, modification Amino acyl tRNA syn; tRNA modification 'pheM' 'phenylalanyl-tRNA synthetase (pheST) operon leader peptide' ecoli22 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insA_1' 'IS1 protein InsA' ecoli3749 - 1,2,1 Cell processes Chromosome replication Chromosome replication 'b3837' 'twin arginine translocation part of sec-independent protein export' Test Accuracy: 1/3 (33.33%) Test Frequency class 'Laterally acquirred elements': 25/712 (3.51%) Test Significance: dev(2.81) ; prob(1.016817E-01) Application to new data (2167 items): ecoli4140 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b4250' 'orf' ecoli708 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0725' 'orf' ecoli1211 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1240' 'orf' ecoli501 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0510' 'orf' ecoli1145 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1172' 'orf' Frequency rule on new data: 5/2167 (0.23%) Evaluation on training data (939 items): ecoli1278 5,1,2 Extrachromosomal Laterally acquirred elements Phage-related functions and prophages 'pspD' 'phage shock protein' ecoli267 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insA_3' 'IS1 protein InsA' ecoli1862 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insA_5' 'IS1 protein InsA' Training Accuracy: 3/3 (100.00%) Training Frequency class 'Laterally acquirred elements': 40/939 (4.26%) Training Significance: dev(8.21) ; prob(7.730066E-05) Evaluation on validation data (471 items): ecoli257 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insA_2' 'IS1 protein InsA 2' ecoli4183 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insA_7' 'IS1 protein InsA' ecoli3367 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insA_6' 'IS1 protein InsA' Validation Accuracy: 3/3 (100.00%) Validation Frequency class 'Laterally acquirred elements': 26/471 (5.52%) Validation Significance: dev(7.17) ; prob(1.682121E-04) ------------------ Rule 69: (167/57, lift 3.3) ecoli_hydro > 0.214 -> class 'Transport/binding proteins' [0.657] Evaluation on test data (712 items): ecoli716 - 3,5,3 Metabolism of small molecules Energy metabolism, carbon Electron transport 'cydA' 'cytochrome d terminal oxidase polypeptide subunit I' ecoli335 1,5,21 Cell processes Transport/binding proteins MFS family 'lacY' 'MFS family of transport protein galactoside permease (M protein)(1st module)' ecoli1913 - 4,1,5 Structural elements Cell envelop Surface structures 'fliP' 'flagellar biosynthesis' ecoli3879 - 1,2,1 Cell processes Chromosome replication Chromosome replication 'secE' 'protein secretion inner membrane protein' ecoli3338 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'gntT' 'high-affinity gluconate permease in GNT-I system' ecoli2670 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'hypE' 'plays structural role in maturation of all 3 hydrogenases' ecoli3967 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'nrfD' 'putative nitrate reductase formate dependent also paral putative STP family of transport protein' ecoli2711 1,5,21 Cell processes Transport/binding proteins MFS family 'b2771' 'MFS family of transport protein (3rd module (function unknown)' ecoli3798 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'fdoI' 'formate dehydrogenase cytochrome B556 (FDO) subunit' ecoli3927 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'malF' 'ABC superfamily (membrane) membrane component of maltose ABC transport system (2nd module)' ecoli2240 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'nuoH' 'NADH dehydrogenase I chain H' ecoli1485 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1514' 'ABC superfamily (membrane)paral putative membrane component of ABC transport system' ecoli1307 1,5,43 Cell processes Transport/binding proteins ArAAP family 'ydaH' 'ArAAP family p-aminobenzoyl-glutamate utilization paral putative pump protein (transport)(1st module)' ecoli470 1,5,21 Cell processes Transport/binding proteins MFS family 'fsr' 'MFS family of transport protein fosmidomycin resistance protein(2nd module)' ecoli3833 1,5,22 Cell processes Transport/binding proteins MIP family 'glpF' 'MIP family facilitated diffusion of glycerol' ecoli2374 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'cysW' 'ABC superfamily (membrane) membrane component of sulfate ABC transport system; permease W protein' ecoli3658 1,5,24 Cell processes Transport/binding proteins Membrane-bound ATP synthase 'atpE' 'membrane-bound ATP synthase F0 sector subunit c' ecoli746 1,5,11 Cell processes Transport/binding proteins DASS family 'b0770' 'DASS family of transport protein' ecoli1400 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'tehA' 'tellurite resistance; K+-tellurite ethidium and proflavin transport; membrane protein' ecoli3374 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'ugpE' 'ABC superfamily (membrane)sn-glycerol 3-phosphate transport system integral membrane protein(1st module)' ecoli953 - 3,5,3 Metabolism of small molecules Energy metabolism, carbon Electron transport 'appB' 'probable third cytochrome oxidase subunit II' ecoli175 - 3,6,1 Metabolism of small molecules Fatty acid biosynthesis Fatty acid and phosphatidic acid biosynth 'cdsA' 'CDP-diglyceride synthase(2nd module)' ecoli112 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'aroP' 'APC family of transport protein aromatic amino acid transport protein' ecoli4210 1,5,19 Cell processes Transport/binding proteins GntP family 'gntP' 'GntP family of transport protein high affinity gluconate transporter/gluconate permease in gnt-iii system (2nd module)' ecoli818 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'b0842' 'transmembrane multidrug/chloramphenicol efflux transporter (2nd module)' ecoli4120 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'ytfT' 'ABC superfamily (membrane)paral putative membrane component' ecoli333 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'cynX' 'cyanate transport' ecoli728 1,5,6 Cell processes Transport/binding proteins CDF family 'b0752' 'CDF family of transport protein (1st module)' ecoli1499 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'ydeA' 'ABC superfamily (membrane)putative membrane component of ABC transport system appears to facilitate arabinose export contributes to control of arabinose regulon' ecoli3462 1,5,36 Cell processes Transport/binding proteins STP family 'yhjV' 'STP family of transport protein' ecoli808 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b0832' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli47 1,5,9 Cell processes Transport/binding proteins CPA2 family 'kefC' 'CPA2 family k+ efflux antiporter glutathione-regulated (2nd module)' ecoli1683 - 2,2,1 Macromolecule metabolism Macromolecule synthesis, modification Amino acyl tRNA syn; tRNA modification 'pheM' 'phenylalanyl-tRNA synthetase (pheST) operon leader peptide' ecoli2921 1,5,32 Cell processes Transport/binding proteins PiT family 'pitB' 'PiT family low-affinity phosphate transport(1st module)' ecoli3525 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'lldP' 'L-lactate permease(1st module)' ecoli581 1,5,31 Cell processes Transport/binding proteins POT family 'ybdA' 'paral putative POT family of transport protein (1st module)' ecoli769 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b0793' 'putative membrane component of ABC transport system(2nd module)' ecoli3980 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yjcV' 'ABC superfamily (membrane) membrane component of allose ABC transport system(1st module)' ecoli3200 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yhdY' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli2765 - 2,2,7 Macromolecule metabolism Macromolecule synthesis, modification Phospholipids 'lgt' 'phosphatidylglycerol-prolipoprotein diacylglyceryl transferase; a major membrane phospholipid posttranslational lipid modification oflipoproteins' ecoli252 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'ykfD' 'APC family of transport protein S-methylmethionine permease' ecoli1436 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'narV' 'nitrate reductase 2 gamma subunit' ecoli614 - 1,7,1 Cell processes Cell division Cell division 'ybeI' 'high-copy crc-csp restores normal chromosome condensation in presence of camphor or mukB mutations' ecoli3961 1,5,35 Cell processes Transport/binding proteins SSS family 'yjcG' 'SSS family transport protein' ecoli565 1,5,33 Cell processes Transport/binding proteins RNDfamily 'ybdE' 'RND family of transport protein paral putative transport system (2nd module)' ecoli3643 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'bglF' 'Sugar Specific PTS family beta-glucosides enzyme II cryptic (2nd module eiia (ei interaction)?)' ecoli2364 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'cysZ' 'required for sulfate transport' ecoli1787 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'manZ' 'Sugar Specific PTS Sugar specific-family of transport protein; enzyme IID mannose-specific' ecoli680 1,5,30 Cell processes Transport/binding proteins P-type ATPase family 'kdpB' 'P-type ATPase familyATPase of high-affinity potassium transport system B chain' ecoli1380 - 3,3,11 Metabolism of small molecules Central intermediary metabolism Nucleotide interconversions 'b1409' 'putative phosphatidate cytidiltransferase(2nd module)' ecoli2182 - 3,4,4 Metabolism of small molecules Degradation of small molecules Fatty acids 'b2224' 'acetyl-CoA acetyltransferase' ecoli3290 1,5,14 Cell processes Transport/binding proteins FNT family 'nirC' 'FNT family transport protein' ecoli2324 1,5,21 Cell processes Transport/binding proteins MFS family 'emrY' 'MFS family of transport protein multidrug resistance protein y (2nd module)' ecoli662 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'nagE' 'Sugar Specific PTS family n-acetylglucosamine-specific enzyme IIABC (3rd module)' ecoli3587 1,5,21 Cell processes Transport/binding proteins MFS family 'uhpT' 'MFS family of transport protein hexose phosphate transport protein (2nd module)' ecoli644 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'gltJ' 'ABC superfamily (membrane) glutamate/aspartate transport system permease' ecoli1158 - 4,1,5 Structural elements Cell envelop Surface structures 'dsbB' 'reoxidizes DsbA protein following formation of disulfide bond in P-ring of flagella' ecoli1089 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1116' 'ABC superfamily (membrane) paral putative membrane component of ABC transport system' ecoli3293 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'yhfM' 'APC family paral putative amino-acid transport protein (2nd module)' ecoli3998 1,5,29 Cell processes Transport/binding proteins Outer membrane channel 'phnE' 'membrane channel protein component of Pn transporter' ecoli3575 1,5,18 Cell processes Transport/binding proteins GltS family 'gltS' 'GltS family glutamate transport (2nd module)' ecoli2655 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'ascF' 'PTS family enzyme II ABC (asc) cryptic transports specific beta-glucosides' ecoli1808 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'b1840' 'putative resistance protein' ecoli4017 1,5,12 Cell processes Transport/binding proteins Dcu family 'dcuB' 'Dcu family anaerobic C4-dicarboxylate transporter' ecoli1457 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1486' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli2404 - 3,4,1 Metabolism of small molecules Degradation of small molecules Amines 'eutG' 'ethanolamine utilization; homolog of salmonella enzyme similar to iron-containing alcohol dehydrogenase (2nd module)' ecoli602 - 3,4,3 Metabolism of small molecules Degradation of small molecules Carbon compounds 'b0612' 'citrate carrier transport citrate trading for succinate export' ecoli3380 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'livH' 'ABC superfamily (membrane) membrane component of high-affinity branched-chain amino acid ABC transport system(2nd module)' ecoli2662 - 3,5,4 Metabolism of small molecules Energy metabolism, carbon Fermentation 'hycD' 'membrane-spanning protein of hydrogenase 3 (part of FHL complex)' ecoli2538 1,5,21 Cell processes Transport/binding proteins MFS family 'kgtP' 'MFS family of transport protein alpha-ketoglutarate permease(1st module)' ecoli2246 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'nuoA' 'NADH dehydrogenase I chain A' ecoli3580 1,5,21 Cell processes Transport/binding proteins MFS family 'yicK' 'MFS family of transport protein two-module paral putative transport protein (2nd module)' ecoli879 1,5,14 Cell processes Transport/binding proteins FNT family 'focA' 'FNT family membrane protein (formate channel 1)(2nd module)' ecoli2198 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'glpT' 'sn-glycerol-3-phosphate permease' ecoli566 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'pheP' 'phenylalanine-specific transport system' ecoli407 - 3,2,13 Metabolism of small molecules Biosynthesis of cofactors, carriers Riboflavin 'ribH' 'riboflavin synthase beta chain' ecoli4041 1,5,34 Cell processes Transport/binding proteins SMR family 'sugE' 'SMR family of transport protein' ecoli3889 - 3,2,14 Metabolism of small molecules Biosynthesis of cofactors, carriers Thiamin 'thiG' 'thiamin biosynthesis thiazole moiety' ecoli1249 - 2,2,7 Macromolecule metabolism Macromolecule