-- dump date 20111121_012111 -- class Genbank::CDS -- table cds -- table main -- field 1 id -- field 2 GI -- field 3 GeneID -- field 4 chrom_position -- field 5 chromosome -- field 6 codon_start -- field 7 contig -- field 8 description -- field 9 end_pos -- field 10 gene -- field 11 gene_id -- field 12 name -- field 13 organism -- field 14 product -- field 15 protein_id -- field 16 start_pos -- field 17 strand -- field 18 taxid -- field 19 type -- header -- id GI GeneID chrom_position chromosome codon_start contig description end_pos gene gene_id name organism product protein_id start_pos strand taxid type YP_002389853.1 218556940 7131897 190..255 1 NC_011742.1 involved in threonine biosynthesis; controls the expression of the thrLABC operon; thr operon leader peptide 255 thrL 7131897 thrL Escherichia coli S88 thr operon leader peptide YP_002389853.1 190 D 585035 CDS YP_002389854.1 218556941 7131306 336..2798 1 NC_011742.1 multifunctional homotetrameric enzyme that catalyzes the phosphorylation of aspartate to form aspartyl-4-phosphate as well as conversion of aspartate semialdehyde to homoserine; functions in a number of amino acid biosynthetic pathways; bifunctional aspartokinase I/homeserine dehydrogenase I 2798 thrA 7131306 thrA Escherichia coli S88 bifunctional aspartokinase I/homeserine dehydrogenase I YP_002389854.1 336 D 585035 CDS YP_002389855.1 218556942 7131303 2800..3732 1 NC_011742.1 catalyzes the formation of O-phospho-L-homoserine from L-homoserine in threonine biosynthesis from asparate; homoserine kinase 3732 thrB 7131303 thrB Escherichia coli S88 homoserine kinase YP_002389855.1 2800 D 585035 CDS YP_002389856.1 218556943 7131304 3733..5019 1 NC_011742.1 catalyzes the formation of L-threonine from O-phospho-L-homoserine; threonine synthase 5019 thrC 7131304 thrC Escherichia coli S88 threonine synthase YP_002389856.1 3733 D 585035 CDS YP_002389857.1 218556944 7131305 5233..5529 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 5529 yaaX 7131305 yaaX Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002389857.1 5233 D 585035 CDS YP_002389858.1 218556945 7130256 complement(5569..6345) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 6345 yaaA 7130256 yaaA Escherichia coli S88 hypothetical protein YP_002389858.1 5569 R 585035 CDS YP_002389859.1 218556946 7130251 complement(6415..7845) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative amino acid sodium/proton transporter 7845 yaaJ 7130251 yaaJ Escherichia coli S88 putative amino acid sodium/proton transporter YP_002389859.1 6415 R 585035 CDS YP_002389860.1 218556947 7130254 8124..9077 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8332529, 92334977, 11298760, 7592346, 8805555, 9007983, 9298646; Product type e : enzyme; transaldolase B 9077 talB 7130254 talB Escherichia coli S88 transaldolase B YP_002389860.1 8124 D 585035 CDS YP_002389861.1 218556948 7131258 9192..9779 1 NC_011742.1 forms a trimer; related to eukaryotic protein gephyrin; functions during molybdenum cofactor biosynthesis; molybdenum cofactor biosynthesis protein MogA 9779 mogA 7131258 mogA Escherichia coli S88 molybdenum cofactor biosynthesis protein MogA YP_002389861.1 9192 D 585035 CDS YP_002389862.1 218556949 7128863 complement(9984..10550) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 10550 yaaH 7128863 yaaH Escherichia coli S88 hypothetical protein YP_002389862.1 9984 R 585035 CDS YP_002389863.1 218556950 7130252 complement(10699..11412) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8478327; Product type r : regulator; hypothetical protein 11412 htpY 7130252 htpY Escherichia coli S88 hypothetical protein YP_002389863.1 10699 R 585035 CDS YP_002389864.1 218556951 7131401 complement(11438..11842) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 11842 yaaI 7131401 yaaI Escherichia coli S88 hypothetical protein YP_002389864.1 11438 R 585035 CDS YP_002389865.1 218556952 7130253 12214..14130 1 NC_011742.1 heat shock protein 70; assists in folding of nascent polypeptide chains; refolding of misfolded proteins; utilizes ATPase activity to help fold; co-chaperones are DnaJ and GrpE; multiple copies in some bacteria; molecular chaperone DnaK 14130 dnaK 7130253 dnaK Escherichia coli S88 molecular chaperone DnaK YP_002389865.1 12214 D 585035 CDS YP_002389866.1 218556953 7133503 14219..15349 1 NC_011742.1 chaperone Hsp40; co-chaperone with DnaK; Participates actively in the response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins and by disaggregating proteins, also in an autonomous, dnaK-independent fashion; chaperone protein DnaJ 15349 dnaJ 7133503 dnaJ Escherichia coli S88 chaperone protein DnaJ YP_002389866.1 14219 D 585035 CDS YP_002389867.1 218556954 7130225 complement(15454..15663) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90136075, 92048480, 92048481, 99291074; Product type r : regulator; regulatory protein for HokC, overlaps CDS of hokC 15663 mokC 7130225 mokC Escherichia coli S88 regulatory protein for HokC, overlaps CDS of hokC YP_002389867.1 15454 R 585035 CDS YP_002389868.1 218556955 7130620 16218..16979 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 16979 7130620 ECS88_0017 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002389868.1 16218 D 585035 CDS YP_002389869.1 218556956 7133187 16963..18492 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative Cerebroside-sulfatase 18492 7133187 ECS88_0018 Escherichia coli S88 putative Cerebroside-sulfatase YP_002389869.1 16963 D 585035 CDS YP_002389870.1 218556957 7133188 18615..19880 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 19880 7133188 ECS88_0019 Escherichia coli S88 hypothetical protein YP_002389870.1 18615 D 585035 CDS YP_002389871.1 218556958 7133189 20115..21281 1 NC_011742.1 exports sodium by using the electrochemical proton gradient to allow protons into the cell; functions in adaptation to high salinity and alkaline pH; activity increases at higher pH; downregulated at acidic pH; pH-dependent sodium/proton antiporter 21281 nhaA 7133189 nhaA Escherichia coli S88 pH-dependent sodium/proton antiporter YP_002389871.1 20115 D 585035 CDS YP_002389872.1 218556959 7129706 21341..22246 1 NC_011742.1 Na+/H+ antiporter regulatory protein; activates the genes nhaA and osmC; transcriptional activator NhaR 22246 nhaR 7129706 nhaR Escherichia coli S88 transcriptional activator NhaR YP_002389872.1 21341 D 585035 CDS YP_002389873.1 218556960 7129708 complement(22342..22605) 1 NC_011742.1 binds directly to the 16S rRNA and is involved in post-translational inhibition of arginine and ornithine decarboxylase; 30S ribosomal protein S20 22605 rpsT 7129708 rpsT Escherichia coli S88 30S ribosomal protein S20 YP_002389873.1 22342 R 585035 CDS YP_002389874.1 218556961 7133803 22708..22926 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 22926 yaaY 7133803 yaaY Escherichia coli S88 hypothetical protein YP_002389874.1 22708 D 585035 CDS YP_002389875.1 218556962 7130257 22934..23875 1 NC_011742.1 catalyzes the formation of FMN from riboflavin and the formation of FAD from FMN; in Bacillus the ribC gene has both flavokinase and FAD synthetase activities; bifunctional riboflavin kinase/FMN adenylyltransferase 23875 ribF 7130257 ribF Escherichia coli S88 bifunctional riboflavin kinase/FMN adenylyltransferase YP_002389875.1 22934 D 585035 CDS YP_002389876.1 218556963 7132719 23918..26734 1 NC_011742.1 IleRS; catalyzes the formation of isoleucyl-tRNA(Ile) from isoleucine and tRNA(Ile); since isoleucine and other amino acids such as valine are similar, there are additional editing function in this enzyme; one is involved in hydrolysis of activated valine-AMP and the other is involved in deacylation of mischarged Val-tRNA(Ile); there are two active sites, one for aminoacylation and one for editing; class-I aminoacyl-tRNA synthetase family type 1 subfamily; some organisms carry two different copies of this enzyme; isoleucyl-tRNA synthetase 26734 ileS 7132719 ileS Escherichia coli S88 isoleucyl-tRNA synthetase YP_002389876.1 23918 D 585035 CDS YP_002389877.1 218556964 7131618 26734..27228 1 NC_011742.1 lipoprotein signal peptidase; integral membrane protein that removes signal peptides from prolipoproteins during lipoprotein biosynthesis; lipoprotein signal peptidase 27228 lspA 7131618 lspA Escherichia coli S88 lipoprotein signal peptidase YP_002389877.1 26734 D 585035 CDS YP_002389878.1 218556965 7129390 27336..27785 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 97332650, 2011499; Product type e : enzyme; FKBP-type peptidyl-prolyl cis-trans isomerase (rotamase) 27785 fkpB 7129390 fkpB Escherichia coli S88 FKBP-type peptidyl-prolyl cis-trans isomerase (rotamase) YP_002389878.1 27336 D 585035 CDS YP_002389879.1 218556966 7129510 27787..28737 1 NC_011742.1 catalyzes the conversion of 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate into isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP); functions in the nonmevalonate isoprenoid biosynthesis pathway; 4-hydroxy-3-methylbut-2-enyl diphosphate reductase 28737 ispH 7129510 ispH Escherichia coli S88 4-hydroxy-3-methylbut-2-enyl diphosphate reductase YP_002389879.1 27787 D 585035 CDS YP_002389880.1 218556967 7130424 28803..29717 1 NC_011742.1 catalyzes the hydrolysis of both purine and pyrimidine ribonucleosides; ribonucleoside hydrolase RihC 29717 rihC 7130424 rihC Escherichia coli S88 ribonucleoside hydrolase RihC YP_002389880.1 28803 D 585035 CDS YP_002389881.1 218556968 7132722 29740..30105 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 30105 7132722 ECS88_0030 Escherichia coli S88 hypothetical protein YP_002389881.1 29740 D 585035 CDS YP_002389882.1 218556969 7133190 30266..31087 1 NC_011742.1 catalyzes the reduction of 2,3-dihydrodipicolinate to 2,3,4,5-tetrahydrodipicolinate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate reductase 31087 dapB 7133190 dapB Escherichia coli S88 dihydrodipicolinate reductase YP_002389882.1 30266 D 585035 CDS YP_002389883.1 218556970 7130565 31542..32690 1 NC_011742.1 catalyzes production of carbamoyl phosphate from bicarbonate and glutamine in pyrimidine and arginine biosynthesis pathways; forms an octamer composed of four CarAB dimers; carbamoyl phosphate synthase small subunit 32690 carA 7130565 carA Escherichia coli S88 carbamoyl phosphate synthase small subunit YP_002389883.1 31542 D 585035 CDS YP_002389884.1 218556971 7129159 32708..35929 1 NC_011742.1 four CarB-CarA dimers form the carbamoyl phosphate synthetase holoenzyme that catalyzes the production of carbamoyl phosphate; CarB is responsible for the amidotransferase activity; carbamoyl phosphate synthase large subunit 35929 carB 7129159 carB Escherichia coli S88 carbamoyl phosphate synthase large subunit YP_002389884.1 32708 D 585035 CDS YP_002389885.1 218556972 7129160 35993..36196 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 36196 7129160 ECS88_0034 Escherichia coli S88 hypothetical protein YP_002389885.1 35993 D 585035 CDS YP_002389886.1 218556973 7133191 36102..36611 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme; transposase IS605 family, IS200 group 36611 7133191 ECS88_0035 Escherichia coli S88 transposase IS605 family, IS200 group YP_002389886.1 36102 D 585035 CDS YP_002389887.1 218556974 7133192 36901..37296 1 NC_011742.1 regulator of carnitine metabolism; induces the caiTABCDE and fixABCX operons; DNA-binding transcriptional activator CaiF 37296 caiF 7133192 caiF Escherichia coli S88 DNA-binding transcriptional activator CaiF YP_002389887.1 36901 D 585035 CDS YP_002389888.1 218556975 7129156 complement(37415..38005) 1 NC_011742.1 involved in the synthesis of a cofactor required for carnitine dehydratase and carnitine racemase activities; carnitine operon protein CaiE 38005 caiE 7129156 caiE Escherichia coli S88 carnitine operon protein CaiE YP_002389888.1 37415 R 585035 CDS YP_002389889.1 218556976 7129155 complement(38011..38904) 1 NC_011742.1 catalyzes the dehydration of L-carnitinyl-CoA to crotonobetainyl-CoA; carnitinyl-CoA dehydratase 38904 caiD 7129155 caiD Escherichia coli S88 carnitinyl-CoA dehydratase YP_002389889.1 38011 R 585035 CDS YP_002389890.1 218556977 7129154 complement(38905..40473) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15731894, 97189569, 7815937; Product type e : enzyme; putative crotonobetaine/carnitine-CoA ligase 40473 caiC 7129154 caiC Escherichia coli S88 putative crotonobetaine/carnitine-CoA ligase YP_002389890.1 38905 R 585035 CDS YP_002389891.1 218556978 7129153 complement(40531..41748) 1 NC_011742.1 catalyzes formation of L-carnitinyl-CoA by transfering the CoA moiety from gamma-butyrobetainyl-CoA, also catalyzes the formation of crotonobetainyl-CoA by transfer of CoA from gamma-butyrobetainyl-CoA or L-carnitinyl-CoA to crotonobetaine; crotonobetainyl-CoA:carnitine CoA-transferase 41748 caiB 7129153 caiB Escherichia coli S88 crotonobetainyl-CoA:carnitine CoA-transferase YP_002389891.1 40531 R 585035 CDS YP_002389892.1 218556979 7129152 complement(41876..43018) 1 NC_011742.1 catalyzes the reduction of crotonobetainyl-CoA to gamma-butyrobetainyl-CoA; crotonobetainyl-CoA dehydrogenase 43018 caiA 7129152 caiA Escherichia coli S88 crotonobetainyl-CoA dehydrogenase YP_002389892.1 41876 R 585035 CDS YP_002389893.1 218556980 7129151 complement(43049..44563) 1 NC_011742.1 catalyzes the exchange of L-carnitine for gamma-butyrobetaine in carnitine metabolism; L-carnitine/gamma-butyrobetaine antiporter 44563 caiT 7129151 caiT Escherichia coli S88 L-carnitine/gamma-butyrobetaine antiporter YP_002389893.1 43049 R 585035 CDS YP_002389894.1 218556981 7129157 45036..45806 1 NC_011742.1 required for anaerobic carnitine reduction, may act to transfer electrons to crotonobetaine reductase; putative electron transfer flavoprotein FixA 45806 fixA 7129157 fixA Escherichia coli S88 putative electron transfer flavoprotein FixA YP_002389894.1 45036 D 585035 CDS YP_002389895.1 218556982 7129504 45821..46762 1 NC_011742.1 involved in electron transfer during carnitine metabolism; putative electron transfer flavoprotein FixB 46762 fixB 7129504 fixB Escherichia coli S88 putative electron transfer flavoprotein FixB YP_002389895.1 45821 D 585035 CDS YP_002389896.1 218556983 7129505 46813..48099 1 NC_011742.1 FAD/NAD(P)-binding domain; possibly part of an electron transfer system required for anaerobic carnitine reduction; putative oxidoreductase FixC 48099 fixC 7129505 fixC Escherichia coli S88 putative oxidoreductase FixC YP_002389896.1 46813 D 585035 CDS YP_002389897.1 218556984 7129506 48096..48383 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96066354, 12081978; Product type pc : putative carrier; putative 4Fe-4S ferredoxin 48383 fixX 7129506 fixX Escherichia coli S88 putative 4Fe-4S ferredoxin YP_002389897.1 48096 D 585035 CDS YP_002389898.1 218556985 7129507 48442..49773 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 49773 yaaU 7129507 yaaU Escherichia coli S88 putative transporter YP_002389898.1 48442 D 585035 CDS YP_002389899.1 218556986 7130255 49881..50411 1 NC_011742.1 Required for full activity of KefC, a potassium-proton antiporter; glutathione-regulated potassium-efflux system ancillary protein KefF 50411 kefF 7130255 kefF Escherichia coli S88 glutathione-regulated potassium-efflux system ancillary protein KefF YP_002389899.1 49881 D 585035 CDS YP_002389900.1 218556987 7130456 50404..52266 1 NC_011742.1 transport system that facilitates potassium-efflux; glutathione-regulated potassium-efflux system protein KefC 52266 kefC 7130456 kefC Escherichia coli S88 glutathione-regulated potassium-efflux system protein KefC YP_002389900.1 50404 D 585035 CDS YP_002389901.1 218556988 7130455 52458..52937 1 NC_011742.1 catalyzes the reduction of dihydrofolate to tetrahydrofolate; dihydrofolate reductase 52937 folA 7130455 folA Escherichia coli S88 dihydrofolate reductase YP_002389901.1 52458 D 585035 CDS YP_002389902.1 218556989 7132813 53023..53256 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative antitoxin of gyrase inhibiting toxin-antitoxin system 53256 7132813 ECS88_0052 Escherichia coli S88 putative antitoxin of gyrase inhibiting toxin-antitoxin system YP_002389902.1 53023 D 585035 CDS YP_002389903.1 218556990 7133194 complement(53571..54419) 1 NC_011742.1 hydrolyzes P(1),P(4)-bis(5'-adenosyl) tetraphosphate to form 2 ADP; diadenosine tetraphosphatase 54419 apaH 7133194 apaH Escherichia coli S88 diadenosine tetraphosphatase YP_002389903.1 53571 R 585035 CDS YP_002389904.1 218556991 7133073 complement(54426..54803) 1 NC_011742.1 protein associated with Co2+ and Mg2+ efflux; ApaG 54803 apaG 7133073 apaG Escherichia coli S88 ApaG YP_002389904.1 54426 R 585035 CDS YP_002389905.1 218556992 7133072 complement(54806..55627) 1 NC_011742.1 catalyzes the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases A1518 and A1519 in 16S rRNA; mutations in ksgA causes resistance to the translation initiation inhibitor kasugamycin; dimethyladenosine transferase 55627 ksgA 7133072 ksgA Escherichia coli S88 dimethyladenosine transferase YP_002389905.1 54806 R 585035 CDS YP_002389906.1 218556993 7130468 complement(55624..56613) 1 NC_011742.1 catalyzes oxidation of 4-(phosphohydroxy)-L-threonine into 2-amino-3-oxo-4-(phosphohydroxy)butyric acid which decarboxylates to form 1-amino-3-(phosphohydroxy)propan-2-one (3-amino-2-oxopropyl phosphate); 4-hydroxythreonine-4-phosphate dehydrogenase 56613 pdxA 7130468 pdxA Escherichia coli S88 4-hydroxythreonine-4-phosphate dehydrogenase YP_002389906.1 55624 R 585035 CDS YP_002389907.1 218556994 7133181 complement(56613..57899) 1 NC_011742.1 Chaperone involved in the folding of extracytoplasmic proteins, especially OmpA, OmpF and LamB; peptidyl-prolyl cis-trans isomerase SurA 57899 surA 7133181 surA Escherichia coli S88 peptidyl-prolyl cis-trans isomerase SurA YP_002389907.1 56613 R 585035 CDS YP_002389908.1 218556995 7131251 complement(57952..60306) 1 NC_011742.1 determines N-hexane tolerance and is involved in outer membrane permeability; organic solvent tolerance protein 60306 imp 7131251 imp Escherichia coli S88 organic solvent tolerance protein YP_002389908.1 57952 R 585035 CDS YP_002389909.1 218556996 7131631 60561..61376 1 NC_011742.1 functions as a co-chaperone with DnaK; involved in regulation of colanic acid capsule; inner membrane protein; dimerized via transmembrane domain; J-like domain is cytoplasmic and can functionally substitute for DnaJ; stimulates synthesis of colanic acid mucoid capsule through the RcsB/C signal transduction system; Dna-J like membrane chaperone protein 61376 djlA 7131631 djlA Escherichia coli S88 Dna-J like membrane chaperone protein YP_002389909.1 60561 D 585035 CDS YP_002389910.1 218556997 7130211 complement(61526..62185) 1 NC_011742.1 catalyzes the synthesis of pseudouridine from uracil-746 in 23S ribosomal RNA and from uracil-32 in the anticodon stem and loop of transfer RNAs; 23S rRNA/tRNA pseudouridine synthase A 62185 rluA 7130211 rluA Escherichia coli S88 23S rRNA/tRNA pseudouridine synthase A YP_002389910.1 61526 R 585035 CDS YP_002389911.1 218556998 7132731 complement(62197..65103) 1 NC_011742.1 transcription regulator that activates transcription by stimulating RNA polymerase (RNAP) recycling in case of stress conditions such as supercoiled DNA or high salt concentrations. Probably acts by releasing the RNAP, when it is trapped or immobilized on tightly supercoiled DNA; ATP-dependent helicase HepA 65103 hepA 7132731 hepA Escherichia coli S88 ATP-dependent helicase HepA YP_002389911.1 62197 R 585035 CDS YP_002389912.1 218556999 7128908 complement(65267..67618) 1 NC_011742.1 Has polymerase, DNA-binding and 3'-5' exonuclease activities. In Aeropyrum pernix this protein is sensitive to aphidicolin and stable at 95#C; DNA polymerase II 67618 polB 7128908 polB Escherichia coli S88 DNA polymerase II YP_002389912.1 65267 R 585035 CDS YP_002389913.1 218557000 7130740 complement(67693..68388) 1 NC_011742.1 catalyzes the isomerization of L-ribulose 5-phosphate to D-xylulose 5-phosphate in the anaerobic catabolism of L-ascorbate; links the arabinose metabolic pathway to the pentose phosphate pathway and allows the bacteria to use arabinose as an energy source; L-ribulose-5-phosphate 4-epimerase 68388 araD 7130740 araD Escherichia coli S88 L-ribulose-5-phosphate 4-epimerase YP_002389913.1 67693 R 585035 CDS YP_002389914.1 218557001 7133083 complement(68673..70175) 1 NC_011742.1 catalyzes the formation of L-ribulose from L-arabinose in L-arabinose catabolism; L-arabinose isomerase 70175 araA 7133083 araA Escherichia coli S88 L-arabinose isomerase YP_002389914.1 68673 R 585035 CDS YP_002389915.1 218557002 7133080 complement(70186..71886) 1 NC_011742.1 catalyzes the phosphorylation of ribulose to ribulose 5-phosphate; ribulokinase 71886 araB 7133080 araB Escherichia coli S88 ribulokinase YP_002389915.1 70186 R 585035 CDS YP_002389916.1 218557003 7133081 72225..73070 1 NC_011742.1 positive and negative regulator; regulates the araBAD and araFGH operons and other genes involved in the transport and catabolism of L-arabinose; DNA-binding transcriptional regulator AraC 73070 araC 7133081 araC Escherichia coli S88 DNA-binding transcriptional regulator AraC YP_002389916.1 72225 D 585035 CDS YP_002389917.1 218557004 7133082 73582..74433 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 74433 7133082 ECS88_0068 Escherichia coli S88 hypothetical protein YP_002389917.1 73582 D 585035 CDS YP_002389918.1 218557005 7131228 74440..74862 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 74862 7131228 ECS88_0069 Escherichia coli S88 hypothetical protein YP_002389918.1 74440 D 585035 CDS YP_002389919.1 218557006 7129028 75017..75781 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 75781 yabI 7129028 yabI Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002389919.1 75017 D 585035 CDS YP_002389920.1 218557007 7130258 complement(75895..76593) 1 NC_011742.1 with TbpA and ThiP is part of the thiamine and TPP transport system; thiamine transporter ATP-binding subunit 76593 thiQ 7130258 thiQ Escherichia coli S88 thiamine transporter ATP-binding subunit YP_002389920.1 75895 R 585035 CDS YP_002389921.1 218557008 7131301 complement(76577..78187) 1 NC_011742.1 permease; with TbpA and ThiQ functions in transport of thiamine and thiamine pyrophosphate into the cell; repressed in presence of exogenous thiamine; thiamine transporter membrane protein 78187 thiP 7131301 thiP Escherichia coli S88 thiamine transporter membrane protein YP_002389921.1 76577 R 585035 CDS YP_002389922.1 218557009 7131300 complement(78163..79146) 1 NC_011742.1 part of the thiamine and TPP transport system tbpA-thiPQ; thiamine transporter substrate binding subunit 79146 tbpA 7131300 tbpA Escherichia coli S88 thiamine transporter substrate binding subunit YP_002389922.1 78163 R 585035 CDS YP_002389923.1 218557010 7129857 complement(79310..80965) 1 NC_011742.1 activates sgrS under glucose-phosphate stress conditions; transcriptional regulator SgrR 80965 sgrR 7129857 sgrR Escherichia coli S88 transcriptional regulator SgrR YP_002389923.1 79310 R 585035 CDS YP_002389924.1 218557011 7130597 80934..81185 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 81185 7130597 ECS88_0075 Escherichia coli S88 hypothetical protein YP_002389924.1 80934 D 585035 CDS YP_002389925.1 218557012 7130598 complement(81293..81898) 1 NC_011742.1 catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate in leucine biosynthesis; forms a heterodimer of LeuC/D; isopropylmalate isomerase small subunit 81898 leuD 7130598 leuD Escherichia coli S88 isopropylmalate isomerase small subunit YP_002389925.1 81293 R 585035 CDS YP_002389926.1 218557013 7130487 complement(81909..83309) 1 NC_011742.1 dehydratase component, catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; isopropylmalate isomerase large subunit 83309 leuC 7130487 leuC Escherichia coli S88 isopropylmalate isomerase large subunit YP_002389926.1 81909 R 585035 CDS YP_002389927.1 218557014 7130486 complement(83312..84403) 1 NC_011742.1 catalyzes the oxidation of 3-isopropylmalate to 3-carboxy-4-methyl-2-oxopentanoate in leucine biosynthesis; 3-isopropylmalate dehydrogenase 84403 leuB 7130486 leuB Escherichia coli S88 3-isopropylmalate dehydrogenase YP_002389927.1 83312 R 585035 CDS YP_002389928.1 218557015 7130485 complement(84403..85974) 1 NC_011742.1 catalyzes the formation of 2-isopropylmalate from acetyl-CoA and 2-oxoisovalerate in leucine biosynthesis; 2-isopropylmalate synthase 85974 leuA 7130485 leuA Escherichia coli S88 2-isopropylmalate synthase YP_002389928.1 84403 R 585035 CDS YP_002389929.1 218557016 7130484 complement(86066..86152) 1 NC_011742.1 involved in attenuation control of the leuABCD operon in leucine biosynthesis; leu operon leader peptide 86152 leuL 7130484 leuL Escherichia coli S88 leu operon leader peptide YP_002389929.1 86066 R 585035 CDS YP_002389930.1 218557017 7130488 86810..87754 1 NC_011742.1 activator for leuABCD operon; member of LysR family of transcriptional activators; leucine transcriptional activator 87754 leuO 7130488 leuO Escherichia coli S88 leucine transcriptional activator YP_002389930.1 86810 D 585035 CDS YP_002389931.1 218557018 7130489 88072..89796 1 NC_011742.1 catalyzes the formation of 2-acetolactate from pyruvate, leucine sensitive; acetolactate synthase 3 catalytic subunit 89796 ilvI 7130489 ilvI Escherichia coli S88 acetolactate synthase 3 catalytic subunit YP_002389931.1 88072 D 585035 CDS YP_002389932.1 218557019 7131626 89799..90290 1 NC_011742.1 with IlvI catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase 3 small subunit; acetolactate synthase 3 regulatory subunit 90290 ilvH 7131626 ilvH Escherichia coli S88 acetolactate synthase 3 regulatory subunit YP_002389932.1 89799 D 585035 CDS YP_002389933.1 218557020 7131625 90470..91474 1 NC_011742.1 binds D-fructose as an inducer; involved in regulation of operons for central pathways of carbon metabolism; DNA-binding transcriptional regulator FruR 91474 fruR 7131625 fruR Escherichia coli S88 DNA-binding transcriptional regulator FruR YP_002389933.1 90470 D 585035 CDS YP_002389934.1 218557021 7132838 92076..92534 1 NC_011742.1 MraZ; UPF0040; crystal structure shows similarity to AbrB; cell division protein MraZ 92534 mraZ 7132838 mraZ Escherichia coli S88 cell division protein MraZ YP_002389934.1 92076 D 585035 CDS YP_002389935.1 218557022 7129604 92536..93477 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20042184, 10493123, 2187182, 6350821; Product type e : enzyme; S-adenosyl-methyltransferase MraW 93477 mraW 7129604 mraW Escherichia coli S88 S-adenosyl-methyltransferase MraW YP_002389935.1 92536 D 585035 CDS YP_002389936.1 218557023 7129602 93474..93839 1 NC_011742.1 membrane bound cell division protein at septum containing leucine zipper motif; cell division protein FtsL 93839 ftsL 7129602 ftsL Escherichia coli S88 cell division protein FtsL YP_002389936.1 93474 D 585035 CDS YP_002389937.1 218557024 7132852 93855..95621 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91072213, 92202178, 94095121, 9603865, 9614966, 1332942, 1447153, 2198024, 2677607, 2681146, 3049550, 3911028, 6350821; Product type e : enzyme; transpeptidase involved in septal peptidoglycan synthesis (penicillin-binding protein 3) 95621 ftsI 7132852 ftsI Escherichia coli S88 transpeptidase involved in septal peptidoglycan synthesis (penicillin-binding protein 3) YP_002389937.1 93855 D 585035 CDS YP_002389938.1 218557025 7132850 95608..97095 1 NC_011742.1 involved in cell wall formation; peptidoglycan synthesis; cytoplasmic enzyme; catalyzes the addition of meso-diaminopimelic acid to the nucleotide precursor UDP-N-aceylmuramoyl-l-alanyl-d-glutamate; UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase 97095 murE 7132850 murE Escherichia coli S88 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase YP_002389938.1 95608 D 585035 CDS YP_002389939.1 218557026 7129634 97092..98450 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88273095, 90248455, 91310568, 97128642, 11090285, 2668880, 9166795; Product type e : enzyme; UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D- alanine ligase 98450 murF 7129634 murF Escherichia coli S88 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D- alanine ligase YP_002389939.1 97092 D 585035 CDS YP_002389940.1 218557027 7129635 98444..99526 1 NC_011742.1 First step of the lipid cycle reactions in the biosynthesis of the cell wall peptidoglycan; phospho-N-acetylmuramoyl-pentapeptide- transferase 99526 mraY 7129635 mraY Escherichia coli S88 phospho-N-acetylmuramoyl-pentapeptide- transferase YP_002389940.1 98444 D 585035 CDS YP_002389941.1 218557028 7129603 99529..100845 1 NC_011742.1 UDP-N-acetylmuramoylalanine--D-glutamate ligase; involved in peptidoglycan biosynthesis; cytoplasmic; catalyzes the addition of glutamate to the nucleotide precursor UDP-N-acetylmuramoyl-L-alanine during cell wall formation; UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase 100845 murD 7129603 murD Escherichia coli S88 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase YP_002389941.1 99529 D 585035 CDS YP_002389942.1 218557029 7129633 100845..102089 1 NC_011742.1 integral membrane protein involved in stabilizing FstZ ring during cell division; cell division protein FtsW 102089 ftsW 7129633 ftsW Escherichia coli S88 cell division protein FtsW YP_002389942.1 100845 D 585035 CDS YP_002389943.1 218557030 7132855 102086..103153 1 NC_011742.1 UDP-N-acetylglucosamine--N-acetylmuramyl- (pentapeptide) pyrophosphoryl-undecaprenol N-acetylglucosamine transferase; involved in cell wall formation; inner membrane-associated; last step of peptidoglycan synthesis; undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase 103153 murG 7132855 murG Escherichia coli S88 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase YP_002389943.1 102086 D 585035 CDS YP_002389944.1 218557031 7129636 103207..104682 1 NC_011742.1 Catalyzes the formation of UDP-N-acetylmuramoyl-L-alanine from UDP-N-acetylmuramate and L-alanine in peptidoglycan synthesis; UDP-N-acetylmuramate--L-alanine ligase 104682 murC 7129636 murC Escherichia coli S88 UDP-N-acetylmuramate--L-alanine ligase YP_002389944.1 103207 D 585035 CDS YP_002389945.1 218557032 7129632 104675..105595 1 NC_011742.1 D-alanine--D-alanine ligase; DdlA; DdlB; cytoplasmic; catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis; there are two forms of this enzyme in Escherichia coli; D-alanine--D-alanine ligase 105595 ddl 7129632 ddl Escherichia coli S88 D-alanine--D-alanine ligase YP_002389945.1 104675 D 585035 CDS YP_002389946.1 218557033 7130176 105597..106427 1 NC_011742.1 involved in septum formation; cell division protein FtsQ 106427 ftsQ 7130176 ftsQ Escherichia coli S88 cell division protein FtsQ YP_002389946.1 105597 D 585035 CDS YP_002389947.1 218557034 7132854 106424..107686 1 NC_011742.1 ATP-binding involved in recruitment of FtsK to Z ring; essential cell division protein; colocalizes with FtsZ through direct interaction to the septal ring structure; structurally similar to eukaryotic actin; binds directly to the cell membrane; cell division protein FtsA 107686 ftsA 7132854 ftsA Escherichia coli S88 cell division protein FtsA YP_002389947.1 106424 D 585035 CDS YP_002389948.1 218557035 7132846 107747..108898 1 NC_011742.1 GTPase; similar structure to tubulin; forms ring-shaped polymers at the site of cell division; other proteins such as FtsA, ZipA, and ZapA, interact with and regulate FtsZ function; cell division protein FtsZ 108898 ftsZ 7132846 ftsZ Escherichia coli S88 cell division protein FtsZ YP_002389948.1 107747 D 585035 CDS YP_002389949.1 218557036 7132145 108999..109916 1 NC_011742.1 zinc-dependent; catalyzes the deacetylation of UDP-(3-O-acyl)-N-acetylglucosamine to UDP-3-O-(3-hydroxytetradecanoyl)-glucosamine in the second step of lipid A biosynthesis; UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase 109916 lpxC 7132145 lpxC Escherichia coli S88 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase YP_002389949.1 108999 D 585035 CDS YP_002389950.1 218557037 7129382 110147..110659 1 NC_011742.1 secM translational pause allows for the initiation of secA translation; SecA regulator SecM 110659 secM 7129382 secM Escherichia coli S88 SecA regulator SecM YP_002389950.1 110147 D 585035 CDS YP_002389951.1 218557038 7131384 110721..113426 1 NC_011742.1 functions in protein export; can interact with acidic membrane phospholipids and the SecYEG protein complex; binds to preproteins; binds to ATP and undergoes a conformational change to promote membrane insertion of SecA/bound preprotein; ATP hydrolysis appears to drive release of the preprotein from SecA and deinsertion of SecA from the membrane; additional proteins SecD/F/YajC aid SecA recycling; exists in an equilibrium between monomers and dimers; may possibly form higher order oligomers; proteins in this cluster correspond SecA1; SecA2 is not essential and seems to play a role in secretion of a subset of proteins; preprotein translocase subunit SecA 113426 secA 7131384 secA Escherichia coli S88 preprotein translocase subunit SecA YP_002389951.1 110721 D 585035 CDS YP_002389952.1 218557039 7131378 113486..113884 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10218109, 89264540, 90136514, 91225007, 97444511, 1309939, 2841285, 3033442, 3288626, 7578113, 9063868; Product type e : enzyme; nucleoside triphosphate pyrophosphohydrolase 113884 mutT 7131378 mutT Escherichia coli S88 nucleoside triphosphate pyrophosphohydrolase YP_002389952.1 113486 D 585035 CDS YP_002389953.1 218557040 7129643 complement(113972..114169) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 12211008, 3033442; zinc-binding protein 114169 yacG 7129643 yacG Escherichia coli S88 zinc-binding protein YP_002389953.1 113972 R 585035 CDS YP_002389954.1 218557041 7130261 complement(114179..114922) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 114922 yacF 7130261 yacF Escherichia