synthesis, modification Phospholipids 'pgpB' 'non-essential phosphatidylglycerophosphate phosphatase membrane bound' ecoli2521 - 6,1,1 Global functions Global regulatory functions Global regulatory functions 'rseC' 'sigma-E factor negative regulatory protein' ecoli2120 1,5,7 Cell processes Transport/binding proteins CNT family 'yeiJ' 'CNT family of transport protein' ecoli1020 - 1,6,2 Cell processes Adaptation Osmotic adaptation 'b1047' 'membrane protein required for succinyl substitution of glucan backbone of OPG (osmoregulated periplasmic glucan) possible succinyl transferase' ecoli3579 1,5,16 Cell processes Transport/binding proteins GPH family 'yicJ' 'GPH family paral putative transport protein' ecoli75 - 3,1,12 Metabolism of small molecules Amino acid biosynthesis Leucine 'leuL' 'leu operon leader peptide' ecoli3589 1,5,21 Cell processes Transport/binding proteins MFS family 'uhpB' 'sensor histidine protein kinase phosphorylates UhpA(2nd module)' ecoli1827 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'yebI' 'inner memrane component of a high affininty Zn transport system' ecoli2063 - 3,2,14 Metabolism of small molecules Biosynthesis of cofactors, carriers Thiamin 'b2104' 'hydoxyethylthiazole kinase (TH kinase) (EC 2 7 1 50)' ecoli786 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'glnP' 'glutamine high-affinity transport system; membrane component(1st module)' ecoli3043 1,5,36 Cell processes Transport/binding proteins STP family 'yhaO' 'STP family of transport protein (1st module)' ecoli1164 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'b1191' 'PUTATIVE NA(+)/H(+) EXCHANGER according to SwissProt version 38 the orf starts at a methionine 42 aa upstream of b 1191 start' ecoli2435 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'b2484' 'hydrogenase 4 membrane subunit(1st module)' ecoli1533 - 1,4,1 Cell processes Protection responses Cell killing 'relF' 'polypeptide destructive to membrane potential' ecoli3072 - 3,3,2 Metabolism of small molecules Central intermediary metabolism Amino sugars 'agaD' 'PTS system N-acetylglucosamine enzyme IID component 1' ecoli1447 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'fdnI' 'formate dehydrogenase-N nitrate-inducible cytochrome B556(Fdn) gamma subunit' ecoli1514 1,5,21 Cell processes Transport/binding proteins MFS family 'b1543' 'MFS family of transport protein (1st module)' ecoli3188 1,5,35 Cell processes Transport/binding proteins SSS family 'panF' 'SSS family transport protein sodium/pantothenate symporter(1st module)' ecoli1633 1,5,20 Cell processes Transport/binding proteins MATE family 'ydhE' 'MATE family of transport protein(2nd module)' ecoli2357 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'xapB' 'xanthosine permease' ecoli1097 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'potC' 'ABC superfamily (membrane) membrane component of spermidine/putrescine ABC transport system(2nd module)' ecoli717 - 3,5,3 Metabolism of small molecules Energy metabolism, carbon Electron transport 'cydB' 'cytochrome d terminal oxidase polypeptide subunit II' ecoli378 - 3,1,16 Metabolism of small molecules Amino acid biosynthesis Proline 'proC' 'pyrroline-5-carboxylate reductase' ecoli580 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'fepD' 'ABC superfamily (membrane) membrane component of ferric enterobactin (enterochelin) ABC transport' ecoli2266 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'hisQ' 'ABC superfamily (membrane)histidine transport system' ecoli3604 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'glvC' 'PTS family arbutin-like IIC component' ecoli67 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yabK' 'ABC superfamily (membrane) membrane component of thiamine ABC transport system(1st module)' ecoli681 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'kdpA' 'ATPase of high-affinity potassium transport system A chain(2nd module)' ecoli198 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yaeE' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli2497 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b2546' 'ABC superfamily (membrane)paral putative membrane component of ABC transport system (2nd module)' ecoli2849 - 3,3,9 Metabolism of small molecules Central intermediary metabolism Non-oxidative branch, pentose pwy 'rpiA' 'ribosephosphate isomerase constitutive' ecoli2015 - 5,1,2 Extrachromosomal Laterally acquirred elements Phage-related functions and prophages 'b2056' 'putative colanic acid polymerase' ecoli3594 1,5,21 Cell processes Transport/binding proteins MFS family 'emrD' 'MFS family of transport protein 2-module integral membrane pump; multidrug resistance (2nd module)' ecoli3805 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'frvB' 'PTS family fructose-like enzyme IIBC component(2nd module)' ecoli3836 - 3,2,8 Metabolism of small molecules Biosynthesis of cofactors, carriers Menaquinone, ubiquinone 'menA' '14-dihydroxy-2-naphthoate --> dimethylmenaquinone' ecoli2034 1,5,33 Cell processes Transport/binding proteins RNDfamily 'b2075' 'RND family of transport protein paral putative outer membrane receptor' ecoli45 1,5,21 Cell processes Transport/binding proteins MFS family 'yaaU' 'MFS family transport protein' ecoli4155 1,5,19 Cell processes Transport/binding proteins GntP family 'yjgT' 'GntP family l-idonate transporter (2nd module)' ecoli2137 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yejB' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli3258 - 2,1,4 Macromolecule metabolism Macromolecule degradation Degradation of proteins, peptides, glyco 'hofD' 'leader peptidase integral membrane protein cryptic gene integral membrane protein' ecoli3026 1,5,21 Cell processes Transport/binding proteins MFS family 'exuT' 'MFS family of transport protein transport of hexuronates (2nd module)' ecoli18 - 1,4,1 Cell processes Protection responses Cell killing 'gefL' 'Gef protein and leader interfere with membrane function when in excess' ecoli720 - 5,1,1 Extrachromosomal Laterally acquirred elements Colicin-related functions 'tolQ' 'inner membrane protein membrane-spanning maintains integrity of cell envelope; tolerance to group A colicins' ecoli1875 1,5,43 Cell processes Transport/binding proteins ArAAP family 'tyrP' 'ArAAP family tyrosine-specific transport system' ecoli2358 - 3,3,11 Metabolism of small molecules Central intermediary metabolism Nucleotide interconversions 'xapA' 'xanthosine phosphorylase' ecoli328 1,5,25 Cell processes Transport/binding proteins NCS1 family 'codB' 'NCS1 family transport protein cytosine permease/transport(2nd module)' ecoli3971 1,5,10 Cell processes Transport/binding proteins DAACS family 'gltP' 'DAACS family of transport protein glutamate-aspartate symport protein' ecoli3813 1,5,19 Cell processes Transport/binding proteins GntP family 'rhaT' 'GntP family rhamnose permease; L-rhamnose-H+ symporter membrane protein(1st module)' ecoli410 - 2,2,7 Macromolecule metabolism Macromolecule synthesis, modification Phospholipids 'b0418' 'phosphatidylglycerophosphatase' ecoli768 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b0792' 'ABC superfamily (membrane)putative membrane component of ABC transport system(2nd module)' ecoli2141 1,5,21 Cell processes Transport/binding proteins MFS family 'bcr' 'MFS family of transport protein bicyclomycin resistance protein; transmembrane protein (2nd module)' ecoli2487 1,5,21 Cell processes Transport/binding proteins MFS family 'b2536' 'MFS family of transport protein (1st module)' ecoli3959 1,5,8 Cell processes Transport/binding proteins CPA1 family 'yjcE' 'CPA1 family PUTATIVE NA(+)/H(+) EXCHANGER YJCE(1st module)' ecoli420 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'cyoE' 'protohaeme IX farnesyltransferase (haeme O biosynthesis)' ecoli2123 1,5,7 Cell processes Transport/binding proteins CNT family 'yeiM' 'CNT family of transport protein' ecoli3392 1,5,30 Cell processes Transport/binding proteins P-type ATPase family 'b3469' 'P-type ATPase familyzinc-transporting ATPase(2nd module)' ecoli1560 - 3,4,3 Metabolism of small molecules Degradation of small molecules Carbon compounds 'b1590' 'putative DMSO reductase anchor subunit' ecoli2051 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'gatC' 'PTS family galactitol-specific enzyme IIC' ecoli807 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b0831' 'paral putative membrane component of transport system' Test Accuracy: 92/137 (67.15%) Test Frequency class 'Transport/binding proteins': 151/712 (21.21%) Test Significance: dev(13.16) ; prob(9.273577E-31) Application to new data (2167 items): ecoli4140 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b4250' 'orf' ecoli1604 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1634' 'orf' ecoli3434 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'hdeD' 'orf' ecoli293 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ykgB' 'orf' ecoli1408 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1437' 'orf' ecoli1088 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1115' 'orf' ecoli2859 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yggB' 'involved in stability of MscS mechanosensitive channel paral putative transport protein' ecoli2625 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2680' 'orf' ecoli479 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0488' 'orf' ecoli1471 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1500' 'orf' ecoli1602 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1632' 'orf(1st module)' ecoli2708 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2768' 'putative anti-terminator regulatory protein' ecoli211 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0218' 'orf' ecoli3170 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhcP' 'orf' ecoli487 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0496' 'putative oxidoreductase' ecoli1303 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1332' 'orf' ecoli2111 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yeiB' 'orf' ecoli2634 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2689' 'orf' ecoli990 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1016' 'orf' ecoli2117 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yeiH' 'orf' ecoli2850 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2915' 'orf' ecoli2402 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2451' 'orf' ecoli821 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0845' 'paral putative transport protein (2nd module bind phosphorylated sugar? )' ecoli314 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0322' 'orf' ecoli2613 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2668' 'orf(1st module)' ecoli4015 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjdF' 'orf' ecoli685 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybfB' 'orf' ecoli2594 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2648' 'orf' ecoli3606 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yidE' 'paral putative transport protein(1st module)' ecoli616 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0626' 'orf' ecoli1756 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1788' 'orf' ecoli2215 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2257' 'orf(2nd module)' ecoli24 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0024' 'orf' ecoli1597 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1627' 'orf' ecoli3042 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhaN' 'orf' ecoli3581 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yicL' 'putative permease transporter' ecoli3139 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yhbL' 'sigma cross-reacting protein 27A (SCRP-27A)' ecoli3028 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3095' 'orf' ecoli1404 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1433' 'putative membrane transport protein' ecoli826 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybjC' 'orf' ecoli3032 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yqjE' 'orf' ecoli3483 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yiaH' 'orf' ecoli2444 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2493' 'paral putative transport protein' ecoli2835 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2899' 'putative oxidoreductase' ecoli4009 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b4115' 'putative amino acid/amine transport protein cryptic' ecoli3187 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhdT' 'orf' ecoli1575 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1605' 'putative arginine/ornithine antiporter' ecoli1562 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1592' 'orf' ecoli1426 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1455' 'orf' ecoli2329 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2372' 'putative receptor protein' ecoli3430 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhiF' 'orf' ecoli3397 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yhhT' 'paral putative transport protein (2nd module)' ecoli850 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0874' 'putative surface protein' ecoli1801 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1833' 'orf' ecoli4034 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yjeH' 'putative transport' ecoli1792 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1824' 'orf' ecoli279 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yagU' 'orf' ecoli3437 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yhiV' 'paral putative membrane component of transport system (3rd module)' ecoli763 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0787' 'orf' ecoli3849 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yijE' 'orf (2nd module)' ecoli3780 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yihN' 'orf' ecoli2615 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2670' 'orf' ecoli1221 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'kch' 'putative potassium channel protein' ecoli1213 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ychE' 'orf' ecoli1763 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1795' 'orf' ecoli2694 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ygbF' 'orf' ecoli2196 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yfaH' 'orf' ecoli2529 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yfiK' 'paral putative transport protein' ecoli155 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yadQ' 'putative channel transporter' ecoli2101 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yohK' 'putative seritonin transporter' ecoli3914 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yjbB' 'putative alpha helix protein' ecoli30 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yaaF' 'orf' ecoli2095 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yohD' 'orf' ecoli2559 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2612' 'orf' ecoli3419 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhiP' 'orf' ecoli1335 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1364' 'orf' ecoli3485 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yiaB' 'orf' ecoli4253 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yjjP' 'paral putative membrane protein' ecoli2626 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2681' 'orf' ecoli1615 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1645' 'orf' ecoli1872 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1904' 'orf' ecoli3357 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3434' 'orf' ecoli925 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'pqiA' 'paraquat-inducible protein A' ecoli3985 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'phnQ' 'orf' ecoli2821 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2885' 'orf' ecoli1766 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1798' 'paral putative transport protein' ecoli764 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0788' 'orf (2nd module)' ecoli3739 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yigM' 'paral putative transport protein (2nd module)' ecoli399 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yajC' 'orf' ecoli1596 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1626' 'orf' ecoli3509 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yiaW' 'orf' ecoli823 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0847' 'putative transport protein' ecoli3197 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhdV' 'orf' ecoli980 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1006' 'putative transport protein(2nd module)' ecoli3962 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjcH' 'orf' ecoli2611 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2666' 'orf' ecoli3730 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yigG' 'orf' ecoli1250 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1279' 'orf' ecoli1226 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yciC' 'orf' ecoli698 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0715' 'putative transport protein(1st module)' ecoli3597 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yidH' 'orf' ecoli2943 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yghB' 'orf' ecoli1600 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1630' 'orf' ecoli2997 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'ygjE' 'paral putative DASS family of transport protein' ecoli3585 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yicO' 'orf (2nd module)' ecoli3037 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhaI' 'orf' ecoli2585 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2639' 'putative pump protein' ecoli3598 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'o149' 'orf' ecoli3128 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yrbI' 'orf formerly yrbI and yrbJ' ecoli1788 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1820' 'orf' ecoli1638 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1670' 'orf' ecoli4252 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjjB' 'orf' ecoli3414 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhiM' 'orf' ecoli2689 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'ygbE' 'putative cytochrome oxidase subunit' ecoli570 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0580' 'orf' ecoli3036 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhaH' 'orf' ecoli3729 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yigF' 'orf' ecoli1493 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1522' '2nd module of a paral putative transport protein (2nd module)' ecoli371 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0379' 'orf' ecoli1658 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1690' 'paral putative MFS family of transport protein' ecoli4100 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ytfF' 'orf (1st module)' ecoli1720 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1752' 'orf' ecoli3997 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b4103' 'orf' ecoli3114 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhbE' 'orf' ecoli3127 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yrbH' 'orf (1st module)' ecoli1923 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yedA' 'orf (1st module)' ecoli2628 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ygaH' 'orf' ecoli984 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1010' 'orf' ecoli2334 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2377' 'orf' ecoli4219 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjiH' 'orf' ecoli767 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0791' 'orf' ecoli2627 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2682' 'orf' ecoli1694 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1726' 'orf' ecoli3391 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b3468' 'putative enzyme' ecoli1094 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1121' 'homolog of virulence factor' ecoli819 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0843' 'orf' ecoli1500 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ydeB' 'orf' ecoli4051 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjeO' 'orf' ecoli2820 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2884' 'orf' ecoli2558 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2611' 'orf' ecoli1042 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'mviN' 'putative virulence factor' ecoli1552 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1582' 'orf' ecoli1504 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ydeD' 'orf' ecoli1123 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1150' 'orf' ecoli2454 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2503' 'orf' ecoli2917 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2983' 'orf' ecoli1003 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1029' 'orf' ecoli4221 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yjiJ' 'paral putative transport protein (2nd module)' ecoli991 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1017' 'putative cytochrome' ecoli3736 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yigK' 'homoserine/homoserine lactone efflux protein' ecoli1546 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ydfD' 'orf' ecoli176 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yaeL' 'orf' ecoli1656 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1688' 'orf' ecoli4218 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjiG' 'orf' ecoli309 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0317' 'orf' ecoli157 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yadS' 'orf' ecoli1301 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1330' 'orf(2nd module)' ecoli3596 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yidG' 'orf' ecoli2936 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3002' 'orf' ecoli2961 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3027' 'orf' ecoli2250 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2292' 'putative transport protein' ecoli3600 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yidK' 'putative cotransporter' ecoli2352 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yfeA' 'orf(2nd module)' ecoli3041 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhaM' 'orf' ecoli3731 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'rarD' 'chloramphenicol resistance' ecoli1168 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1195' 'orf' ecoli945 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yccA' 'putative carrier/transport protein(2nd module)' ecoli2598 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2653' 'orf' ecoli1505 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'ydeF' 'paral putative transport protein (1st module)' ecoli502 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0511' 'orf' ecoli1743 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1775' 'paral putative transport protein (1st module)' ecoli966 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0992' 'orf' ecoli3172 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3242' 'orf' ecoli3706 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yifJ' 'putative cytochrome' ecoli4066 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b4176' 'orf' ecoli1491 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1520' 'orf' ecoli2384 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2433' 'orf' ecoli1718 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1750' 'orf' ecoli2017 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'wcaB' 'paral putative acyl transferase in colanic acid biosynthesis' ecoli2747 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ygdD' 'orf' ecoli784 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0808' 'pral putative transport protein (2nd module)' ecoli1416 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1445' 'orf' ecoli3083 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yraQ' 'orf' ecoli2715 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2775' 'orf' ecoli3350 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yzgL' 'orf' ecoli2588 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2642' 'orf' ecoli1794 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1826' 'orf' ecoli505 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0514' 'orf' ecoli3637 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yieI' 'orf' ecoli2858 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yggA' 'orf' ecoli1936 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1972' 'orf' ecoli817 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0841' 'orf' ecoli1379 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1408' 'probable enzyme' ecoli4083 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjfS' 'orf' ecoli789 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybiF' 'orf' ecoli1757 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1789' 'orf' ecoli3267 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3344' 'orf' ecoli738 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0762' 'orf' ecoli2974 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ygiE' 'orf' ecoli372 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0380' 'orf' ecoli518 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybcI' 'orf' ecoli2348 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2391' 'orf' ecoli3870 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yijD' 'orf' ecoli1613 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1643' 'orf' ecoli1696 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1728' 'orf' ecoli1577 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1607' 'orf' ecoli1186 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1213' 'orf' ecoli3484 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yiaA' 'orf' ecoli3576 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yicE' 'putative transport protein' ecoli888 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ycaI' 'orf' ecoli615 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybeH' 'orf' ecoli2133 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2174' 'orf' ecoli459 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'ybaN' 'putative gene 58' ecoli1971 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yeeD' 'orf' ecoli2346 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2389' 'orf' ecoli2597 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2651' 'orf' ecoli1922 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yedI' 'orf' ecoli1837 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1869' 'orf' ecoli999 