coli S88 hypothetical protein YP_002389954.1 114179 R 585035 CDS YP_002389955.1 218557042 7130260 complement(114922..115542) 1 NC_011742.1 catalyzes the phosphorylation of the 3'-hydroxyl group of dephosphocoenzyme A to form coenzyme A; involved in coenzyme A biosynthesis; dephospho-CoA kinase 115542 coaE 7130260 coaE Escherichia coli S88 dephospho-CoA kinase YP_002389955.1 114922 R 585035 CDS YP_002389956.1 218557043 7131940 115767..116810 1 NC_011742.1 catalyzes the NADPH-dependent deamination of GMP to inosine monophosphate; guanosine 5'-monophosphate oxidoreductase 116810 guaC 7131940 guaC Escherichia coli S88 guanosine 5'-monophosphate oxidoreductase YP_002389956.1 115767 D 585035 CDS YP_002389957.1 218557044 7128876 complement(116845..118047) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96099298, 2904262, 7959070; Product type s : structure; type IV pilin biogenesis protein 118047 hofC 7128876 hofC Escherichia coli S88 type IV pilin biogenesis protein YP_002389957.1 116845 R 585035 CDS YP_002389958.1 218557045 7128938 complement(118037..119422) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96099298, 7959070; Product type pt : putative transporter; hypothetical protein 119422 hofB 7128938 hofB Escherichia coli S88 hypothetical protein YP_002389958.1 118037 R 585035 CDS YP_002389959.1 218557046 7128937 complement(119432..119872) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 20100782, 20271862, 96099298, 7959070; Product type ps : putative structure; putative major pilin subunit 119872 ppdD 7128937 ppdD Escherichia coli S88 putative major pilin subunit YP_002389959.1 119432 R 585035 CDS YP_002389960.1 218557047 7130757 complement(120076..120969) 1 NC_011742.1 catalyzes the formation of pyridine-2,3-dicarboxylate and 5-phospho-alpha-D-ribose 1-diphosphate from nictinate D-ribonucleotide; quinolinate phosphoribosyltransferase 120969 nadC 7130757 nadC Escherichia coli S88 quinolinate phosphoribosyltransferase YP_002389960.1 120076 R 585035 CDS YP_002389961.1 218557048 7129652 121057..121608 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90113890, 95047240, 2607970, 7959070; Product type e : enzyme; N-acetyl-anhydromuranmyl-L-alanine amidase 121608 ampD 7129652 ampD Escherichia coli S88 N-acetyl-anhydromuranmyl-L-alanine amidase YP_002389961.1 121057 D 585035 CDS YP_002389962.1 218557049 7133062 121605..122459 1 NC_011742.1 involved in regulation of beta-lactamase; putative signaling protein; regulatory protein AmpE 122459 ampE 7133062 ampE Escherichia coli S88 regulatory protein AmpE YP_002389962.1 121605 D 585035 CDS YP_002389963.1 218557050 7133063 complement(122502..123872) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1104763, 90174991, 9150230; Product type t : transporter; aromatic amino acid transporter 123872 aroP 7133063 aroP Escherichia coli S88 aromatic amino acid transporter YP_002389963.1 122502 R 585035 CDS YP_002389964.1 218557051 7129932 124400..126181 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 10702359; hypothetical protein 126181 7129932 ECS88_0115 Escherichia coli S88 hypothetical protein YP_002389964.1 124400 D 585035 CDS YP_002389965.1 218557052 7129030 126184..126468 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; Putative Colicin E7 immunity protein (ImmE7) (Microcin E7 immunity protein) 126468 7129030 ECS88_0116 Escherichia coli S88 Putative Colicin E7 immunity protein (ImmE7) (Microcin E7 immunity protein) YP_002389965.1 126184 D 585035 CDS YP_002389966.1 218557053 7129032 126876..127166 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; Putative Colicin E7 immunity protein (ImmE7) (Microcin E7 immunity protein) 127166 7129032 ECS88_0118 Escherichia coli S88 Putative Colicin E7 immunity protein (ImmE7) (Microcin E7 immunity protein) YP_002389966.1 126876 D 585035 CDS YP_002389967.1 218557054 7129034 127569..127865 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; Putative Colicin E7 immunity protein (ImmE7) (Microcin E7 immunity protein) 127865 7129034 ECS88_0120 Escherichia coli S88 Putative Colicin E7 immunity protein (ImmE7) (Microcin E7 immunity protein) YP_002389967.1 127569 D 585035 CDS YP_002389968.1 218557055 7129035 128321..129085 1 NC_011742.1 activates lctPRD operon; autoregulates itself through repression of pdhR-aceEF-lpdA operon; regulates pyruvate dehydrogenase complex; transcriptional regulator PdhR 129085 pdhR 7129035 pdhR Escherichia coli S88 transcriptional regulator PdhR YP_002389968.1 128321 D 585035 CDS YP_002389969.1 218557056 7133501 complement(129082..129264) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 129264 7133501 ECS88_0122 Escherichia coli S88 hypothetical protein YP_002389969.1 129082 R 585035 CDS YP_002389970.1 218557057 7129036 129246..131909 1 NC_011742.1 E1 component; part of pyruvate dehydrogenase; forms a complex with DlaT and LpdC; pyruvate dehydrogenase subunit E1 131909 aceE 7129036 aceE Escherichia coli S88 pyruvate dehydrogenase subunit E1 YP_002389970.1 129246 D 585035 CDS YP_002389971.1 218557058 7132032 131924..133816 1 NC_011742.1 E2 component of pyruvate dehydrogenase multienzyme complex; in Escherichia coli AceF contains three N-terminal lipoyl domains; dihydrolipoamide acetyltransferase 133816 aceF 7132032 aceF Escherichia coli S88 dihydrolipoamide acetyltransferase YP_002389971.1 131924 D 585035 CDS YP_002389972.1 218557059 7132033 134023..135447 1 NC_011742.1 E3 component of pyruvate and 2-oxoglutarate dehydrogenase complex; catalyzes the oxidation of dihydrolipoamide to lipoamide; dihydrolipoamide dehydrogenase 135447 lpd 7132033 lpd Escherichia coli S88 dihydrolipoamide dehydrogenase YP_002389972.1 134023 D 585035 CDS YP_002389973.1 218557060 7129375 complement(135689..137446) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 137446 yacH 7129375 yacH Escherichia coli S88 hypothetical protein YP_002389973.1 135689 R 585035 CDS YP_002389974.1 218557061 7130262 137801..140398 1 NC_011742.1 catalyzes the conversion of citrate to isocitrate and the conversion of 2-methylaconitate to 2-methylisocitrate; bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase 140398 acnB 7130262 acnB Escherichia coli S88 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase YP_002389974.1 137801 D 585035 CDS YP_002389975.1 218557062 7132037 140573..140935 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 2666401, 7567469; hypothetical protein 140935 yacL 7132037 yacL Escherichia coli S88 hypothetical protein YP_002389975.1 140573 D 585035 CDS YP_002389976.1 218557063 7130263 complement(140973..141767) 1 NC_011742.1 S-adenosylmethionine provides the aminopropyl moiety required for spermidine biosynthesis from putrescine; S-adenosylmethionine decarboxylase 141767 speD 7130263 speD Escherichia coli S88 S-adenosylmethionine decarboxylase YP_002389976.1 140973 R 585035 CDS YP_002389977.1 218557064 7130627 complement(141783..142649) 1 NC_011742.1 catalyzes the formation of spermidine from putrescine and S-adenosylmethioninamine; spermidine synthase 142649 speE 7130627 speE Escherichia coli S88 spermidine synthase YP_002389977.1 141783 R 585035 CDS YP_002389978.1 218557065 7130628 complement(142755..143273) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 2666401; hypothetical protein 143273 yacC 7130628 yacC Escherichia coli S88 hypothetical protein YP_002389978.1 142755 R 585035 CDS YP_002389979.1 218557066 7130259 143268..144818 1 NC_011742.1 laccase; copper-stimulated phenoloxidase and ferroxidase which may be involved in copper detoxification; multicopper oxidase 144818 cueO 7130259 cueO Escherichia coli S88 multicopper oxidase YP_002389979.1 143268 D 585035 CDS YP_002389980.1 218557067 7130507 complement(144865..147255) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10359647, 11604400, 14612441, 91035240, 93123180, 93286127; Product type e : enzyme; glucose dehydrogenase 147255 gcd 7130507 gcd Escherichia coli S88 glucose dehydrogenase YP_002389980.1 144865 R 585035 CDS YP_002389981.1 218557068 7132193 147461..147997 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 13808016, 339828, 6787390, 6801015, 12070315; Product type e : enzyme; hypoxanthine phosphoribosyltransferase 147997 hpt 7132193 hpt Escherichia coli S88 hypoxanthine phosphoribosyltransferase YP_002389981.1 147461 D 585035 CDS YP_002389982.1 218557069 7128946 complement(148038..148700) 1 NC_011742.1 catalyzes the interconversion of bicarbonate and carbon dioxide; carbonic anhydrase 148700 can 7128946 can Escherichia coli S88 carbonic anhydrase YP_002389982.1 148038 R 585035 CDS YP_002389983.1 218557070 7129158 148809..149735 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter subunit: ATP-binding component of ABC superfamily 149735 yadG 7129158 yadG Escherichia coli S88 putative transporter subunit: ATP-binding component of ABC superfamily YP_002389983.1 148809 D 585035 CDS YP_002389984.1 218557071 7130267 149732..150502 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10474187; Product type pt : putative transporter; putative transporter subunit: membrane component of ABC superfamily 150502 yadH 7130267 yadH Escherichia coli S88 putative transporter subunit: membrane component of ABC superfamily YP_002389984.1 149732 D 585035 CDS YP_002389985.1 218557072 7130268 150607..151047 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative PTS Enzyme IIA 151047 yadI 7130268 yadI Escherichia coli S88 putative PTS Enzyme IIA YP_002389985.1 150607 D 585035 CDS YP_002389986.1 218557073 7130269 151111..152340 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative exported polysaccharide deacetylase 152340 yadE 7130269 yadE Escherichia coli S88 putative exported polysaccharide deacetylase YP_002389986.1 151111 D 585035 CDS YP_002389987.1 218557074 7130266 complement(152344..152724) 1 NC_011742.1 Converts L-aspartate to beta-alanine and provides the major route of beta-alanine production in bacteria. Beta-alanine is essential for the biosynthesis of pantothenate (vitamin B5); aspartate alpha-decarboxylase 152724 panD 7130266 panD Escherichia coli S88 aspartate alpha-decarboxylase YP_002389987.1 152344 R 585035 CDS YP_002389988.1 218557075 7133159 152998..153882 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11319082; Product type pe : putative enzyme; putative transposase 153882 yadD 7133159 yadD Escherichia coli S88 putative transposase YP_002389988.1 152998 D 585035 CDS YP_002389989.1 218557076 7130265 complement(153964..154815) 1 NC_011742.1 catalyzes the formation of (R)-pantothenate from pantoate and beta-alanine; pantoate--beta-alanine ligase 154815 panC 7130265 panC Escherichia coli S88 pantoate--beta-alanine ligase YP_002389989.1 153964 R 585035 CDS YP_002389990.1 218557077 7133158 complement(154827..155621) 1 NC_011742.1 catalyzes the formation of tetrahydrofolate and 2-dehydropantoate from 5,10-methylenetetrahydrofolate and 3-methyl-2-oxobutanoate; 3-methyl-2-oxobutanoate hydroxymethyltransferase 155621 panB 7133158 panB Escherichia coli S88 3-methyl-2-oxobutanoate hydroxymethyltransferase YP_002389990.1 154827 R 585035 CDS YP_002389991.1 218557078 7133157 complement(155733..157022) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8096212; Product type ps : putative structure; putative fimbrial-like adhesin protein 157022 7133157 ECS88_0145 Escherichia coli S88 putative fimbrial-like adhesin protein YP_002389991.1 155733 R 585035 CDS YP_002389992.1 218557079 7129037 complement(157048..157644) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type ps : putative structure; protein yadK, putative fimbrial-like adhesin 157644 7129037 ECS88_0146 Escherichia coli S88 protein yadK, putative fimbrial-like adhesin YP_002389992.1 157048 R 585035 CDS YP_002389993.1 218557080 7129038 complement(157671..158285) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial-like adhesin protein YadL 158285 7129038 ECS88_0147 Escherichia coli S88 putative fimbrial-like adhesin protein YadL YP_002389993.1 157671 R 585035 CDS YP_002389994.1 218557081 7129039 complement(158291..158857) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial-like adhesin protein YadM 158857 7129039 ECS88_0148 Escherichia coli S88 putative fimbrial-like adhesin protein YadM YP_002389994.1 158291 R 585035 CDS YP_002389995.1 218557082 7129040 complement(158874..161462) 1 NC_011742.1 similar to the fimbrial usher protein PapC; putative outer membrane usher protein 161462 htrE 7129040 htrE Escherichia coli S88 putative outer membrane usher protein YP_002389995.1 158874 R 585035 CDS YP_002389996.1 218557083 7131402 complement(161497..162237) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 93352405, 8102362, 15561151; Product type f : factor; putative chaperone protein EcpD 162237 ecpD 7131402 ecpD Escherichia coli S88 putative chaperone protein EcpD YP_002389996.1 161497 R 585035 CDS YP_002389997.1 218557084 7132380 complement(162346..162960) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial-like adhesin exported protein 162960 yadN 7132380 yadN Escherichia coli S88 putative fimbrial-like adhesin exported protein YP_002389997.1 162346 R 585035 CDS YP_002389998.1 218557085 7130270 complement(163298..163777) 1 NC_011742.1 catalyzes the formation of 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate from 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine and ATP; 2-amino-4-hydroxy-6-hydroxymethyldihyropteridine pyrophosphokinase 163777 folK 7130270 folK Escherichia coli S88 2-amino-4-hydroxy-6-hydroxymethyldihyropteridine pyrophosphokinase YP_002389998.1 163298 R 585035 CDS YP_002389999.1 218557086 7132818 complement(163774..165192) 1 NC_011742.1 Polymerase that creates the 3' poly(A) tail found in some mRNA's; poly(A) polymerase I 165192 pcnB 7132818 pcnB Escherichia coli S88 poly(A) polymerase I YP_002389999.1 163774 R 585035 CDS YP_002390000.1 218557087 7133179 complement(165231..166157) 1 NC_011742.1 this tRNA synthetase lacks the tRNA anticodon interaction domain; instead this enzyme modifies tRNA(Asp) with glutamate by esterifying glutamate to the 2-amino-5-(4,5-dihydroxy-2-cyclopenten-1-yl) moiety of queosine generating a modified nucleoside at the first anticodon position of tRNAAsp; the modified tRNA does not bind elongation factor Tu; glutamyl-Q tRNA(Asp) synthetase 166157 yadB 7133179 yadB Escherichia coli S88 glutamyl-Q tRNA(Asp) synthetase YP_002390000.1 165231 R 585035 CDS YP_002390001.1 218557088 7130264 complement(166194..166649) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15294157, 90202727, 2013578, 9298646, 9600841; Product type r : regulator; RNA polymerase-binding transcription factor 166649 dksA 7130264 dksA Escherichia coli S88 RNA polymerase-binding transcription factor YP_002390001.1 166194 R 585035 CDS YP_002390002.1 218557089 7130214 complement(166827..167531) 1 NC_011742.1 Regulatory factor involved in maltose metabolism; sugar fermentation stimulation protein A 167531 sfsA 7130214 sfsA Escherichia coli S88 sugar fermentation stimulation protein A YP_002390002.1 166827 R 585035 CDS YP_002390003.1 218557090 7130585 complement(167546..168076) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 97094878; Product type e : enzyme; 2'-5' RNA ligase 168076 ligT 7130585 ligT Escherichia coli S88 2'-5' RNA ligase YP_002390003.1 167546 R 585035 CDS YP_002390004.1 218557091 7129355 168150..170579 1 NC_011742.1 similar in sequence to the ATP-dependent RNA helicase HrpA; ATP-dependent RNA helicase HrpB 170579 hrpB 7129355 hrpB Escherichia coli S88 ATP-dependent RNA helicase HrpB YP_002390004.1 168150 D 585035 CDS YP_002390005.1 218557092 7131390 170673..173207 1 NC_011742.1 bifunctional periplasmic enzyme; contains transglycosylase and transpeptidase activity; major enzyme for peptidoglycan biosynthesis in Escherichia coli; transmembrane protein; forms dimers; three variants, one of which may be a degradation product, while the other appears to result from an alternative initiation site, are found within the cell; penicillin-binding protein 1b 173207 mrcB 7131390 mrcB Escherichia coli S88 penicillin-binding protein 1b YP_002390005.1 170673 D 585035 CDS YP_002390006.1 218557093 7129606 173427..175670 1 NC_011742.1 involved with the transport of ferrichrome across the outer membrane; binds the ferrichrome-iron ligand and interacts with the TonB protein; ferrichrome outer membrane transporter 175670 fhuA 7129606 fhuA Escherichia coli S88 ferrichrome outer membrane transporter YP_002390006.1 173427 D 585035 CDS YP_002390007.1 218557094 7129482 175721..176518 1 NC_011742.1 part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter; iron-hydroxamate transporter ATP-binding subunit 176518 fhuC 7129482 fhuC Escherichia coli S88 iron-hydroxamate transporter ATP-binding subunit YP_002390007.1 175721 D 585035 CDS YP_002390008.1 218557095 7129484 176518..177408 1 NC_011742.1 Part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter; binds to all hydroxamate siderophores; iron-hydroxamate transporter substrate-binding subunit 177408 fhuD 7129484 fhuD Escherichia coli S88 iron-hydroxamate transporter substrate-binding subunit YP_002390008.1 176518 D 585035 CDS YP_002390009.1 218557096 7129485 177405..179387 1 NC_011742.1 part of the FhuBCD ATP-dependent iron (III) hydroxamate transporter involved in the high-affinity transport of Fe(3+)-ferrichrome; iron-hydroxamate transporter permease subunit 179387 fhuB 7129485 fhuB Escherichia coli S88 iron-hydroxamate transporter permease subunit YP_002390009.1 177405 D 585035 CDS YP_002390010.1 218557097 7129483 complement(179422..180702) 1 NC_011742.1 Converts (S)-4-amino-5-oxopentanoate to 5-aminolevulinate during the porphyrin biosynthesis pathway; glutamate-1-semialdehyde aminotransferase 180702 hemL 7129483 hemL Escherichia coli S88 glutamate-1-semialdehyde aminotransferase YP_002390010.1 179422 R 585035 CDS YP_002390011.1 218557098 7128904 180927..182348 1 NC_011742.1 Acts as an electrical shunt for an outwardly-directed proton pump that is linked to amino acid decarboxylation; chloride channel protein 182348 clcA 7128904 clcA Escherichia coli S88 chloride channel protein YP_002390011.1 180927 D 585035 CDS YP_002390012.1 218557099 7131925 182430..182774 1 NC_011742.1 essential respiratory protein A; may be involved in the transfer of iron-sulfur clusters; essential for growth using oxygen or alternate electron acceptors; iron-sulfur cluster insertion protein ErpA 182774 yadR 7131925 yadR Escherichia coli S88 iron-sulfur cluster insertion protein ErpA YP_002390012.1 182430 D 585035 CDS YP_002390013.1 218557100 7130271 complement(182821..183444) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 183444 yadS 7130271 yadS Escherichia coli S88 hypothetical protein YP_002390013.1 182821 R 585035 CDS YP_002390014.1 218557101 7130272 complement(183482..184282) 1 NC_011742.1 solute binding component of the vitamin B12 transport system BtuCDF; vitamin B12-transporter protein BtuF 184282 btuF 7130272 btuF Escherichia coli S88 vitamin B12-transporter protein BtuF YP_002390014.1 183482 R 585035 CDS YP_002390015.1 218557102 7129140 complement(184275..184973) 1 NC_011742.1 enables the cleavage of the glycosidic bond in both 5'-methylthioadenosine and S-adenosylhomocysteine; 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase 184973 pfs 7129140 pfs Escherichia coli S88 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase YP_002390015.1 184275 R 585035 CDS YP_002390016.1 218557103 7133684 185057..186574 1 NC_011742.1 forms a homotetramer; requires magnesium for activity; catalyzes the hydrolysis of dGTP to form deoxyguanosine and triphosphate; deoxyguanosinetriphosphate triphosphohydrolase 186574 dgt 7133684 dgt Escherichia coli S88 deoxyguanosinetriphosphate triphosphohydrolase YP_002390016.1 185057 D 585035 CDS YP_002390017.1 218557104 7130199 186704..188128 1 NC_011742.1 protease Do; required at high temperature; degrades damaged proteins; serine endoprotease 188128 degP 7130199 degP Escherichia coli S88 serine endoprotease YP_002390017.1 186704 D 585035 CDS YP_002390018.1 218557105 7130181 188306..189436 1 NC_011742.1 regulates the expression of the operons for the enzymes involved in galactarate, glucarate and glycerate utilization; carbohydrate diacid transcriptional activator CdaR 189436 cdaR 7130181 cdaR Escherichia coli S88 carbohydrate diacid transcriptional activator CdaR YP_002390018.1 188306 D 585035 CDS YP_002390019.1 218557106 7129175 complement(189490..189876) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 189876 yaeH 7129175 yaeH Escherichia coli S88 hypothetical protein YP_002390019.1 189490 R 585035 CDS YP_002390020.1 218557107 7130275 complement(190188..191012) 1 NC_011742.1 catalyzes the formation of N-succinyl-2-amino-6-ketopimelate from succinyl-CoA and tetrahydrodipicolinate in the lysine biosynthetic pathway; 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase 191012 dapD 7130275 dapD Escherichia coli S88 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase YP_002390020.1 190188 R 585035 CDS YP_002390021.1 218557108 7130566 complement(191043..193715) 1 NC_011742.1 catalyzes the uridylylation or deuridylylation of the PII nitrogen regulatory protein; PII uridylyl-transferase 193715 glnD 7130566 glnD Escherichia coli S88 PII uridylyl-transferase YP_002390021.1 191043 R 585035 CDS YP_002390022.1 218557109 7130006 complement(193777..194571) 1 NC_011742.1 catalyzes the removal of N-terminal amino acids from peptides and arylamides; generally Co(II) however activity has been shown for some methionine aminopeptidases with Zn, Fe, or Mn; methionine aminopeptidase 194571 map 7130006 map Escherichia coli S88 methionine aminopeptidase YP_002390022.1 193777 R 585035 CDS YP_002390023.1 218557110 7131254 194939..195664 1 NC_011742.1 one of the last subunits in the assembly of the 30S subunit; absence of S2 does not inhibit assembly but results in an inactive subunit; 30S ribosomal protein S2 195664 rpsB 7131254 rpsB Escherichia coli S88 30S ribosomal protein S2 YP_002390023.1 194939 D 585035 CDS YP_002390024.1 218557111 7133785 195799..196650 1 NC_011742.1 EF-Ts; functions during elongation stage of protein translation; forms a dimer; associates with EF-Tu-GDP complex and promotes exchange of GDP to GTP resulting in regeneration of the active form of EF-Tu; elongation factor Ts 196650 tsf 7133785 tsf Escherichia coli S88 elongation factor Ts YP_002390024.1 195799 D 585035 CDS YP_002390025.1 218557112 7130358 196797..197522 1 NC_011742.1 Catalyzes the phosphorylation of UMP to UDP; uridylate kinase 197522 pyrH 7130358 pyrH Escherichia coli S88 uridylate kinase YP_002390025.1 196797 D 585035 CDS YP_002390026.1 218557113 7131769 197672..198229 1 NC_011742.1 Rrf; Frr; ribosome-recycling factor; release factor 4; RF4; recycles ribosomes upon translation termination along with release factor RF-3 and elongation factor EF-G; A GTPase-dependent process results in release of 50S from 70S; inhibited by release factor RF-1; essential for viability; structurally similar to tRNAs; ribosome recycling factor 198229 frr 7131769 frr Escherichia coli S88 ribosome recycling factor YP_002390026.1 197672 D 585035 CDS YP_002390027.1 218557114 7132833 198321..199517 1 NC_011742.1 catalyzes the NADP-dependent rearrangement and reduction of 1-deoxy-D-xylulose-5-phosphate (DXP) to 2-C-methyl-D-erythritol 4-phosphate; 1-deoxy-D-xylulose 5-phosphate reductoisomerase 199517 dxr 7132833 dxr Escherichia coli S88 1-deoxy-D-xylulose 5-phosphate reductoisomerase YP_002390027.1 198321 D 585035 CDS YP_002390028.1 218557115 7132369 199703..200464 1 NC_011742.1 catalyzes the formation of undecaprenyl pyrophosphate from isopentenyl pyrophosphate; undecaprenyl pyrophosphate synthase 200464 ispU 7132369 ispU Escherichia coli S88 undecaprenyl pyrophosphate synthase YP_002390028.1 199703 D 585035 CDS YP_002390029.1 218557116 7130425 200477..201334 1 NC_011742.1 catalyzes the synthesis of CDP-diglyceride from CTP and phosphatidate; CDP-diglyceride synthase 201334 cdsA 7130425 cdsA Escherichia coli S88 CDP-diglyceride synthase YP_002390029.1 200477 D 585035 CDS YP_002390030.1 218557117 7129178 201346..202698 1 NC_011742.1 catalyzes the cleavage of RseA which activates the sigmaE-mediated stress response; zinc metallopeptidase RseP 202698 yaeL 7129178 yaeL Escherichia coli S88 zinc metallopeptidase RseP YP_002390030.1 201346 D 585035 CDS YP_002390031.1 218557118 7130277 202728..205160 1 NC_011742.1 part of a complex with YfgL, YfiO, and NlpB involved in outer membrane protein biosynthesis; involved in the assembly of outer membrane proteins; outer membrane protein assembly factor YaeT 205160 yaeT 7130277 yaeT Escherichia coli S88 outer membrane protein assembly factor YaeT YP_002390031.1 202728 D 585035 CDS YP_002390032.1 218557119 7130281 205282..205767 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15101556, 90201355, 97032152, 99386928, 1987124, 2843433, 9298646, 2167239; Product type f : factor; periplasmic chaperone 205767 hlpA 7130281 hlpA Escherichia coli S88 periplasmic chaperone YP_002390032.1 205282 D 585035 CDS YP_002390033.1 218557120 7128933 205771..206796 1 NC_011742.1 adds the O-linked and N-linked 3(R)-hydroxy fatty acids to the glucosamine disaccharide during lipid A biosynthesis; UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase 206796 lpxD 7128933 lpxD Escherichia coli S88 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase YP_002390033.1 205771 D 585035 CDS YP_002390034.1 218557121 7129383 206901..207356 1 NC_011742.1 in Pseudomonas aeruginosa this enzyme is a trimer of dimers; essential for membrane formation; performs third step of type II fatty acid biosynthesis; catalyzes dehydration of (3R)-hydroxyacyl-ACP to trans-2-acyl-ACP; (3R)-hydroxymyristoyl-ACP dehydratase 207356 fabZ 7129383 fabZ Escherichia coli S88 (3R)-hydroxymyristoyl-ACP dehydratase YP_002390034.1 206901 D 585035 CDS YP_002390035.1 218557122 7129439 207360..208148 1 NC_011742.1 catalyzes the addition of (R)-3-hydroxytetradecanoyl to the glucosamine disaccharide in lipid A biosynthesis; UDP-N-acetylglucosamine acyltransferase 208148 lpxA 7129439 lpxA Escherichia coli S88 UDP-N-acetylglucosamine acyltransferase YP_002390035.1 207360 D 585035 CDS YP_002390036.1 218557123 7129380 208148..209296 1 NC_011742.1 catalyzes the formation of lipid A disaccharide from UDP-2,3-diacylglucosamine and 2,3-diacylglucosamine-1-phosphate, lipid A disaccharide is a precursor of lipid A that anchors LPS to the OM; lipid-A-disaccharide synthase 209296 lpxB 7129380 lpxB Escherichia coli S88 lipid-A-disaccharide synthase YP_002390036.1 208148 D 585035 CDS YP_002390037.1 218557124 7129381 209293..209889 1 NC_011742.1 RNH2; RNase HII; binds manganese; endonuclease which specifically degrades the RNA of RNA-DNA hybrids; ribonuclease HII 209889 rnhB 7129381 rnhB Escherichia coli S88 ribonuclease HII YP_002390037.1 209293 D 585035 CDS YP_002390038.1 218557125 7132749 209926..213408 1 NC_011742.1 catalyzes DNA-template-directed extension of the 3'- end of a DNA strand by one nucleotide at a time; main replicative polymerase; DNA polymerase III subunit alpha 213408 dnaE 7132749 dnaE Escherichia coli S88 DNA polymerase III subunit alpha YP_002390038.1 209926 D 585035 CDS YP_002390039.1 218557126 7130223 213421..214380 1 NC_011742.1 catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer composed of two alpha (AccA) and two beta (AccD) subunits; one of the two catalytic subunits that can form the acetyl CoA carboxylase enzyme together with a carrier protein; acetyl-CoA carboxylase carboxyltransferase subunit alpha 214380 accA 7130223 accA Escherichia coli S88 acetyl-CoA carboxylase carboxyltransferase subunit alpha YP_002390039.1 213421 D 585035 CDS YP_002390040.1 218557127 7132026 214478..216619 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 97480927, 98195734, 98357244, 9226257, 9723924; Product type e : enzyme; lysine decarboxylase 2, constitutive 216619 ldcC 7132026 ldcC Escherichia coli S88 lysine decarboxylase 2, constitutive YP_002390040.1 214478 D 585035 CDS YP_002390041.1 218557128 7130476 216676..217065 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 217065 yaeR 7130476 yaeR Escherichia coli S88 hypothetical protein YP_002390041.1 216676 D 585035 CDS YP_002390042.1 218557129 7130280 217130..218428 1 NC_011742.1 Ligates lysine onto the cytidine present at position 34 of the AUA codon-specific tRNA(Ile) that contains the anticodon CAU; ATP-dependent; responsible for modifying the wobble-base of the CAU anticodon of tRNAIle such that it exhibits proper recognition of the AUA codon rather than the AUG codon and is in turn properly recognized by isoleucyl-tRNA synthetase; tRNA(Ile)-lysidine synthetase 218428 tilS 7130280 tilS Escherichia coli S88 tRNA(Ile)-lysidine synthetase YP_002390042.1 217130 D 585035 CDS YP_002390043.1 218557130 7133474 complement(218476..218736) 1 NC_011742.1 Suppresses temperature-sensitive mutations in essential genes by modulating rho-dependent transcription termination; Rho-binding antiterminator 218736 rof 7133474 rof Escherichia coli S88 Rho-binding antiterminator YP_002390043.1 218476 R 585035 CDS YP_002390044.1 218557131 7132756 complement(218723..218923) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 218923 yaeP 7132756 yaeP Escherichia coli S88 hypothetical protein YP_002390044.1 218723 R 585035 CDS YP_002390045.1 218557132 7130278 219089..219634 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 219634 yaeQ 7130278 yaeQ Escherichia coli S88 hypothetical protein YP_002390045.1 219089 D 585035 CDS YP_002390046.1 218557133 7130279 219631..220053 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; peptidyl-tRNA hydrolase domain protein 220053 yaeJ 7130279 yaeJ Escherichia coli S88 peptidyl-tRNA hydrolase domain protein YP_002390046.1 219631 D 585035 CDS YP_002390047.1 218557134 7130276 220067..220777 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11830644, 95362641, 95362642; Product type lp : lipoprotein; lipoprotein involved with copper homeostasis and adhesion 220777 nlpE 7130276 nlpE Escherichia coli S88 lipoprotein involved with copper homeostasis and adhesion YP_002390047.1 220067 D 585035 CDS YP_002390048.1 218557135 7129724 complement(220933..221757) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; hypothetical protein 221757 yaeF 7129724 yaeF Escherichia coli S88 hypothetical protein YP_002390048.1 220933 R 585035 CDS YP_002390049.1 218557136 7130274 complement(221810..223528) 1 NC_011742.1 catalyzes the formation of prolyl-tRNA(Pro) from proline and tRNA(Pro); prolyl-tRNA synthetase 223528 proS 7130274 proS Escherichia coli S88 prolyl-tRNA synthetase YP_002390049.1 221810 R 585035 CDS YP_002390050.1 218557137 7130789 complement(223639..224346) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 224346 yaeB 7130789 yaeB Escherichia coli S88 hypothetical protein YP_002390050.1 223639 R 585035 CDS YP_002390051.1 218557138 7130273 complement(224343..224747) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 93094132; Product type pr : putative regulator; outer membrane lipoprotein 224747 rcsF 7130273 rcsF Escherichia coli S88 outer membrane lipoprotein YP_002390051.1 224343 R 585035 CDS YP_002390052.1 218557139 7131798 complement(224865..225680) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12169620, 12218041, 12819857, 1459951; Product type t : transporter; DL-methionine transporter substrate-binding subunit 225680 metQ 7131798 metQ Escherichia coli S88 DL-methionine transporter substrate-binding subunit YP_002390052.1 224865 R 585035 CDS YP_002390053.1 218557140 7128823 complement(225720..226373) 1 NC_011742.1 part of the MetNIQ methionine uptake system; DL-methionine transporter permease subunit 226373 metI 7128823 metI Escherichia coli S88 DL-methionine transporter permease subunit YP_002390053.1 225720 R 585035 CDS YP_002390054.1 218557141 7128817 complement(226366..227397) 1 NC_011742.1 part of the metNIQ transport system for methionine; DL-methionine transporter ATP-binding subunit 227397 metN 7128817 metN Escherichia coli S88 DL-methionine transporter ATP-binding subunit YP_002390054.1 226366 R 585035 CDS YP_002390055.1 218557142 7128822 227585..228157 1 NC_011742.1 Converts the D-glycero-beta-D-manno-heptose 1,7-bisphosphate intermediate into D-glycero-beta-D-manno-heptose 1-phosphate; D,D-heptose 1,7-bisphosphate phosphatase 228157 gmhB 7128822 gmhB Escherichia coli S88 D,D-heptose 1,7-bisphosphate phosphatase YP_002390055.1 227585 D 585035 CDS YP_002390056.1 218557143 7129888 233914..234717 1 NC_011742.1 catalyzes the reduction of 2,5-diketo-D-gluconic acid to 2-keto-L-gulonic acid; 2,5-diketo-D-gluconate reductase B 234717 dkgB 7129888 dkgB Escherichia coli S88 2,5-diketo-D-gluconate reductase B YP_002390056.1 233914 D 585035 CDS YP_002390057.1 218557144 7130213 complement(234714..235628) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 235628 yafC 7130213 yafC Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390057.1 234714 R 585035 CDS YP_002390058.1 218557145 7130282 235869..236669 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 1663890; hypothetical protein 236669 yafD 7130282 yafD Escherichia coli S88 hypothetical protein YP_002390058.1 235869 D 585035 CDS YP_002390059.1 218557146 7130283 236747..237517 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative S-adenosyl-L-methionine-dependent methyltransferase 237517 yafE 7130283 yafE Escherichia coli S88 putative S-adenosyl-L-methionine-dependent methyltransferase YP_002390059.1 236747 D 585035 CDS YP_002390060.1 218557147 7130284 complement(237564..238922) 1 NC_011742.1 catalyzes the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid and N-acetylglucosamine residues; may play a role in recycling muropeptides during cell division and/or cell elongation; in Helicobacter pylori MltD is a endolytic transglycosylase involved mainly in the rearrangement of the peptidoglycan layer of the bacterial cell wall; membrane-bound lytic murein transglycosylase D 238922 mltD 7130284 mltD Escherichia coli S88 membrane-bound lytic murein transglycosylase D YP_002390060.1 237564 R 585035 CDS YP_002390061.1 218557148 7128845 complement(238994..239749) 1 NC_011742.1 catalyzes the hydrolysis of S-D-lactoylglutathione to D-lactic acid and reduced glutathione; plays an important role in cellular detoxification using glutathione; hydroxyacylglutathione hydrolase 239749 gloB 7128845 gloB Escherichia coli S88 hydroxyacylglutathione hydrolase YP_002390061.1 238994 R 585035 CDS YP_002390062.1 218557149 7130016 239783..240505 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative S-adenosyl-L-methionine-dependent methyltransferase 240505 yafS 7130016 yafS Escherichia coli S88 putative S-adenosyl-L-methionine-dependent methyltransferase YP_002390062.1 239783 D 585035 CDS YP_002390063.1 218557150 7130292 complement(240502..240969) 1 NC_011742.1 An endonuclease that specifically degrades the RNA strand of RNA-DNA hybrids; ribonuclease H 240969 rnhA 7130292 rnhA Escherichia coli S88 ribonuclease H YP_002390063.1 240502 R 585035 CDS YP_002390064.1 218557151 7132748 241034..241765 1 NC_011742.1 3'-5' exonuclease of DNA polymerase III; DNA polymerase III subunit epsilon 241765 dnaQ 7132748 dnaQ Escherichia coli S88 DNA polymerase III subunit epsilon YP_002390064.1 241034 D 585035 CDS YP_002390065.1 218557152 7129899 242303..243088 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative aminopeptidase 243088 yafT 7129899 yafT Escherichia coli S88 putative aminopeptidase YP_002390065.1 242303 D 585035 CDS YP_002390066.1 218557153 7130293 complement(243428..243928) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 243928 7130293 ECS88_0232 Escherichia coli S88 hypothetical protein YP_002390066.1 243428 R 585035 CDS YP_002390067.1 218557154 7129041 complement(243925..245424) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 245424 7129041 ECS88_0233 Escherichia coli S88 hypothetical protein YP_002390067.1 243925 R 585035 CDS YP_002390068.1 218557155 7129042 complement(245294..248821) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; hypothetical protein 248821 7129042 ECS88_0234 Escherichia coli S88 hypothetical protein YP_002390068.1 245294 R 585035 CDS YP_002390069.1 218557156 7129043 complement(248841..250349) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec29, contains a TPR-like_helical domain 250349 7129043 ECS88_0235 Escherichia coli S88 conserved hypothetical protein Aec29, contains a TPR-like_helical domain YP_002390069.1 248841 R 585035 CDS YP_002390070.1 218557157 7129044 complement(250288..251031) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec28 251031 7129044 ECS88_0236 Escherichia coli S88 conserved hypothetical protein Aec28 YP_002390070.1 250288 R 585035 CDS YP_002390071.1 218557158 7129045 complement(251028..253787) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative ATP-dependent Clp proteinase Aec27 ATP-binding chain, with chaperone activity 253787 7129045 ECS88_0237 Escherichia coli S88 putative ATP-dependent Clp proteinase Aec27 ATP-binding chain, with chaperone activity YP_002390071.1 251028 R 585035 CDS YP_002390072.1 218557159 7129046 complement(253797..254561) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; Putative membrane protein Aec26 254561 7129046 ECS88_0238 Escherichia coli S88 Putative membrane protein Aec26 YP_002390072.1 253797 R 585035 CDS YP_002390073.1 218557160 7129047 complement(254566..255912) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec25 255912 7129047 ECS88_0239 Escherichia coli S88 conserved hypothetical protein Aec25 YP_002390073.1 254566 R 585035 CDS YP_002390074.1 218557161 7129048 complement(255915..256439) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec24; putative lipoprotein 256439 7129048 ECS88_0240 Escherichia coli S88 conserved hypothetical protein Aec24; putative lipoprotein YP_002390074.1 255915 R 585035 CDS YP_002390075.1 218557162 7129049 complement(256436..257878) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec23, contains FHA domain 257878 7129049 ECS88_0241 Escherichia coli S88 conserved hypothetical protein Aec23, contains FHA domain YP_002390075.1 256436 R 585035 CDS YP_002390076.1 218557163 7129050 complement(257733..258782) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec22 258782 7129050 ECS88_0242 Escherichia coli S88 conserved hypothetical protein Aec22 YP_002390076.1 257733 R 585035 CDS YP_002390077.1 218557164 7129051 complement(258746..260605) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec21 260605 7129051 ECS88_0243 Escherichia coli S88 conserved hypothetical protein Aec21 YP_002390077.1 258746 R 585035 CDS YP_002390078.1 218557165 7129052 complement(260593..261018) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec19 261018 7129052 ECS88_0244 Escherichia coli S88 conserved hypothetical protein Aec19 YP_002390078.1 260593 R 585035 CDS YP_002390079.1 218557166 7129053 complement(261023..262507) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec18 262507 7129053 ECS88_0245 Escherichia coli S88 conserved hypothetical protein Aec18 YP_002390079.1 261023 R 585035 CDS YP_002390080.1 218557167 7129054 complement(262530..263084) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec17 263084 7129054 ECS88_0246 Escherichia coli S88 conserved hypothetical protein Aec17 YP_002390080.1 262530 R 585035 CDS YP_002390081.1 218557168 7129055 263739..264257 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 264257 7129055 ECS88_0247 Escherichia coli S88 hypothetical protein YP_002390081.1 263739 D 585035 CDS YP_002390082.1 218557169 7129056 264478..266460 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec15, putative VgrG/E protein associated with Rhs elements 266460 7129056 ECS88_0248 Escherichia coli S88 conserved hypothetical protein Aec15, putative VgrG/E protein associated with Rhs elements YP_002390082.1 264478 D 585035 CDS YP_002390083.1 218557170 7129057 266567..267613 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec14 267613 7129057 ECS88_0249 Escherichia coli S88 conserved hypothetical protein Aec14 YP_002390083.1 266567 D 585035 CDS YP_002390084.1 218557171 7129058 267606..269045 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein (fused Aec13 and Aec 12) 269045 7129058 ECS88_0250 Escherichia coli S88 conserved hypothetical protein (fused Aec13 and Aec 12) YP_002390084.1 267606 D 585035 CDS YP_002390085.1 218557172 7129059 269020..269310 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec11 269310 7129059 ECS88_0251 Escherichia coli S88 conserved hypothetical protein Aec11 YP_002390085.1 269020 D 585035 CDS YP_002390086.1 218557173 7129060 269568..269747 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative H-repeat associated protein 269747 7129060 ECS88_0252 Escherichia coli S88 putative H-repeat associated protein YP_002390086.1 269568 D 585035 CDS YP_002390087.1 218557174 7129061 269847..270332 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative transposase 270332 7129061 ECS88_0253 Escherichia coli S88 putative transposase YP_002390087.1 269847 D 585035 CDS YP_002390088.1 218557175 7129062 270561..271064 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 271064 7129062 ECS88_0254 Escherichia coli S88 hypothetical protein YP_002390088.1 270561 D 585035 CDS YP_002390089.1 218557176 7129063 271134..271646 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein Aec7 271646 7129063 ECS88_0255 Escherichia coli S88 conserved hypothetical protein Aec7 YP_002390089.1 271134 D 585035 CDS YP_002390090.1 218557177 7129064 complement(271917..272687) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8526497; Product type pe : putative enzyme; hypothetical protein 272687 yafV 7129064 yafV Escherichia coli S88 hypothetical protein YP_002390090.1 271917 R 585035 CDS YP_002390091.1 218557178 7130294 272841..273314 1 NC_011742.1 inactivates vertebrate C-type lysozyme; C-lysozyme inhibitor 273314 ivy 7130294 ivy Escherichia coli S88 C-lysozyme inhibitor YP_002390091.1 272841 D 585035 CDS YP_002390092.1 218557179 7130429 complement(273357..275801) 1 NC_011742.1 functions in fatty acid oxidation; converts acyl-CoA and FAD to FADH2 and delta2-enoyl-CoA; acyl-CoA dehydrogenase 275801 fadE 7130429 fadE Escherichia coli S88 acyl-CoA dehydrogenase YP_002390092.1 273357 R 585035 CDS YP_002390093.1 218557180 7129443 276041..276619 1 NC_011742.1 catalyzes the isomerization of sedoheptulose 7-phosphate to D-glycero-D-manno-heptose 7-phosphate; phosphoheptose isomerase 276619 gmhA 7129443 gmhA Escherichia coli S88 phosphoheptose isomerase YP_002390093.1 276041 D 585035 CDS YP_002390094.1 218557181 7129374 276824..277591 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative glutamine amidotransferases class-II 277591 yafJ 7129374 yafJ Escherichia coli S88 putative glutamine amidotransferases class-II YP_002390094.1 276824 D 585035 CDS YP_002390095.1 218557182 7130285 complement(277562..278302) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 278302 yafK 7130285 yafK Escherichia coli S88 hypothetical protein YP_002390095.1 277562 R 585035 CDS YP_002390096.1 218557183 7130286 278605..279363 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative exported hydrolase 279363 yafL 7130286 yafL Escherichia coli S88 putative exported hydrolase YP_002390096.1 278605 D 585035 CDS YP_002390097.1 218557184 7130287 279539..280036 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 280036 yafM 7130287 yafM Escherichia coli S88 hypothetical protein YP_002390097.1 279539 D 585035 CDS YP_002390098.1 218557185 7130288 complement(280356..282095) 1 NC_011742.1 Evidence 7 : Gene remnant; Product type s : structure; flagellar system protein 282095 fhiA 7130288 fhiA Escherichia coli S88 flagellar system protein YP_002390098.1 280356 R 585035 CDS YP_002390099.1 218557186 7129480 281935..282825 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 15687208; Product type s : structure; hypothetical protein 282825 mbhA 7129480 mbhA Escherichia coli S88 hypothetical protein YP_002390099.1 281935 D 585035 CDS YP_002390100.1 218557187 7129429 282896..283951 1 NC_011742.1 involved in translesion DNA polymerization with beta clamp of polymerase III; belongs to Y family of polymerases; does not contain proofreading function; DNA polymerase IV 283951 dinB 7129429 dinB Escherichia coli S88 DNA polymerase IV YP_002390100.1 282896 D 585035 CDS YP_002390101.1 218557188 7130205 284003..284296 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12813093, 14594833; Product type pf : putative factor; putative antitoxin of the YafO-YafN toxin-antitoxin system 284296 yafN 7130205 yafN Escherichia coli S88 putative antitoxin of the YafO-YafN toxin-antitoxin system YP_002390101.1 284003 D 585035 CDS YP_002390102.1 218557189 7130289 284299..284697 1 NC_011742.1 YafO overproduction induces toxicity; it is believed to be the toxin of a toxin-antitoxin pair; unknown function; putative toxin YafO 284697 yafO 7130289 yafO Escherichia coli S88 putative toxin YafO YP_002390102.1 284299 D 585035 CDS YP_002390103.1 218557190 7130290 284707..285159 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12813093; Product type pe : putative enzyme; hypothetical protein 285159 yafP 7130290 yafP Escherichia coli S88 hypothetical protein YP_002390103.1 284707 D 585035 CDS YP_002390104.1 218557191 7130291 285337..286488 1 NC_011742.1 mutations in this gene result in a compromised ability for drug-inducible mexXY expression; expression is inducible by the same ribosome-targeting agents that induce mexXY; hypothetical protein 286488 7130291 ECS88_0270 Escherichia coli S88 hypothetical protein YP_002390104.1 285337 D 585035 CDS YP_002390105.1 218557192 7129065 286599..287099 1 NC_011742.1 similar to release factor 1 and 2; peptide chain release factor-like protein 287099 prfH 7129065 prfH Escherichia coli S88 peptide chain release factor-like protein YP_002390105.1 286599 D 585035 CDS YP_002390106.1 218557193 7130775 complement(287156..288613) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1695895, 21101837, 88121730, 92204123, 2651887; Product type e : enzyme; aminoacyl-histidine dipeptidase (peptidase D) 288613 pepD 7130775 pepD Escherichia coli S88 aminoacyl-histidine dipeptidase (peptidase D) YP_002390106.1 287156 R 585035 CDS YP_002390107.1 218557194 7133671 288874..289332 1 NC_011742.1 catalyzes the conversion of guanine, xanthine and, to a lesser extent, hypoxanthine to GMP, XMP and IMP, respectively; xanthine-guanine phosphoribosyltransferase 289332 gpt 7133671 gpt Escherichia coli S88 xanthine-guanine phosphoribosyltransferase YP_002390107.1 288874 D 585035 CDS YP_002390108.1 218557195 7130065 289424..290668 1 NC_011742.1 forms a 1:1 complex with the unphosphorylated from of enzyme IIAGlc; FrsA may promote fermentation; fermentation/respiration switch protein 290668 frsA 7130065 frsA Escherichia coli S88 fermentation/respiration switch protein YP_002390108.1 289424 D 585035 CDS YP_002390109.1 218557196 7132834 290726..291127 1 NC_011742.1 involved in the expression of csgBA which is involved in curli formation; interacts with sigmaS; DNA-binding transcriptional regulator Crl 291127 crl 7132834 crl Escherichia coli S88 DNA-binding transcriptional regulator Crl YP_002390109.1 290726 D 585035 CDS YP_002390110.1 218557197 7131964 complement(291237..292292) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89178658, 89380253, 92219258, 98090453, 1380671, 1848301, 1848682, 6089111, 6341601, 7679770; Product type t : transporter; outer membrane phosphoporin protein E 292292 phoE 7131964 phoE Escherichia coli S88 outer membrane phosphoporin protein E YP_002390110.1 291237 R 585035 CDS YP_002390111.1 218557198 7133724 292581..293684 1 NC_011742.1 catalyzes the formation of glutamate 5-phosphate from glutamate in proline biosynthesis; gamma-glutamyl kinase 293684 proB 7133724 proB Escherichia coli S88 gamma-glutamyl kinase YP_002390111.1 292581 D 585035 CDS YP_002390112.1 218557199 7130785 293696..294949 1 NC_011742.1 Catalyzes the phosphorylation of L-glutamate during the proline biosynthesis pathway; gamma-glutamyl phosphate reductase 294949 proA 7130785 proA Escherichia coli S88 gamma-glutamyl phosphate reductase YP_002390112.1 293696 D 585035 CDS YP_002390113.1 218557200 7129910 295294..295632 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; CP4-like integrase 295632 7129910 ECS88_0279 Escherichia coli S88 CP4-like integrase YP_002390113.1 295294 D 585035 CDS YP_002390114.1 218557201 7129066 complement(296717..300847) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12933851, 16081954; Product type e : enzyme; Vacuolating autotransporter toxin 300847 vat 7129066 vat Escherichia coli S88 Vacuolating autotransporter toxin YP_002390114.1 296717 R 585035 CDS YP_002390115.1 218557202 7132472 301440..301655 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase InsA (ORF1) IS1 301655 7132472 ECS88_0281 Escherichia coli S88 transposase InsA (ORF1) IS1 YP_002390115.1 301440 D 585035 CDS YP_002390116.1 218557203 7129067 301957..302133 1 NC_011742.1 Evidence 7 : Gene remnant; Product type pe : putative enzyme; transposase InsB (ORF1) IS1 (Fragment) 302133 7129067 ECS88_0282 Escherichia coli S88 transposase InsB (ORF1) IS1 (Fragment) YP_002390116.1 301957 D 585035 CDS YP_002390117.1 218557204 7129068 302512..302742 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 302742 7129068 ECS88_0283 Escherichia coli S88 hypothetical protein YP_002390117.1 302512 D 585035 CDS YP_002390118.1 218557205 7129069 302957..303571 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 303571 yagU 7129069 yagU Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390118.1 302957 D 585035 CDS YP_002390119.1 218557206 7130295 complement(304456..305166) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 305166 yagV 7130295 yagV Escherichia coli S88 hypothetical protein YP_002390119.1 304456 R 585035 CDS YP_002390120.1 218557207 7130296 complement(305135..306778) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative surface or exported protein 306778 yagW 7130296 yagW Escherichia coli S88 putative surface or exported protein YP_002390120.1 305135 R 585035 CDS YP_002390121.1 218557208 7130297 complement(306768..309293) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 309293 yagX 7130297 yagX Escherichia coli S88 hypothetical protein YP_002390121.1 306768 R 585035 CDS YP_002390122.1 218557209 7130298 complement(309319..309987) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 309987 yagY 7130298 yagY Escherichia coli S88 hypothetical protein YP_002390122.1 309319 R 585035 CDS YP_002390123.1 218557210 7130299 complement(310044..310631) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 17563352, 11466275; Product type s : structure; common pilus ECP 310631 ecpA 7130299 ecpA Escherichia coli S88 common pilus ECP YP_002390123.1 310044 R 585035 CDS YP_002390124.1 218557211 7132379 complement(310705..311295) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 311295 ykgK 7132379 ykgK Escherichia coli S88 putative transcriptional regulator YP_002390124.1 310705 R 585035 CDS YP_002390125.1 218557212 7131100 complement(312471..312734) 1 NC_011742.1 RpmE2; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster do not have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome; 50S ribosomal protein L31 type B 312734 rpmE2 7131100 rpmE2 Escherichia coli S88 50S ribosomal protein L31 type B YP_002390125.1 312471 R 585035 CDS YP_002390126.1 218557213 7131101 complement(313674..314816) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative NADH-dependent flavin oxidoreductase 314816 7131101 ECS88_0294 Escherichia coli S88 putative NADH-dependent flavin oxidoreductase YP_002390126.1 313674 R 585035 CDS YP_002390127.1 218557214 7129070 complement(314988..315908) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 315908 7129070 ECS88_0295 Escherichia coli S88 hypothetical protein YP_002390127.1 314988 R 585035 CDS YP_002390128.1 218557215 7129071 316002..316991 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative LysR-like transcriptional regulator 316991 7129071 ECS88_0296 Escherichia coli S88 putative LysR-like transcriptional regulator YP_002390128.1 316002 D 585035 CDS YP_002390129.1 218557216 7129072 317116..318084 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator, lysR family 318084 7129072 ECS88_0297 Escherichia coli S88 putative transcriptional regulator, lysR family YP_002390129.1 317116 D 585035 CDS YP_002390130.1 218557217 7129073 complement(318115..319104) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative aldo-keto reductase 319104 7129073 ECS88_0298 Escherichia coli S88 putative aldo-keto reductase YP_002390130.1 318115 R 585035 CDS YP_002390131.1 218557218 7129074 complement(319131..319982) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 17575004; Product type pe : putative enzyme; putative aldo-keto reductase 319982 7129074 ECS88_0299 Escherichia coli S88 putative aldo-keto reductase YP_002390131.1 319131 R 585035 CDS YP_002390132.1 218557219 7129075 320548..324798 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative adhesin 324798 7129075 ECS88_0300 Escherichia coli S88 putative adhesin YP_002390132.1 320548 D 585035 CDS YP_002390133.1 218557220 7129076 complement(324923..325780) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; Putatve transcriptional regulator ykgA 325780 ykgA 7129076 ykgA Escherichia coli S88 Putatve transcriptional regulator ykgA YP_002390133.1 324923 R 585035 CDS YP_002390134.1 218557221 7131091 326013..326897 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative reductase 326897 7131091 ECS88_0302 Escherichia coli S88 putative reductase YP_002390134.1 326013 D 585035 CDS YP_002390135.1 218557222 7129077 complement(327057..327650) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 327650 ykgB 7129077 ykgB Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390135.1 327057 R 585035 CDS YP_002390136.1 218557223 7131092 complement(327662..327898) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 327898 ykgI 7131092 ykgI Escherichia coli S88 hypothetical protein YP_002390136.1 327662 R 585035 CDS YP_002390137.1 218557224 7131099 complement(328007..329332) 1 NC_011742.1 Involved in disulfide oxidoreductase activity and electron transport; pyridine nucleotide-disulfide oxidoreductase 329332 ykgC 7131099 ykgC Escherichia coli S88 pyridine nucleotide-disulfide oxidoreductase YP_002390137.1 328007 R 585035 CDS YP_002390138.1 218557225 7131093 329559..330413 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative AraC-type DNA-binding transcriptional regulator 330413 ykgD 7131093 ykgD Escherichia coli S88 putative AraC-type DNA-binding transcriptional regulator YP_002390138.1 329559 D 585035 CDS YP_002390139.1 218557226 7131094 330940..331659 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydroxyacid oxidoreductase (Fe-S centre) 331659 ykgE 7131094 ykgE Escherichia coli S88 putative hydroxyacid oxidoreductase (Fe-S centre) YP_002390139.1 330940 D 585035 CDS YP_002390140.1 218557227 7131095 331670..333097 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase subunit with NAD(P)-binding domain and ferridoxin-like domain 333097 ykgF 7131095 ykgF Escherichia coli S88 putative oxidoreductase subunit with NAD(P)-binding domain and ferridoxin-like domain YP_002390140.1 331670 D 585035 CDS YP_002390141.1 218557228 7131096 333090..333785 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 333785 ykgG 7131096 ykgG Escherichia coli S88 hypothetical protein YP_002390141.1 333090 D 585035 CDS YP_002390142.1 218557229 7131097 complement(333859..334056) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 334056 7131097 ECS88_0310 Escherichia coli S88 hypothetical protein YP_002390142.1 333859 R 585035 CDS YP_002390143.1 218557230 7129078 complement(334028..334696) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 334696 ykgH 7129078 ykgH Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390143.1 334028 R 585035 CDS YP_002390144.1 218557231 7131098 complement(334880..337210) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; Putative adhesin; putative outer membrane autotransporter barrel 337210 7131098 ECS88_0312 Escherichia coli S88 Putative adhesin; putative outer membrane autotransporter barrel YP_002390144.1 334880 R 585035 CDS YP_002390145.1 218557232 7129079 complement(337219..337980) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 337980 7129079 ECS88_0313 Escherichia coli S88 hypothetical protein YP_002390145.1 337219 R 585035 CDS YP_002390146.1 218557233 7129080 complement(338134..338928) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcription regulator; LuxR-type HTH domain 338928 7129080 ECS88_0315 Escherichia coli S88 putative transcription regulator; LuxR-type HTH domain YP_002390146.1 338134 R 585035 CDS YP_002390147.1 218557234 7129081 complement(339258..339860) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative DNA recombinase 339860 7129081 ECS88_0317 Escherichia coli S88 Putative DNA recombinase YP_002390147.1 339258 R 585035 CDS YP_002390148.1 218557235 7129082 340586..340867 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 340867 7129082 ECS88_0318 Escherichia coli S88 hypothetical protein YP_002390148.1 340586 D 585035 CDS YP_002390149.1 218557236 7129083 complement(340892..342580) 1 NC_011742.1 catalyzes the oxidation of choline to betaine aldehyde and betain aldehyde to glycine betaine; choline dehydrogenase 342580 betA 7129083 betA Escherichia coli S88 choline dehydrogenase YP_002390149.1 340892 R 585035 CDS YP_002390150.1 218557237 7130002 complement(342594..344066) 1 NC_011742.1 catalyzes the formation of betaine from betaine aldehyde; betaine aldehyde dehydrogenase 344066 betB 7130002 betB Escherichia coli S88 betaine aldehyde dehydrogenase YP_002390150.1 342594 R 585035 CDS YP_002390151.1 218557238 7130003 complement(344080..344667) 1 NC_011742.1 HTH-type; bet1; Repressor involved in choline regulation of the bet genes; transcriptional regulator BetI 344667 betI 7130003 betI Escherichia coli S88 transcriptional regulator BetI YP_002390151.1 344080 R 585035 CDS YP_002390152.1 218557239 7129108 344796..346829 1 NC_011742.1 proton-motive-force-driven choline transporter; choline transport protein BetT 346829 betT 7129108 betT Escherichia coli S88 choline transport protein BetT YP_002390152.1 344796 D 585035 CDS YP_002390153.1 218557240 7129110 complement(347198..347386) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 347386 7129110 ECS88_0323 Escherichia coli S88 hypothetical protein YP_002390153.1 347198 R 585035 CDS YP_002390154.1 218557241 7129084 347707..348795 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15995192; Product type e : enzyme; cyclic di-GMP phosphodiesterase 348795 yahA 7129084 yahA Escherichia coli S88 cyclic di-GMP phosphodiesterase YP_002390154.1 347707 D 585035 CDS YP_002390155.1 218557242 7130300 complement(348837..349769) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 349769 yahB 7130300 yahB Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390155.1 348837 R 585035 CDS YP_002390156.1 218557243 7130301 complement(349861..350358) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 350358 yahC 7130301 yahC Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390156.1 349861 R 585035 CDS YP_002390157.1 218557244 7130302 350616..351221 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative protein with ankyrin domain 351221 yahD 7130302 yahD Escherichia coli S88 putative protein with ankyrin domain YP_002390157.1 350616 D 585035 CDS YP_002390158.1 218557245 7130303 351261..352124 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 352124 yahE 7130303 yahE Escherichia coli S88 hypothetical protein YP_002390158.1 351261 D 585035 CDS YP_002390159.1 218557246 7130304 352114..353661 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative enzyme with acyl-CoA domain 353661 yahF 7130304 yahF Escherichia coli S88 putative enzyme with acyl-CoA domain YP_002390159.1 352114 D 585035 CDS YP_002390160.1 218557247 7130305 353661..355079 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 355079 yahG 7130305 yahG Escherichia coli S88 hypothetical protein YP_002390160.1 353661 D 585035 CDS YP_002390161.1 218557248 7130306 355233..356183 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7711027, 11523892; Product type pe : putative enzyme; putative carbamate kinase 356183 yahI 7130306 yahI Escherichia coli S88 putative carbamate kinase YP_002390161.1 355233 D 585035 CDS YP_002390162.1 218557249 7130307 356193..357575 1 NC_011742.1 metallo-dependent hydrolase superfamily; deaminase with metallo-dependent hydrolase domain; putative deaminase 357575 yahJ 7130307 yahJ Escherichia coli S88 putative deaminase YP_002390162.1 356193 D 585035 CDS YP_002390163.1 218557250 7130308 357843..358283 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 358283 7130308 ECS88_0333 Escherichia coli S88 hypothetical protein YP_002390163.1 357843 D 585035 CDS YP_002390164.1 218557251 7129085 358534..359520 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative periplasmic binding protein, substrate ribose (sugar-binding protein), ABC-type transport system 359520 7129085 ECS88_0334 Escherichia coli S88 putative periplasmic binding protein, substrate ribose (sugar-binding protein), ABC-type transport system YP_002390164.1 358534 D 585035 CDS YP_002390165.1 218557252 7129086 359554..361053 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative ATP-binding component of ABC sugar transport system 361053 7129086 ECS88_0335 Escherichia coli S88 Putative ATP-binding component of ABC sugar transport system YP_002390165.1 359554 D 585035 CDS YP_002390166.1 218557253 7129087 361046..362017 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative permease component of sugar ABC transport system 362017 7129087 ECS88_0336 Escherichia coli S88 putative permease component of sugar ABC transport system YP_002390166.1 361046 D 585035 CDS YP_002390167.1 218557254 7129088 361984..362970 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative permease component of sugar ABC transport system 362970 7129088 ECS88_0337 Escherichia coli S88 putative permease component of sugar ABC transport system YP_002390167.1 361984 D 585035 CDS YP_002390168.1 218557255 7129089 363057..364106 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase, Zn-dependent and NAD(P)-binding 364106 yahK 7129089 yahK Escherichia coli S88 putative oxidoreductase, Zn-dependent and NAD(P)-binding YP_002390168.1 363057 D 585035 CDS YP_002390169.1 218557256 7129921 364728..364973 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 364973 yahM 7129921 yahM Escherichia coli S88 hypothetical protein YP_002390169.1 364728 D 585035 CDS YP_002390170.1 218557257 7130310 complement(364990..365661) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12879215; Product type t : transporter; neutral amino-acid efflux system 365661 yahN 7130310 yahN Escherichia coli S88 neutral amino-acid efflux system YP_002390170.1 364990 R 585035 CDS YP_002390171.1 218557258 7130311 365808..366083 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 366083 yahO 7130311 yahO Escherichia coli S88 hypothetical protein YP_002390171.1 365808 D 585035 CDS YP_002390172.1 218557259 7130312 complement(366184..367770) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9325432, 15805526; Product type r : regulator; DNA-binding transcriptional activator 367770 prpR 7130312 prpR Escherichia coli S88 DNA-binding transcriptional activator YP_002390172.1 366184 R 585035 CDS YP_002390173.1 218557260 7130798 368009..368899 1 NC_011742.1 catalyzes the formation of pyruvate and succinate from 2-methylisocitrate; 2-methylisocitrate lyase 368899 prpB 7130798 prpB Escherichia coli S88 2-methylisocitrate lyase YP_002390173.1 368009 D 585035 CDS YP_002390174.1 218557261 7130794 368944..370113 1 NC_011742.1 catalyzes the synthesis of 2-methylcitrate from propionyl-CoA and oxaloacetate; also catalyzes the condensation of oxaloacetate with acetyl-CoA but with a lower specificity; methylcitrate synthase 370113 prpC 7130794 prpC Escherichia coli S88 methylcitrate synthase YP_002390174.1 368944 D 585035 CDS YP_002390175.1 218557262 7130795 370147..371598 1 NC_011742.1 functions in propionate metabolism; involved in isomerization of (2S,3S)-methylcitrate to (2R,3S)-methylisocitrate; also encodes minor aconitase or dehydratase activity; aconitase C; 2-methylcitrate dehydratase 371598 prpD 7130795 prpD Escherichia coli S88 2-methylcitrate dehydratase YP_002390175.1 370147 D 585035 CDS YP_002390176.1 218557263 7130796 371638..373524 1 NC_011742.1 catalyzes the formation of propionyl-CoA using propionate as a substrate; PrpE from Ralstonia solanacearum can produce acetyl-, propionyl-, butyryl- and acrylyl-coenzyme A, and Salmonella enterica produces propionyl- and butyryl-coenzyme A; not expressed in Escherichia coli when grown on propionate/minimal media; ATP-dependent; propionyl-CoA synthetase 373524 prpE 7130796 prpE Escherichia coli S88 propionyl-CoA synthetase YP_002390176.1 371638 D 585035 CDS YP_002390177.1 218557264 7130797 373849..375108 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92349961; Product type t : transporter; cytosine permease 375108 codB 7130797 codB Escherichia coli S88 cytosine permease YP_002390177.1 373849 D 585035 CDS YP_002390178.1 218557265 7131946 375098..376381 1 NC_011742.1 Catalyzes the deamination of cytosine to uracil and ammonia; cytosine deaminase 376381 codA 7131946 codA Escherichia coli S88 cytosine deaminase YP_002390178.1 375098 D 585035 CDS YP_002390179.1 218557266 7131945 complement(376502..377113) 1 NC_011742.1 transfers acetyl group from acetyl-CoA to the 6-hydroxyl of galactopyranosides; exact physiological role is unknown; galactoside O-acetyltransferase 377113 lacA 7131945 lacA Escherichia coli S88 galactoside O-acetyltransferase YP_002390179.1 376502 R 585035 CDS YP_002390180.1 218557267 7130470 complement(377179..378432) 1 NC_011742.1 lactose/proton symporter; mediates lactose/proton symport through the membrane by utilizing the proton gradient to drive transport of galactosides; member of major facilitator superfamily; functions as a monomer with 12 transmembrane segments; galactoside permease 378432 lacY 7130470 lacY Escherichia coli S88 galactoside permease YP_002390180.1 377179 R 585035 CDS YP_002390181.1 218557268 7130472 complement(378484..381558) 1 NC_011742.1 forms a homotetramer; hydrolyzes lactose disaccharide to galactose and glucose; converts lactose to allolactose which is the natural inducer of the lac operon; beta-D-galactosidase 381558 lacZ 7130472 lacZ Escherichia coli S88 beta-D-galactosidase YP_002390181.1 378484 R 585035 CDS YP_002390182.1 218557269 7130473 complement(381681..382763) 1 NC_011742.1 transcriptional repressor of lac operon; forms a homotetramer as a dimer of dimers; binds specific sites in lac operon resulting in DNA looping between the operators; binds allolactose as inducer; lac repressor 382763 lacI 7130473 lacI Escherichia coli S88 lac repressor YP_002390182.1 381681 R 585035 CDS YP_002390183.1 218557270 7130471 382965..383504 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15115803, 12878731, 13129938; Product type e : enzyme; nucleoprotein/polynucleotide-associated enzyme 383504 yaiL 7130471 yaiL Escherichia coli S88 nucleoprotein/polynucleotide-associated enzyme YP_002390183.1 382965 D 585035 CDS YP_002390184.1 218557271 7130318 complement(383730..384563) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16567800, 15466022; Product type e : enzyme; S-formylglutathione hydrolase 384563 frmB 7130318 frmB Escherichia coli S88 S-formylglutathione hydrolase YP_002390184.1 383730 R 585035 CDS YP_002390185.1 218557272 7132830 complement(384656..385765) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15466022, 