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1025' 'orf(2nd module) homologue of Yersinia pestis hmsT involved in haemin uptake/storage ?cryptic' ecoli1784 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1816' 'orf (2nd module)' ecoli1789 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1821' 'orf' ecoli4151 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjgP' 'orf(1st module)' ecoli2204 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2246' 'putative transport protein' ecoli2407 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'cchB' 'detox protein' ecoli2337 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2380' 'putative sensor protein(1st module)' ecoli1967 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yeeA' 'orf(1st module)' ecoli1972 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yeeE' 'paral putative membrane component of transport system' ecoli3126 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yrbG' 'orf' ecoli2100 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yohJ' 'orf' ecoli3735 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yigJ' 'threonine efflux protein' ecoli2993 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ygiH' 'orf' ecoli2984 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b3050' 'putative oxidoreductase' ecoli3788 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yihU' 'paral putative oxidoreductase(1st module)' ecoli320 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0328' 'paral putative transport protein' ecoli1726 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1758' 'putative cytochrome oxidase' ecoli1946 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1985' 'paral putative transport protein (3rd module)' ecoli2586 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2640' 'orf' ecoli3924 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjbA' 'orf' ecoli4288 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjjY' 'orf' ecoli1418 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1447' 'orf' ecoli65 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yabI' 'orf(1st module)' ecoli2285 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yfcA' 'putative structural protein' ecoli1799 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yebJ' 'possible structural element which influences activation of ProP (?posttranslationally)' ecoli996 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1022' 'orf(1st module) homologue of Yersinia pestis hmsR involved in haemin uptake/storage ?cryptic' ecoli3389 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3466' 'orf' ecoli3021 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ygjT' 'orf' ecoli3431 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yhiD' 'putative transport ATPase' ecoli355 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0363' 'polysaccharide metabolism(1st module)' ecoli2087 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yehW' 'paral putative membrane component of transport system' ecoli2065 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2106' 'orf' ecoli567 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'ybdG' 'putative transport(2nd module)' ecoli3920 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjbE' 'orf' ecoli3292 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhfL' 'orf' ecoli2901 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2966' 'putative transport protein' ecoli2494 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2543' 'orf' ecoli3954 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjcB' 'orf' ecoli1486 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1515' 'paral putative membrane component of ABC transport system' ecoli3568 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yicG' 'orf' ecoli1569 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1599' 'orf' ecoli1030 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1057' 'putative cytochrome' ecoli2269 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'ubiX' '3-octaprenyl-4-hydroxybenzoate carboxy-lyase' ecoli3193 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3263' 'orf' ecoli4193 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yjhN' 'paral putative PTS system enzyme IIC component' ecoli1571 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1601' 'paral putative transport protein (2nd module)' ecoli2876 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yqgD' 'orf' ecoli1325 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1354' 'orf' ecoli2349 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2392' 'putative transport system permease(1st module)' ecoli936 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yccF' 'orf' ecoli1382 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1411' 'putative enzymes' ecoli1225 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yciB' 'orf' ecoli3944 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjbO' 'orf' ecoli1444 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yddG' 'orf' ecoli940 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0965' 'orf' ecoli2309 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2352' 'paral putative ligase(1st module)' ecoli1145 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1172' 'orf' ecoli3827 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yiiR' 'orf' ecoli2399 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2448' 'orf' ecoli295 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0303' 'orf' ecoli7 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yaaJ' 'putative inner membrane transport protein' ecoli1023 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yceK' 'orf' ecoli3394 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhhQ' 'orf(1st module)' ecoli105 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0105' 'orf' ecoli1353 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1382' 'orf' ecoli504 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0513' 'putative transport(2nd module)' ecoli4243 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yjiY' 'putative carbon starvation protein' ecoli762 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0786' 'orf' ecoli718 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybgE' 'orf' ecoli2769 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2832' 'putative transport protein' ecoli3975 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjcQ' 'orf(2nd module)' ecoli3124 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yrbE' 'orf' ecoli1943 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1981' 'shikimate and dehydroshikimate permease (2nd module)' ecoli4152 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjgQ' 'orf(1st module)' ecoli3325 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yhgE' 'putative transport' ecoli1894 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yedE' 'paral putative membrane component of transport system' ecoli3720 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'o161' 'orf' ecoli965 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'sfa' 'suppresses fabA and ts growth mutation' ecoli1697 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1729' 'part of a kinase(1st module paral putative tdomain shared with transporter)' ecoli3152 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yhcI' 'ManNAc kinase' ecoli1009 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1036' 'orf' ecoli4074 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjfL' 'orf' ecoli2322 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'dsdX' 'transport system permease (serine?)' ecoli2216 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2258' 'paral putative ABC superfamily transport protein' ecoli1753 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1785' 'orf(2nd module)' ecoli2581 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2635' 'orf' ecoli824 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0848' 'orf' ecoli778 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybiJ' 'orf' ecoli1938 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1974' 'putative cytochrome' ecoli2275 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'dedA' 'orf' ecoli106 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'hofC' 'orf' ecoli881 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0906' 'orf(2nd module)' ecoli4108 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ytfL' 'orf (2nd module)' ecoli3500 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yiaN' 'putative membrane protein' ecoli873 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'ycaD' 'paral putative transport protein (1st module)' ecoli4171 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjhE' 'orf' ecoli3635 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yieG' 'orf (2nd module)' ecoli4245 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b4356' 'paral putative transport protein cryptic orf joins former yjiZ and yjjL' ecoli3520 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yibI' 'orf' ecoli1038 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1065' 'orf' ecoli4147 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b4257' 'orf joins former yjgN and yjgO' ecoli3499 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yiaM' 'orf' ecoli2361 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yfeH' 'putative cytochrome oxidase' ecoli1759 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1791' 'putative amino acid/amine transport protein (3rd module)' ecoli4049 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yjeM' 'paral putative amino-acid transport protein' ecoli262 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yagG' 'paral putative transport protein' ecoli2104 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2145' 'orf' ecoli2676 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2736' 'paral putative oxidoreductase' ecoli3023 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ygjV' 'orf' ecoli1111 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1138' 'orf' ecoli801 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0825' 'putative transaldolase' ecoli2729 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2789' 'paral putative membrane component of transport system (2nd module)' ecoli3034 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yqjF' 'orf' ecoli1031 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1058' 'orf' ecoli491 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybbD' 'orf' ecoli2307 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2350' 'orf' ecoli10 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yaaH' 'orf' ecoli3300 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhfT' 'orf (2nd module)' ecoli834 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0858' 'orf' ecoli294 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0302' 'orf' ecoli2587 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2641' 'orf' ecoli2256 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2298' 'putative S-transferase' ecoli794 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0818' 'orf' ecoli255 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0263' 'paral putative membrane component of transport system' ecoli3751 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yigU' 'integral membrane protein part of sec-independent protein export' ecoli1532 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'rem' 'orf' ecoli3417 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yhiO' 'universal stress protein B involved in stationary-phase resistance to ethanol (integral membr prot sigmaS related)' ecoli2906 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2972' 'paral putative peptidase' ecoli3958 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjcD' 'orf (2nd module)' ecoli2094 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yohC' 'paral putative transport protein' Frequency rule on new data: 348/2167 (16.06%) Evaluation on training data (939 items): ecoli4029 - 3,3,19 Metabolism of small molecules Central intermediary metabolism Sulfur metabolism 'dsbD' 'thiol:disulfide interchange protein N-term.