87172301, 1731906; Product type e : enzyme; alcohol dehydrogenase class III/glutathione-dependent formaldehyde dehydrogenase 385765 frmA 7132830 frmA Escherichia coli S88 alcohol dehydrogenase class III/glutathione-dependent formaldehyde dehydrogenase YP_002390185.1 384656 R 585035 CDS YP_002390186.1 218557273 7132829 complement(385800..386075) 1 NC_011742.1 formaldehyde-induced negative regulator of the frmRAB operon; regulator protein FrmR 386075 frmR 7132829 frmR Escherichia coli S88 regulator protein FrmR YP_002390186.1 385800 R 585035 CDS YP_002390187.1 218557274 7132832 complement(386264..387037) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 387037 yaiO 7132832 yaiO Escherichia coli S88 hypothetical protein YP_002390187.1 386264 R 585035 CDS YP_002390188.1 218557275 7130319 complement(387039..387749) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative transferase 387749 yaiX 7130319 yaiX Escherichia coli S88 putative transferase YP_002390188.1 387039 R 585035 CDS YP_002390189.1 218557276 7130324 complement(387598..388794) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane-associated glycosyltransferase 388794 yaiP 7130324 yaiP Escherichia coli S88 putative membrane-associated glycosyltransferase YP_002390189.1 387598 R 585035 CDS YP_002390190.1 218557277 7130320 complement(388804..389475) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 389475 yaiS 7130320 yaiS Escherichia coli S88 hypothetical protein YP_002390190.1 388804 R 585035 CDS YP_002390191.1 218557278 7130321 390083..391045 1 NC_011742.1 with TauB and TauC is responsible for taurine uptake.; taurine transporter substrate binding subunit 391045 tauA 7130321 tauA Escherichia coli S88 taurine transporter substrate binding subunit YP_002390191.1 390083 D 585035 CDS YP_002390192.1 218557279 7131267 391058..391825 1 NC_011742.1 Part of the ABC transporter complex tauABC involved in taurine import; taurine transporter ATP-binding subunit 391825 tauB 7131267 tauB Escherichia coli S88 taurine transporter ATP-binding subunit YP_002390192.1 391058 D 585035 CDS YP_002390193.1 218557280 7131268 391822..392649 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9401024, 96404792; Product type t : transporter; taurine transporter subunit 392649 tauC 7131268 tauC Escherichia coli S88 taurine transporter subunit YP_002390193.1 391822 D 585035 CDS YP_002390194.1 218557281 7131269 392646..393497 1 NC_011742.1 catalyzes the conversion of taurine (2-aminoethanesulfonate) to sulfite and aminoacetaldehyde concurrently with the conversion of alpha-ketoglutarate to succinate and carbon dioxide; non-heme iron oxidase; allows the use of taurine as an alternative sulfur source; forms homodimers; taurine dioxygenase 393497 tauD 7131269 tauD Escherichia coli S88 taurine dioxygenase YP_002390194.1 392646 D 585035 CDS YP_002390195.1 218557282 7131270 complement(393537..394511) 1 NC_011742.1 catalyzes the formation of porphobilinogen from 5-aminolevulinate; delta-aminolevulinic acid dehydratase 394511 hemB 7131270 hemB Escherichia coli S88 delta-aminolevulinic acid dehydratase YP_002390195.1 393537 R 585035 CDS YP_002390196.1 218557283 7128897 395037..398024 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative flagellin-like structural protein 398024 7128897 ECS88_0367 Escherichia coli S88 putative flagellin-like structural protein YP_002390196.1 395037 D 585035 CDS YP_002390197.1 218557284 7129090 398065..398733 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; putative DNA-binding transcriptional regulator 398733 yaiV 7129090 yaiV Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390197.1 398065 D 585035 CDS YP_002390198.1 218557285 7130322 complement(398734..399891) 1 NC_011742.1 this protein has no known enzymatic function; beta-lactam binding protein AmpH 399891 ampH 7130322 ampH Escherichia coli S88 beta-lactam binding protein AmpH YP_002390198.1 398734 R 585035 CDS YP_002390199.1 218557286 7133065 400029..400223 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 400223 7133065 ECS88_0370 Escherichia coli S88 hypothetical protein YP_002390199.1 400029 D 585035 CDS YP_002390200.1 218557287 7129091 400243..401463 1 NC_011742.1 in Escherichia coli SbmA is involved in uptake of microcin J25; functions along with FhuA, TonB, and ExbB/D in this capacity; in Sinorhizobium meliloti, BacA is essential and required for symbiosis; defects appear to affect the cell envelope; transport protein 401463 sbmA 7129091 sbmA Escherichia coli S88 transport protein YP_002390200.1 400243 D 585035 CDS YP_002390201.1 218557288 7131367 401476..402570 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative lipoprotein 402570 yaiW 7131367 yaiW Escherichia coli S88 putative lipoprotein YP_002390201.1 401476 D 585035 CDS YP_002390202.1 218557289 7130323 complement(402629..402937) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 402937 yaiY 7130323 yaiY Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390202.1 402629 R 585035 CDS YP_002390203.1 218557290 7130325 403065..403409 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 403409 yaiZ 7130325 yaiZ Escherichia coli S88 hypothetical protein YP_002390203.1 403065 D 585035 CDS YP_002390204.1 218557291 7130326 complement(403433..404527) 1 NC_011742.1 D-alanine--D-alanine ligase; DdlA; DdlB; cytoplasmic; catalyzes the formation of D-alanyl-D-alanine from two D-alanines in peptidoglycan synthesis; there are two forms of this enzyme in Escherichia coli; D-alanyl-alanine synthetase A 404527 ddl 7130326 ddl Escherichia coli S88 D-alanyl-alanine synthetase A YP_002390204.1 403433 R 585035 CDS YP_002390205.1 218557292 7130175 404989..405249 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 405249 yaiB 7130175 yaiB Escherichia coli S88 hypothetical protein YP_002390205.1 404989 D 585035 CDS YP_002390206.1 218557293 7130314 405350..406765 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type e : enzyme; alkaline phosphatase 406765 phoA 7130314 phoA Escherichia coli S88 alkaline phosphatase YP_002390206.1 405350 D 585035 CDS YP_002390207.1 218557294 7133722 406884..407204 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3533724, 2160940; Product type f : factor; hypothetical protein 407204 psiF 7133722 psiF Escherichia coli S88 hypothetical protein YP_002390207.1 406884 D 585035 CDS YP_002390208.1 218557295 7130802 407306..408421 1 NC_011742.1 catalyzes the conversion of 2 GTP into c-di-GMP; adrA overexpression induces cellulose biosynthesis, cell adherence to abiotic surfaces and swimming and swarming motility; AdrA acts post-transcriptionally on the bcsABZC operon activating cellulose biosynthesis; diguanylate cyclase AdrA 408421 adrA 7130802 adrA Escherichia coli S88 diguanylate cyclase AdrA YP_002390208.1 407306 D 585035 CDS YP_002390209.1 218557296 7130315 complement(408438..409247) 1 NC_011742.1 catalyzes the formation of L-proline from pyrroline-5-carboxylate; pyrroline-5-carboxylate reductase 409247 proC 7130315 proC Escherichia coli S88 pyrroline-5-carboxylate reductase YP_002390209.1 408438 R 585035 CDS YP_002390210.1 218557297 7130786 409367..409825 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 409825 yaiI 7130786 yaiI Escherichia coli S88 hypothetical protein YP_002390210.1 409367 D 585035 CDS YP_002390211.1 218557298 7130317 410008..410532 1 NC_011742.1 type II enzyme similar to type I but differentially regulated and with a lower Km; catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis; shikimate kinase II 410532 aroL 7130317 aroL Escherichia coli S88 shikimate kinase II YP_002390211.1 410008 D 585035 CDS YP_002390212.1 218557299 7129930 410582..410773 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 410773 yaiA 7129930 yaiA Escherichia coli S88 hypothetical protein YP_002390212.1 410582 D 585035 CDS YP_002390213.1 218557300 7130313 411031..411708 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 86085675, 3001025; hypothetical protein 411708 aroM 7130313 aroM Escherichia coli S88 hypothetical protein YP_002390213.1 411031 D 585035 CDS YP_002390214.1 218557301 7129931 411780..412064 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 412064 yaiE 7129931 yaiE Escherichia coli S88 hypothetical protein YP_002390214.1 411780 D 585035 CDS YP_002390215.1 218557302 7130316 412272..412553 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 412553 ykiA 7130316 ykiA Escherichia coli S88 hypothetical protein YP_002390215.1 412272 D 585035 CDS YP_002390216.1 218557303 7131102 complement(412711..413622) 1 NC_011742.1 Required for efficient pilin antigenic variation; recombination associated protein 413622 rdgC 7131102 rdgC Escherichia coli S88 recombination associated protein YP_002390216.1 412711 R 585035 CDS YP_002390217.1 218557304 7131799 413747..414655 1 NC_011742.1 catalyzes phosphorylation of fructose; cytosolic enzyme; fructokinase 414655 mak 7131799 mak Escherichia coli S88 fructokinase YP_002390217.1 413747 D 585035 CDS YP_002390218.1 218557305 7129405 complement(414924..416108) 1 NC_011742.1 member of the major facilitator superfamily (MFS) of transporters; unknown function; may be associated with transport or processing of arabinose polymers; MFS transport protein AraJ 416108 araJ 7129405 araJ Escherichia coli S88 MFS transport protein AraJ YP_002390218.1 414924 R 585035 CDS YP_002390219.1 218557306 7133088 complement(416234..419377) 1 NC_011742.1 with SbcD cleaves DNA hairpin structures; also has 5' single-strand endonuclease activity; exonuclease subunit SbcC 419377 sbcC 7133088 sbcC Escherichia coli S88 exonuclease subunit SbcC YP_002390219.1 416234 R 585035 CDS YP_002390220.1 218557307 7131365 complement(419374..420576) 1 NC_011742.1 with SbcC cleaves DNA hairpin structure, also has 5' single-strand endonuclease activity; exonuclease subunit SbcD 420576 sbcD 7131365 sbcD Escherichia coli S88 exonuclease subunit SbcD YP_002390220.1 419374 R 585035 CDS YP_002390221.1 218557308 7131366 420766..421455 1 NC_011742.1 two component response regulator for the phosphate regulon; PhoR phosphorylates PhoB; transcriptional regulator PhoB 421455 phoB 7131366 phoB Escherichia coli S88 transcriptional regulator PhoB YP_002390221.1 420766 D 585035 CDS YP_002390222.1 218557309 7133723 421513..422808 1 NC_011742.1 membrane-associated histidine protein kinase that phosphorylates phoB in response to environmental signals as part of the two-component phosphate regulatory system phoR/phoB; phosphate regulon sensor protein 422808 phoR 7133723 phoR Escherichia coli S88 phosphate regulon sensor protein YP_002390222.1 421513 D 585035 CDS YP_002390223.1 218557310 7133728 423215..424534 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 3078876, 6998958, 3550103, 7984428; Product type t : transporter; branched chain amino acid transporter (LIV-II) 424534 brnQ 7133728 brnQ Escherichia coli S88 branched chain amino acid transporter (LIV-II) YP_002390223.1 423215 D 585035 CDS YP_002390224.1 218557311 7129133 424610..425983 1 NC_011742.1 cryptic permease that may be involved in the transport of proline across the inner membrane; in Salmonella typhimurium, the proY gene is silent unless overexpressed on a multicopy plasmid or activated by a proZ mutation; putative proline-specific permease 425983 proY 7129133 proY Escherichia coli S88 putative proline-specific permease YP_002390224.1 424610 D 585035 CDS YP_002390225.1 218557312 7130793 426139..427956 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92184757, 1706703, 1918057; Product type e : enzyme; maltodextrin glucosidase 427956 malZ 7130793 malZ Escherichia coli S88 maltodextrin glucosidase YP_002390225.1 426139 D 585035 CDS YP_002390226.1 218557313 7129418 complement(427961..428542) 1 NC_011742.1 Converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine prosthetic group from ACP; acyl carrier protein phosphodiesterase 428542 acpH 7129418 acpH Escherichia coli S88 acyl carrier protein phosphodiesterase YP_002390226.1 427961 R 585035 CDS YP_002390227.1 218557314 7132038 428761..429831 1 NC_011742.1 Synthesizes oQ from preQ1 in a single S-adenosylmethionine-requiring step; S-adenosylmethionine:tRNA ribosyltransferase-isomerase 429831 queA 7132038 queA Escherichia coli S88 S-adenosylmethionine:tRNA ribosyltransferase-isomerase YP_002390227.1 428761 D 585035 CDS YP_002390228.1 218557315 7131775 429886..431013 1 NC_011742.1 Exchanges the guanine residue with 7-aminomethyl-7-deazaguanine in tRNAs with GU(N) anticodons (tRNA-Asp, -Asn, -His and -Tyr); queuine tRNA-ribosyltransferase 431013 tgt 7131775 tgt Escherichia coli S88 queuine tRNA-ribosyltransferase YP_002390228.1 429886 D 585035 CDS YP_002390229.1 218557316 7131290 431036..431368 1 NC_011742.1 member of preprotein translocase; forms a heterotrimer with SecD and SecF; links the SecD/SecF/YajC/YidC complex with the SecY/SecE/SecG complex; preprotein translocase subunit YajC 431368 yajC 7131290 yajC Escherichia coli S88 preprotein translocase subunit YajC YP_002390229.1 431036 D 585035 CDS YP_002390230.1 218557317 7130327 431396..433243 1 NC_011742.1 part of the preprotein secretory system; when complexed with proteins SecF and YajC, SecDFyajC stimulates the proton motive force-driven protein translocation, and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; preprotein translocase subunit SecD 433243 secD 7130327 secD Escherichia coli S88 preprotein translocase subunit SecD YP_002390230.1 431396 D 585035 CDS YP_002390231.1 218557318 7131380 433254..434225 1 NC_011742.1 forms a complex with SecD and YajC; SecDFyajC stimulates the proton motive force-driven protein translocation; seems to modulate the cycling of SecA by stabilizing its membrane-inserted state and appears to be required for the release of mature proteins from the extracytoplasmic side of the membrane; in some organisms, such as Bacillus subtilis, SecD is fused to SecF; preprotein translocase subunit SecF 434225 secF 7131380 secF Escherichia coli S88 preprotein translocase subunit SecF YP_002390231.1 433254 D 585035 CDS YP_002390232.1 218557319 7131382 434355..434702 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 434702 yajD 7131382 yajD Escherichia coli S88 hypothetical protein YP_002390232.1 434355 D 585035 CDS YP_002390233.1 218557320 7130328 complement(434740..435624) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91092502, 91358319, 93352541; Product type m : membrane component; nucleoside channel phage T6/colicin K receptor 435624 tsx 7130328 tsx Escherichia coli S88 nucleoside channel phage T6/colicin K receptor YP_002390233.1 434740 R 585035 CDS YP_002390234.1 218557321 7130361 complement(435922..436461) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; hypothetical protein 436461 yajI 7130361 yajI Escherichia coli S88 hypothetical protein YP_002390234.1 435922 R 585035 CDS YP_002390235.1 218557322 7131147 436612..437061 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type r : regulator; transcriptional regulator NrdR 437061 nrdR 7131147 nrdR Escherichia coli S88 transcriptional regulator NrdR YP_002390235.1 436612 D 585035 CDS YP_002390236.1 218557323 7129740 437065..438168 1 NC_011742.1 riboflavin biosynthesis protein which catalyzes the deamination and reduction steps in the riboflavin biosynthesis pathway; catalyzes the formation of 5-amino-6-(5-phosphoribosylamino)uracil from 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine and the formation of 5-amino-6-(5-phosphoribosylamino)uracil from 5-amino-6-(5-phosphoribitylamino)uracil; bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase 438168 ribD 7129740 ribD Escherichia coli S88 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase YP_002390236.1 437065 D 585035 CDS YP_002390237.1 218557324 7132717 438257..438727 1 NC_011742.1 RibE; 6,7-diimethyl-8-ribityllumazine synthase; DMRL synthase; lumazine synthase; beta subunit of riboflavin synthase; condenses 5-amino-6-(1'-D)-ribityl-amino-2,4(1H,3H)-pyrimidinedione with L-3,4-dihydrohy-2-butanone-4-phosphate to generate 6,6-dimethyl-8-lumazine (DMRL); riboflavin synthase then uses 2 molecules of DMRL to produce riboflavin (vitamin B12); involved in the last steps of riboflavin biosynthesis; forms a 60mer (icosahedral shell) in both Bacillus subtilis and Escherichia coli; in Bacillus subtilis this 60mer is associated with the riboflavin synthase subunit (alpha) while in Escherichia coli it is not; 6,7-dimethyl-8-ribityllumazine synthase 438727 ribH 7132717 ribH Escherichia coli S88 6,7-dimethyl-8-ribityllumazine synthase YP_002390237.1 438257 D 585035 CDS YP_002390238.1 218557325 7132718 438747..439166 1 NC_011742.1 Regulates rRNA biosynthesis by transcriptional antitermination; transcription antitermination protein NusB 439166 nusB 7132718 nusB Escherichia coli S88 transcription antitermination protein NusB YP_002390238.1 438747 D 585035 CDS YP_002390239.1 218557326 7133117 439244..440221 1 NC_011742.1 catalyzes the formation of thiamine diphosphate from thiamine phosphate ant ATP; thiamine monophosphate kinase 440221 thiL 7133117 thiL Escherichia coli S88 thiamine monophosphate kinase YP_002390239.1 439244 D 585035 CDS YP_002390240.1 218557327 7131298 440199..440717 1 NC_011742.1 hydrolyzes phosphatidylglycerophosphate to produce phosphatidylglycerol and phosphate; phosphatidylglycerophosphatase A 440717 pgpA 7131298 pgpA Escherichia coli S88 phosphatidylglycerophosphatase A YP_002390240.1 440199 D 585035 CDS YP_002390241.1 218557328 7133694 complement(440771..441745) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15292217, 16077126; Product type e : enzyme; aldoketo-oxidoreductase, NADP-binding 441745 yajO 7133694 yajO Escherichia coli S88 aldoketo-oxidoreductase, NADP-binding YP_002390241.1 440771 R 585035 CDS YP_002390242.1 218557329 7131149 complement(441800..443662) 1 NC_011742.1 catalyzes the formation of 1-deoxy-D-xylulose 5-phosphate from pyruvate and D-glyceraldehyde 3-phosphate; 1-deoxy-D-xylulose-5-phosphate synthase 443662 dxs 7131149 dxs Escherichia coli S88 1-deoxy-D-xylulose-5-phosphate synthase YP_002390242.1 441800 R 585035 CDS YP_002390243.1 218557330 7132370 complement(443687..444586) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89291702, 91210228; Product type e : enzyme; geranyltranstransferase 444586 ispA 7132370 ispA Escherichia coli S88 geranyltranstransferase YP_002390243.1 443687 R 585035 CDS YP_002390244.1 218557331 7130418 complement(444586..444828) 1 NC_011742.1 catalyzes the bidirectional exonucleolytic cleavage of DNA; exodeoxyribonuclease VII small subunit 444828 xseB 7130418 xseB Escherichia coli S88 exodeoxyribonuclease VII small subunit YP_002390244.1 444586 R 585035 CDS YP_002390245.1 218557332 7132523 445034..446482 1 NC_011742.1 Required for the synthesis of the thiazole moiety; thiamine biosynthesis protein ThiI 446482 thiI 7132523 thiI Escherichia coli S88 thiamine biosynthesis protein ThiI YP_002390245.1 445034 D 585035 CDS YP_002390246.1 218557333 7131297 complement(446536..447126) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 97039868, 99173753, 99311269; DJ-1 family protein 447126 yajL 7131297 yajL Escherichia coli S88 DJ-1 family protein YP_002390246.1 446536 R 585035 CDS YP_002390247.1 218557334 7131148 complement(447089..448000) 1 NC_011742.1 ketopantoate reductase; catalyzes the NADPH reduction of ketopantoate to pantoate; functions in pantothenate (vitamin B5) biosynthesis; 2-dehydropantoate 2-reductase 448000 panE 7131148 panE Escherichia coli S88 2-dehydropantoate 2-reductase YP_002390247.1 447089 R 585035 CDS YP_002390248.1 218557335 7133160 448168..448659 1 NC_011742.1 putative nucleotide binding property based on structural studies of Haemophilus influenzae crystallized protein in PDB Accession Number 1IN0 and NMR studies of Escherichia coli YajQ; the YajQ protein from Pseudomonas synringae appears to play a role in activation of bateriophage phi6 segment L transcription; putative nucleotide-binding protein 448659 yajQ 7133160 yajQ Escherichia coli S88 putative nucleotide-binding protein YP_002390248.1 448168 D 585035 CDS YP_002390249.1 218557336 7131150 complement(448787..450151) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter, major facilitator family 450151 yajR 7131150 yajR Escherichia coli S88 putative transporter, major facilitator family YP_002390249.1 448787 R 585035 CDS YP_002390250.1 218557337 7131151 complement(450300..451190) 1 NC_011742.1 converts protoheme IX and farnesyl diphosphate to heme O; protoheme IX farnesyltransferase 451190 cyoE 7131151 cyoE Escherichia coli S88 protoheme IX farnesyltransferase YP_002390250.1 450300 R 585035 CDS YP_002390251.1 218557338 7130532 complement(451202..451531) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90330636, 90366572, 92345252, 9378722, 98021084, 11017202, 2162835; Product type c : carrier; cytochrome o ubiquinol oxidase subunit IV 451531 cyoD 7130532 cyoD Escherichia coli S88 cytochrome o ubiquinol oxidase subunit IV YP_002390251.1 451202 R 585035 CDS YP_002390252.1 218557339 7130531 complement(451531..452145) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90330636, 92345252, 93349845, 9378722, 98021084, 11017202, 2162835, 2168206; Product type c : carrier; cytochrome o ubiquinol oxidase subunit III 452145 cyoC 7130531 cyoC Escherichia coli S88 cytochrome o ubiquinol oxidase subunit III YP_002390252.1 451531 R 585035 CDS YP_002390253.1 218557340 7130530 complement(452135..454126) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90330636, 92345252, 93349845, 9378722, 98021084, 11017202, 2162835, 2168206; Product type c : carrier; cytochrome o ubiquinol oxidase subunit I 454126 cyoB 7130530 cyoB Escherichia coli S88 cytochrome o ubiquinol oxidase subunit I YP_002390253.1 452135 R 585035 CDS YP_002390254.1 218557341 7130529 complement(454148..455113) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92112945, 92371427, 9378722, 98021084, 11017202, 1322173, 2162835, 2162837, 2165491, 2168206, 8231804, 8618822; Product type c : carrier; cytochrome o ubiquinol oxidase subunit II 455113 cyoA 7130529 cyoA Escherichia coli S88 cytochrome o ubiquinol oxidase subunit II YP_002390254.1 454148 R 585035 CDS YP_002390255.1 218557342 7130528 complement(455572..457047) 1 NC_011742.1 in Escherichia coli this protein is a permease involved in peptidoglycan recycling; member of major facilitator superfamily; MFS; inner membrane protein; muropeptide transporter 457047 ampG 7130528 ampG Escherichia coli S88 muropeptide transporter YP_002390255.1 455572 R 585035 CDS YP_002390256.1 218557343 7133064 complement(457091..457669) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; hypothetical protein 457669 yajG 7133064 yajG Escherichia coli S88 hypothetical protein YP_002390256.1 457091 R 585035 CDS YP_002390257.1 218557344 7133387 457974..458291 1 NC_011742.1 positive transcriptional regulator of morphogenetic pathway; controlling several genes involved in oxidative stress, acid stress, heat shock, osmotic shock, and carbon-starvation stress; transcriptional regulator BolA 458291 bolA 7133387 bolA Escherichia coli S88 transcriptional regulator BolA YP_002390257.1 457974 D 585035 CDS YP_002390258.1 218557345 7129131 458225..458488 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 458488 7129131 ECS88_0432 Escherichia coli S88 hypothetical protein YP_002390258.1 458225 D 585035 CDS YP_002390259.1 218557346 7129092 458635..459924 1 NC_011742.1 Tig; RopA; peptidyl-prolyl cis/trans isomerase; promotes folding of newly synthesized proteins; binds ribosomal 50S subunit; forms a homodimer; trigger factor 459924 tig 7129092 tig Escherichia coli S88 trigger factor YP_002390259.1 458635 D 585035 CDS YP_002390260.1 218557347 7133473 460179..460802 1 NC_011742.1 hydrolyzes proteins to small peptides; with the ATPase subunits ClpA or ClpX, ClpP degrades specific substrates; ATP-dependent Clp protease proteolytic subunit 460802 clpP 7133473 clpP Escherichia coli S88 ATP-dependent Clp protease proteolytic subunit YP_002390260.1 460179 D 585035 CDS YP_002390261.1 218557348 7131930 460928..462202 1 NC_011742.1 binds and unfolds substrates as part of the ClpXP protease; ATP-dependent protease ATP-binding subunit ClpX 462202 clpX 7131930 clpX Escherichia coli S88 ATP-dependent protease ATP-binding subunit ClpX YP_002390261.1 460928 D 585035 CDS YP_002390262.1 218557349 7130637 462390..464744 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10094703, 14665623, 8939438, 91072263, 97137085, 2984174, 3042779, 3289547, 7988699, 8226758, 8294008; Product type e : enzyme; DNA-binding ATP-dependent protease La 464744 lon 7130637 lon Escherichia coli S88 DNA-binding ATP-dependent protease La YP_002390262.1 462390 D 585035 CDS YP_002390263.1 218557350 7129373 464953..465225 1 NC_011742.1 histone-like DNA-binding protein; transcriptional regulator HU subunit beta 465225 hupB 7129373 hupB Escherichia coli S88 transcriptional regulator HU subunit beta YP_002390263.1 464953 D 585035 CDS YP_002390264.1 218557351 7131405 465417..467288 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9670013; Product type e : enzyme; peptidyl-prolyl cis-trans isomerase (rotamase D) 467288 ppiD 7131405 ppiD Escherichia coli S88 peptidyl-prolyl cis-trans isomerase (rotamase D) YP_002390264.1 465417 D 585035 CDS YP_002390265.1 218557352 7130763 467439..467810 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 467810 ybaV 7130763 ybaV Escherichia coli S88 hypothetical protein YP_002390265.1 467439 D 585035 CDS YP_002390266.1 218557353 7131165 467916..468314 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 468314 ybaW 7131165 ybaW Escherichia coli S88 hypothetical protein YP_002390266.1 467916 D 585035 CDS YP_002390267.1 218557354 7131166 complement(468366..469061) 1 NC_011742.1 YbaX; catalyzes the transformation of GTP to 7-cyano-7-deazaguanine (preQ0), as one of the early reactions of quenosine biosynthesis; quenosine is a modified nucleoside that occurs at the wobble position of GUN anticodons in tRNAs for Asn, Asp, Tyr, and His; queuosine biosynthesis protein QueC 469061 queC 7131166 queC Escherichia coli S88 queuosine biosynthesis protein QueC YP_002390267.1 468366 R 585035 CDS YP_002390268.1 218557355 7131776 complement(469126..470826) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 470826 ybaE 7131776 ybaE Escherichia coli S88 hypothetical protein YP_002390268.1 469126 R 585035 CDS YP_002390269.1 218557356 7131154 470926..471744 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15292217; Product type e : enzyme; thiamin pyrimidine pyrophosphate hydrolase 471744 cof 7131154 cof Escherichia coli S88 thiamin pyrimidine pyrophosphate hydrolase YP_002390269.1 470926 D 585035 CDS YP_002390270.1 218557357 7131947 471669..472355 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator (Lrp-like) 472355 ybaO 7131947 ybaO Escherichia coli S88 putative DNA-binding transcriptional regulator (Lrp-like) YP_002390270.1 471669 D 585035 CDS YP_002390271.1 218557358 7131160 472385..474157 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 94124004, 10850996; Product type pt : putative transporter; putative multidrug transporter membrane\ATP-binding components 474157 mdlA 7131160 mdlA Escherichia coli S88 putative multidrug transporter membrane\ATP-binding components YP_002390271.1 472385 D 585035 CDS YP_002390272.1 218557359 7129432 474150..475931 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 94124004; Product type pt : putative transporter; putative multidrug transporter membrane\ATP-binding components 475931 mdlB 7129432 mdlB Escherichia coli S88 putative multidrug transporter membrane\ATP-binding components YP_002390272.1 474150 D 585035 CDS YP_002390273.1 218557360 7129433 476112..476450 1 NC_011742.1 indirectly regulates nitrogen metabolism; at high nitrogen levels P-II 2 prevents the phosphorylation of NR-I, the transcriptional activator of the glutamine synthetase gene (glnA); at low nitrogen levels P-II 2 is uridylylated to form PII-UMP and interacts with an adenylyltransferase (GlnE) that activates GlnA; functionally it is equivalent to protein P-II (GlnB), but itsexpression is driven by the presence of uridylyltransferase, nitrogen regulator I, and the absence of ammonia.; nitrogen regulatory protein P-II 2 476450 glnK 7129433 glnK Escherichia coli S88 nitrogen regulatory protein P-II 2 YP_002390273.1 476112 D 585035 CDS YP_002390274.1 218557361 7130010 476480..477766 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 22020597, 9618533, 10931328, 1645722, 7984428; Product type t : transporter; ammonium transporter 477766 amtB 7130010 amtB Escherichia coli S88 ammonium transporter YP_002390274.1 476480 D 585035 CDS YP_002390275.1 218557362 7133066 complement(477815..478675) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86139906, 91250410, 10876240; Product type e : enzyme; acyl-CoA thioesterase II 478675 tesB 7133066 tesB Escherichia coli S88 acyl-CoA thioesterase II YP_002390275.1 477815 R 585035 CDS YP_002390276.1 218557363 7131284 478893..479465 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative lipoprotein 479465 ybaY 7131284 ybaY Escherichia coli S88 putative lipoprotein YP_002390276.1 478893 D 585035 CDS YP_002390277.1 218557364 7131167 complement(479496..479885) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative methylated DNA-protein cysteine alkyltransferase 479885 ybaZ 7131167 ybaZ Escherichia coli S88 putative methylated DNA-protein cysteine alkyltransferase YP_002390277.1 479496 R 585035 CDS YP_002390278.1 218557365 7131168 479789..480127 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 480127 7131168 ECS88_0452 Escherichia coli S88 hypothetical protein YP_002390278.1 479789 D 585035 CDS YP_002390279.1 218557366 7129479 480186..480539 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 480539 ybaA 7129479 ybaA Escherichia coli S88 hypothetical protein YP_002390279.1 480186 D 585035 CDS YP_002390280.1 218557367 7131152 complement(480581..482131) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 482131 ylaB 7131152 ylaB Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390280.1 480581 R 585035 CDS YP_002390281.1 218557368 7131103 complement(482295..482765) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 482765 ylaC 7131103 ylaC Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390281.1 482295 R 585035 CDS YP_002390282.1 218557369 7131104 complement(482881..483432) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 82180540, 91310703, 9600841; Product type e : enzyme; maltose O-acetyltransferase 483432 maa 7131104 maa Escherichia coli S88 maltose O-acetyltransferase YP_002390282.1 482881 R 585035 CDS YP_002390283.1 218557370 7129401 complement(483606..484070) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 1956303, 1484495; Product type f : factor; modulator of gene expression, with H-NS 484070 hha 7129401 hha Escherichia coli S88 modulator of gene expression, with H-NS YP_002390283.1 483606 R 585035 CDS YP_002390284.1 218557371 7128915 complement(483850..484224) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 1956303, 7984428, 14645275; hypothetical protein 484224 ybaJ 7128915 ybaJ Escherichia coli S88 hypothetical protein YP_002390284.1 483850 R 585035 CDS YP_002390285.1 218557372 7131155 complement(484769..487918) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12351840, 12654283, 15111118, 15155734, 21450803, 94012493, 10920254, 7651136; Product type t : transporter; multidrug efflux system protein 487918 acrB 7131155 acrB Escherichia coli S88 multidrug efflux system protein YP_002390285.1 484769 R 585035 CDS YP_002390286.1 218557373 7132043 complement(487941..489134) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15155734, 21450803, 383699, 390095, 94012493, 10920254, 7651136; Product type t : transporter; multidrug efflux system 489134 acrA 7132043 acrA Escherichia coli S88 multidrug efflux system YP_002390286.1 487941 R 585035 CDS YP_002390287.1 218557374 7132042 489276..489923 1 NC_011742.1 regulates the acrAB operon which is involved in susceptibility to dephalothin and cephaloridine; DNA-binding transcriptional repressor AcrR 489923 acrR 7132042 acrR Escherichia coli S88 DNA-binding transcriptional repressor AcrR YP_002390287.1 489276 D 585035 CDS YP_002390288.1 218557375 7132047 490051..493413 1 NC_011742.1 small mechanosensitive ion channel (MscS) that opens in response to stretch forces in the membrane lipid bilayer; maintains cell turgor through accumulation and release of potassium; large protein class of MscS; potassium efflux protein KefA 493413 kefA 7132047 kefA Escherichia coli S88 potassium efflux protein KefA YP_002390288.1 490051 D 585035 CDS YP_002390289.1 218557376 7130453 complement(493625..493786) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 493786 ybaM 7130453 ybaM Escherichia coli S88 hypothetical protein YP_002390289.1 493625 R 585035 CDS YP_002390290.1 218557377 7131158 complement(493800..494327) 1 NC_011742.1 PriC; protein involved in DNA replication; part of the primosome, a protein complex required to restart stalled replication forks; binds the complex formed by PriA, PriB and DNA; PriC-dependent primosome requires a gap to restart DNA replication; stimulates Rep activity at stalled forks; primosomal replication protein N'' 494327 priC 7131158 priC Escherichia coli S88 primosomal replication protein N'' YP_002390290.1 493800 R 585035 CDS YP_002390291.1 218557378 7130778 494397..494774 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 494774 ybaN 7130778 ybaN Escherichia coli S88 hypothetical protein YP_002390291.1 494397 D 585035 CDS YP_002390292.1 218557379 7131159 494927..495478 1 NC_011742.1 catalyzes a salvage reaction resulting in the formation of AMP which is metabolically less costly than a de novo synthesis; adenine phosphoribosyltransferase 495478 apt 7131159 apt Escherichia coli S88 adenine phosphoribosyltransferase YP_002390292.1 494927 D 585035 CDS YP_002390293.1 218557380 7133078 495607..497538 1 NC_011742.1 catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the tau chain serves as a scaffold to help in the dimerizaton of the alpha,epsilon and theta core complex; the gamma chain seems to interact with the delta and delta' subunits to transfer the beta subunit on the DNA; DNA polymerase III subunits gamma and tau 497538 dnaX 7133078 dnaX Escherichia coli S88 DNA polymerase III subunits gamma and tau YP_002390293.1 495607 D 585035 CDS YP_002390294.1 218557381 7130230 497591..497920 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 15322138, 1698765, 2674903; hypothetical protein 497920 ybaB 7130230 ybaB Escherichia coli S88 hypothetical protein YP_002390294.1 497591 D 585035 CDS YP_002390295.1 218557382 7131153 497920..498525 1 NC_011742.1 involved in a recombinational process of DNA repair, independent of the recBC complex; recombination protein RecR 498525 recR 7131153 recR Escherichia coli S88 recombination protein RecR YP_002390295.1 497920 D 585035 CDS YP_002390296.1 218557383 7131814 498635..500509 1 NC_011742.1 molecular chaperone; heat shock protein 90 500509 htpG 7131814 htpG Escherichia coli S88 heat shock protein 90 YP_002390296.1 498635 D 585035 CDS YP_002390297.1 218557384 7131399 500690..501334 1 NC_011742.1 essential enzyme that recycles AMP in active cells; converts ATP and AMP to two molecules of ADP; adenylate kinase 501334 adk 7131399 adk Escherichia coli S88 adenylate kinase YP_002390297.1 500690 D 585035 CDS YP_002390298.1 218557385 7132058 501466..502428 1 NC_011742.1 protoheme ferro-lyase; catalyzes the insertion of a ferrous ion into protoporphyrin IX to form protoheme; involved in protoheme biosynthesis; in some organisms this protein is membrane-associated while in others it is cytosolic; ferrochelatase 502428 hemH 7132058 hemH Escherichia coli S88 ferrochelatase YP_002390298.1 501466 D 585035 CDS YP_002390299.1 218557386 7128903 complement(502425..503384) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9401025, 98244813, 2051480, 7721718; Product type e : enzyme; acetyl esterase 503384 aes 7128903 aes Escherichia coli S88 acetyl esterase YP_002390299.1 502425 R 585035 CDS YP_002390300.1 218557387 7133025 503536..504840 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90155203, 95238302, 2051480; Product type e : enzyme; inosine/guanosine kinase 504840 gsk 7133025 gsk Escherichia coli S88 inosine/guanosine kinase YP_002390300.1 503536 D 585035 CDS YP_002390301.1 218557388 7130078 complement(504970..506646) 1 NC_011742.1 YbaL; member of the CPA-2 family of antiporters; uncharacterized protein; putative cation:proton antiport protein 506646 ybaL 7130078 ybaL Escherichia coli S88 putative cation:proton antiport protein YP_002390301.1 504970 R 585035 CDS YP_002390302.1 218557389 7131157 complement(506885..508105) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21450803, 97074653, 8917080; Product type t : transporter; fosmidomycin efflux system, member of the major facilitator superfamily 508105 fsr 7131157 fsr Escherichia coli S88 fosmidomycin efflux system, member of the major facilitator superfamily YP_002390302.1 506885 R 585035 CDS YP_002390303.1 218557390 7132844 508323..509975 1 NC_011742.1 catalyzes the degradation of periplasmic UDP-glucose to uridine, glucose-1-phosphate and inorganic phosphate; specific for uridine nucleotides; bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor 509975 ushA 7132844 ushA Escherichia coli S88 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor YP_002390303.1 508323 D 585035 CDS YP_002390304.1 218557391 7131329 complement(510013..510516) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 510516 7131329 ECS88_0478 Escherichia coli S88 hypothetical protein YP_002390304.1 510013 R 585035 CDS YP_002390305.1 218557392 7129094 complement(510513..511313) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 511313 7129094 ECS88_0479 Escherichia coli S88 hypothetical protein YP_002390305.1 510513 R 585035 CDS YP_002390306.1 218557393 7129095 complement(511337..511816) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 511816 ybaK 7129095 ybaK Escherichia coli S88 hypothetical protein YP_002390306.1 511337 R 585035 CDS YP_002390307.1 218557394 7130647 complement(512020..512814) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 512814 ybaP 7130647 ybaP Escherichia coli S88 hypothetical protein YP_002390307.1 512020 R 585035 CDS YP_002390308.1 218557395 7131161 512917..513249 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative RelE/ParE family protein, cytotoxic translational repressor of toxin-antitoxin stability system 513249 7131161 ECS88_0483 Escherichia coli S88 putative RelE/ParE family protein, cytotoxic translational repressor of toxin-antitoxin stability system YP_002390308.1 512917 D 585035 CDS YP_002390309.1 218557396 7129096 513285..513626 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 513626 ybaQ 7129096 ybaQ Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390309.1 513285 D 585035 CDS YP_002390310.1 218557397 7131162 complement(513684..516188) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12351646, 20105527, 11167016, 11500054, 9868784; Product type t : transporter; copper exporting ATPase 516188 copA 7131162 copA Escherichia coli S88 copper exporting ATPase YP_002390310.1 513684 R 585035 CDS YP_002390311.1 218557398 7131948 516450..517382 1 NC_011742.1 catalyzes the formation of glutamate from glutamine; glutaminase 517382 ybaS 7131948 ybaS Escherichia coli S88 glutaminase YP_002390311.1 516450 D 585035 CDS YP_002390312.1 218557399 7131163 517385..518677 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative nitrogen-containing metabolite transporter 518677 ybaT 7131163 ybaT Escherichia coli S88 putative nitrogen-containing metabolite transporter YP_002390312.1 517385 D 585035 CDS YP_002390313.1 218557400 7131164 518802..519209 1 NC_011742.1 activator of copper-responsive regulon genes; DNA-binding transcriptional regulator CueR 519209 cueR 7131164 cueR Escherichia coli S88 DNA-binding transcriptional regulator CueR YP_002390313.1 518802 D 585035 CDS YP_002390314.1 218557401 7130508 complement(519213..519416) 1 NC_011742.1 hypothetical protein 519416 7130508 ECS88_0489 Escherichia coli S88 hypothetical protein YP_002390314.1 519213 R 585035 CDS YP_002390315.1 218557402 7129097 complement(519413..519835) 1 NC_011742.1 hypothetical protein 519835 7129097 ECS88_0490 Escherichia coli S88 hypothetical protein YP_002390315.1 519413 R 585035 CDS YP_002390316.1 218557403 7129098 complement(519921..520937) 1 NC_011742.1 hypothetical protein 520937 7129098 ECS88_0491 Escherichia coli S88 hypothetical protein YP_002390316.1 519921 R 585035 CDS YP_002390317.1 218557404 7129099 521304..521666 1 NC_011742.1 hypothetical protein 521666 7129099 ECS88_0492 Escherichia coli S88 hypothetical protein YP_002390317.1 521304 D 585035 CDS YP_002390318.1 218557405 7129100 complement(521769..522224) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 522224 ybbJ 7129100 ybbJ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390318.1 521769 R 585035 CDS YP_002390319.1 218557406 7131171 complement(522224..523141) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative protease, membrane anchored 523141 ybbK 7131171 ybbK Escherichia coli S88 putative protease, membrane anchored YP_002390319.1 522224 R 585035 CDS YP_002390320.1 218557407 7131172 523287..523964 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC transporter ATP-binding protein YbbL 523964 ybbL 7131172 ybbL Escherichia coli S88 putative ABC transporter ATP-binding protein YbbL YP_002390320.1 523287 D 585035 CDS YP_002390321.1 218557408 7131173 523951..524730 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative permease of an ABC transporter 524730 ybbM 7131173 ybbM Escherichia coli S88 putative permease of an ABC transporter YP_002390321.1 523951 D 585035 CDS YP_002390322.1 218557409 7131174 complement(524793..525647) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative thioredoxin domain-containing protein 525647 ybbN 7131174 ybbN Escherichia coli S88 putative thioredoxin domain-containing protein YP_002390322.1 524793 R 585035 CDS YP_002390323.1 218557410 7131175 complement(525708..526517) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; short chain dehydrogenase 526517 ybbO 7131175 ybbO Escherichia coli S88 short chain dehydrogenase YP_002390323.1 525708 R 585035 CDS YP_002390324.1 218557411 7131176 complement(526507..527133) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91270121, 91324311, 93163029, 93252782, 94179121, 99353977, 1864840, 8432696, 8098033; Product type e : enzyme; multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1 527133 tesA 7131176 tesA Escherichia coli S88 multifunctional acyl-CoA thioesterase I and protease I and lysophospholipase L1 YP_002390324.1 526507 R 585035 CDS YP_002390325.1 218557412 7131283 527101..527787 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC transporter ATP-binding protein YbbA 527787 ybbA 7131283 ybbA Escherichia coli S88 putative ABC transporter ATP-binding protein YbbA YP_002390325.1 527101 D 585035 CDS YP_002390326.1 218557413 7131169 527784..530198 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type t : transporter; putative ABC transporter permease 530198 ybbP 7131169 ybbP Escherichia coli S88 putative ABC transporter permease YP_002390326.1 527784 D 585035 CDS YP_002390327.1 218557414 7131177 complement(530257..531351) 1 NC_011742.1 catalyzes the selenophosphate-dependent transfer of selenium from selenophosphate for conversion of 2-thiouridine to 2-selenouridine at the wobble position in tRNA; tRNA 2-selenouridine synthase 531351 ybbB 7131177 ybbB Escherichia coli S88 tRNA 2-selenouridine synthase YP_002390327.1 530257 R 585035 CDS YP_002390328.1 218557415 7131170 complement(531420..532346) 1 NC_011742.1 activator of the allDC-ylbA operon involved in allantoin utilization; DNA-binding transcriptional activator AllS 532346 ybbS 7131170 ybbS Escherichia coli S88 DNA-binding transcriptional activator AllS YP_002390328.1 531420 R 585035 CDS YP_002390329.1 218557416 7131178 532576..533058 1 NC_011742.1 catalyzes the formation of glyoxylate from (S)-ureidoglycolate; ureidoglycolate hydrolase 533058 allA 7131178 allA Escherichia coli S88 ureidoglycolate hydrolase YP_002390329.1 532576 D 585035 CDS YP_002390330.1 218557417 7133044 533136..533951 1 NC_011742.1 regulates operons involved in the utilization of allantoin; DNA-binding transcriptional repressor AllR 533951 allR 7133044 allR Escherichia coli S88 DNA-binding transcriptional repressor AllR YP_002390330.1 533136 D 585035 CDS YP_002390331.1 218557418 7133048 534041..535822 1 NC_011742.1 catalyzes the formation of 2-hydroxy-3-oxopropanoate (tartronate semialdehyde) from two molecules of glyoxylate; glyoxylate carboligase 535822 gcl 7133048 gcl Escherichia coli S88 glyoxylate carboligase YP_002390331.1 534041 D 585035 CDS YP_002390332.1 218557419 7132194 535835..536611 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20029625, 8440684; Product type e : enzyme; hydroxypyruvate isomerase 536611 hyi 7132194 hyi Escherichia coli S88 hydroxypyruvate isomerase YP_002390332.1 535835 D 585035 CDS YP_002390333.1 218557420 7131592 536711..537589 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20069628; Product type e : enzyme; tartronate semialdehyde reductase, NADH-dependent 537589 glxR 7131592 glxR Escherichia coli S88 tartronate semialdehyde reductase, NADH-dependent YP_002390333.1 536711 D 585035 CDS YP_002390334.1 218557421 7130040 537759..539213 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 1293888; Product type t : transporter; allantoin permease 539213 ybbW 7130040 ybbW Escherichia coli S88 allantoin permease YP_002390334.1 537759 D 585035 CDS YP_002390335.1 218557422 7131179 539273..540634 1 NC_011742.1 Plays a crucial role on both purine and pyrimidine metabolism; allantoinase 540634 allB 7131179 allB Escherichia coli S88 allantoinase YP_002390335.1 539273 D 585035 CDS YP_002390336.1 218557423 7133045 540690..541991 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative purine permease YbbY 541991 ybbY 7133045 ybbY Escherichia coli S88 putative purine permease YbbY YP_002390336.1 540690 D 585035 CDS YP_002390337.1 218557424 7131180 542013..543158 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20069628; Product type e : enzyme; glycerate kinase II 543158 glxK 7131180 glxK Escherichia coli S88 glycerate kinase II YP_002390337.1 542013 D 585035 CDS YP_002390338.1 218557425 7130039 complement(543287..544072) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 544072 ylbA 7130039 ylbA Escherichia coli S88 hypothetical protein YP_002390338.1 543287 R 585035 CDS YP_002390339.1 218557426 7131105 complement(544083..545318) 1 NC_011742.1 allantoate amidohydrolase and N-carbamoyl-L-amino acid amidohydrolase are very similar; the allantoate amidohydrolase from Escherichia coli forms a dimer and binds zinc ions for catalytic activity and catalyzes the conversion of allantoate to (S)-ureidoglycolate and ammonia; carbamoyl amidohydrolase from Bacillus sp. converts N-carbamoyl amino acids to amino acids, ammonia, and carbon dioxide; allantoate amidohydrolase 545318 allC 7131105 allC Escherichia coli S88 allantoate amidohydrolase YP_002390339.1 544083 R 585035 CDS YP_002390340.1 218557427 7133046 complement(545340..546389) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12460564, 20069628, 69151449; Product type e : enzyme; ureidoglycolate dehydrogenase 546389 allD 7133046 allD Escherichia coli S88 ureidoglycolate dehydrogenase YP_002390340.1 545340 R 585035 CDS YP_002390341.1 218557428 7133047 546706..548373 1 NC_011742.1 multicopy suppressor of dominant negative ftsH mutations; membrane protein FdrA 548373 fdrA 7133047 fdrA Escherichia coli S88 membrane protein FdrA YP_002390341.1 546706 D 585035 CDS YP_002390342.1 218557429 7129460 548383..549642 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 549642 ylbE 7129460 ylbE Escherichia coli S88 hypothetical protein YP_002390342.1 548383 D 585035 CDS YP_002390343.1 218557430 7131106 549653..550468 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 550468 ylbF 7131106 ylbF Escherichia coli S88 hypothetical protein YP_002390343.1 549653 D 585035 CDS YP_002390344.1 218557431 7131107 550465..551358 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2464576, 2644189, 7920643, 7940673, 7984428; Product type pe : putative enzyme; carbamate kinase 551358 ybcF 7131107 ybcF Escherichia coli S88 carbamate kinase YP_002390344.1 550465 D 585035 CDS YP_002390345.1 218557432 7131181 complement(551511..552578) 1 NC_011742.1 With PurE catalyzes the conversion of aminoimidazole ribonucleotide to carboxyaminoimidazole ribonucleotide in the de novo purine nucleotide biosynthetic pathway; phosphoribosylaminoimidazole carboxylase ATPase subunit 552578 purK 7131181 purK Escherichia coli S88 phosphoribosylaminoimidazole carboxylase ATPase subunit YP_002390345.1 551511 R 585035 CDS YP_002390346.1 218557433 7131751 complement(552575..553084) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10074353, 8117684, 89123018, 89123019, 92287929, 10574791; Product type e : enzyme; N5-carboxyaminoimidazole ribonucleotide mutase 553084 purE 7131751 purE Escherichia coli S88 N5-carboxyaminoimidazole ribonucleotide mutase YP_002390346.1 552575 R 585035 CDS YP_002390347.1 218557434 7131748 complement(553180..553509) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; hypothetical protein 553509 7131748 ECS88_0523 Escherichia coli S88 hypothetical protein YP_002390347.1 553180 R 585035 CDS YP_002390348.1 218557435 7129101 complement(553620..554342) 1 NC_011742.1 catalyzes the formation of 2,3=diacylglucosamine 1-phosphate from UDP-2,3=diacylglucosamine; UDP-2,3-diacylglucosamine hydrolase 554342 lpxH 7129101 lpxH Escherichia coli S88 UDP-2,3-diacylglucosamine hydrolase YP_002390348.1 553620 R 585035 CDS YP_002390349.1 218557436 7129384 complement(554345..554839) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90272647, 91175755, 1606970, 1864365, 8601841, 9298646, 9600841; Product type e : enzyme; peptidyl-prolyl cis-trans isomerase B (rotamase B) 554839 ppiB 7129384 ppiB Escherichia coli S88 peptidyl-prolyl cis-trans isomerase B (rotamase B) YP_002390349.1 554345 R 585035 CDS YP_002390350.1 218557437 7130761 555013..556398 1 NC_011742.1 catalyzes a two-step reaction; charges a cysteine by linking its carboxyl group to the alpha-phosphate of ATP then transfers the aminoacyl-adenylate to its tRNA; cysteinyl-tRNA synthetase 556398 cysS 7130761 cysS Escherichia coli S88 cysteinyl-tRNA synthetase YP_002390350.1 555013 D 585035 CDS YP_002390351.1 218557438 7130547 complement(556434..556955) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 556955 ybcI 7130547 ybcI Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390351.1 556434 R 585035 CDS YP_002390352.1 218557439 7131183 complement(557063..557275) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12837795, 1748668, 7567469; Product type pr : putative regulator; hypothetical protein 557275 ybcJ 7131183 ybcJ Escherichia coli S88 hypothetical protein YP_002390352.1 557063 R 585035 CDS YP_002390353.1 218557440 7131184 complement(557277..558143) 1 NC_011742.1 catalyzes the formation of 5,10-methenyltetrahydrofolate from 5,10-methylenetetrahydrofolate and subsequent formation of 10-formyltetrahydrofolate from 5,10-methenyltetrahydrofolate; bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase 558143 folD 7131184 folD Escherichia coli S88 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase YP_002390353.1 557277 R 585035 CDS YP_002390354.1 218557441 7132816 558193..558381 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 558381 7132816 ECS88_0530 Escherichia coli S88 hypothetical protein YP_002390354.1 558193 D 585035 CDS YP_002390355.1 218557442 7131989 complement(558506..559669) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 90036709, 2183007; Product type pe : putative enzyme; putative integrase; DLP12 prophage 559669 intD 7131989 intD Escherichia coli S88 putative integrase; DLP12 prophage YP_002390355.1 558506 R 585035 CDS YP_002390356.1 218557443 7131652 complement(559525..559980) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Excisionase from phage origin 559980 7131652 ECS88_0532 Escherichia coli S88 Excisionase from phage origin YP_002390356.1 559525 R 585035 CDS YP_002390357.1 218557444 7129103 complement(559896..560201) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 560201 yfdT 7129103 yfdT Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002390357.1 559896 R 585035 CDS YP_002390358.1 218557445 7129840 complement(560201..560563) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 560563 yfdS 7129840 yfdS Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002390358.1 560201 R 585035 CDS YP_002390359.1 218557446 7129838 complement(560554..561090) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 561090 yfdR 7129838 yfdR Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002390359.1 560554 R 585035 CDS YP_002390360.1 218557447 7129835 complement(561218..562042) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 562042 yfdQ 7129835 yfdQ Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002390360.1 561218 R 585035 CDS YP_002390361.1 218557448 7129832 complement(562108..562656) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 562656 7129832 ECS88_0537 Escherichia coli S88 hypothetical protein YP_002390361.1 562108 R 585035 CDS YP_002390362.1 218557449 7129104 complement(562859..563113) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 563113 7129104 ECS88_0538 Escherichia coli S88 hypothetical protein YP_002390362.1 562859 R 585035 CDS YP_002390363.1 218557450 7129105 complement(563193..563885) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative repressor protein CI 563885 7129105 ECS88_0539 Escherichia coli S88 putative repressor protein CI YP_002390363.1 563193 R 585035 CDS YP_002390364.1 218557451 7129106 563983..564243 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative lambda repressor-like DNA-binding domains 564243 7129106 ECS88_0540 Escherichia coli S88 putative lambda repressor-like DNA-binding domains YP_002390364.1 563983 D 585035 CDS YP_002390365.1 218557452 7129107 564236..564793 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative nucleic acid-binding protein; e14 prophage 564793 ymfL 7129107 ymfL Escherichia coli S88 putative nucleic acid-binding protein; e14 prophage YP_002390365.1 564236 D 585035 CDS YP_002390366.1 218557453 7131127 564790..565938 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative antirepressor from phage 565938 7131127 ECS88_0543 Escherichia coli S88 putative antirepressor from phage YP_002390366.1 564790 D 585035 CDS YP_002390367.1 218557454 7130577 565935..566801 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; Putative antirepressor from phage 566801 7130577 ECS88_0544 Escherichia coli S88 Putative antirepressor from phage YP_002390367.1 565935 D 585035 CDS YP_002390368.1 218557455 7130659 566798..567022 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 567022 7130659 ECS88_0545 Escherichia coli S88 hypothetical protein YP_002390368.1 566798 D 585035 CDS YP_002390369.1 218557456 7130660 566980..567837 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative replication protein from phage 567837 7130660 ECS88_0546 Escherichia coli S88 putative replication protein from phage YP_002390369.1 566980 D 585035 CDS YP_002390370.1 218557457 7130661 567834..568328 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 568328 yfdN 7130661 yfdN Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002390370.1 567834 D 585035 CDS YP_002390371.1 218557458 7129829 568295..568981 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage AdoMet-dependent methyltransferase 568981 7129829 ECS88_0548 Escherichia coli S88 putative phage AdoMet-dependent methyltransferase YP_002390371.1 568295 D 585035 CDS YP_002390372.1 218557459 7130662 568978..569304 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative LexA repressor 569304 7130662 ECS88_0549 Escherichia coli S88 putative LexA repressor YP_002390372.1 568978 D 585035 CDS YP_002390373.1 218557460 7130663 569301..569696 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative Crossover junction endodeoxyribonuclease 569696 7130663 ECS88_0550 Escherichia coli S88 putative Crossover junction endodeoxyribonuclease YP_002390373.1 569301 D 585035 CDS YP_002390374.1 218557461 7130664 569847..570674 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 570674 7130664 ECS88_0551 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390374.1 569847 D 585035 CDS YP_002390375.1 218557462 7130665 570676..571671 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 571671 7130665 ECS88_0552 Escherichia coli S88 hypothetical protein YP_002390375.1 570676 D 585035 CDS YP_002390376.1 218557463 7130666 571674..572060 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative Antitermination protein Q 572060 7130666 ECS88_0553 Escherichia coli S88 putative Antitermination protein Q YP_002390376.1 571674 D 585035 CDS YP_002390377.1 218557464 7130667 572109..572753 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 572753 7130667 ECS88_0554 Escherichia coli S88 hypothetical protein YP_002390377.1 572109 D 585035 CDS YP_002390378.1 218557465 7130668 573032..573229 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 573229 7130668 ECS88_0555 Escherichia coli S88 hypothetical protein YP_002390378.1 573032 D 585035 CDS YP_002390379.1 218557466 7130669 573364..574071 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative ARAC-type regulatory protein from phage origin 574071 7130669 ECS88_0556 Escherichia coli S88 putative ARAC-type regulatory protein from phage origin YP_002390379.1 573364 D 585035 CDS YP_002390380.1 218557467 7129867 574841..576802 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 576802 7129867 ECS88_0557 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390380.1 574841 D 585035 CDS YP_002390381.1 218557468 7130671 576939..577121 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 577121 7130671 ECS88_0558 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390381.1 576939 D 585035 CDS YP_002390382.1 218557469 7130672 576985..577428 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 577428 7130672 ECS88_0559 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390382.1 576985 D 585035 CDS YP_002390383.1 218557470 7130673 577504..577719 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2019562; Product type pe : putative enzyme; putative phage lysis protein S; DLP12 prophage 577719 essD 7130673 essD Escherichia coli S88 putative phage lysis protein S; DLP12 prophage YP_002390383.1 577504 D 585035 CDS YP_002390384.1 218557471 7132418 577721..578074 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 578074 7132418 ECS88_0561 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390384.1 577721 D 585035 CDS YP_002390385.1 218557472 7130674 578138..578671 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane-associated lysozyme; Qin prophage 578671 ydfQ 7130674 ydfQ Escherichia coli S88 putative membrane-associated lysozyme; Qin prophage YP_002390385.1 578138 D 585035 CDS YP_002390386.1 218557473 7129336 578795..578968 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 578968 7129336 ECS88_0563 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390386.1 578795 D 585035 CDS YP_002390387.1 218557474 7130675 578970..579407 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative endopeptidase (Protein gp15) 579407 7130675 ECS88_0564 Escherichia coli S88 putative endopeptidase (Protein gp15) YP_002390387.1 578970 D 585035 CDS YP_002390388.1 218557475 7130676 579609..580130 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 580130 7130676 ECS88_0565 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390388.1 579609 D 585035 CDS YP_002390389.1 218557476 7130677 580821..580979 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 580979 7130677 ECS88_0566 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390389.1 580821 D 585035 CDS YP_002390390.1 218557477 7133615 complement(581313..581468) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 581468 7133615 ECS88_0568 Escherichia coli S88 hypothetical protein YP_002390390.1 581313 R 585035 CDS YP_002390391.1 218557478 7130679 581693..582241 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Terminase small subunit (Gp1) 582241 7130679 ECS88_0569 Escherichia coli S88 Terminase small subunit (Gp1) YP_002390391.1 581693 D 585035 CDS YP_002390392.1 218557479 7130682 584123..584329 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head stabilization protein (Head protein GP3) 584329 7130682 ECS88_0572 Escherichia coli S88 Head stabilization protein (Head protein GP3) YP_002390392.1 584123 D 585035 CDS YP_002390393.1 218557480 7130683 584296..585918 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Portal protein (Head protein Gp4) 585918 7130683 ECS88_0573 Escherichia coli S88 Portal protein (Head protein Gp4) YP_002390393.1 584296 D 585035 CDS YP_002390394.1 218557481 7130684 585908..587413 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head-tail preconnector protein GP5 [Contains: Scaffold protein GP6 (Head protein GP6)] 587413 7130684 ECS88_0574 Escherichia coli S88 Head-tail preconnector protein GP5 [Contains: Scaffold protein GP6 (Head protein GP6)] YP_002390394.1 585908 D 585035 CDS YP_002390395.1 218557482 7130685 587450..587797 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head decoration protein (Head protein GPshp) 587797 7130685 ECS88_0575 Escherichia coli S88 Head decoration protein (Head protein GPshp) YP_002390395.1 587450 D 585035 CDS YP_002390396.1 218557483 7130686 587855..588883 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major head protein (Head protein gp7) 588883 7130686 ECS88_0576 Escherichia coli S88 Major head protein (Head protein gp7) YP_002390396.1 587855 D 585035 CDS YP_002390397.1 218557484 7130687 588887..589309 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 589309 7130687 ECS88_0577 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390397.1 588887 D 585035 CDS YP_002390398.1 218557485 7130688 589266..589655 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail attachment protein (Head protein gp8) 589655 7130688 ECS88_0578 Escherichia coli S88 Tail attachment protein (Head protein gp8) YP_002390398.1 589266 D 585035 CDS YP_002390399.1 218557486 7130689 589601..590245 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein Z (GpZ) 590245 7130689 ECS88_0579 Escherichia coli S88 Minor tail protein Z (GpZ) YP_002390399.1 589601 D 585035 CDS YP_002390400.1 218557487 7130690 590242..590637 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein U 590637 7130690 ECS88_0580 Escherichia coli S88 Minor tail protein U YP_002390400.1 590242 D 585035 CDS YP_002390401.1 218557488 7130691 590615..591385 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major tail protein V 591385 7130691 ECS88_0581 Escherichia coli S88 Major tail protein V YP_002390401.1 590615 D 585035 CDS YP_002390402.1 218557489 7130692 591401..591823 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein G 591823 7130692 ECS88_0582 Escherichia coli S88 Minor tail protein G YP_002390402.1 591401 D 585035 CDS YP_002390403.1 218557490 7130693 591805..592239 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein T 592239 7130693 ECS88_0583 Escherichia coli S88 Minor tail protein T YP_002390403.1 591805 D 585035 CDS YP_002390404.1 218557491 7130694 592232..594793 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein precursor H 594793 7130694 ECS88_0584 Escherichia coli S88 Minor tail protein precursor H YP_002390404.1 592232 D 585035 CDS YP_002390405.1 218557492 7130695 594790..595119 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein M 595119 7130695 ECS88_0586 Escherichia coli S88 Minor tail protein M YP_002390405.1 594790 D 585035 CDS YP_002390406.1 218557493 7130696 595119..595817 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein L 595817 7130696 ECS88_0587 Escherichia coli S88 Minor tail protein L YP_002390406.1 595119 D 585035 CDS YP_002390407.1 218557494 7130697 595567..596571 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; tail fiber component K 596571 7130697 ECS88_0588 Escherichia coli S88 tail fiber component K YP_002390407.1 595567 D 585035 CDS YP_002390408.1 218557495 7130698 596469..597149 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail assembly protein I 597149 7130698 ECS88_0589 Escherichia coli S88 Tail assembly protein I YP_002390408.1 596469 D 585035 CDS YP_002390409.1 218557496 7130699 597493..601185 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Host specificity protein J 601185 7130699 ECS88_0590 Escherichia coli S88 Host specificity protein J YP_002390409.1 597493 D 585035 CDS YP_002390410.1 218557497 7130700 601253..601852 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; Putative Lom-like outer membrane protein of prophage 601852 7130700 ECS88_0591 Escherichia coli S88 Putative Lom-like outer membrane protein of prophage YP_002390410.1 601253 D 585035 CDS YP_002390411.1 218557498 7130701 602004..604064 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 604064 7130701 ECS88_0592 Escherichia coli S88 hypothetical protein YP_002390411.1 602004 D 585035 CDS YP_002390412.1 218557499 7130702 604061..604339 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 604339 7130702 ECS88_0593 Escherichia coli S88 hypothetical protein YP_002390412.1 604061 D 585035 CDS YP_002390413.1 218557500 7130703 604349..604642 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 604642 7130703 ECS88_0594 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390413.1 604349 D 585035 CDS YP_002390414.1 218557501 7130704 complement(604835..605419) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative AdoMet-dependent methyltransferase; DLP12 prophage 605419 ybcY 7130704 ybcY Escherichia coli S88 putative AdoMet-dependent methyltransferase; DLP12 prophage YP_002390414.1 604835 R 585035 CDS YP_002390415.1 218557502 7131189 complement(606049..607533) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative exported protein; putative protease 607533 7131189 ECS88_0596 Escherichia coli S88 putative exported protein; putative protease YP_002390415.1 606049 R 585035 CDS YP_002390416.1 218557503 7130705 complement(607720..608673) 1 NC_011742.1 outer membrane protease; involved in virulence in many organisms; OmpT; IcsP; SopA; Pla; PgtE; omptin; in Escherichia coli OmpT can degrade antimicrobial peptides; in Yersinia Pla activates plasminogen during infection; in Shigella flexneria SopA cleaves the autotransporter IcsA; outer membrane protease 608673 ompT 7130705 ompT Escherichia coli S88 outer membrane protease YP_002390416.1 607720 R 585035 CDS YP_002390417.1 218557504 7130707 609782..610138 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail fiber assembly protein 610138 tfaQ 7130707 tfaQ Escherichia coli S88 Tail fiber assembly protein YP_002390417.1 609782 D 585035 CDS YP_002390418.1 218557505 7131287 complement(610193..610777) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative AdoMet-dependent methyltransferase; DLP12 prophage 610777 ybcY 7131287 ybcY Escherichia coli S88 putative AdoMet-dependent methyltransferase; DLP12 prophage YP_002390418.1 610193 R 585035 CDS YP_002390419.1 218557506 7131190 complement(611093..612046) 1 NC_011742.1 outer membrane protease; involved in virulence in many organisms; OmpT; IcsP; SopA; Pla; PgtE; omptin; in Escherichia coli OmpT can degrade antimicrobial peptides; in Yersinia Pla activates plasminogen during infection; in Shigella flexneria SopA cleaves the autotransporter IcsA; outer membrane protease 612046 ompT 7131190 ompT Escherichia coli S88 outer membrane