(1st module)' ecoli4203 - 4,1,5 Structural elements Cell envelop Surface structures 'fimA' 'major type 1 subunit fimbrin (pilin)' ecoli4024 1,5,31 Cell processes Transport/binding proteins POT family 'b4130' 'POT family of transport protein paral putative transport protein (3rd module)' ecoli2057 1,5,21 Cell processes Transport/binding proteins MFS family 'b2098' 'MFS family of transport protein (2nd module)' ecoli3359 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'gntU_1' 'split gene low-affinity gluconate transport permease protein in GNT-I system first part of fragment 1(1st module)' ecoli2663 - 3,5,4 Metabolism of small molecules Energy metabolism, carbon Fermentation 'hycC' 'membrane-spanning protein of hydrogenase 3 (part of FHL complex) internal segment(2nd module)' ecoli3425 1,5,4 Cell processes Transport/binding proteins Ars family 'arsB' 'Ars family arsenical pump membrane protein(2nd module)' ecoli740 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'modB' 'ABC superfamily (membrane) membrane component of molybdate ABC transport system (2nd module)' ecoli128 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yadH' 'ABC superfamily (membrane) paral putative ABC superfamily (membrane)' ecoli1263 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'sapC' 'ABC superfamily (membrane) membrane component of peptide ABC transport system(2nd module)' ecoli1723 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1755' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli1818 - 3,3,3 Metabolism of small molecules Central intermediary metabolism Entner-Douderoff 'eda' '2-keto-3-deoxygluconate 6-phosphate aldolase and 2-keto-4-hydroxyglutarate aldolase(1st module)' ecoli3647 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'pstA' 'ABC superfamily (membrane) membrane component of high-affinity phosphate-specific ABC transport system (2nd module)' ecoli1456 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1485' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli2265 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'hisM' 'ABC superfamily (membrane)histidine transport membrane protein m (2nd module transport function )' ecoli1951 - 3,2,3 Metabolism of small molecules Biosynthesis of cofactors, carriers Cobalamin 'cobS' 'cobalamin 5-phosphate synthase(1st module)' ecoli87 - 4,1,2 Structural elements Cell envelop Murein sacculus, peptidoglycan 'mraY' 'phospho-N-acetylmuramoyl-pentapeptide transferase essential in cell wall growth' ecoli153 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'fhuB' 'ABC superfamily (membrane) split gene C-term module hydroxamate-dependent iron uptake (2nd module iron uptake )' ecoli1659 1,5,21 Cell processes Transport/binding proteins MFS family 'b1691' 'MFS family of transport protein' ecoli3396 1,5,21 Cell processes Transport/binding proteins MFS family 'yhhS' 'MFS family of transport protein (2nd module)' ecoli1572 - 3,3,15 Metabolism of small molecules Central intermediary metabolism Pool, multipurpose conversions of intermed. met'm 'pntB' 'pyridine nucleotide transhydrogenase beta subunit' ecoli1566 1,5,21 Cell processes Transport/binding proteins MFS family 'b1596' 'MFS familty transport protein (2nd module)' ecoli3154 1,5,21 Cell processes Transport/binding proteins MFS family 'nanT' 'MFS family of transport protein sialic acid transporter cryptic in K12?(1st module)' ecoli2736 1,5,36 Cell processes Transport/binding proteins STP family 'sdaC' 'STP family of transport protein serine transporter' ecoli3783 1,5,16 Cell processes Transport/binding proteins GPH family 'yihP' 'GPH family paral putative transport protein' ecoli3105 - 1,2,1 Cell processes Chromosome replication Chromosome replication 'secG' 'protein export - membrane protein' ecoli2680 1,5,19 Cell processes Transport/binding proteins GntP family 'b2740' 'GntP family of transport protein function unknown (3rd module)' ecoli3782 1,5,16 Cell processes Transport/binding proteins GPH family 'b3876' 'GPH family paral putative transport protein (2nd module)' ecoli1267 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'b1296' 'APC family paral putative amino-acid transport protein' ecoli2631 1,5,21 Cell processes Transport/binding proteins MFS family 'emrB' 'MFS family of transport protein multidrug resistance; probably membrane translocase(1st module)' ecoli3049 1,5,36 Cell processes Transport/binding proteins STP family 'tdcC' 'STP family of transport protein anaerobically inducible L-threonine/ L-serine permease' ecoli2403 - 3,4,1 Metabolism of small molecules Degradation of small molecules Amines 'eutH' 'putative transport protein ethanolamine utilization; homolog of Salmonella(1st module)' ecoli1264 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'sapB' 'ABC superfamily (membrane) membrane component of peptide ABC transport system' ecoli1295 - 1,4,2 Cell processes Protection responses Detoxification 'tpx' 'thiol peroxidase' ecoli871 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'dmsC' 'anaerobic dimethyl sulfoxide reductase subunit C' ecoli1914 - 4,1,5 Structural elements Cell envelop Surface structures 'fliQ' 'flagellar biosynthesis' ecoli1797 - 1,6,1 Cell processes Adaptation Adaptations, atypical conditions 'htpX' 'heat shock protein integral membrane protein' ecoli1950 - 3,2,3 Metabolism of small molecules Biosynthesis of cofactors, carriers Cobalamin 'cobT' 'nicotinate-nucleotide dimethylbenzimidazole-P phophoribosyl transferase' ecoli1091 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1118' 'ABC superfamily (membrane) paral putative membrane component of ABC transport system' ecoli1026 1,5,21 Cell processes Transport/binding proteins MFS family 'yceE' 'MFS family of transport protein (2nd module)' ecoli1586 1,5,16 Cell processes Transport/binding proteins GPH family 'uidB' 'GPH family glucuronide permease' ecoli425 1,5,21 Cell processes Transport/binding proteins MFS family 'ampG' 'MFS family of transport protein ampicillin resistance (1st module)' ecoli2115 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'lysP' 'APC family lysine-specific permease (2nd module)' ecoli306 1,5,5 Cell processes Transport/binding proteins BCCT superfamily 'betT' 'BCCT superfamily transport protein high-affinity choline transport' ecoli2646 - 3,4,3 Metabolism of small molecules Degradation of small molecules Carbon compounds 'gutM' 'part of srl operon' ecoli4226 1,5,21 Cell processes Transport/binding proteins MFS family 'yjiO' 'MFS family of transport protein (1st module)' ecoli1179 1,5,38 Cell processes Transport/binding proteins SulP family 'ychM' 'SulP family transport protein (1st module)' ecoli2036 1,5,21 Cell processes Transport/binding proteins MFS family 'b2077' 'MFS family of transport protein (1st module)' ecoli89 - 1,7,1 Cell processes Cell division Cell division 'ftsW' 'cytoplasmic membrane required for PBP2 expression' ecoli675 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'potE' 'APC family putrescine-lyase antiporter' ecoli2608 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'gabP' 'transport permease protein of gamma-aminobutyrate' ecoli3157 1,5,13 Cell processes Transport/binding proteins DcuC 'yhcL' 'DcuC family of transport protein (2nd module)' ecoli643 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'gltK' 'ABC superfamily (membrane) glutamate/aspartate transport (1st module)' ecoli3199 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yhdX' 'ABC superfamily (membrane)paral putative membrane component of transport system' ecoli1866 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'araH' 'high-affinity L-arabinose transport system; membrane protein fragment 2' ecoli369 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'sbmA' 'ABC superfamily (atp&memb) sensitivity to microcin B17; methylmalonyl-CoA mutase (mcm); ATP-binding and membrane component' ecoli1159 1,5,27 Cell processes Transport/binding proteins NhaA family 'nhaB' 'NhaB family of transport protein Na+/H+ antiporter regulator of intracellular pH(1st module)' ecoli2434 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'b2483' 'hydrogenase 4 membrane subunit' ecoli3675 1,5,21 Cell processes Transport/binding proteins MFS family 'yieO' 'MFS family of tranport protein (1st mdule)' ecoli3400 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'nikB' 'ABC superfamily (membrane) membrane component in nickel transport system probably forms heterodimeric pore with NikC(2nd module)' ecoli2238 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'nuoJ' 'NADH dehydrogenase I chain J(1st module)' ecoli3466 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'dppB' 'ABC superfamily (membrane) membrane component of dipeptide ABC transport system; permease protein 1(2nd module)' ecoli3671 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'rbsC' 'ABC superfamily (membrane) ABC superfamily of transport protein D-ribose high-affinity ABC transport system(1st module ATP-binding subunit)' ecoli1705 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'celB' 'PTS family sugar specific enzyme II for cellobiose arbutin and salicin' ecoli453 1,5,33 Cell processes Transport/binding proteins RNDfamily 'acrB' 'RND family of transport protein acridine efflux pump(2nd module)' ecoli345 1,5,21 Cell processes Transport/binding proteins MFS family 'b0353' 'MFS family transport protein (2nd module function unknown)' ecoli394 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'b0402' 'APC family of transport protein proline permease transport protein' ecoli3059 1,5,21 Cell processes Transport/binding proteins MFS family 'yhaU' 'MFS family of transport protein (D)-glucarate or galactarate transporter (1st module)' ecoli2129 1,5,21 Cell processes Transport/binding proteins MFS family 'yeiO' 'MFS family proton-coupled sugar efflux pump transport selective monosaccharides and disaccharides narrower substr. specificity than SetA(2nd module)' ecoli1855 - 1,1,1 Cell processes Chemotaxis, motility Chemotaxis and mobility 'cheW' 'purine-binding chemotaxis protein; regulation' ecoli2940 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'exbB' 'uptake of enterochelin; tonB-dependent uptake of B colicins' ecoli4026 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'cadB' 'APC family transport of lysine/cadaverine(1st module)' ecoli989 1,5,35 Cell processes Transport/binding proteins SSS family 'putP' 'SSS family transport protein major sodium/proline symporter' ecoli2927 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'hybD' 'probable processing element for hydrogenase-2' ecoli3179 - 4,1,2 Structural elements Cell envelop Murein sacculus, peptidoglycan 'mreD' 'rod shape-determining protein' ecoli2236 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'nuoL' 'NADH dehydrogenase I chain L' ecoli2448 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'uraA' 'uracil transport' ecoli3761 1,5,39 Cell processes Transport/binding proteins Trk system 'trkH' 'Trk system potassium uptake requires TrkE' ecoli861 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'cydC' 'ABC superfamily (atp&memb) ATP-binding and membrane components of cytochrome-related ABC transport(2nd module)' ecoli647 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'lnt' 'apolipoprotein N-acyltransferase copper homeostasis protein inner membrane(1st module)' ecoli2991 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'bacA' 'bacitracin resistance; possibly phosphorylates undecaprenol' ecoli2899 1,5,21 Cell processes Transport/binding proteins MFS family 'nupG' 'MFS family of transport protein transport of nucleosides (2nd module)' ecoli1994 - 2,2,5 Macromolecule metabolism Macromolecule synthesis, modification Lipopolysaccharide 'rfc' 'O-antigen polymerase' ecoli3273 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'kefB' 'K+ efflux; NEM-activable K+/H+ antiporter' ecoli3379 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'livM' 'ABC superfamily (membrane) membrane component of high-affinity branched-chain amino acid ABC transport system (2nd module)' ecoli3022 1,5,10 Cell processes Transport/binding proteins DAACS family 'ygjU' 'DAACS family Na+/serine (threonine) symporter' ecoli3011 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'ygjI' 'APC family paral putative amino-acid transport protein' ecoli2035 1,5,33 Cell processes Transport/binding proteins RNDfamily 'b2076' 'RND family of transport protein paral putative outer membrane receptor' ecoli3792 - 2,2,1 Macromolecule metabolism Macromolecule synthesis, modification Amino acyl tRNA syn; tRNA modification 'yihY' 'tRNA processing exoribonuclease BN' ecoli3630 1,5,43 Cell processes Transport/binding proteins ArAAP family 'tnaB' 'ArAAP family low affinity tryptophan permease' ecoli3668 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'kup' 'low affinity potassium transport system' ecoli4121 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yjfF' 'ABC superfamily (membrane) ABC superfamily of transport protein (1st module membrance component)' ecoli3648 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'pstC' 'ABC superfamily (membrane) membrane component of high-affinity phosphate-specific ABC transport system (2nd module)' ecoli393 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'brnQ' 'branched chain; mutants valine and o-methylthreonine resistant glyclyvaline sensitive; transport system I for Ile Leu and Val' ecoli3358 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'gntU_2' 'split gene low-affinity gluconate transport permease protein in GNT-I system fragment 2' ecoli833 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'potI' 'ABC superfamily (membrane) membrane component of putrescine ABC transport system(2nd module)' ecoli1570 1,5,34 Cell processes Transport/binding proteins SMR family 'b1600' 'SMR family of transport protein' ecoli1414 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1443' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli1277 - 5,1,2 Extrachromosomal Laterally acquirred elements Phage-related functions and prophages 'pspC' 'phage shock protein; positive regulatory gene cooperatively with PspB' ecoli388 1,5,21 Cell processes Transport/binding proteins MFS family 'araJ' 'MFS family of transport protein involved in either transport or processing of arabinose polymers (2nd module function unknown)' ecoli1098 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'potB' 'ABC superfamily (membrane) membrane component of spermidine/putrescine ABC transport