protease YP_002390419.1 611093 R 585035 CDS YP_002390420.1 218557507 7133130 complement(612704..613594) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 613594 ybcH 7133130 ybcH Escherichia coli S88 hypothetical protein YP_002390420.1 612704 R 585035 CDS YP_002390421.1 218557508 7131182 complement(613595..616567) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89359086, 94042873, 94042874; Product type m : membrane component; bacteriophage N4 receptor, outer membrane subunit 616567 nfrA 7131182 nfrA Escherichia coli S88 bacteriophage N4 receptor, outer membrane subunit YP_002390421.1 613595 R 585035 CDS YP_002390422.1 218557509 7129703 complement(616554..618791) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89359086, 94042873, 94042874; Product type m : membrane component; bacteriophage N4 adsorption protein B 618791 nfrB 7129703 nfrB Escherichia coli S88 bacteriophage N4 adsorption protein B YP_002390422.1 616554 R 585035 CDS YP_002390423.1 218557510 7129704 complement(618941..620383) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20461235, 11283292, 11399769; Product type r : regulator; sensor kinase CusS 620383 cusS 7129704 cusS Escherichia coli S88 sensor kinase CusS YP_002390423.1 618941 R 585035 CDS YP_002390424.1 218557511 7130514 complement(620373..621056) 1 NC_011742.1 response regulator in two-component regulatory system with CusS; regulates the copper efflux system; DNA-binding transcriptional activator CusR 621056 cusR 7130514 cusR Escherichia coli S88 DNA-binding transcriptional activator CusR YP_002390424.1 620373 R 585035 CDS YP_002390425.1 218557512 7130513 621213..622595 1 NC_011742.1 with CusA, CusB and CusF is part of a cation efflux system that mediates resistance to copper and silver; copper/silver efflux system outer membrane protein CusC 622595 cusC 7130513 cusC Escherichia coli S88 copper/silver efflux system outer membrane protein CusC YP_002390425.1 621213 D 585035 CDS YP_002390426.1 218557513 7130511 622619..622951 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 21125583, 11283292, 11399769, 12813074; Product type f : factor; periplasmic copper-binding protein 622951 cusF 7130511 cusF Escherichia coli S88 periplasmic copper-binding protein YP_002390426.1 622619 D 585035 CDS YP_002390427.1 218557514 7130512 622967..624190 1 NC_011742.1 with CusA, CusC and CusF is part of a cation efflux system that mediates resistance to copper and silver; copper/silver efflux system membrane fusion protein CusB 624190 cusB 7130512 cusB Escherichia coli S88 copper/silver efflux system membrane fusion protein CusB YP_002390427.1 622967 D 585035 CDS YP_002390428.1 218557515 7130510 624202..627345 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20461235, 21125583, 21178899, 21450803, 11399769, 12813074, 1711024, 7984428; Product type t : transporter; copper/silver efflux system, membrane component 627345 cusA 7130510 cusA Escherichia coli S88 copper/silver efflux system, membrane component YP_002390428.1 624202 D 585035 CDS YP_002390429.1 218557516 7130509 627447..628823 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91267923, 94042931, 8626334; Product type t : transporter; phenylalanine transporter 628823 pheP 7130509 pheP Escherichia coli S88 phenylalanine transporter YP_002390429.1 627447 D 585035 CDS YP_002390430.1 218557517 7133704 complement(628905..630152) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative membrane protein; putative channel 630152 ybdG 7133704 ybdG Escherichia coli S88 putative membrane protein; putative channel YP_002390430.1 628905 R 585035 CDS YP_002390431.1 218557518 7131196 complement(630260..630913) 1 NC_011742.1 catalyzes the reduction of nitroaromatic compounds such as nitrofurazone, quinones and the anti-tumor agent CB1954; NAD(P)H-dependent; oxygen insensitive; dihydropteridine reductase 630913 nfnB 7131196 nfnB Escherichia coli S88 dihydropteridine reductase YP_002390431.1 630260 R 585035 CDS YP_002390432.1 218557519 7129701 complement(630992..631375) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 631375 ybdF 7129701 ybdF Escherichia coli S88 hypothetical protein YP_002390432.1 630992 R 585035 CDS YP_002390433.1 218557520 7131195 complement(631440..631688) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 631688 ybdJ 7131195 ybdJ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390433.1 631440 R 585035 CDS YP_002390434.1 218557521 7131198 complement(631754..632872) 1 NC_011742.1 ATP-dependent; carboxylate-amine ligase with weak glutamate--cysteine ligase activity; carboxylate-amine ligase 632872 ybdK 7131198 ybdK Escherichia coli S88 carboxylate-amine ligase YP_002390434.1 631754 R 585035 CDS YP_002390435.1 218557522 7131199 633326..633478 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 99291074; Product type f : factor; toxic polypeptide, small 633478 hokE 7131199 hokE Escherichia coli S88 toxic polypeptide, small YP_002390435.1 633326 D 585035 CDS YP_002390436.1 218557523 7128940 complement(633600..634229) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89313305, 90132534, 91035252, 8939709, 9214294; Product type e : enzyme; phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex 634229 entD 7128940 entD Escherichia coli S88 phosphopantetheinyltransferase component of enterobactin synthase multienzyme complex YP_002390436.1 633600 R 585035 CDS YP_002390437.1 218557524 7132403 complement(634395..636635) 1 NC_011742.1 Fep; Cbt; Cbr; FeuB; FepA; PfeA; IroN; BfeA; outer membrane receptor of ferric enterobactin and colicins B and D; interacts with the TonB-ExbBD complex which catalyzes the translocation of the siderophore to the periplasmic space; outer membrane receptor FepA 636635 fepA 7132403 fepA Escherichia coli S88 outer membrane receptor FepA YP_002390437.1 634395 R 585035 CDS YP_002390438.1 218557525 7129471 636956..638080 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92291125, 94198561, 2974033; Product type e : enzyme; enterobactin/ferric enterobactin esterase 638080 fes 7129471 fes Escherichia coli S88 enterobactin/ferric enterobactin esterase YP_002390438.1 636956 D 585035 CDS YP_002390439.1 218557526 7129477 638083..638301 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 638301 ybdZ 7129477 ybdZ Escherichia coli S88 hypothetical protein YP_002390439.1 638083 D 585035 CDS YP_002390440.1 218557527 7131203 638298..642179 1 NC_011742.1 with EntB, EntD, and EntE forms the multienzyme complex enterobactin synthase; EntF is the serine activating enzyme which catalyzes the formation of the amide and ester bonds of the cyclic enterobactin; enterobactin synthase subunit F 642179 entF 7131203 entF Escherichia coli S88 enterobactin synthase subunit F YP_002390440.1 638298 D 585035 CDS YP_002390441.1 218557528 7132405 642395..643528 1 NC_011742.1 part of the ferric enterobactin transport system; necessary for enetrobactin uptake; ferric enterobactin transport protein FepE 643528 fepE 7132405 fepE Escherichia coli S88 ferric enterobactin transport protein FepE YP_002390441.1 642395 D 585035 CDS YP_002390442.1 218557529 7129475 complement(643525..644340) 1 NC_011742.1 with FepBDE is involved in the transport of ferric enterobactin; iron-enterobactin transporter ATP-binding protein 644340 fepC 7129475 fepC Escherichia coli S88 iron-enterobactin transporter ATP-binding protein YP_002390442.1 643525 R 585035 CDS YP_002390443.1 218557530 7129473 complement(644337..645329) 1 NC_011742.1 with FepBCD is involved in the transport of ferric enterobactin; iron-enterobactin transporter permease 645329 fepG 7129473 fepG Escherichia coli S88 iron-enterobactin transporter permease YP_002390443.1 644337 R 585035 CDS YP_002390444.1 218557531 7129476 complement(645326..646330) 1 NC_011742.1 with FepBCG is involved in the transport of ferric enterobactin; iron-enterobactin transporter membrane protein 646330 fepD 7129476 fepD Escherichia coli S88 iron-enterobactin transporter membrane protein YP_002390444.1 645326 R 585035 CDS YP_002390445.1 218557532 7129474 646441..647691 1 NC_011742.1 protein p43; inner membrane protein that exports enterobactin to the periplasmic space; member of the major facilitator superfamily (MFS) of transporters; enterobactin exporter EntS 647691 ybdA 7129474 ybdA Escherichia coli S88 enterobactin exporter EntS YP_002390445.1 646441 D 585035 CDS YP_002390446.1 218557533 7131192 complement(647695..648651) 1 NC_011742.1 with FepCDG is involved in the transport of ferric enterobactin; iron-enterobactin transporter periplasmic binding protein 648651 fepB 7131192 fepB Escherichia coli S88 iron-enterobactin transporter periplasmic binding protein YP_002390446.1 647695 R 585035 CDS YP_002390447.1 218557534 7129472 648840..650015 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89123153, 90165423, 90241936, 2110093, 2139473; Product type e : enzyme; isochorismate synthase 1 650015 entC 7129472 entC Escherichia coli S88 isochorismate synthase 1 YP_002390447.1 648840 D 585035 CDS YP_002390448.1 218557535 7132402 650025..651635 1 NC_011742.1 bifunctional 2,3-dihydroxybenzoate-AMP ligase/S-dihydroxybenzoyltransferase; activates the carboxylate group of 2,3-dihydroxy-benzoate forming (2,3-dihydroxybenzoyl)adenylate then catalyzes the acylation of holo-entB with 2,3-dihydroxy-benzoate adenylate; enterobactin synthase subunit E 651635 entE 7132402 entE Escherichia coli S88 enterobactin synthase subunit E YP_002390448.1 650025 D 585035 CDS YP_002390449.1 218557536 7132404 651649..652506 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20183918, 90241937, 91035252, 9485415, 97361959, 2521621, 2521622; Product type e : enzyme; isochorismatase 652506 entB 7132404 entB Escherichia coli S88 isochorismatase YP_002390449.1 651649 D 585035 CDS YP_002390450.1 218557537 7132401 652506..653252 1 NC_011742.1 catalyzes the formation of 2,3-dihydroxybenzoate from 2,3-dihydro-2,3-dihydroxybenzoate; involved in the biosynthesis of siderophores, enterobactin, bacillibactin or vibriobactin; 2,3-dihydroxybenzoate-2,3-dehydrogenase 653252 entA 7132401 entA Escherichia coli S88 2,3-dihydroxybenzoate-2,3-dehydrogenase YP_002390450.1 652506 D 585035 CDS YP_002390451.1 218557538 7132400 653255..653668 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2521621, 2521622, 15808744; Product type pe : putative enzyme; hypothetical protein 653668 ybdB 7132400 ybdB Escherichia coli S88 hypothetical protein YP_002390451.1 653255 D 585035 CDS YP_002390452.1 218557539 7131193 653849..655954 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91162636, 2521622; Product type pf : putative factor; carbon starvation protein 655954 cstA 7131193 cstA Escherichia coli S88 carbon starvation protein YP_002390452.1 653849 D 585035 CDS YP_002390453.1 218557540 7130506 656067..656264 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 656264 ybdD 7130506 ybdD Escherichia coli S88 hypothetical protein YP_002390453.1 656067 D 585035 CDS YP_002390454.1 218557541 7131194 complement(656274..657362) 1 NC_011742.1 member of the iron-containing alcohol dehydrogenase family; unknown function; hypothetical protein 657362 ybdH 7131194 ybdH Escherichia coli S88 hypothetical protein YP_002390454.1 656274 R 585035 CDS YP_002390455.1 218557542 7131201 complement(658642..659271) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12057959; Product type r : regulator; immunoglobulin-binding regulator 659271 ibrB 7131201 ibrB Escherichia coli S88 immunoglobulin-binding regulator YP_002390455.1 658642 R 585035 CDS YP_002390456.1 218557543 7131608 complement(659244..660464) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12057959; Product type r : regulator; immunoglobulin-binding regulator 660464 ibrA 7131608 ibrA Escherichia coli S88 immunoglobulin-binding regulator YP_002390456.1 659244 R 585035 CDS YP_002390457.1 218557544 7131606 complement(660611..661549) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator, LysR-type 661549 ybdO 7131606 ybdO Escherichia coli S88 putative DNA-binding transcriptional regulator, LysR-type YP_002390457.1 660611 R 585035 CDS YP_002390458.1 218557545 7131202 complement(661718..662464) 1 NC_011742.1 Involved in disulfide bond formation; disulfide isomerase/thiol-disulfide oxidase 662464 dsbG 7131202 dsbG Escherichia coli S88 disulfide isomerase/thiol-disulfide oxidase YP_002390458.1 661718 R 585035 CDS YP_002390459.1 218557546 7130242 662836..663399 1 NC_011742.1 with AhpF catalyzes the conversion of alkyl hydroperoxides to their corresponding alcohols; AhpC reduced the hydroperoxide substrate; alkyl hydroperoxide reductase subunit C 663399 ahpC 7130242 ahpC Escherichia coli S88 alkyl hydroperoxide reductase subunit C YP_002390459.1 662836 D 585035 CDS YP_002390460.1 218557547 7133035 663570..665135 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89197774, 1592833; Product type e : enzyme; alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)-binding 665135 ahpF 7133035 ahpF Escherichia coli S88 alkyl hydroperoxide reductase, F52a subunit, FAD/NAD(P)-binding YP_002390460.1 663570 D 585035 CDS YP_002390461.1 218557548 7133036 complement(665256..665684) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12732303, 12071968; Product type f : factor; universal stress protein UP12 665684 uspG 7133036 uspG Escherichia coli S88 universal stress protein UP12 YP_002390461.1 665256 R 585035 CDS YP_002390462.1 218557549 7132456 complement(665808..665897) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 665897 7132456 ECS88_0650 Escherichia coli S88 hypothetical protein YP_002390462.1 665808 R 585035 CDS YP_002390463.1 218557550 7130708 complement(666040..666450) 1 NC_011742.1 Regulates the synthesis of nucleoside triphosphates for nucleic acid synthesis, CTP for lipid synthesis, and GTP for protein elongation; nucleoside diphosphate kinase regulator 666450 rnk 7130708 rnk Escherichia coli S88 nucleoside diphosphate kinase regulator YP_002390463.1 666040 R 585035 CDS YP_002390464.1 218557551 7132750 complement(666680..667486) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90151658, 90264307, 2253883, 8188249; Product type e : enzyme; ribonuclease I 667486 rna 7132750 rna Escherichia coli S88 ribonuclease I YP_002390464.1 666680 R 585035 CDS YP_002390465.1 218557552 7132740 complement(667600..669063) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9696764; Product type t : transporter; citrate:succinate antiporter 669063 citT 7132740 citT Escherichia coli S88 citrate:succinate antiporter YP_002390465.1 667600 R 585035 CDS YP_002390466.1 218557553 7131923 complement(669114..669992) 1 NC_011742.1 catalyzes the formation of 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA from ATP and 3-dephospho-CoA; triphosphoribosyl-dephospho-CoA synthase 669992 citG 7131923 citG Escherichia coli S88 triphosphoribosyl-dephospho-CoA synthase YP_002390466.1 669114 R 585035 CDS YP_002390467.1 218557554 7131922 complement(669967..670518) 1 NC_011742.1 2'-(5''-phosphoribosyl)-3'-dephospho-CoA transferase; holo-citrate lyase synthase; CitG forms the prosthetic group precursor 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA which is then transferred to apo-ACP by CitX to produce holo-ACP and pyrophosphate; 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA:apo- citrate lyase 670518 citX 7131922 citX Escherichia coli S88 2'-(5''-triphosphoribosyl)-3'-dephospho-CoA:apo- citrate lyase YP_002390467.1 669967 R 585035 CDS YP_002390468.1 218557555 7131924 complement(670522..672054) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 84024606, 87214225; Product type e : enzyme; citrate lyase, citrate-ACP transferase (alpha) subunit 672054 citF 7131924 citF Escherichia coli S88 citrate lyase, citrate-ACP transferase (alpha) subunit YP_002390468.1 670522 R 585035 CDS YP_002390469.1 218557556 7131921 complement(672065..672973) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 84024606, 87214225; Product type e : enzyme; citrate lyase, citryl-ACP lyase (beta) subunit 672973 citE 7131921 citE Escherichia coli S88 citrate lyase, citryl-ACP lyase (beta) subunit YP_002390469.1 672065 R 585035 CDS YP_002390470.1 218557557 7131920 complement(672970..673266) 1 NC_011742.1 acyl carrier protein; with CitE and CitF catalyzes the formation of oxaloacetate from citrate; citrate lyase subunit gamma 673266 citD 7131920 citD Escherichia coli S88 citrate lyase subunit gamma YP_002390470.1 672970 R 585035 CDS YP_002390471.1 218557558 7131919 complement(673281..674339) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 84024606, 87214225; Product type e : enzyme; citrate lyase synthetase 674339 citC 7131919 citC Escherichia coli S88 citrate lyase synthetase YP_002390471.1 673281 R 585035 CDS YP_002390472.1 218557559 7131918 674718..676376 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11889485, 21885746, 9701802; Product type r : regulator; sensory histidine kinase in two-component regulatory system with citB 676376 citA 7131918 citA Escherichia coli S88 sensory histidine kinase in two-component regulatory system with citB YP_002390472.1 674718 D 585035 CDS YP_002390473.1 218557560 7131916 676345..677025 1 NC_011742.1 regulates the expression of citAB in citrate fermentation; two-component response regulator DpiA 677025 dpiA 7131916 dpiA Escherichia coli S88 two-component response regulator DpiA YP_002390473.1 676345 D 585035 CDS YP_002390474.1 218557561 7131917 complement(677066..678451) 1 NC_011742.1 responsible for the transport of C4-dicarboxylates during anaerobic growth; C4-dicarboxylate transporter DcuC 678451 dcuC 7131917 dcuC Escherichia coli S88 C4-dicarboxylate transporter DcuC YP_002390474.1 677066 R 585035 CDS YP_002390475.1 218557562 7130171 679038..679598 1 NC_011742.1 catalyzes the transfer of palmitate to lipid A; palmitoyl transferase 679598 pagP 7130171 pagP Escherichia coli S88 palmitoyl transferase YP_002390475.1 679038 D 585035 CDS YP_002390476.1 218557563 7131958 679773..679982 1 NC_011742.1 member of the CspA family; constitutively expressed RNA/ssDNA-binding protein; functions in helping cells adapt to low temperature; aids nucleic acid melting; participates in gene regulation; can act as a transcription antiterminator; cold shock protein CspE 679982 cspE 7131958 cspE Escherichia coli S88 cold shock protein CspE YP_002390476.1 679773 D 585035 CDS YP_002390477.1 218557564 7130497 complement(680036..680419) 1 NC_011742.1 may be involved in chromosome condensation; overexpression in Escherichia coli protects against decondensation by camphor; overexpressing the protein results in an increase in supercoiling; camphor resistance protein CrcB 680419 crcB 7130497 crcB Escherichia coli S88 camphor resistance protein CrcB YP_002390477.1 680036 R 585035 CDS YP_002390478.1 218557565 7131959 680740..681303 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative amidase 681303 ybeM 7131959 ybeM Escherichia coli S88 putative amidase YP_002390478.1 680740 D 585035 CDS YP_002390479.1 218557566 7131209 681432..681635 1 NC_011742.1 TatE; similar to TatA and found in some proteobacteria; part of system that translocates proteins with a conserved twin arginine motif across the inner membrane; capable of translocating folded substrates typically those with bound cofactors; similar to a protein import system in thylakoid membranes; twin arginine translocase protein E 681635 tatE 7131209 tatE Escherichia coli S88 twin arginine translocase protein E YP_002390479.1 681432 D 585035 CDS YP_002390480.1 218557567 7131266 complement(681735..682700) 1 NC_011742.1 catalyzes the radical-mediated insertion of two sulfur atoms into an acyl carrier protein (ACP) bound to an octanoyl group to produce a lipoyl group; lipoyl synthase 682700 lipA 7131266 lipA Escherichia coli S88 lipoyl synthase YP_002390480.1 681735 R 585035 CDS YP_002390481.1 218557568 7131207 complement(683520..684161) 1 NC_011742.1 lipoyl/octanoyltransferase; catalyzes the transfer of the lipoyl/octanoyl moiety of lipoyl/octanoyl-ACP onto lipoate-dependent enzymes like pyruvate dehydrogenase and the glycine cleavage system H protein; lipoate-protein ligase B 684161 lipB 7131207 lipB Escherichia coli S88 lipoate-protein ligase B YP_002390481.1 683520 R 585035 CDS YP_002390482.1 218557569 7129357 complement(684262..684525) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8444795; hypothetical protein 684525 ybeD 7129357 ybeD Escherichia coli S88 hypothetical protein YP_002390482.1 684262 R 585035 CDS YP_002390483.1 218557570 7131206 complement(684635..685846) 1 NC_011742.1 penicillin-binding protein 5; removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; D-alanyl-D-alanine carboxypeptidase fraction A 685846 dacA 7131206 dacA Escherichia coli S88 D-alanyl-D-alanine carboxypeptidase fraction A YP_002390483.1 684635 R 585035 CDS YP_002390484.1 218557571 7130553 complement(685986..687074) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88058785, 2644207; Product type lp : lipoprotein; rare lipoprotein A 687074 rlpA 7130553 rlpA Escherichia coli S88 rare lipoprotein A YP_002390484.1 685986 R 585035 CDS YP_002390485.1 218557572 7132729 complement(687085..688197) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89123070, 90036736, 91072213, 3316191; Product type cp : cell process; cell wall shape-determining protein 688197 mrdB 7132729 mrdB Escherichia coli S88 cell wall shape-determining protein YP_002390485.1 687085 R 585035 CDS YP_002390486.1 218557573 7129608 complement(688200..690101) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86196149, 87030266, 89174517, 2644207; Product type e : enzyme; penicillin-binding protein 2 690101 mrdA 7129608 mrdA Escherichia coli S88 penicillin-binding protein 2 YP_002390486.1 688200 R 585035 CDS YP_002390487.1 218557574 7129607 complement(690132..690599) 1 NC_011742.1 SPOUT methyltransferase family protein; crystal structure shows homodimer; in Escherichia coli this protein methylates pseudouridine at position 1915 of the 23S ribosomal RNA; rRNA large subunit methyltransferase 690599 ybeA 7129607 ybeA Escherichia coli S88 rRNA large subunit methyltransferase YP_002390487.1 690132 R 585035 CDS YP_002390488.1 218557575 7131204 complement(690603..690920) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 690920 ybeB 7131204 ybeB Escherichia coli S88 hypothetical protein YP_002390488.1 690603 R 585035 CDS YP_002390489.1 218557576 7131205 complement(691180..691791) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7929373; Product type pe : putative enzyme; putative phosphatase with phosphoglycerate mutase domain 691791 phpB 7131205 phpB Escherichia coli S88 putative phosphatase with phosphoglycerate mutase domain YP_002390489.1 691180 R 585035 CDS YP_002390490.1 218557577 7133731 complement(691815..692456) 1 NC_011742.1 transfers an adenyl group from ATP to NaMN to form nicotinic acid adenine dinucleotide (NaAD) which is then converted to the ubiquitous compound NAD by NAD synthetase; essential enzyme in bacteria; nicotinic acid mononucleotide adenylyltransferase 692456 nadD 7133731 nadD Escherichia coli S88 nicotinic acid mononucleotide adenylyltransferase YP_002390490.1 691815 R 585035 CDS YP_002390491.1 218557578 7129653 complement(692458..693489) 1 NC_011742.1 required for the assembly and function of the DNAX complex which is required for the assembly of the beta subunit onto primed DNA; DNA polymerase III subunit delta 693489 holA 7129653 holA Escherichia coli S88 DNA polymerase III subunit delta YP_002390491.1 692458 R 585035 CDS YP_002390492.1 218557579 7128941 complement(693489..694070) 1 NC_011742.1 rare lipoprotein B; involved in the assembly of LPS in the outer membrane; LPS-assembly lipoprotein RlpB 694070 rlpB 7128941 rlpB Escherichia coli S88 LPS-assembly lipoprotein RlpB YP_002390492.1 693489 R 585035 CDS YP_002390493.1 218557580 7132730 complement(694085..696667) 1 NC_011742.1 leucine--tRNA ligase; LeuRS; class-I aminoacyl-tRNA synthetase; charges leucine by linking carboxyl group to alpha-phosphate of ATP and then transfers aminoacyl-adenylate to its tRNA; due to the large number of codons that tRNA(Leu) recognizes, the leucyl-tRNA synthetase does not recognize the anticodon loop of the tRNA, but instead recognition is dependent on a conserved discriminator base A37 and a long arm; an editing domain hydrolyzes misformed products; in Methanothermobacter thermautotrophicus this enzyme associates with prolyl-tRNA synthetase; leucyl-tRNA synthetase 696667 leuS 7132730 leuS Escherichia coli S88 leucyl-tRNA synthetase YP_002390493.1 694085 R 585035 CDS YP_002390494.1 218557581 7130490 696902..697384 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11373298, 12105207, 3320963, 7567469; hypothetical protein 697384 ybeL 7130490 ybeL Escherichia coli S88 hypothetical protein YP_002390494.1 696902 D 585035 CDS YP_002390495.1 218557582 7131208 complement(697429..698364) 1 NC_011742.1 Hydrolyzes with equal efficiency cytidine or uridine to ribose and cytosine or uracil, respectively; pyrimidine-specific; ribonucleoside hydrolase 1 698364 rihA 7131208 rihA Escherichia coli S88 ribonucleoside hydrolase 1 YP_002390495.1 697429 R 585035 CDS YP_002390496.1 218557583 7132720 complement(698482..699207) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11121068; Product type t : transporter; glutamate and aspartate transporter subunit ; ATP-binding component of ABC superfamily 699207 gltL 7132720 gltL Escherichia coli S88 glutamate and aspartate transporter subunit ; ATP-binding component of ABC superfamily YP_002390496.1 698482 R 585035 CDS YP_002390497.1 218557584 7130035 complement(699207..699881) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11121068; Product type t : transporter; glutamate and aspartate transporter subunit ; membrane component of ABC superfamily 699881 gltK 7130035 gltK Escherichia coli S88 glutamate and aspartate transporter subunit ; membrane component of ABC superfamily YP_002390497.1 699207 R 585035 CDS YP_002390498.1 218557585 7130034 complement(699881..700621) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11121068; Product type t : transporter; glutamate and aspartate transporter subunit ; membrane component of ABC superfamily 700621 gltJ 7130034 gltJ Escherichia coli S88 glutamate and aspartate transporter subunit ; membrane component of ABC superfamily YP_002390498.1 699881 R 585035 CDS YP_002390499.1 218557586 7129854 complement(700791..701699) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1091636, 1091635, 10493123, 8740179, 10972807; Product type t : transporter; glutamate and aspartate transporter subunit 701699 gltI 7129854 gltI Escherichia coli S88 glutamate and aspartate transporter subunit YP_002390499.1 700791 R 585035 CDS YP_002390500.1 218557587 7130032 702153..704030 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 704030 7130032 ECS88_0691 Escherichia coli S88 hypothetical protein YP_002390500.1 702153 D 585035 CDS YP_002390501.1 218557588 7130709 complement(704157..705698) 1 NC_011742.1 Transfers the fatty acyl group on membrane lipoproteins; apolipoprotein N-acyltransferase 705698 lnt 7130709 lnt Escherichia coli S88 apolipoprotein N-acyltransferase YP_002390501.1 704157 R 585035 CDS YP_002390502.1 218557589 7129367 complement(705723..706601) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1779764; Product type pt : putative transporter; putative protein involved in divalent ion export 706601 ybeX 7129367 ybeX Escherichia coli S88 putative protein involved in divalent ion export YP_002390502.1 705723 R 585035 CDS YP_002390503.1 218557590 7131210 complement(706691..707158) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16511207; Product type pe : putative enzyme; putative metalloprotease 707158 ybeY 7131210 ybeY Escherichia coli S88 putative metalloprotease YP_002390503.1 706691 R 585035 CDS YP_002390504.1 218557591 7131211 complement(707155..708234) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12762842; Product type pe : putative enzyme; putative enzyme with nucleoside triphosphate hydrolase domain 708234 ybeZ 7131211 ybeZ Escherichia coli S88 putative enzyme with nucleoside triphosphate hydrolase domain YP_002390504.1 707155 R 585035 CDS YP_002390505.1 218557592 7131212 complement(708348..709772) 1 NC_011742.1 catalyzes the formation of 2-methylthio-N6-(dimethylallyl)adenosine (ms(2)i(6)A) at position 37 in tRNAs that read codons beginning with uridine from N6-(dimethylallyl)adenosine (i(6)A); (dimethylallyl)adenosine tRNA methylthiotransferase 709772 miaB 7131212 miaB Escherichia coli S88 (dimethylallyl)adenosine tRNA methylthiotransferase YP_002390505.1 708348 R 585035 CDS YP_002390506.1 218557593 7128832 709918..711093 1 NC_011742.1 catalyzes the formation of 2-octaprenyl-3-methyl-5-hydroxy-6-methoxy-1,4-benzoquinol from 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol; functions in the biosynthesis of ubiquinone or coenzyme Q; 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase 711093 ubiF 7128832 ubiF Escherichia coli S88 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase YP_002390506.1 709918 D 585035 CDS YP_002390508.1 218557595 7132006 complement(712334..713998) 1 NC_011742.1 functions in asparagine biosynthesis; converts glutamine, aspartate, ATP, and water to glutamate, asparagine, pyrophosphate and AMP; asparagine synthetase B 713998 asnB 7132006 asnB Escherichia coli S88 asparagine synthetase B YP_002390508.1 712334 R 585035 CDS YP_002390509.1 218557596 7129947 complement(714254..715006) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16430214, 89343637; Product type e : enzyme; UMP phosphatase 715006 nagD 7129947 nagD Escherichia coli S88 UMP phosphatase YP_002390509.1 714254 R 585035 CDS YP_002390510.1 218557597 7129659 complement(715054..716274) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15066032, 90136533, 91171292, 92114782, 92356048, 2190615, 2668691, 7545108; Product type r : regulator; DNA-binding transcriptional dual regulator, repressor of N-acetylglucosamine 716274 nagC 7129659 nagC Escherichia coli S88 DNA-binding transcriptional dual regulator, repressor of N-acetylglucosamine YP_002390510.1 715054 R 585035 CDS YP_002390511.1 218557598 7129658 complement(716283..717431) 1 NC_011742.1 catalyzes the formation of glucosamine 6-phosphate from N-acetylglucosamine 6-phosphate; N-acetylglucosamine-6-phosphate deacetylase 717431 nagA 7129658 nagA Escherichia coli S88 N-acetylglucosamine-6-phosphate deacetylase YP_002390511.1 716283 R 585035 CDS YP_002390512.1 218557599 7129656 complement(717491..718291) 1 NC_011742.1 catalyzes the reversible formation of fructose 6-phosphate from glucosamine 6-phosphate; glucosamine-6-phosphate deaminase 718291 nagB 7129656 nagB Escherichia coli S88 glucosamine-6-phosphate deaminase YP_002390512.1 717491 R 585035 CDS YP_002390513.1 218557600 7129657 718624..720570 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system N-acetyl glucosamine specific transporter subunits IIABC 720570 nagE 7129657 nagE Escherichia coli S88 PTS system N-acetyl glucosamine specific transporter subunits IIABC YP_002390513.1 718624 D 585035 CDS YP_002390514.1 218557601 7130712 complement(721952..722422) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 722422 7130712 ECS88_0707 Escherichia coli S88 hypothetical protein YP_002390514.1 721952 R 585035 CDS YP_002390515.1 218557602 7130713 complement(722419..723588) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative Glycosyl hydrolase, BNR repeat 723588 7130713 ECS88_0708 Escherichia coli S88 Putative Glycosyl hydrolase, BNR repeat YP_002390515.1 722419 R 585035 CDS YP_002390516.1 218557603 7129532 complement(724434..725321) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative dihydrodipicolinate synthase 725321 dapA 7129532 dapA Escherichia coli S88 putative dihydrodipicolinate synthase YP_002390516.1 724434 R 585035 CDS YP_002390517.1 218557604 7130563 complement(725325..726482) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative alcohol dehydrogenase 726482 7130563 ECS88_0712 Escherichia coli S88 putative alcohol dehydrogenase YP_002390517.1 725325 R 585035 CDS YP_002390518.1 218557605 7130715 726610..727887 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 727887 7130715 ECS88_0713 Escherichia coli S88 hypothetical protein YP_002390518.1 726610 D 585035 CDS YP_002390519.1 218557606 7130716 727880..728866 1 NC_011742.1 catalyzes oxidation of 4-(phosphohydroxy)-L-threonine into 2-amino-3-oxo-4-(phosphohydroxy)butyric acid which decarboxylates to form 1-amino-3-(phosphohydroxy)propan-2-one (3-amino-2-oxopropyl phosphate); 4-hydroxythreonine-4-phosphate dehydrogenase 2 728866 pdxA 7130716 pdxA Escherichia coli S88 4-hydroxythreonine-4-phosphate dehydrogenase 2 YP_002390519.1 727880 D 585035 CDS YP_002390520.1 218557607 7130717 728868..729629 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator, DeoR-family 729629 7130717 ECS88_0715 Escherichia coli S88 putative transcriptional regulator, DeoR-family YP_002390520.1 728868 D 585035 CDS YP_002390521.1 218557608 7130718 729849..731513 1 NC_011742.1 catalyzes a two-step reaction, first charging a glutamine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; glutaminyl-tRNA synthetase 731513 glnS 7130718 glnS Escherichia coli S88 glutaminyl-tRNA synthetase YP_002390521.1 729849 D 585035 CDS YP_002390522.1 218557609 7130014 731962..733368 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2118530, 9636669; Product type pt : putative transporter; putative outer membrane porin 733368 ybfM 7130014 ybfM Escherichia coli S88 putative outer membrane porin YP_002390522.1 731962 D 585035 CDS YP_002390523.1 218557610 7131216 733418..733744 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; putative lipoprotein 733744 ybfN 7131216 ybfN Escherichia coli S88 putative lipoprotein YP_002390523.1 733418 D 585035 CDS YP_002390524.1 218557611 7131217 complement(733828..734274) 1 NC_011742.1 negatively regulates a number of operons that encode enzymes involved in iron transport; activated by manganese; forms a homodimer; ferric uptake regulator 734274 fur 7131217 fur Escherichia coli S88 ferric uptake regulator YP_002390524.1 733828 R 585035 CDS YP_002390525.1 218557612 7132156 734319..734573 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 734573 7132156 ECS88_0720 Escherichia coli S88 hypothetical protein YP_002390525.1 734319 D 585035 CDS YP_002390526.1 218557613 7130719 complement(734563..735093) 1 NC_011742.1 An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin FldA 735093 fldA 7130719 fldA Escherichia coli S88 flavodoxin FldA YP_002390526.1 734563 R 585035 CDS YP_002390527.1 218557614 7129511 complement(735233..735526) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20223640, 12427949; Product type cp : cell process; LexA regulated protein 735526 ybfE 7129511 ybfE Escherichia coli S88 LexA regulated protein YP_002390527.1 735233 R 585035 CDS YP_002390528.1 218557615 7131214 complement(735666..736430) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15808744; Product type pe : putative enzyme; hypothetical protein 736430 ybfF 7131214 ybfF Escherichia coli S88 hypothetical protein YP_002390528.1 735666 R 585035 CDS YP_002390529.1 218557616 7131215 736615..737160 1 NC_011742.1 negative modulator of the initiation of chromosome replication; replication initiation regulator SeqA 737160 seqA 7131215 seqA Escherichia coli S88 replication initiation regulator SeqA YP_002390529.1 736615 D 585035 CDS YP_002390530.1 218557617 7130576 737186..738826 1 NC_011742.1 catalyzes the interconversion of alpha-D-glucose 1-phosphate to alpha-D-glucose 6-phosphate; phosphoglucomutase 738826 pgm 7130576 pgm Escherichia coli S88 phosphoglucomutase YP_002390530.1 737186 D 585035 CDS YP_002390531.1 218557618 7133693 complement(738883..740202) 1 NC_011742.1 catalyzes the uptake of putrescine via a proton symport mechanism, as well as the efflux of putrescine by a putrescine/ornithine antiport system; putrescine transporter 740202 potE 7133693 potE Escherichia coli S88 putrescine transporter YP_002390531.1 738883 R 585035 CDS YP_002390532.1 218557619 7130745 complement(740199..742397) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92041955; Product type e : enzyme; ornithine decarboxylase 742397 speF 7130745 speF Escherichia coli S88 ornithine decarboxylase YP_002390532.1 740199 R 585035 CDS YP_002390533.1 218557620 7130629 complement(743086..743763) 1 NC_011742.1 response regulator in two-component regulatory system with KdpD; regulates the kdp operon involved in potassium transport; DNA-binding transcriptional activator KdpE 743763 kdpE 7130629 kdpE Escherichia coli S88 DNA-binding transcriptional activator KdpE YP_002390533.1 743086 R 585035 CDS YP_002390534.1 218557621 7130444 complement(743760..746444) 1 NC_011742.1 sensory histidine kinase in two-component regulatory system with KdpE; signal sensing protein; sensor protein KdpD 746444 kdpD 7130444 kdpD Escherichia coli S88 sensor protein KdpD YP_002390534.1 743760 R 585035 CDS YP_002390535.1 218557622 7130443 complement(746437..747009) 1 NC_011742.1 One of the components of the high-affinity ATP-driven potassium transport (or KDP)system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions. The C subunit may be involved in assembly of the KDP complex; potassium-transporting ATPase subunit C 747009 kdpC 7130443 kdpC Escherichia coli S88 potassium-transporting ATPase subunit C YP_002390535.1 746437 R 585035 CDS YP_002390536.1 218557623 7130442 complement(747018..749066) 1 NC_011742.1 One of the components of the high-affinity ATP-driven potassium transport (or KDP) system, which catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; potassium-transporting ATPase subunit B 749066 kdpB 7130442 kdpB Escherichia coli S88 potassium-transporting ATPase subunit B YP_002390536.1 747018 R 585035 CDS YP_002390537.1 218557624 7130441 complement(749089..750762) 1 NC_011742.1 catalyzes the hydrolysis of ATP coupled with the exchange of hydrogen and potassium ions; potassium-transporting ATPase subunit A 750762 kdpA 7130441 kdpA Escherichia coli S88 potassium-transporting ATPase subunit A YP_002390537.1 749089 R 585035 CDS YP_002390538.1 218557625 7130440 complement(750762..750965) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 6146979; Product type f : factor; potassium ion accessory transporter subunit 750965 kdpF 7130440 kdpF Escherichia coli S88 potassium ion accessory transporter subunit YP_002390538.1 750762 R 585035 CDS YP_002390539.1 218557626 7130445 751164..751370 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 751370 ybfA 7130445 ybfA Escherichia coli S88 hypothetical protein YP_002390539.1 751164 D 585035 CDS YP_002390540.1 218557627 7131213 751471..751980 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 6325460, 8387990; hypothetical protein 751980 ybgA 7131213 ybgA Escherichia coli S88 hypothetical protein YP_002390540.1 751471 D 585035 CDS YP_002390541.1 218557628 7131218 751977..753395 1 NC_011742.1 UV-induced DNA repair; converts cyclobutane-type pyrimidine dimers created during exposure to UV ratiation to monomers; light dependent; deoxyribodipyrimidine photolyase 753395 phr 7131218 phr Escherichia coli S88 deoxyribodipyrimidine photolyase YP_002390541.1 751977 D 585035 CDS YP_002390542.1 218557629 7133732 complement(753437..754918) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15175316; Product type pt : putative transporter; putative transporter 754918 ybgH 7133732 ybgH Escherichia coli S88 putative transporter YP_002390542.1 753437 R 585035 CDS YP_002390543.1 218557630 7131222 755189..755932 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 14519207; putative hydrolase-oxidase 755932 ybgI 7131222 ybgI Escherichia coli S88 putative hydrolase-oxidase YP_002390543.1 755189 D 585035 CDS YP_002390544.1 218557631 7131223 755955..756611 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase subunit 756611 ybgJ 7131223 ybgJ Escherichia coli S88 putative hydrolase subunit YP_002390544.1 755955 D 585035 CDS YP_002390545.1 218557632 7131224 756605..757537 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase subunit 757537 ybgK 7131224 ybgK Escherichia coli S88 putative hydrolase subunit YP_002390545.1 756605 D 585035 CDS YP_002390546.1 218557633 7131225 757527..758261 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1729609; Product type pe : putative enzyme; LamB/YcsF family protein 758261 ybgL 7131225 ybgL Escherichia coli S88 LamB/YcsF family protein YP_002390546.1 757527 D 585035 CDS YP_002390547.1 218557634 7131226 758297..759088 1 NC_011742.1 5-formyluracil/5-hydroxymethyluracil DNA glycosylase; involved in base excision repair of DNA damaged by oxidation or by mutagenic agents; acts as DNA glycosylase that recognizes and removes damaged bases with a preference for oxidized pyrimidines; has apurinic/apyrimidinic lyase activity; endonuclease VIII 759088 nei 7131226 nei Escherichia coli S88 endonuclease VIII YP_002390547.1 758297 D 585035 CDS YP_002390548.1 218557635 7129692 complement(759085..760131) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8002588; Product type ph : phenotype; hypothetical protein 760131 abrB 7129692 abrB Escherichia coli S88 hypothetical protein YP_002390548.1 759085 R 585035 CDS YP_002390549.1 218557636 7131227 complement(760805..762088) 1 NC_011742.1 type II enzyme; in Escherichia coli this enzyme forms a trimer of dimers which is allosterically inhibited by NADH and competitively inhibited by alpha-ketoglutarate; allosteric inhibition is lost when Cys206 is chemically modified which also affects hexamer formation; forms oxaloacetate and acetyl-CoA and water from citrate and coenzyme A; functions in TCA cycle, glyoxylate cycle and respiration; enzyme from Helicobacter pylori is not inhibited by NADH; type II citrate synthase 762088 gltA 7131227 gltA Escherichia coli S88 type II citrate synthase YP_002390549.1 760805 R 585035 CDS YP_002390550.1 218557637 7130029 762797..763186 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6237244, 89076355, 89123360, 9521736, 99414342, 11259408, 3309132, 6383359, 9822661; Product type m : membrane component; succinate dehydrogenase cytochrome b556 large membrane subunit 763186 sdhC 7130029 sdhC Escherichia coli S88 succinate dehydrogenase cytochrome b556 large membrane subunit YP_002390550.1 762797 D 585035 CDS YP_002390551.1 218557638 7131375 763180..763527 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 82124790, 89076355, 9521736, 99414342, 6383359; Product type m : membrane component; succinate dehydrogenase cytochrome b556 small membrane subunit 763527 sdhD 7131375 sdhD Escherichia coli S88 succinate dehydrogenase cytochrome b556 small membrane subunit YP_002390551.1 763180 D 585035 CDS YP_002390552.1 218557639 7131376 763527..765293 1 NC_011742.1 part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; succinate dehydrogenase flavoprotein subunit 765293 sdhA 7131376 sdhA Escherichia coli S88 succinate dehydrogenase flavoprotein subunit YP_002390552.1 763527 D 585035 CDS YP_002390553.1 218557640 7131373 765309..766025 1 NC_011742.1 part of four member succinate dehydrogenase enzyme complex that forms a trimeric complex (trimer of tetramers); SdhA/B are the catalytic subcomplex and can exhibit succinate dehydrogenase activity in the absence of SdhC/D which are the membrane components and form cytochrome b556; SdhC binds ubiquinone; oxidizes succinate to fumarate while reducing ubiquinone to ubiquinol; the catalytic subunits are similar to fumarate reductase; succinate dehydrogenase iron-sulfur subunit 766025 sdhB 7131373 sdhB Escherichia coli S88 succinate dehydrogenase iron-sulfur subunit YP_002390553.1 765309 D 585035 CDS YP_002390554.1 218557641 7131374 766386..769187 1 NC_011742.1 SucA; E1 component of the oxoglutarate dehydrogenase complex which catalyzes the formation of succinyl-CoA from 2-oxoglutarate; SucA catalyzes the reaction of 2-oxoglutarate with dihydrolipoamide succinyltransferase-lipoate to form dihydrolipoamide succinyltransferase-succinyldihydrolipoate and carbon dioxide; 2-oxoglutarate dehydrogenase E1 component 769187 sucA 7131374 sucA Escherichia coli S88 2-oxoglutarate dehydrogenase E1 component YP_002390554.1 766386 D 585035 CDS YP_002390555.1 218557642 7131233 769202..770419 1 NC_011742.1 component of 2-oxoglutarate dehydrogenase complex; catalyzes the transfer of succinyl coenzyme A to form succinyl CoA as part of the conversion of 2-oxoglutarate to succinyl-CoA; dihydrolipoamide succinyltransferase 770419 sucB 7131233 sucB Escherichia coli S88 dihydrolipoamide succinyltransferase YP_002390555.1 769202 D 585035 CDS YP_002390556.1 218557643 7131235 770513..771679 1 NC_011742.1 catalyzes the interconversion of succinyl-CoA and succinate; succinyl-CoA synthetase subunit beta 771679 sucC 7131235 sucC Escherichia coli S88 succinyl-CoA synthetase subunit beta YP_002390556.1 770513 D 585035 CDS YP_002390557.1 218557644 7131237 771679..772548 1 NC_011742.1 Catalyzes the only substrate-level phosphorylation in the TCA cycle; succinyl-CoA synthetase subunit alpha 772548 sucD 7131237 sucD Escherichia coli S88 succinyl-CoA synthetase subunit alpha YP_002390557.1 771679 D 585035 CDS YP_002390558.1 218557645 7131330 772788..773903 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, TPR repeat protein 773903 7131330 ECS88_0755 Escherichia coli S88 conserved hypothetical protein, TPR repeat protein YP_002390558.1 772788 D 585035 CDS YP_002390559.1 218557646 7130720 775233..776801 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87299685, 89255232, 91035243, 1689724, 1724280, 2843510, 3138232; Product type c : carrier; cytochrome d terminal oxidase, subunit I 776801 cydA 7130720 cydA Escherichia coli S88 cytochrome d terminal oxidase, subunit I YP_002390559.1 775233 D 585035 CDS YP_002390560.1 218557647 7130524 776817..777956 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87299685, 89255232, 91035243, 2843510, 3138232; Product type c : carrier; cytochrome d terminal oxidase, subunit II 777956 cydB 7130524 cydB Escherichia coli S88 cytochrome d terminal oxidase, subunit II YP_002390560.1 776817 D 585035 CDS YP_002390561.1 218557648 7130525 778084..778377 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 778377 ybgE 7130525 ybgE Escherichia coli S88 hypothetical protein YP_002390561.1 778084 D 585035 CDS YP_002390562.1 218557649 7131220 778527..778931 1 NC_011742.1 catalyzes the hydrolysis of short chain aliphatic acyl-CoA thioesters; physiological role remains unknown; involved in phospholipid metabolism; part of the Tol/Pal system of proteins that are critical for maintaining the integrity of the cell envelope components; acyl-CoA thioester hydrolase YbgC 778931 ybgC 7131220 ybgC Escherichia coli S88 acyl-CoA thioester hydrolase YbgC YP_002390562.1 778527 D 585035 CDS YP_002390563.1 218557650 7131219 778928..779620 1 NC_011742.1 membrane spanning protein in TolA-TolQ-TolR complex; involved in the tonB-independent uptake of group A colicins; colicin uptake protein TolQ 779620 tolQ 7131219 tolQ Escherichia coli S88 colicin uptake protein TolQ YP_002390563.1 778928 D 585035 CDS YP_002390564.1 218557651 7133487 779624..780052 1 NC_011742.1 membrane spanning protein in TolA-TolQ-TolR complex; involved in the tonB-independent uptake of group A colicins; colicin uptake protein TolR 780052 tolR 7133487 tolR Escherichia coli S88 colicin uptake protein TolR YP_002390564.1 779624 D 585035 CDS YP_002390565.1 218557652 7133488 780117..781367 1 NC_011742.1 inner membrane component of 7 member Tol-Pal envelope-spanning complex; involved in maintaining cell envelope integrity; utilized by colicins and filamentous phages for import; interacts with TolB, Pal, and through TolB to various outer membrane porins; cell envelope integrity inner membrane protein TolA 781367 tolA 7133488 tolA Escherichia coli S88 cell envelope integrity inner membrane protein TolA YP_002390565.1 780117 D 585035 CDS YP_002390566.1 218557653 7133484 781500..782792 1 NC_011742.1 forms dimers; may be involved in cell envelope integrity; interacts with outer membrane proteins and with the C-terminal domain of inner membrane protein TolA; translocation protein TolB 782792 tolB 7133484 tolB Escherichia coli S88 translocation protein TolB YP_002390566.1 781500 D 585035 CDS YP_002390567.1 218557654 7133485 782827..783348 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11790745, 87133578, 92244043, 99403391, 11173492, 2687247; Product type lp : lipoprotein; peptidoglycan-associated outer membrane lipoprotein 783348 pal 7133485 pal Escherichia coli S88 peptidoglycan-associated outer membrane lipoprotein YP_002390567.1 782827 D 585035 CDS YP_002390568.1 218557655 7133156 783358..784149 1 NC_011742.1 periplasmic protein that interacts with TolA; the tol-pal system is probably involved in maintaining cell envelope integrity; tol-pal system protein YbgF 784149 ybgF 7133156 ybgF Escherichia coli S88 tol-pal system protein YbgF YP_002390568.1 783358 D 585035 CDS YP_002390569.1 218557656 7129874 785295..786338 1 NC_011742.1 3 different subfamilies; catalyzes the formation of quinolinate from iminoaspartate and dihydroxyacetone phosphate; quinolinate synthetase 786338 nadA 7129874 nadA Escherichia coli S88 quinolinate synthetase YP_002390569.1 785295 D 585035 CDS YP_002390570.1 218557657 7129650 786376..787095 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 219824, 90330519; Product type t : transporter; nicotinamide mononucleotide transporter 787095 pnuC 7129650 pnuC Escherichia coli S88 nicotinamide mononucleotide transporter YP_002390570.1 786376 D 585035 CDS YP_002390571.1 218557658 7130578 complement(787092..788033) 1 NC_011742.1 involved in zinc efflux across the cytoplasmic membrane; zinc transporter ZitB 788033 zitB 7130578 zitB Escherichia coli S88 zinc transporter ZitB YP_002390571.1 787092 R 585035 CDS YP_002390572.1 218557659 7131885 complement(788147..788527) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 788527 ybgS 7131885 ybgS Escherichia coli S88 hypothetical protein YP_002390572.1 788147 R 585035 CDS YP_002390573.1 218557660 7130086 788843..789895 1 NC_011742.1 catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, phenylalanine sensitive; phospho-2-dehydro-3-deoxyheptonate aldolase 789895 aroG 7130086 aroG Escherichia coli S88 phospho-2-dehydro-3-deoxyheptonate aldolase YP_002390573.1 788843 D 585035 CDS YP_002390574.1 218557661 7129927 complement(790062..790814) 1 NC_011742.1 2,3-bisphosphoglycerate-dependent; catalyzes the interconversion of 2-phosphoglycerate to 3-phosphoglycerate; phosphoglyceromutase 790814 gpmA 7129927 gpmA Escherichia coli S88 phosphoglyceromutase YP_002390574.1 790062 R 585035 CDS YP_002390575.1 218557662 7130061 complement(791017..792057) 1 NC_011742.1 catalyzes the conversion of alpha-aldose to the beta-anomer; active on D-glucose, L-arabinose, D-xylose, D-galactose, maltose and lactose; links the metabolism of lactose and galactose; aldose 1-epimerase 792057 galM 7130061 galM Escherichia coli S88 aldose 1-epimerase YP_002390575.1 791017 R 585035 CDS YP_002390576.1 218557663 7132173 complement(792051..793199) 1 NC_011742.1 catalyzes the formation of alpha-D-galactose 1-phosphate from D-galactose in galactose metabolism; galactokinase 793199 galK 7132173 galK Escherichia coli S88 galactokinase YP_002390576.1 792051 R 585035 CDS YP_002390577.1 218557664 7132172 complement(793203..794249) 1 NC_011742.1 catalyzes the interconversion of UDP-galactose and galactose-1-P with UDP-galactose and glucose-1-P; galactose-1-phosphate uridylyltransferase 794249 galT 7132172 galT Escherichia coli S88 galactose-1-phosphate uridylyltransferase YP_002390577.1 793203 R 585035 CDS YP_002390578.1 218557665 7132177 complement(794259..795275) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89274199, 92253563, 92338916, 3022232, 6301942, 8564363, 8611559, 8931134, 9174344, 9271499, 9708982; Product type e : enzyme; UDP-galactose-4-epimerase 795275 galE 7132177 galE Escherichia coli S88 UDP-galactose-4-epimerase YP_002390578.1 794259 R 585035 CDS YP_002390579.1 218557666 7132170 complement(795538..797010) 1 NC_011742.1 contains 2 ATP-binding cassettes; involved in the transport of molybdenum; putative molybdenum transport ATP-binding protein ModF 797010 modF 7132170 modF Escherichia coli S88 putative molybdenum transport ATP-binding protein ModF YP_002390579.1 795538 R 585035 CDS YP_002390580.1 218557667 7128860 complement(797078..797866) 1 NC_011742.1 represses the modABCD operon and activates the moaABCD and napFDAGHBC operons; DNA-binding transcriptional regulator ModE 797866 modE 7128860 modE Escherichia coli S88 DNA-binding transcriptional regulator ModE YP_002390580.1 797078 R 585035 CDS YP_002390581.1 218557668 7128859 797995..798144 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 798144 ybhT 7128859 ybhT Escherichia coli S88 hypothetical protein YP_002390581.1 797995 D 585035 CDS YP_002390582.1 218557669 7130106 798311..799084 1 NC_011742.1 with ModCB is involved in the high-affinity transport of molybdate; molybdate transporter periplasmic protein 799084 modA 7130106 modA Escherichia coli S88 molybdate transporter periplasmic protein YP_002390582.1 798311 D 585035 CDS YP_002390583.1 218557670 7128855 799084..799773 1 NC_011742.1 part of ModCBA molybdate transporter; member of ABC superfamily; inner membrane component; regulated by repressor protein ModE; molybdate ABC transporter permease protein 799773 modB 7128855 modB Escherichia coli S88 molybdate ABC transporter permease protein YP_002390583.1 799084 D 585035 CDS YP_002390584.1 218557671 7128856 799776..800834 1 NC_011742.1 Part of the ABC transporter complex modABC involved in molybdenum import; molybdate transporter ATP-binding protein 800834 modC 7128856 modC Escherichia coli S88 molybdate transporter ATP-binding protein YP_002390584.1 799776 D 585035 CDS YP_002390585.1 218557672 7128857 complement(800835..801653) 1 NC_011742.1 YbhA; catalyzes the dephosphorylation of pyridoxal phosphate, fructose 1,6-bisphosphate, erythrose 4-phosphate and p-nitrophenyl phosphate; purine and pyrimidine nucleotides are secondary substrates; phosphotransferase activity observed when using monophosphates as phosphate donor; member of the haloacid dehalogenase-like hydrolases superfamily; phosphotransferase 801653 ybhA 7128857 ybhA Escherichia coli S88 phosphotransferase YP_002390585.1 800835 R 585035 CDS YP_002390586.1 218557673 7130087 801808..802803 1 NC_011742.1 catalyzes the hydrolysis of 6-phosphogluconolactone to 6-phosphogluconate; 6-phosphogluconolactonase 802803 pgl 7130087 pgl Escherichia coli S88 6-phosphogluconolactonase YP_002390586.1 801808 D 585035 CDS YP_002390587.1 218557674 7133692 complement(802844..803860) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 803860 ybhD 7133692 ybhD Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390587.1 802844 R 585035 CDS YP_002390588.1 218557675 7130090 803981..805033 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 805033 ybhH 7130090 ybhH Escherichia coli S88 hypothetical protein YP_002390588.1 803981 D 585035 CDS YP_002390589.1 218557676 7130095 806725..808986 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11782506; Product type pe : putative enzyme; hypothetical protein 808986 ybhJ 7130095 ybhJ Escherichia coli S88 hypothetical protein YP_002390589.1 806725 D 585035 CDS YP_002390590.1 218557677 7130096 complement(809127..810410) 1 NC_011742.1 outer membrane lipoprotein that catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA; YbhC localizes to the cellular poles; member of pectinesterase family; putative pectinesterase 810410 ybhC 7130096 ybhC Escherichia coli S88 putative pectinesterase YP_002390590.1 809127 R 585035 CDS YP_002390591.1 218557678 7130089 complement(810562..811038) 1 NC_011742.1 YbhB; similar to rat and human kinase inhibitory proteins; putative kinase inhibitor protein 811038 ybhB 7130089 ybhB Escherichia coli S88 putative kinase inhibitor protein YP_002390591.1 810562 R 585035 CDS YP_002390592.1 218557679 7130088 complement(811097..812386) 1 NC_011742.1 catalyzes the formation of S-adenosyl-4-methylthionine-2-oxobutanoate and 7,8-diaminononanoate from S-adenosyl-L-methionine and 8-amino-7-oxononanoate; adenosylmethionine--8-amino-7-oxononanoate transaminase 812386 bioA 7130088 bioA Escherichia coli S88 adenosylmethionine--8-amino-7-oxononanoate transaminase YP_002390592.1 811097 R 585035 CDS YP_002390593.1 218557680 7129120 812473..813513 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11834738, 12475249, 14704425, 14967041, 20250955, 89066784, 94170810, 94190882, 97382445, 11686925; Product type e : enzyme; biotin synthase 813513 bioB 7129120 bioB Escherichia coli S88 biotin synthase YP_002390593.1 812473 D 585035 CDS YP_002390594.1 218557681 7129121 813510..814664 1 NC_011742.1 catalyzes the formation of 8-amino-7-oxononanoate from 6-carboxyhexanoyl-CoA and L-alanine; 8-amino-7-oxononanoate synthase 814664 bioF 7129121 bioF Escherichia coli S88 8-amino-7-oxononanoate synthase YP_002390594.1 813510 D 585035 CDS YP_002390595.1 218557682 7129124 814651..815406 1 NC_011742.1 putative methyltransferase; acyl carrier protein involved in an unidentified step in the synthesis of pimeloyl-CoA, a biotin precursor; member of the bio operon (bioABFCD); in Escherichia coli, bioC-null mutants require biotin for growth; biotin biosynthesis protein BioC 815406 bioC 7129124 bioC Escherichia coli S88 biotin biosynthesis protein BioC YP_002390595.1 814651 D 585035 CDS YP_002390596.1 218557683 7129122 815399..816076 1 NC_011742.1 DTB synthetase; dethiobiotin synthase; involved in production of dethiobiotin from ATP and 7,8-diaminononanoate and carbon dioxide; contains magnesium; dithiobiotin synthetase 816076 bioD 7129122 bioD Escherichia coli S88 dithiobiotin synthetase YP_002390596.1 815399 D 585035 CDS YP_002390597.1 218557684 7129123 816655..818676 1 NC_011742.1 The UvrABC repair system catalyzes the recognition and processing of DNA lesions. The beta-hairpin of the Uvr-B subunit is inserted between the strands, where it probes for the presence of a lesion; excinuclease ABC subunit B 818676 uvrB 7129123 uvrB Escherichia coli S88 excinuclease ABC subunit B YP_002390597.1 816655 D 585035 CDS YP_002390598.1 218557685 7132459 complement(818714..819622) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16272399; Product type pe : putative enzyme; putative transferase with NAD(P)-binding Rossmann-fold domain; UPF0052 family 819622 ybhK 7132459 ybhK Escherichia coli S88 putative transferase with NAD(P)-binding Rossmann-fold domain; UPF0052 family YP_002390598.1 818714 R 585035 CDS YP_002390599.1 218557686 7130097 820019..821008 1 NC_011742.1 together with moaC, is involved in the conversion of a guanosine derivative (GXP) into molybdopterin precursor Z; molybdenum cofactor biosynthesis protein A 821008 moaA 7130097 moaA Escherichia coli S88 molybdenum cofactor biosynthesis protein A YP_002390599.1 820019 D 585035 CDS YP_002390600.1 218557687 7128848 821030..821542 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93368423; Product type pf : putative factor; molybdopterin biosynthesis protein B 821542 moaB 7128848 moaB Escherichia coli S88 molybdopterin biosynthesis protein B YP_002390600.1 821030 D 585035 CDS YP_002390601.1 218557688 7128849 821545..822030 1 NC_011742.1 MoaC; along with MoaA is involved in conversion of a guanosine derivative into molybdopterin precursor Z; involved in molybdenum cofactor biosynthesis; molybdenum cofactor biosynthesis protein MoaC 822030 moaC 7128849 moaC Escherichia coli S88 molybdenum cofactor biosynthesis protein MoaC YP_002390601.1 821545 D 585035 CDS YP_002390602.1 218557689 7128850 822023..822268 1 NC_011742.1 catalyzes the conversion of molybdopterin precursor Z into molybdopterin; molybdopterin synthase small subunit 822268 moaD 7128850 moaD Escherichia coli S88 molybdopterin synthase small subunit YP_002390602.1 822023 D 585035 CDS YP_002390603.1 218557690 7128851 822270..822722 1 NC_011742.1 catalyzes the conversion of molybdopterin precursor Z into molybdopterin; molybdopterin guanine dinucleotide biosynthesis protein MoaE 822722 moaE 7128851 moaE Escherichia coli S88 molybdopterin guanine dinucleotide biosynthesis protein MoaE YP_002390603.1 822270 D 585035 CDS YP_002390604.1 218557691 7128852 822859..823563 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 823563 ybhL 7128852 ybhL Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390604.1 822859 D 585035 CDS YP_002390605.1 218557692 7130098 823769..824482 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 824482 ybhM 7130098 ybhM Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390605.1 823769 D 585035 CDS YP_002390606.1 218557693 7130099 complement(824518..825474) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 825474 ybhN 7130099 ybhN Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390606.1 824518 R 585035 CDS YP_002390607.1 218557694 7130100 complement(825474..826715) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20102623, 10634942; Product type e : enzyme; cardiolipin synthase 2 826715 ybhO 7130100 ybhO Escherichia coli S88 cardiolipin synthase 2 YP_002390607.1 825474 R 585035 CDS YP_002390608.1 218557695 7130101 complement(826712..827473) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative metal-dependent hydrolase 827473 ybhP 7130101 ybhP Escherichia coli S88 putative metal-dependent hydrolase YP_002390608.1 826712 R 585035 CDS YP_002390609.1 218557696 7130102 827606..828016 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 828016 ybhQ 7130102 ybhQ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390609.1 827606 D 585035 CDS YP_002390610.1 218557697 7130103 complement(827978..829084) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter subunit: permease component of ABC superfamily 829084 ybhR 7130103 ybhR Escherichia coli S88 putative transporter subunit: permease component of ABC superfamily YP_002390610.1 827978 R 585035 CDS YP_002390611.1 218557698 7130104 complement(829095..830228) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter subunit: permease component of ABC superfamily 830228 ybhS 7130104 ybhS Escherichia coli S88 putative transporter subunit: permease component of ABC superfamily YP_002390611.1 829095 R 585035 CDS YP_002390612.1 218557699 7130105 complement(830221..831957) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter fused subunits of ABC superfamily: ATP-binding components 831957 ybhF 7130105 ybhF Escherichia coli S88 putative transporter fused subunits of ABC superfamily: ATP-binding components YP_002390612.1 830221 R 585035 CDS YP_002390613.1 218557700 7130091 complement(831950..832948) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16092522; Product type pt : putative transporter; hypothetical protein 832948 ybhG 7130091 ybhG Escherichia coli S88 hypothetical protein YP_002390613.1 831950 R 585035 CDS YP_002390614.1 218557701 7130092 complement(832948..833619) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 833619 ybiH 7130092 ybiH Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390614.1 832948 R 585035 CDS YP_002390615.1 218557702 7130110 833848..835209 1 NC_011742.1 this helicase is not essential cell growth; ATP-dependent RNA helicase RhlE 835209 rhlE 7130110 rhlE Escherichia coli S88 ATP-dependent RNA helicase RhlE YP_002390615.1 833848 D 585035 CDS YP_002390616.1 218557703 7132708 complement(835442..835747) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 835747 ybiA 7132708 ybiA Escherichia coli S88 hypothetical protein YP_002390616.1 835442 R 585035 CDS YP_002390617.1 218557704 7130107 835746..837896 1 NC_011742.1 helicase involved in DNA repair and perhaps also replication; ATP-dependent DNA helicase DinG 837896 dinG 7130107 dinG Escherichia coli S88 ATP-dependent DNA helicase DinG YP_002390617.1 835746 D 585035 CDS YP_002390618.1 218557705 7130208 837924..838886 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; glycosyl transferase family protein 838886 ybiB 7130208 ybiB Escherichia coli S88 glycosyl transferase family protein YP_002390618.1 837924 D 585035 CDS YP_002390619.1 218557706 7130108 839027..840112 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8405966; Product type pe : putative enzyme; hypothetical protein 840112 ybiC 7130108 ybiC Escherichia coli S88 hypothetical protein YP_002390619.1 839027 D 585035 CDS YP_002390620.1 218557707 7130109 complement(840340..840600) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 840600 ybiJ 7130109 ybiJ Escherichia coli S88 hypothetical protein YP_002390620.1 840340 R 585035 CDS YP_002390621.1 218557708 7130112 complement(840865..841131) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 841131 ybiI 7130112 ybiI Escherichia coli S88 hypothetical protein YP_002390621.1 840865 R 585035 CDS YP_002390622.1 218557709 7130111 complement(841205..841882) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; putative hydroxylase 841882 ybiX 7130111 ybiX Escherichia coli S88 putative hydroxylase YP_002390622.1 841205 R 585035 CDS YP_002390623.1 218557710 7130122 complement(842098..844380) 1 NC_011742.1 Fiu; YbiL; porin involved in the uptake of iron complexed with catecholate siderophores (e.g. dihydroxybenzoylserine, dihydroxybenzoate) and beta lactam agents; Fiu interacts with TonB which provides the energy required for transport across the outer membrane; acts as a receptor for iron-siderophores and microcins E492, M, and H47; outer membrane protein; catecholate siderophore receptor Fiu 844380 fiu 7130122 fiu Escherichia coli S88 catecholate siderophore receptor Fiu YP_002390623.1 842098 R 585035 CDS YP_002390624.1 218557711 7129503 complement(844645..845049) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 845049 ybiM 7129503 ybiM Escherichia coli S88 hypothetical protein YP_002390624.1 844645 R 585035 CDS YP_002390625.1 218557712 7130113 845181..846107 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative SAM-dependent methyltransferase 846107 ybiN 7130113 ybiN Escherichia coli S88 putative SAM-dependent methyltransferase YP_002390625.1 845181 D 585035 CDS YP_002390626.1 218557713 7130114 complement(846104..848329) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; hypothetical protein 848329 ybiO 7130114 ybiO Escherichia coli S88 hypothetical protein YP_002390626.1 846104 R 585035 CDS YP_002390627.1 218557714 7130115 complement(848446..849168) 1 NC_011742.1 similar to ATP-binding component of ABC transporters; glutamine ABC transporter ATP-binding protein 849168 glnQ 7130115 glnQ Escherichia coli S88 glutamine ABC transporter ATP-binding protein YP_002390627.1 848446 R 585035 CDS YP_002390628.1 218557715 7130013 complement(849165..849824) 1 NC_011742.1 similar to permease component of ABC transporters; mutations impair ability of Escherichia coli to transport and utilize glutamine; glutamine ABC transporter permease protein 849824 glnP 7130013 glnP Escherichia coli S88 glutamine ABC transporter permease protein YP_002390628.1 849165 R 585035 CDS YP_002390629.1 218557716 7130012 complement(849963..850709) 1 NC_011742.1 similar to periplasmic-binding component of ABC transporters; glutamine ABC transporter periplasmic protein 850709 glnH 7130012 glnH Escherichia coli S88 glutamine ABC transporter periplasmic protein YP_002390629.1 849963 R 585035 CDS YP_002390630.1 218557717 7130009 complement(851113..851616) 1 NC_011742.1 binds DNA in a non-sequence-specific manner and is abundant during stationary phase; forms a DNA-protein crystal that protects DNA from damage; required for normal starvation response and long-term stationary viability; forms a homododecameric complex and sequesters iron which provides protection against oxidative damage; DNA starvation/stationary phase protection protein Dps 851616 dps 7130009 dps Escherichia coli S88 DNA starvation/stationary