system(2nd module)' ecoli4178 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'fecC' 'ABC superfamily (membrane) citrate-dependent iron(III) transport protein (2nd module)' ecoli3968 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'nrfE' 'formate-dependent nitrite reductase; possible assembly function' ecoli1847 - 4,1,5 Structural elements Cell envelop Surface structures 'flhA' 'flagellar biosynthesis; possible export of flagellar proteins(2nd module)' ecoli3401 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'nikC' 'ABC superfamily (membrane) membrane component in nickel transport system probably forms heterodimeric pore with NikB(1st module)' ecoli1463 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'xasA' 'APC family acid sensitivity protein putative glutamate:gamma-aminobutyric acid antiporter (GadC)(2nd module)' ecoli3660 - 3,4,0 Metabolism of small molecules Degradation of small molecules ATP-proton motive force interconversion 'atpI' 'membrane-bound ATP synthase subunit F1-F0-type proton-ATPase' ecoli1912 - 4,1,5 Structural elements Cell envelop Surface structures 'fliO' 'flagellar biosynthesis' ecoli2343 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'b2386' 'Sugar Specific paral putative membrane component of transport system' ecoli2437 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'b2486' 'hydrogenase 4 membrane subunit(2nd module)' ecoli1786 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'manY' 'Sugar Specific PTS Sugar specific-family of transport protein; enzyme IIC mannose-specific(1st module)' ecoli2138 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yejE' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli469 1,5,9 Cell processes Transport/binding proteins CPA2 family 'ybaL' 'CPA2 family transport protein' ecoli3287 1,5,21 Cell processes Transport/binding proteins MFS family 'yhfC' 'MFS family of transport protein paral putative transport protein' ecoli2375 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'cysU' 'ABC superfamily (membrane) membrane component of sulfate thiosulfate ABC transport system (2nd module)' ecoli874 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'b0899' 'APC family paral putative amino-acid transport protein' ecoli704 - 3,5,8 Metabolism of small molecules Energy metabolism, carbon TCA cycle 'sdhC' 'succinate dehydrogenase cytochrome b556' ecoli40 - 3,4,3 Metabolism of small molecules Degradation of small molecules Carbon compounds 'caiT' 'probable carnitine transporter' ecoli2878 1,5,21 Cell processes Transport/binding proteins MFS family 'galP' 'MFS family of transport protein galactose-proton symport of transport system (2nd module)' ecoli2005 - 1,2,1 Cell processes Chromosome replication Chromosome replication 'b2046' 'probable export protein /export to periplasm in colanic acid gene cluster' ecoli2741 1,5,21 Cell processes Transport/binding proteins MFS family 'fucP' 'MFS family of transport protein fucose permease(1st module)' ecoli2162 - 3,5,3 Metabolism of small molecules Energy metabolism, carbon Electron transport 'napH' 'ferredoxin-type protein: electron transfer(1st module)' ecoli2924 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'hybG' 'hydrogenase-2 operon protein: may effect maturation of large subunit of hydrogenase-2' ecoli684 - 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'b0701' 'small orf part of the RhsC element' ecoli3711 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'yifK' 'APC family paral putative amino-acid transport protein' ecoli3402 1,5,1 Cell processes Transport/binding proteins ABC superfamily (atp_bind) 'nikD' 'ABC superfamily (atp_bind) ATP-binding component of nickel ABC transport system probably couples energy to transport system(2nd module)' ecoli1283 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1312' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli1413 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1442' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli705 - 3,5,8 Metabolism of small molecules Energy metabolism, carbon TCA cycle 'sdhD' 'succinate dehydrogenase hydrophobic subunit' ecoli2181 - 3,4,4 Metabolism of small molecules Degradation of small molecules Fatty acids 'atoB' 'short chain fatty acids transporter' ecoli533 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'b0543' 'multidrug transporter methylviologen and ethidium resistance' ecoli3408 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yhhJ' 'ABC superfamily (membrane)paral putative transport system membrane (2nd module)' ecoli3681 - 3,1,21 Metabolism of small molecules Amino acid biosynthesis Valine 'ilvL' 'ilvGEDA operon leader peptide' ecoli3934 - 3,2,8 Metabolism of small molecules Biosynthesis of cofactors, carriers Menaquinone, ubiquinone 'ubiA' 'p-hydroxybenzoate: octaprenyltransferase(1st module)' ecoli611 1,5,13 Cell processes Transport/binding proteins DcuC 'b0621' 'DcuC family of tranport protein transport of dicarboxylates succinate efflux during glucose fermentation(2nd module)' ecoli3469 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'yhjX' 'putative resistance protein' ecoli2545 - 3,1,15 Metabolism of small molecules Amino acid biosynthesis Phenylalanine 'pheL' 'leader peptide of chorismate mutase-P-prephenate dehydratase' ecoli2642 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'srlA_1' 'PTS family glucitol/sorbitol-specific IIC component one of two' ecoli422 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'cyoC' 'cytochrome o ubiquinol oxidase subunit III' ecoli3347 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'glpG' 'protein of glp regulon' ecoli401 - 1,2,1 Cell processes Chromosome replication Chromosome replication 'secF' 'protein secretion membrane protein' ecoli19 1,5,27 Cell processes Transport/binding proteins NhaA family 'nhaA' 'NhaA family of transport protein Na+/H antiporter pH dependent(1st module)' ecoli2235 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'nuoM' 'NADH dehydrogenase I chain M(2nd module)' ecoli3583 1,5,21 Cell processes Transport/binding proteins MFS family 'yicM' 'MFS family of tranport protein (1st mdule)' ecoli3855 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'frwC' 'PTS system fructose-like IIC component first module overlaps second(2nd module)' ecoli421 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'cyoD' 'cytochrome o ubiquinol oxidase subunit IV' ecoli3332 1,5,15 Cell processes Transport/binding proteins FeoB family 'feoB' 'FeoB family ferrous iron transport protein B(1st module)' ecoli1573 - 3,3,15 Metabolism of small molecules Central intermediary metabolism Pool, multipurpose conversions of intermed. met'm 'pntA' 'pyridine nucleotide transhydrogenase alpha subunit' ecoli2643 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'srlA_2' 'PTS family glucitol/sorbitol-specific IIB component and second of two IIC components' ecoli111 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'ampE' 'ampicillin resistance; membrane protein' ecoli2154 - 3,5,3 Metabolism of small molecules Energy metabolism, carbon Electron transport 'ccmF' 'cytochrome c-type biogenesis protein' ecoli624 - 1,7,1 Cell processes Cell division Cell division 'mrdB' 'rod shape-determining membrane protein; cell elongation in e phase(1st module)' ecoli27 - 2,2,10 Macromolecule metabolism Macromolecule synthesis, modification Proteins - translation and modification 'lspA' 'prolipoprotein signal peptidase (SPase II)' ecoli1215 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'oppB' 'ABC superfamily (membrane) membrane component of oligopeptide ABC transport system(2nd module)' ecoli1440 1,5,21 Cell processes Transport/binding proteins MFS family 'narU' 'MFS family of transport protein nitrate sensor-transmitter protein anaerobic respiratory path(1st module)' ecoli2234 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'nuoN' 'NADH dehydrogenase I chain N(2nd module)' ecoli2443 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'b2492' 'membrane protein formate transporter of hyf operon (formate channel 2)' ecoli1334 1,5,39 Cell processes Transport/binding proteins Trk system 'trkG' 'Trk system potassium uptake' ecoli2107 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'mglC' 'ABC superfamily (membrane) membrane component of methyl-galactoside ABC transport system and galactose taxis(1st module)' ecoli1679 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'btuC' 'ABC superfamily (membrane) membrane component of vitamin B12 ABC transport system' ecoli477 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'b0486' 'APC family of transport protein amino-acid transport protein' ecoli1769 1,5,5 Cell processes Transport/binding proteins BCCT superfamily 'b1801' 'BCCT superfamily paral putative transporter' ecoli3544 - 2,2,5 Macromolecule metabolism Macromolecule synthesis, modification Lipopolysaccharide 'rfaL' 'lipopolysaccharide core biosynthesis; O-antigen ligase(1st module)' ecoli851 1,5,22 Cell processes Transport/binding proteins MIP family 'aqpZ' 'MIP family transmembrane water channel; aquaporin Z' ecoli3698 - 3,3,18 Metabolism of small molecules Central intermediary metabolism Sugar-nucleotide biosynthesis, conversions 'rfe' 'synthesis of enterobacterial common antigen (ECA): UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase; synt' ecoli4185 1,5,19 Cell processes Transport/binding proteins GntP family 'yjhF' 'GntP family of transport protein (1st module)' ecoli359 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b0367' 'ABC superfamily (membrane) membrane component of taurine ABC transport system' Training Accuracy: 110/167 (65.87%) Training Frequency class 'Transport/binding proteins': 187/939 (19.91%) Training Significance: dev(14.87) ; prob(6.908843E-38) Evaluation on validation data (471 items): ecoli4014 1,5,16 Cell processes Transport/binding proteins GPH family 'melB' 'GPH family melibiose permease II' ecoli2868 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'cmtA' 'PTS family mannitol-specific enzyme II component cryptic' ecoli837 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'artM' 'arginine 3rd transport system permease protein' ecoli1883 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yecC' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli441 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'mdlB' 'ABC superfamily (atp&memb) paral putative ATP-binding component of transport system' ecoli3521 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'mtlA' 'Sugar Specific PTS family mannitol-specific enzyme IIABC components (3rd module eii a domain phosphoryl by p-hpr 491-637)' ecoli419 1,5,21 Cell processes Transport/binding proteins MFS family 'b0427' 'MFS family transport protein' ecoli4119 1,5,1 Cell processes Transport/binding proteins ABC superfamily (atp_bind) 'ytfS' 'ABC superfamily (atp_bind) putative ATP-binding component of a transport system' ecoli588 - 6,1,1 Global functions Global regulatory functions Global regulatory functions 'b0598' 'carbon starvation protein' ecoli1074 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'ptsG' 'Sugar Specific PTS family glucose-specific IIBCcomponent (3rd module hydrophilic second phosphorylation domain) mutant form transports D-ribose' ecoli2237 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'nuoK' 'NADH dehydrogenase I chain K' ecoli1216 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'oppC' 'ABC superfamily (membrane)homolog of Salmonella oligopeptide transport permease protein(2nd module)' ecoli3416 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'pitA' 'low-affinity phosphate transport' ecoli3926 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'malG' 'ABC superfamily (membrane) membrane component of maltose ABC transport system (2nd module)' ecoli3375 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'ugpA' 'ABC superfamily (membrane) sn-glycerol 3-phosphate integral membrane protein ABC transport system' ecoli3936 - 3,6,1 Metabolism of small molecules Fatty acid biosynthesis Fatty acid and phosphatidic acid biosynth 'dgkA' 'diacylglycerol kinase' ecoli1200 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'narI' 'nitrate reductase 1 cytochrome b(NR) gamma subunit' ecoli2778 1,5,21 Cell processes Transport/binding proteins MFS family 'araE' 'MFS family of transport protein low-affinity L-arabinose transport system proton symport protein(1st module)' ecoli4098 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'cycA' 'APC family transport of D-alanine D-serine and glycine (2nd module)' ecoli2126 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'fruA' 'Sugar Specific PTS system fructose-specific transport protein(2nd module)' ecoli1858 - 1,1,1 Cell processes Chemotaxis, motility Chemotaxis and mobility 'motA' 'proton conductor component of motor; no effect on switching' ecoli2623 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'proW' 'ABC superfamily (membrane) membrane component of high-affinity ABC transport system for glycine betaine and proline (2nd module)' ecoli1196 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'narK' 'nitrite extrusion protein(2nd module)' ecoli482 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'b0491' 'putative metal resistance protein' ecoli443 - 3,3,15 Metabolism of small molecules Central intermediary metabolism Pool, multipurpose conversions of intermed. met'm 'amtB' 'probable ammonium transporter' ecoli2089 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'yehY' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli1627 1,5,21 Cell processes Transport/binding proteins MFS family 'b1657' 'MFS family of transport protein (2nd module)' ecoli2772 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'ygeD' 'putative resistance proteins' ecoli3196 1,5,33 Cell processes Transport/binding proteins RNDfamily 'acrF' 'RND family of transport protein acriflavin resistance protein F multidrug efflux (?encodes lipoprotein with signal peptide; osmotcially remedial envelope defect)' ecoli1630 1,5,21 Cell processes Transport/binding proteins MFS family 'ydhC' 'MFS family transport protein (2nd module)' ecoli3057 - 3,4,3 Metabolism of small molecules Degradation of small molecules Carbon compounds 'yhaE' 'tartronate semialdehyde reductase (TSAR) in glucarate/galactarate catabolic pathway (1st module)' ecoli70 1,5,21 Cell processes Transport/binding proteins MFS family 'yabM' 'MFS family of transport protein proton-coupled beta-galactosidase/sugar efflux pump ? role in lactose metabolism (2nd module)' ecoli3446 1,5,21 Cell processes Transport/binding proteins MFS family 'yhjE' 'MFS family of transport protein (2nd module)' ecoli4130 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'treB' 'PTS family enzyme II trehalose specific (maltose may be transported)' ecoli2052 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'gatB' 'PTS family galactitol-specific enzyme IIB' ecoli416 - 3,2,2 Metabolism of small molecules Biosynthesis of cofactors, carriers Biotin 'thiJ' '4-methyl-5(beta-hydroxyethyl)-thiazole monophosphate synthesis' ecoli2158 - 1,2,1 Cell processes Chromosome replication Chromosome replication 'ccmB' 'heme exporter protein B cytochrome c-type biogenesis protein' ecoli4168 1,5,21 Cell processes Transport/binding proteins MFS family 'yjhB' 'MFS family of tranport protein (1st module)' ecoli1973 1,5,42 Cell processes Transport/binding proteins APC family of transport protein 'yeeF' 'APC family paral putative amino-acid transport protein' ecoli2929 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'hybB' 'probable cytochrome Ni/Fe component of hydrogenase-2(1st module)' ecoli2157 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'ccmC' 'ABC superfamily (membrane)heme exporter protein C necessary for incorporation of heme into CcmE (cytochrome c-type biogenesis protein)' ecoli3938 1,5,20 Cell processes Transport/binding proteins MATE family 'dinF' 'MATE family of transport protein; also DNA-damage-inducible protein F;induced by UV and mitomycin C; SOS lexA regulon(2nd module)' ecoli1282 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b1311' 'ABC superfamily (membrane) paral putative membrane component of transport system' ecoli2271 - 5,1,1 Extrachromosomal Laterally acquirred elements Colicin-related functions 'cvpA' 'membrane protein required for colicin V production' ecoli2436 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'b2485' 'hydrogenase 4 membrane subunit(1st module)' ecoli952 - 3,5,3 Metabolism of small molecules Energy metabolism, carbon Electron transport 'appC' 'probable third cytochrome oxidase subunit I' ecoli838 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'artQ' 'ABC superfamily (membrane) membrane component of 3rd arginine ABC transport system' ecoli1796 1,5,21 Cell processes Transport/binding proteins MFS family 'b1828' 'MFS family of transport protein (2nd module)' ecoli3815 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'kdgT' '2-keto-3-deoxy-D-gluconate transport system' ecoli1424 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'b1453' 'L-asparagine permease (2nd module)' ecoli2046 - 3,4,3 Metabolism of small molecules Degradation of small molecules Carbon compounds 'gatR_1' 'split galactitol utilization operon repressor fragment 1' ecoli3884 - 4,2,2 Structural elements Ribosome constituents Ribosomal proteins - synthesis, modificationRiboso 'rplL' '50S ribosomal subunit protein L7/L12' ecoli579 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'fepG' 'ABC superfamily (membrane) ferric enterobactin transport protein' ecoli3659 1,5,24 Cell processes Transport/binding proteins Membrane-bound ATP synthase 'atpB' 'membrane-bound ATP synthase F0 sector subunit a' ecoli3490 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'xylH' 'ABC superfamily (membrane)d-xylose transport permease (2nd module might interact with atp hydrolysing subunit )' ecoli2350 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'nupC' 'permease of transport system for 3 nucleosides' ecoli3465 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'dppC' 'ABC superfamily (membrane) membrane component of dipeptide ABC transport system; permease protein 2 (2nd module)' ecoli3071 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'agaC' 'Sugar specific-family of transport protein; PTS system N-acetylgalactosamine-specific IIC component 1(1st module)' ecoli2782 1,5,36 Cell processes Transport/binding proteins STP family 'b2845' 'STP family of transport protein' ecoli3223 - 1,2,1 Cell processes Chromosome replication Chromosome replication 'prlA' 'protein secretion inner membrane preprotein translocase SecY subunit interacts with SecE (1st module)' ecoli3925 1,5,21 Cell processes Transport/binding proteins MFS family 'xylE' 'MFS family of tranport protein xylose-proton symport (2nd module)' ecoli4044 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'frdD' 'fumarate reductase anaerobic membrane anchor polypeptide EC 1.3.99.1' ecoli3612 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'yidT' 'D-galactonate transport' ecoli2909 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'b2975' 'LctP transporter L-lactate permease homologue' ecoli3588 1,5,21 Cell processes Transport/binding proteins MFS family 'uhpC' 'regulator of uhpT (1st module)' ecoli3682 - 3,1,21 Metabolism of small molecules Amino acid biosynthesis Valine 'ilvG_1' 'acetolactate synthase II large subunit cryptic fragment 1 first part(1st module)' ecoli4177 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'fecD' 'ABC superfamily (membrane) membrane component of citrate-dependent ABC transport system of iron' ecoli1867 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'b1899' 'split high-affinity L-arabinose transport system; membrane protein fragment 1' ecoli1996 - 4,1,4 Structural elements Cell envelop Surface polysaccharides & antigens 'rfbX' 'hydroponic protein o-antigen (3rd module)' ecoli4005 1,5,21 Cell processes Transport/binding proteins MFS family 'proP' 'MFS family of tranport protein low-affinity constitutive transport system; proline permease II transports proline and betaine under conditions of hyperosmolarity(2nd module)' ecoli1591 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'malX' 'Sugar Specific PTS family maltose and glucose-specific ii abc (2nd module hydrophilic second phosphorylation domain)' ecoli3631 1,5,21 Cell processes Transport/binding proteins MFS family 'yidY' 'MFS family of tranport protein (1st mdule)' ecoli1877 - 2,2,7 Macromolecule metabolism Macromolecule synthesis, modification Phospholipids 'pgsA' 'phosphatidylglycerophosphate synthetase = CDP-12-diacyl-sn-glycero-3-phosphate phosphatidyl transferase' ecoli159 - 3,3,11 Metabolism of small molecules Central intermediary metabolism Nucleotide interconversions 'pfs' '5-methylthioadenosine/S-adenosylhomocysteine nucleosidase' ecoli3214 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'mscL' 'mechanosensitive channel' ecoli3093 1,5,43 Cell processes Transport/binding proteins ArAAP family 'mtr' 'ArAAP family tryptophan-specific transport protein' ecoli4045 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'frdC' 'fumarate reductase anaerobic membrane anchor polypeptide EC 1.3.99.1' ecoli1156 - 2,2,3 Macromolecule metabolism Macromolecule synthesis, modification DNA - replication, repair, restraction/modification 'umuD' 'SOS mutagenesis; error-prone repair; processed to UmuD; forms complex with UmuC' ecoli2280 1,5,21 Cell processes Transport/binding proteins MFS family 'b2322' 'MFS family of transport protein paral putative (2nd module)' ecoli948 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'hyaC' 'probable Ni/Fe-hydrogenase 1 b-type cytochrome subunit' ecoli2380 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'b2429' 'Sugar Specific paral putative PTS system enzyme II' ecoli4031 1,5,12 Cell processes Transport/binding proteins Dcu family 'dcuA' 'Dcu family anaerobic dicarboxylate transport' ecoli1915 - 4,1,5 Structural elements Cell envelop Surface structures 'fliR' 'paral putative transport protein for flagellar biosynthesis' ecoli727 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'pnuC' 'required for NMN transport' ecoli2818 1,5,13 Cell processes Transport/binding proteins DcuC 'b2882' 'DcuC family paral putative transport protein' ecoli1254 - 1,6,2 Cell processes Adaptation Osmotic adaptation 'osmB' 'osmotically inducible lipoprotein' ecoli832 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'potH' 'ABC superfamily (membrane) membrane component of putrescine ABC transport system(2nd module)' ecoli1706 1,5,37 Cell processes Transport/binding proteins Sugar-specific PTS system 'celA' 'PTS family sugar specific enzyme IV for cellobiose arbutin and salicin' ecoli714 - 2,2,9 Macromolecule metabolism Macromolecule synthesis, modification Protein modufication 'hrsA' 'protein modification enzyme induction of ompc (2nd module eiibc? )' ecoli423 - 3,5,1 Metabolism of small molecules Energy metabolism, carbon Aerobic respiration 'cyoB' 'cytochrome o ubiquinol oxidase subunit I' ecoli1189 1,5,23 Cell processes Transport/binding proteins Mechanism not stated 'chaA' 'sodium-calcium/proton antiporter' ecoli3709 - 3,3,18 Metabolism of small molecules Central intermediary metabolism Sugar-nucleotide biosynthesis, conversions 'rffT' 'synthesis of enterobacterial common antigen (ECA): TDP-Fuc4NAc:lipidII transferase(1st module)' ecoli3066 - 3,3,2 Metabolism of small molecules Central intermediary metabolism Amino sugars 'agaW' 'PTS system N-acetylgalactosameine-specific IIC component 2' ecoli692 1,5,31 Cell processes Transport/binding proteins POT family 'b0709' 'POT family of transport protein (1st module)' ecoli1948 - 3,3,0 Metabolism of small molecules Central intermediary metabolism other 'nac' 'nitrogen assimilation control protein represses gdhA transcription under nitrogen limiting conditions(1st module)' ecoli3451 1,5,10 Cell processes Transport/binding proteins DAACS family 'dctA' 'DAACS family of transport protein uptake of C4-dicarboxylic acids' ecoli1389 - 3,5,3 Metabolism of small molecules Energy metabolism, carbon Electron transport 'cybB' 'cytochrome b(561)' ecoli2824 1,5,26 Cell processes Transport/binding proteins NCS2 family 'b2888' 'NCS2 family paral putative transport protein' ecoli3821 1,5,6 Cell processes Transport/binding proteins CDF family 'yiiP' 'CDF family of transport protein (1st module)' ecoli3593 - 3,1,21 Metabolism of small molecules Amino acid biosynthesis Valine 'b3672' 'ilvB operon leader peptide' ecoli909 1,5,2 Cell processes Transport/binding proteins ABC superfamily (membrane) 'b0934' 'ABC superfamily (membrane) probable membrane component of transport system' ecoli2887 - 1,4,3 Cell processes Protection responses Drug/analog sensitivity 'b2952' 'putative resistance protein' ecoli1737 1,5,21 Cell processes Transport/binding proteins MFS family 'ydjE' 'MFS family of transport protein (1st module)' ecoli2156 - 1,2,1 Cell processes Chromosome replication Chromosome replication 'ccmD' 'heme exporter protein D cytochrome c-type biogenesis protein' ecoli2433 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'b2482' 'hydrogenase 4 membrane subunit(1st module)' Validation Accuracy: 67/105 (63.81%) Validation Frequency class 'Transport/binding proteins': 104/471 (22.08%) Validation Significance: dev(10.31) ; prob(4.840214E-20) ------------------ Rule 51: (10/1, lift 19.6) amino_acids_c <= 1 amino_acid_pair_ratio_qh > 8.5 amino_acid_pairs_hl > 0 -> class 'Laterally acquirred elements' [0.833] Evaluation on test data (712 items): ecoli1989 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_7' 'IS5 protein' ecoli266 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_3' 'IS1 protein InsB' ecoli1953 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_6' 'IS5 protein' Test Accuracy: 3/3 (100.00%) Test Frequency class 'Laterally acquirred elements': 25/712 (3.51%) Test Significance: dev(9.08) ; prob(4.328925E-05) Application to new data (2167 items): ecoli1029 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yceI' 'orf' ecoli2544 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yfiA' 'putative yhbH sigma 54 modulator' ecoli97 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yacA' 'orf' ecoli987 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1013' 'putative tet operon regulator' ecoli1152 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1179' 'orf' ecoli3016 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ygjN' 'orf' ecoli3110 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhbY' 'orf' ecoli1416 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1445' 'orf' ecoli3834 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yiiU' 'orf' ecoli597 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0607' 'orf' ecoli4095 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ytfA' 'orf' Frequency rule on new data: 11/2167 (0.51%) Evaluation on training data (939 items): ecoli251 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_1' 'IS5 protein 1' ecoli1043 - 4,1,5 Structural elements Cell envelop Surface structures 'flgN' 'flagellar biosynthesis: belived to be export chaperone for FlgK and FlgL (flagellar hook associated proteins)' ecoli3428 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_11' 'IS5 protein 11' ecoli2150 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_8' 'IS5 protein' ecoli542 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_2' 'IS 5 protein' ecoli646 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_3' 'IS5 protein' ecoli3368 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_6' 'IS1 protein InsB' ecoli1861 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_5' 'IS1 protein InsB' ecoli21 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_1' 'IS1 protein InsB' ecoli2916 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_9' 'IS5 protein' Training Accuracy: 9/10 (90.00%) Training Frequency class 'Laterally acquirred elements': 40/939 (4.26%) Training Significance: dev(13.43) ; prob(4.441930E-12) Evaluation on validation data (471 items): ecoli1200 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'narI' 'nitrate reductase 1 cytochrome b(NR) gamma subunit' ecoli1302 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_4' 'IS5 protein' ecoli962 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_4' 'IS1 protein InsB' ecoli3239 - 4,2,2 Structural elements Ribosome constituents Ribosomal proteins - synthesis, modificationRiboso 'rpsS' '30S ribosomal subunit protein S19' ecoli256 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_2' 'IS1 protein InsB 2' ecoli1199 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'narJ' 'nitrate reductase 1 delta subunit assembly function' ecoli3148 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi52_10' 'IS5 protein 10' Validation Accuracy: 4/7 (57.14%) Validation Frequency class 'Laterally acquirred elements': 26/471 (5.52%) Validation Significance: dev(5.98) ; prob(2.740912E-04) ------------------ Rule 50: (10, lift 21.5) amino_acid_ratio_r > 9.4 amino_acid_pair_ratio_ha <= 2.5 amino_acid_pair_ratio_pi <= 2.8 [ss_alpha( A ,lteq,10),nss_alpha( A , B ,gt,5)] = 1 [ss_coil( A ,lteq,3),nss_coil( A , B ,lteq,10)] = 1 [ss_coil( A ,gt,1),nss_coil( A , B ,lteq,5),nss_coil( B , C ,lteq,5)] = 1 -> class 'Laterally acquirred elements' [0.917] Evaluation on test data (712 items): ecoli540 - 2,1,1 Macromolecule metabolism Macromolecule degradation Degradation of DNA 'b0550' 'endodeoxyribonuclease RUS (Holliday junction resolvase)' ecoli1375 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'tra8_2' 'transposase 2 for IS30' ecoli3264 - 4,2,2 Structural elements Ribosome constituents Ribosomal proteins - synthesis, modificationRiboso 'rpsG' '30S ribosomal subunit protein S7 initiates assembly' ecoli266 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_3' 'IS1 protein InsB' ecoli4173 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'tra8_3' 'transposase for IS30' ecoli1887 - 4,1,5 Structural elements Cell envelop Surface structures 'fliA' 'regulation of late gene expression; sigma transcription factor F for class 3a and 3b operons' ecoli572 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi81_2' 'IS186 protein' ecoli3219 - 4,2,2 Structural elements Ribosome constituents Ribosomal proteins - synthesis, modificationRiboso 'rpsD' '30S ribosomal subunit protein S4' ecoli2979 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi22_5' 'IS2 protein' ecoli3345 - 2,2,11 Macromolecule metabolism Macromolecule synthesis, modification RNA synthesis, modification, DNA transcription 'yhgB' 'sigma54-dependent regulator of rtcBA expression 3 functional domains(2nd module)' ecoli4281 - 3,5,5 Metabolism of small molecules Energy metabolism, carbon Glycolysis 'gpmB' 'phosphoglyceromutase 2' Test Accuracy: 5/11 (45.45%) Test Frequency class 'Laterally acquirred elements': 25/712 (3.51%) Test Significance: dev(7.56) ; prob(2.064093E-05) Application to new data (2167 items): ecoli690 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'ybgA' 'orf' ecoli162 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yaeG' 'orf' ecoli2832 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2896' 'orf' ecoli2833 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2897' 'orf' ecoli668 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0685' 'orf' ecoli2314 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2357' 'orf' ecoli2393 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2442' 'IntZ is 402aa and lacks 29 aminoterminal aa included in b2442 (431 aa). The gene encodes a putative prophage CPZ-55 integarse' ecoli1534 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'relE' 'orf' ecoli1240 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yciL' 'orf' ecoli3616 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yidW' 'putative regulator protein' ecoli793 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0817' 'putative toxin' ecoli1333 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1362' 'putative prophage lambda endopeptidase' ecoli244 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yafZ' 'orf' ecoli3285 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yhfG' 'orf' ecoli2579 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2633' 'orf' ecoli4165 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yjgY' 'orf' ecoli379 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yaiI' 'orf' ecoli2083 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yehS' 'orf' ecoli2565 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2618' 'orf' ecoli338 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0346' 'transcriptional regulator for mhp operon(1st module)' ecoli349 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b0357' 'putative alpha helix chain' ecoli3033 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3100' 'orf' ecoli82 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yabC' 'putative apolipoprotein' ecoli3996 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'phnF' 'paral putative regulator protein' ecoli1516 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1545' 'orf' ecoli2320 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b2363' 'orf' ecoli2580 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b2634' 'hypothetical transcriptional regulator' ecoli1345 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1374' 'putative transposon resolvase' ecoli4174 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b4285' 'putative transposase' ecoli4162 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b4273' 'putative transposase' Frequency rule on new data: 30/2167 (1.38%) Evaluation on training data (939 items): ecoli1278 5,1,2 Extrachromosomal Laterally acquirred elements Phage-related functions and prophages 'pspD' 'phage shock protein' ecoli1373 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi22_2' 'IS22 protein 2' ecoli248 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'tra8_1' 'transposase1 for IS30' ecoli1955 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi22_3' 'IS2 protein' ecoli1131 5,1,2 Extrachromosomal Laterally acquirred elements Phage-related functions and prophages 'pin' 'inversion of adjacent DNA; at locus of e14 element' ecoli16 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi81_1' 'homolog IS186 transposase' ecoli1519 5,1,2 Extrachromosomal Laterally acquirred elements Phage-related functions and prophages 'nohA' 'homolog of Qin prophage packaging protein NU1' ecoli17 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi82_1' 'homolog IS186 and IS421 protein' ecoli538 5,1,2 Extrachromosomal Laterally acquirred elements Phage-related functions and prophages 'b0548' 'similar to phage 82 and lambda proteins' ecoli353 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi22_1' 'IS22 protein 1' Training Accuracy: 10/10 (100.00%) Training Frequency class 'Laterally acquirred elements': 40/939 (4.26%) Training Significance: dev(14.99) ; prob(1.967633E-14) Evaluation on validation data (471 items): ecoli546 5,1,2 Extrachromosomal Laterally acquirred elements Phage-related functions and prophages 'b0556' 'bacteriophage lambda endopeptidase homolog' ecoli928 - 4,2,3 Structural elements Ribosome constituents Ribosomes - maturation and modification 'rmf' 'ribosome modulation factor (involved in dimerization of 70S ribosomes)' ecoli962 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_4' 'IS1 protein InsB' ecoli864 - 3,3,15 Metabolism of small molecules Central intermediary metabolism Pool, multipurpose conversions of intermed. met'm 'lrp' 'regulator for leucine (or lrp) regulon and high-affinity branched-chain amino acid transport system; binds upstream of l' ecoli256 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'insB_2' 'IS1 protein InsB 2' ecoli3160 - 4,2,2 Structural elements Ribosome constituents Ribosomal proteins - synthesis, modificationRiboso 'rpsI' '30S ribosomal subunit protein S9' ecoli2797 5,1,4 Extrachromosomal Laterally acquirred elements Transposon-related functions 'yi22_4' 'IS2 protein' Validation Accuracy: 4/7 (57.14%) Validation Frequency class 'Laterally acquirred elements': 26/471 (5.52%) Validation Significance: dev(5.98) ; prob(2.740912E-04) ------------------ Rule 47: (5, lift 26.8) amino_acid_ratio_r > 9.4 amino_acid_pair_ratio_pi > 2.8 [ss_alpha( A ,lteq,10),nss_alpha( A , B ,gt,5)] = 1 [ss_coil( A ,gt,1),nss_coil( A , B ,lteq,5),nss_coil( B , C ,lteq,5)] = 1 -> class 'Global regulatory functions' [0.857] Evaluation on test data (712 items): ecoli1823 - 2,2,6 Macromolecule metabolism Macromolecule synthesis, modification Lipoprotein 'msbB' 'myristoyl transferase in lipid A biosynthesis suppressor of htrB' ecoli80 - 3,5,5 Metabolism of small molecules Energy metabolism, carbon Glycolysis 'fruR' 'transcriptional repressor of fru operon and others' ecoli2914 - 3,4,3 Metabolism of small molecules Degradation of small molecules Carbon compounds 'glcC' 'transcriptional activator for glc operon(1st module)' ecoli969 - 3,5,2 Metabolism of small molecules Energy metabolism, carbon Anaerobic respiration 'torR' 'response transcriptional regulator for torA (sensor TorS)(1st module)' Test Accuracy: 0/4 (0.00%) Test Frequency class 'Global regulatory functions': 16/712 (2.25%) Test Significance: dev(-0.30) ; prob(1.000000E+00) Application to new data (2167 items): ecoli2879 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'sprT' 'orf' ecoli2638 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'oraA' 'regulator' ecoli4124 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yjgA' 'putative alpha helix protein' ecoli1108 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b1135' 'orf' ecoli1079 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1106' 'putative beta-glucosidase' ecoli852 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b0876' 'orf' ecoli396 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'yajB' 'putative glycoprotein' ecoli221 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'yafM' 'orf' ecoli1135 - 7,0,0 Miscellaneous Some information, but not classifiable Not classified (included putative assignments) 'b1162' 'paral putative regulator' ecoli3135 - 0,0,0 Open reading frames Unknown proteins, no known homologs Unknown function 'b3205' 'orf' Frequency rule on new data: 10/2167 (0.46%) Evaluation on training data (939 items): ecoli2681 6,1,1 Global functions Global regulatory functions Global regulatory functions 'rpoS' 'RNA polymerase sigma S (sigma38) factor; synthesis of many growth phase related proteins induced by homoserine lactone' ecoli2038 6,1,1 Global functions Global regulatory functions Global regulatory functions 'baeR' 'suppresses envZ and phoR/creC mutations(1st module)' ecoli3956 6,1,1 Global functions Global regulatory functions Global regulatory functions 'soxS' 'regulation of superoxide response regulon' ecoli3328 6,1,1 Global functions Global regulatory functions Global regulatory functions 'ompR' 'response regulator (sensor EnvZ) affecting transcription of ompC and ompF: outer membrane protein synthesis(1st module)' ecoli391 6,1,1 Global functions Global regulatory functions Global regulatory functions 'phoB' 'positive response regulator for pho regulon (and asr gene) sensor is PhoR (or CreC)(1st module)' Training Accuracy: 5/5 (100.00%) Training Frequency class 'Global regulatory functions': 30/939 (3.19%) Training Significance: dev(12.31) ; prob(3.328728E-08) Evaluation on validation data (471 items): ecoli677 6,1,1 Global functions Global regulatory functions Global regulatory functions 'kdpE' 'cytoplasmic response regulator of kdp operon (transcriptional effector) (2nd module DNA binding)' ecoli3221 - 4,2,2 Structural elements Ribosome constituents Ribosomal proteins - synthesis, modificationRiboso 'rpsM' '30S ribosomal subunit protein S13' Validation Accuracy: 1/2 (50.00%) Validation Frequency class 'Global regulatory functions': 8/471 (1.70%) Validation Significance: dev(5.29) ; prob(3.339329E-02) ------------------