phase protection protein Dps YP_002390630.1 851113 R 585035 CDS YP_002390631.1 218557718 7130237 complement(851915..852802) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12648727, 8021175; Product type t : transporter; threonine and homoserine efflux system 852802 rhtA 7130237 rhtA Escherichia coli S88 threonine and homoserine efflux system YP_002390631.1 851915 R 585035 CDS YP_002390632.1 218557719 7132711 853155..853670 1 NC_011742.1 OmpX; involved in cell adhesion; forms an eight-stranded antiparallel beta-barrel that protrudes from the cell surface; mutations in the gene increase cell-surface contact in fimbriated strains but decrease contact in nonfimbriated strains; outer membrane protein X 853670 ompX 7132711 ompX Escherichia coli S88 outer membrane protein X YP_002390632.1 853155 D 585035 CDS YP_002390633.1 218557720 7133132 complement(853720..855303) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16514146; Product type pe : putative enzyme; putative enzyme, UPF0141 family, inner membrane 855303 ybiP 7133132 ybiP Escherichia coli S88 putative enzyme, UPF0141 family, inner membrane YP_002390633.1 853720 R 585035 CDS YP_002390634.1 218557721 7130116 complement(855575..855703) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 855703 7130116 ECS88_0834 Escherichia coli S88 hypothetical protein YP_002390634.1 855575 R 585035 CDS YP_002390635.1 218557722 7131327 855889..856356 1 NC_011742.1 Transcriptional regulator that represses the manganese transporter MntH when manganese is present; manganese transport regulator MntR 856356 mntR 7131327 mntR Escherichia coli S88 manganese transport regulator MntR YP_002390635.1 855889 D 585035 CDS YP_002390636.1 218557723 7128847 856353..857471 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 857471 ybiR 7128847 ybiR Escherichia coli S88 putative transporter YP_002390636.1 856353 D 585035 CDS YP_002390637.1 218557724 7130117 complement(857529..858449) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 10493123, 9298646; hypothetical protein 858449 ybiS 7130117 ybiS Escherichia coli S88 hypothetical protein YP_002390637.1 857529 R 585035 CDS YP_002390638.1 218557725 7130118 858668..860260 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11916677; Product type pt : putative transporter; putative transporter fused subunits of ABC superfamily: ATP-binding components 860260 ybiT 7130118 ybiT Escherichia coli S88 putative transporter fused subunits of ABC superfamily: ATP-binding components YP_002390638.1 858668 D 585035 CDS YP_002390639.1 218557726 7130119 complement(860460..861275) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15657928; Product type e : enzyme; type II HAD phosphatase 861275 ybiV 7130119 ybiV Escherichia coli S88 type II HAD phosphatase YP_002390639.1 860460 R 585035 CDS YP_002390640.1 218557727 7130120 complement(861421..863853) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16218870; Product type pe : putative enzyme; putative glycyl radical cofactor protein 863853 ybiW 7130120 ybiW Escherichia coli S88 putative glycyl radical cofactor protein YP_002390640.1 861421 R 585035 CDS YP_002390641.1 218557728 7130121 complement(863859..864758) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15581584; Product type pe : putative enzyme; putative AdoMet-dependent glycyl radical activating enzyme 864758 ybiY 7130121 ybiY Escherichia coli S88 putative AdoMet-dependent glycyl radical activating enzyme YP_002390641.1 863859 R 585035 CDS YP_002390642.1 218557729 7130123 864889..865551 1 NC_011742.1 similar to transaldolase from Escherichia coli; many organisms have multiple copies; fructose-6-phosphate aldolase 865551 fsaA 7130123 fsaA Escherichia coli S88 fructose-6-phosphate aldolase YP_002390642.1 864889 D 585035 CDS YP_002390643.1 218557730 7132842 complement(865627..866376) 1 NC_011742.1 ATP-dependent adenylate transferase, transfers adenyl moiety to the MoeD subunit of molybdopterin synthase; molybdopterin biosynthesis protein MoeB 866376 moeB 7132842 moeB Escherichia coli S88 molybdopterin biosynthesis protein MoeB YP_002390643.1 865627 R 585035 CDS YP_002390644.1 218557731 7128862 complement(866376..867611) 1 NC_011742.1 is involved in the formation of active molybdenum cofactor and the chelation of molybdenum; molybdopterin biosynthesis protein MoeA 867611 moeA 7128862 moeA Escherichia coli S88 molybdopterin biosynthesis protein MoeA YP_002390644.1 866376 R 585035 CDS YP_002390645.1 218557732 7128861 867815..868780 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15159592, 20508248, 3045084, 7984428; Product type e : enzyme; L-asparaginase 868780 iaaA 7128861 iaaA Escherichia coli S88 L-asparaginase YP_002390645.1 867815 D 585035 CDS YP_002390646.1 218557733 7131601 868800..870638 1 NC_011742.1 with GsiBCD is involved in glutathione import; GsiA contains 2 ATP-binding domains; glutathione transporter ATP-binding protein 870638 yliA 7131601 yliA Escherichia coli S88 glutathione transporter ATP-binding protein YP_002390646.1 868800 D 585035 CDS YP_002390647.1 218557734 7131108 870658..872196 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 17366475; Product type pt : putative transporter; putative peptide transporter subunit: periplasmic-binding component of ABC superfamily 872196 yliB 7131108 yliB Escherichia coli S88 putative peptide transporter subunit: periplasmic-binding component of ABC superfamily YP_002390647.1 870658 D 585035 CDS YP_002390648.1 218557735 7131109 872214..873134 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative peptide transporter permease subunit: membrane component of ABC superfamily 873134 yliC 7131109 yliC Escherichia coli S88 putative peptide transporter permease subunit: membrane component of ABC superfamily YP_002390648.1 872214 D 585035 CDS YP_002390649.1 218557736 7131110 873137..874048 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative peptide transporter permease subunit: membrane component of ABC superfamily 874048 yliD 7131110 yliD Escherichia coli S88 putative peptide transporter permease subunit: membrane component of ABC superfamily YP_002390649.1 873137 D 585035 CDS YP_002390650.1 218557737 7131111 874225..876573 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 876573 yliE 7131111 yliE Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390650.1 874225 D 585035 CDS YP_002390651.1 218557738 7131112 876581..877909 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15380559; Product type pe : putative enzyme; putative diguanylate cyclase 877909 yliF 7131112 yliF Escherichia coli S88 putative diguanylate cyclase YP_002390651.1 876581 D 585035 CDS YP_002390652.1 218557739 7131113 complement(877956..879281) 1 NC_011742.1 catalyzes the methylthiolation of an aspartic acid residue of the S12 protein of the 30S ribosomal subunit; ribosomal protein S12 methylthiotransferase 879281 rimO 7131113 rimO Escherichia coli S88 ribosomal protein S12 methylthiotransferase YP_002390652.1 877956 R 585035 CDS YP_002390653.1 218557740 7131114 879494..879877 1 NC_011742.1 BssS; regulator of biofilm through signal secretion; disruption of this gene in Escherichia coli led to effects on biofilm formation, alteration in expression of a number of genes and mutations in bssS led to defects in indole transport and autoinducer-2 uptake and processing; biofilm formation regulatory protein BssR 879877 bssR 7131114 bssR Escherichia coli S88 biofilm formation regulatory protein BssR YP_002390653.1 879494 D 585035 CDS YP_002390654.1 218557741 7129134 879988..881103 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16522795, 16864586; Product type e : enzyme; PQQ-dependent aldose sugar dehydrogenase precursor (asd) 881103 yliI 7129134 yliI Escherichia coli S88 PQQ-dependent aldose sugar dehydrogenase precursor (asd) YP_002390654.1 879988 D 585035 CDS YP_002390655.1 218557742 7131115 complement(881100..881726) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative glutathione S-transferase 881726 yliJ 7131115 yliJ Escherichia coli S88 putative glutathione S-transferase YP_002390655.1 881100 R 585035 CDS YP_002390656.1 218557743 7131116 881973..883175 1 NC_011742.1 penicillin-binding protein 6a; removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; one of four, DD-carboxypeptidase low-molecular weight penicillin-binding proteins that remove terminal D-alanine from pentapeptide side chains; D-alanyl-D-alanine carboxypeptidase fraction C 883175 dacC 7131116 dacC Escherichia coli S88 D-alanyl-D-alanine carboxypeptidase fraction C YP_002390656.1 881973 D 585035 CDS YP_002390657.1 218557744 7130555 complement(883222..883980) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89231635, 89336786, 92231401, 2994018; Product type r : regulator; DNA-binding transcriptional repressor DeoR 883980 deoR 7130555 deoR Escherichia coli S88 DNA-binding transcriptional repressor DeoR YP_002390657.1 883222 R 585035 CDS YP_002390658.1 218557745 7130188 complement(884038..884634) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15778224; Product type e : enzyme; undecaprenyl pyrophosphate phosphatase 884634 ybjG 7130188 ybjG Escherichia coli S88 undecaprenyl pyrophosphate phosphatase YP_002390658.1 884038 R 585035 CDS YP_002390659.1 218557746 7130127 884919..886151 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10022825, 12578981, 14688269, 21217867, 21450803, 9079913, 9644262, 99030337, 8655497; Product type t : transporter; multidrug efflux system protein 886151 cmr 7130127 cmr Escherichia coli S88 multidrug efflux system protein YP_002390659.1 884919 D 585035 CDS YP_002390660.1 218557747 7131935 complement(886192..886458) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 886458 ybjH 7131935 ybjH Escherichia coli S88 hypothetical protein YP_002390660.1 886192 R 585035 CDS YP_002390661.1 218557748 7130128 complement(886543..887358) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15808744; Product type pe : putative enzyme; putative phosphatase 887358 ybjI 7130128 ybjI Escherichia coli S88 putative phosphatase YP_002390661.1 886543 R 585035 CDS YP_002390662.1 218557749 7130129 complement(887358..888566) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 888566 ybjJ 7130129 ybjJ Escherichia coli S88 putative transporter YP_002390662.1 887358 R 585035 CDS YP_002390663.1 218557750 7130130 888650..889186 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 889186 ybjK 7130130 ybjK Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390663.1 888650 D 585035 CDS YP_002390664.1 218557751 7131328 complement(889361..891046) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; hypothetical protein 891046 ybjL 7131328 ybjL Escherichia coli S88 hypothetical protein YP_002390664.1 889361 R 585035 CDS YP_002390665.1 218557752 7130132 891316..891693 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 891693 ybjM 7130132 ybjM Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390665.1 891316 D 585035 CDS YP_002390666.1 218557753 7130133 complement(891723..891980) 1 NC_011742.1 functions as an electron carrier in the glutathione-dependent synthesis of deoxyribonucleotides by the enzyme ribonucleotide reductase; also involved in reducing some disulfides in a coupled system with glutathione reductase; glutaredoxin 1 891980 grxA 7130133 grxA Escherichia coli S88 glutaredoxin 1 YP_002390666.1 891723 R 585035 CDS YP_002390667.1 218557754 7130073 892140..892427 1 NC_011742.1 YbjC; located in the same operon as the nfsA gene; member of the soxRS regulon which mediates in part the increased levels of superoxide in response to oxidative stress; induced by paraquat; regulated by SoxS; unknown function; hypothetical protein 892427 ybjC 7130073 ybjC Escherichia coli S88 hypothetical protein YP_002390667.1 892140 D 585035 CDS YP_002390668.1 218557755 7130124 892411..893133 1 NC_011742.1 NADPH-dependent; oxygen-insensitive; catalyzes the reduction of nitroaromatic compounds; nitroreductase A 893133 nfsA 7130124 nfsA Escherichia coli S88 nitroreductase A YP_002390668.1 892411 D 585035 CDS YP_002390669.1 218557756 7129705 893194..894096 1 NC_011742.1 responsible for the addition of glutamate residues to the C-terminus of ribosomal protein S6; ribosomal protein S6 modification protein 894096 rimK 7129705 rimK Escherichia coli S88 ribosomal protein S6 modification protein YP_002390669.1 893194 D 585035 CDS YP_002390670.1 218557757 7132725 894184..894660 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 894660 ybjN 7132725 ybjN Escherichia coli S88 hypothetical protein YP_002390670.1 894184 D 585035 CDS YP_002390671.1 218557758 7130134 895010..896122 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93106992, 9651355, 9298646, 8416922; Product type t : transporter; putrescine transporter subunit: periplasmic-binding component of ABC superfamily 896122 potF 7130134 potF Escherichia coli S88 putrescine transporter subunit: periplasmic-binding component of ABC superfamily YP_002390671.1 895010 D 585035 CDS YP_002390672.1 218557759 7130746 896319..897350 1 NC_011742.1 part of the PotFGHI ATP-dependent putrescine transporter; putrescine transporter ATP-binding subunit 897350 potG 7130746 potG Escherichia coli S88 putrescine transporter ATP-binding subunit YP_002390672.1 896319 D 585035 CDS YP_002390673.1 218557760 7130747 897360..898313 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93106992; Product type t : transporter; putrescine transporter subunit: membrane component of ABC superfamily 898313 potH 7130747 potH Escherichia coli S88 putrescine transporter subunit: membrane component of ABC superfamily YP_002390673.1 897360 D 585035 CDS YP_002390674.1 218557761 7130748 898310..899155 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93106992; Product type t : transporter; putrescine transporter subunit: membrane component of ABC superfamily 899155 potI 7130748 potI Escherichia coli S88 putrescine transporter subunit: membrane component of ABC superfamily YP_002390674.1 898310 D 585035 CDS YP_002390675.1 218557762 7130749 899215..899703 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 899703 ybjO 7130749 ybjO Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390675.1 899215 D 585035 CDS YP_002390676.1 218557763 7130135 899744..900871 1 NC_011742.1 RNA uridine methyltransferase B; catalyzes the formation of 5-methyl-uridine at position 747 in 23S rRNA; 23S rRNA methyluridine methyltransferase 900871 rumB 7130135 rumB Escherichia coli S88 23S rRNA methyluridine methyltransferase YP_002390676.1 899744 D 585035 CDS YP_002390677.1 218557764 7131311 complement(900900..901631) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93273744, 9298646, 9600841, 8801422; Product type t : transporter; arginine transporter subunit ; periplasmic-binding component of ABC superfamily 901631 artJ 7131311 artJ Escherichia coli S88 arginine transporter subunit ; periplasmic-binding component of ABC superfamily YP_002390677.1 900900 R 585035 CDS YP_002390678.1 218557765 7129935 complement(901856..902524) 1 NC_011742.1 with ArtPQJI acts to transport arginine across the inner membrane; arginine transporter permease subunit ArtM 902524 artM 7129935 artM Escherichia coli S88 arginine transporter permease subunit ArtM YP_002390678.1 901856 R 585035 CDS YP_002390679.1 218557766 7129936 complement(902524..903240) 1 NC_011742.1 with ArtPMJI transports arginine across the inner membrane; arginine transporter permease subunit ArtQ 903240 artQ 7129936 artQ Escherichia coli S88 arginine transporter permease subunit ArtQ YP_002390679.1 902524 R 585035 CDS YP_002390680.1 218557767 7129938 complement(903247..903978) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93273744, 9298646, 9600841, 8801422, 9740056; Product type t : transporter; arginine transporter subunit ; periplasmic-binding component of ABC superfamily 903978 artI 7129938 artI Escherichia coli S88 arginine transporter subunit ; periplasmic-binding component of ABC superfamily YP_002390680.1 903247 R 585035 CDS YP_002390681.1 218557768 7129934 complement(903996..904724) 1 NC_011742.1 With ArtMQJI transports arginine across the inner membrane; arginine transporter ATP-binding subunit 904724 artP 7129934 artP Escherichia coli S88 arginine transporter ATP-binding subunit YP_002390681.1 903996 R 585035 CDS YP_002390682.1 218557769 7130137 905582..905905 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 905905 ybjQ 7130137 ybjQ Escherichia coli S88 hypothetical protein YP_002390682.1 905582 D 585035 CDS YP_002390683.1 218557770 7130138 905902..906732 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative cell wall amidase and lipoprotein 906732 ybjR 7130138 ybjR Escherichia coli S88 putative cell wall amidase and lipoprotein YP_002390683.1 905902 D 585035 CDS YP_002390684.1 218557771 7130139 complement(906729..907742) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative NAD(P)H-binding oxidoreductase with NAD(P)-binding Rossmann-fold domain 907742 ybjS 7130139 ybjS Escherichia coli S88 putative NAD(P)H-binding oxidoreductase with NAD(P)-binding Rossmann-fold domain YP_002390684.1 906729 R 585035 CDS YP_002390685.1 218557772 7130140 complement(907841..909271) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative NAD(P)-binding Rossmann-fold domain 909271 ybjT 7130140 ybjT Escherichia coli S88 conserved hypothetical protein; putative NAD(P)-binding Rossmann-fold domain YP_002390685.1 907841 R 585035 CDS YP_002390686.1 218557773 7130141 complement(909282..910283) 1 NC_011742.1 low- specificity; catalyzes the formation of acetaldehyde and glycine from L-threonine; acts on L-threonine, L-allo-threonine, L-threo-phenylserine, and L-erythro-phenylserine; L-threonine aldolase 910283 ltaE 7130141 ltaE Escherichia coli S88 L-threonine aldolase YP_002390686.1 909282 R 585035 CDS YP_002390687.1 218557774 7129391 complement(910320..912038) 1 NC_011742.1 catalyzes the formation of acetate from pyruvate; pyruvate dehydrogenase 912038 poxB 7129391 poxB Escherichia coli S88 pyruvate dehydrogenase YP_002390687.1 910320 R 585035 CDS YP_002390688.1 218557775 7130751 complement(912171..913139) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20117674; Product type e : enzyme; HCP oxidoreductase, NADH-dependent 913139 hcr 7130751 hcr Escherichia coli S88 HCP oxidoreductase, NADH-dependent YP_002390688.1 912171 R 585035 CDS YP_002390689.1 218557776 7128888 complement(913151..914803) 1 NC_011742.1 catalyzes the reduction of hydroxylamine to ammonia and water; hydroxylamine reductase 914803 hcp 7128888 hcp Escherichia coli S88 hydroxylamine reductase YP_002390689.1 913151 R 585035 CDS YP_002390690.1 218557777 7128887 complement(914947..915846) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 915846 ybjE 7128887 ybjE Escherichia coli S88 putative transporter YP_002390690.1 914947 R 585035 CDS YP_002390691.1 218557778 7130126 915824..915973 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 915973 7130126 ECS88_0896 Escherichia coli S88 hypothetical protein YP_002390691.1 915824 D 585035 CDS YP_002390692.1 218557779 7130722 complement(916167..916862) 1 NC_011742.1 porin involved in osmoregulation allowing water to move into and out of the cell in response to osmotic pressure; aquaporin Z 916862 aqpZ 7130722 aqpZ Escherichia coli S88 aquaporin Z YP_002390692.1 916167 R 585035 CDS YP_002390693.1 218557780 7133079 917288..918946 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain 918946 ybjD 7133079 ybjD Escherichia coli S88 conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain YP_002390693.1 917288 D 585035 CDS YP_002390694.1 218557781 7130125 complement(918943..919935) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 919935 ybjX 7130125 ybjX Escherichia coli S88 hypothetical protein YP_002390694.1 918943 R 585035 CDS YP_002390695.1 218557782 7130142 920050..921165 1 NC_011742.1 confers macrolide resistance via active drug efflux; macrolide transporter subunit MacA 921165 macA 7130142 macA Escherichia coli S88 macrolide transporter subunit MacA YP_002390695.1 920050 D 585035 CDS YP_002390696.1 218557783 7129402 921162..923108 1 NC_011742.1 with MacA is involved in the export of macrolide; macrolide transporter ATP-binding /permease protein 923108 macB 7129402 macB Escherichia coli S88 macrolide transporter ATP-binding /permease protein YP_002390696.1 921162 D 585035 CDS YP_002390697.1 218557784 7129403 complement(923181..923405) 1 NC_011742.1 inhibits DNA replication at both initiation and elongation steps; stationary phase and starvation inducible; stationary phase/starvation inducible regulatory protein CspD 923405 cspD 7129403 cspD Escherichia coli S88 stationary phase/starvation inducible regulatory protein CspD YP_002390697.1 923181 R 585035 CDS YP_002390698.1 218557785 7130496 923728..924048 1 NC_011742.1 involved in the modulation of the specificity of the ClpAP-mediated ATP-dependent protein degradation; binds to the N-terminal domain of the chaperone ClpA; ATP-dependent Clp protease adaptor protein ClpS 924048 clpS 7130496 clpS Escherichia coli S88 ATP-dependent Clp protease adaptor protein ClpS YP_002390698.1 923728 D 585035 CDS YP_002390699.1 218557786 7131931 924079..926355 1 NC_011742.1 ATPase and specificity subunit of the ClpA-ClpP ATP dependent serine protease; directs protease to specific substrates; ATP-dependent Clp protease ATP-binding subunit 926355 clpA 7131931 clpA Escherichia coli S88 ATP-dependent Clp protease ATP-binding subunit YP_002390699.1 924079 D 585035 CDS YP_002390700.1 218557787 7131928 927062..928051 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, CRISPR-associated protein 928051 7131928 ECS88_0905 Escherichia coli S88 conserved hypothetical protein, CRISPR-associated protein YP_002390700.1 927062 D 585035 CDS YP_002390701.1 218557788 7130723 928048..931281 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative CRISPR-associated helicase 931281 7130723 ECS88_0906 Escherichia coli S88 putative CRISPR-associated helicase YP_002390701.1 928048 D 585035 CDS YP_002390702.1 218557789 7130724 931611..932918 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein CRISPR-associated 932918 7130724 ECS88_0907 Escherichia coli S88 conserved hypothetical protein CRISPR-associated YP_002390702.1 931611 D 585035 CDS YP_002390703.1 218557790 7130727 933849..934850 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein CRISPR-associated 934850 7130727 ECS88_0910 Escherichia coli S88 conserved hypothetical protein CRISPR-associated YP_002390703.1 933849 D 585035 CDS YP_002390704.1 218557791 7130728 934819..935415 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein CRISPR-associated 935415 7130728 ECS88_0911 Escherichia coli S88 conserved hypothetical protein CRISPR-associated YP_002390704.1 934819 D 585035 CDS YP_002390705.1 218557792 7132005 complement(936457..936675) 1 NC_011742.1 stimulates the activities of the other two initiation factors, IF-2 and IF-3; translation initiation factor IF-1 936675 infA 7132005 infA Escherichia coli S88 translation initiation factor IF-1 YP_002390705.1 936457 R 585035 CDS YP_002390706.1 218557793 7131633 complement(936960..937664) 1 NC_011742.1 leucyltransferase; phenylalanyltransferse; functions in the N-end rule pathway; transfers Leu, Phe, Met, from aminoacyl-tRNAs to N-terminal of proteins with Arg or Lys; leucyl/phenylalanyl-tRNA--protein transferase 937664 aat 7131633 aat Escherichia coli S88 leucyl/phenylalanyl-tRNA--protein transferase YP_002390706.1 936960 R 585035 CDS YP_002390707.1 218557794 7132023 complement(937706..939427) 1 NC_011742.1 in Escherichia coli the CydCD ABC transporter exports cysteine and glutathione into the periplasm in order to maintain redox balance; important for cytochrome bd and c; cysteine/glutathione ABC transporter membrane/ATP-binding component 939427 cydC 7132023 cydC Escherichia coli S88 cysteine/glutathione ABC transporter membrane/ATP-binding component YP_002390707.1 937706 R 585035 CDS YP_002390708.1 218557795 7130526 complement(939428..941194) 1 NC_011742.1 in Escherichia coli the CydCD ABC transporter exports cysteine and glutathione into the periplasm in order to maintain redox balance; important for cytochrome bd and c; cysteine/glutathione ABC transporter membrane/ATP-binding component 941194 cydD 7130526 cydD Escherichia coli S88 cysteine/glutathione ABC transporter membrane/ATP-binding component YP_002390708.1 939428 R 585035 CDS YP_002390709.1 218557796 7130527 complement(941317..942282) 1 NC_011742.1 catalyzes the transfer of electrons from NADPH to thioredoxin; FAD/NAD(P) binding; thioredoxin reductase 942282 trxB 7130527 trxB Escherichia coli S88 thioredoxin reductase YP_002390709.1 941317 R 585035 CDS YP_002390710.1 218557797 7130356 942826..943320 1 NC_011742.1 mediates a global response to leucine; acts as a regulator for several genes involved in the high-affinity branched-chain amino acid transport system; leucine-responsive transcriptional regulator 943320 lrp 7130356 lrp Escherichia coli S88 leucine-responsive transcriptional regulator YP_002390710.1 942826 D 585035 CDS YP_002390711.1 218557798 7129389 943455..947498 1 NC_011742.1 DNA-binding membrane protein required for chromosome resolution and partitioning; DNA translocase FtsK 947498 ftsK 7129389 ftsK Escherichia coli S88 DNA translocase FtsK YP_002390711.1 943455 D 585035 CDS YP_002390712.1 218557799 7132851 947654..948268 1 NC_011742.1 participates with LolB in the incorporation of lipoprotein into the outer membrane; outer-membrane lipoprotein carrier protein 948268 lolA 7132851 lolA Escherichia coli S88 outer-membrane lipoprotein carrier protein YP_002390712.1 947654 D 585035 CDS YP_002390713.1 218557800 7129368 948279..949622 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 7567469, 7628437, 11459952, 11029431; Product type cp : cell process; recombination factor protein RarA 949622 ycaJ 7129368 ycaJ Escherichia coli S88 recombination factor protein RarA YP_002390713.1 948279 D 585035 CDS YP_002390714.1 218557801 7130147 949713..951005 1 NC_011742.1 catalyzes a two-step reaction, first charging a serine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; seryl-tRNA synthetase 951005 serS 7130147 serS Escherichia coli S88 seryl-tRNA synthetase YP_002390714.1 949713 D 585035 CDS YP_002390715.1 218557802 7130582 951244..953688 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91008971, 92011349, 94171715, 10801884, 3062312; Product type e : enzyme; dimethyl sulfoxide reductase, anaerobic, subunit A 953688 dmsA 7130582 dmsA Escherichia coli S88 dimethyl sulfoxide reductase, anaerobic, subunit A YP_002390715.1 951244 D 585035 CDS YP_002390716.1 218557803 7130216 953699..954316 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91070067, 91355180, 92011349, 3062312; Product type e : enzyme; dimethyl sulfoxide reductase, anaerobic, subunit B 954316 dmsB 7130216 dmsB Escherichia coli S88 dimethyl sulfoxide reductase, anaerobic, subunit B YP_002390716.1 953699 D 585035 CDS YP_002390717.1 218557804 7130217 954318..955181 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91008971, 92011349, 3062312, 8429002; Product type e : enzyme; dimethyl sulfoxide reductase, anaerobic, subunit C 955181 dmsC 7130217 dmsC Escherichia coli S88 dimethyl sulfoxide reductase, anaerobic, subunit C YP_002390717.1 954318 D 585035 CDS YP_002390718.1 218557805 7130218 complement(955217..955843) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9782055, 3062312, 11714269; Product type pe : putative enzyme; putative hydrolase 955843 ycaC 7130218 ycaC Escherichia coli S88 putative hydrolase YP_002390718.1 955217 R 585035 CDS YP_002390719.1 218557806 7130144 956157..957305 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative MFS family transporter protein 957305 ycaD 7130144 ycaD Escherichia coli S88 putative MFS family transporter protein YP_002390719.1 956157 D 585035 CDS YP_002390720.1 218557807 7130145 complement(957402..958142) 1 NC_011742.1 activates pyruvate formate-lyase 1 under anaerobic conditions; pyruvate formate lyase-activating enzyme 1 958142 pflA 7130145 pflA Escherichia coli S88 pyruvate formate lyase-activating enzyme 1 YP_002390720.1 957402 R 585035 CDS YP_002390721.1 218557808 7133680 complement(958334..960616) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91064082, 92276323, 10504733, 1310545, 2651404, 3053170, 9629924; Product type e : enzyme; pyruvate formate lyase I 960616 pflB 7133680 pflB Escherichia coli S88 pyruvate formate lyase I YP_002390721.1 958334 R 585035 CDS YP_002390722.1 218557809 7133681 complement(960671..961528) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94293770, 2651404; Product type t : transporter; formate transporter 961528 focA 7133681 focA Escherichia coli S88 formate transporter YP_002390722.1 960671 R 585035 CDS YP_002390723.1 218557810 7132812 complement(961934..963694) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 963694 ycaO 7132812 ycaO Escherichia coli S88 hypothetical protein YP_002390723.1 961934 R 585035 CDS YP_002390724.1 218557811 7130149 963824..964516 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 964516 ycaP 7130149 ycaP Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390724.1 963824 D 585035 CDS YP_002390725.1 218557812 7130150 964715..965803 1 NC_011742.1 catalyzes the formation of 3-phosphonooxypyruvate and glutamate from O-phospho-L-serine and 2-oxoglutarate; required both in major phosphorylated pathway of serine biosynthesis and in the biosynthesis of pyridoxine; phosphoserine aminotransferase 965803 serC 7130150 serC Escherichia coli S88 phosphoserine aminotransferase YP_002390725.1 964715 D 585035 CDS YP_002390726.1 218557813 7130581 965874..967157 1 NC_011742.1 catalyzes the formation of 5-O-(1-carboxyvinyl)-3-phosphoshikimate from phosphoenolpyruvate and 3-phosphoshikimate in tryptophan biosynthesis; 3-phosphoshikimate 1-carboxyvinyltransferase 967157 aroA 7130581 aroA Escherichia coli S88 3-phosphoshikimate 1-carboxyvinyltransferase YP_002390726.1 965874 D 585035 CDS YP_002390727.1 218557814 7133105 967327..968091 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative lipoprotein with metallohydrolase domain 968091 ycaL 7133105 ycaL Escherichia coli S88 putative lipoprotein with metallohydrolase domain YP_002390727.1 967327 D 585035 CDS YP_002390728.1 218557815 7130148 968264..968947 1 NC_011742.1 Catalyzes the formation of (d)CDP from ATP and (d)CMP; cytidylate kinase 968947 cmk 7130148 cmk Escherichia coli S88 cytidylate kinase YP_002390728.1 968264 D 585035 CDS YP_002390729.1 218557816 7131934 969058..970731 1 NC_011742.1 in Escherichia coli this protein is involved in binding to the leader sequence of mRNAs and is itself bound to the 30S subunit; autoregulates expression via a C-terminal domain; in most gram negative organisms this protein is composed of 6 repeats of the S1 domain while in gram positive there are 4 repeats; the S1 nucleic acid-binding domain is found associated with other proteins; 30S ribosomal protein S1 970731 rpsA 7131934 rpsA Escherichia coli S88 30S ribosomal protein S1 YP_002390729.1 969058 D 585035 CDS YP_002390730.1 218557817 7133784 970891..971175 1 NC_011742.1 This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control; integration host factor subunit beta 971175 ihfB 7133784 ihfB Escherichia coli S88 integration host factor subunit beta YP_002390730.1 970891 D 585035 CDS YP_002390731.1 218557818 7131617 971381..973645 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 973645 ycaI 7131617 ycaI Escherichia coli S88 hypothetical protein YP_002390731.1 971381 D 585035 CDS YP_002390732.1 218557819 7130146 973682..975430 1 NC_011742.1 involved in the transport of lipid A across the inner membrane; lipid transporter ATP-binding/permease protein 975430 msbA 7130146 msbA Escherichia coli S88 lipid transporter ATP-binding/permease protein YP_002390732.1 973682 D 585035 CDS YP_002390733.1 218557820 7129613 975427..976413 1 NC_011742.1 transfers the gamma-phosphate of ATP to the 4' position of a tetraacyldisaccharide 1-phosphate intermediate to form tetraacyldisaccharide 1,4'-bis-phosphate; tetraacyldisaccharide 4'-kinase 976413 lpxK 7129613 lpxK Escherichia coli S88 tetraacyldisaccharide 4'-kinase YP_002390733.1 975427 D 585035 CDS YP_002390734.1 218557821 7129385 976450..977682 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 977682 ycaQ 7129385 ycaQ Escherichia coli S88 hypothetical protein YP_002390734.1 976450 D 585035 CDS YP_002390735.1 218557822 7130151 977734..977916 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 977916 ycaR 7130151 ycaR Escherichia coli S88 hypothetical protein YP_002390735.1 977734 D 585035 CDS YP_002390736.1 218557823 7130152 977913..978659 1 NC_011742.1 CMP-2-keto-3-deoxyoctulosonic acid synthetase; catalyzes the formation of CMP-3-deoxy-D-manno-octulosonate from CTP and 3-deoxy-D-manno-octulosonate which is incorporated into LPS; 3-deoxy-manno-octulosonate cytidylyltransferase 978659 kdsB 7130152 kdsB Escherichia coli S88 3-deoxy-manno-octulosonate cytidylyltransferase YP_002390736.1 977913 D 585035 CDS YP_002390737.1 218557824 7130447 978813..979706 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 979706 ycbJ 7130447 ycbJ Escherichia coli S88 hypothetical protein YP_002390737.1 978813 D 585035 CDS YP_002390738.1 218557825 7130156 complement(979683..980462) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 980462 ycbC 7130156 ycbC Escherichia coli S88 hypothetical protein YP_002390738.1 979683 R 585035 CDS YP_002390739.1 218557826 7130154 980598..981383 1 NC_011742.1 involved in cellular zinc and cadmium homeostasis by binding excess metal ions to its cysteine sulfurs and histidine nitrogens; expression of smtA in cyanobacteria is repressed by SmtB at low concentrations of zinc; NO elicits release of Zn ions from SmtA; putative metallothionein SmtA 981383 smtA 7130154 smtA Escherichia coli S88 putative metallothionein SmtA YP_002390739.1 980598 D 585035 CDS YP_002390740.1 218557827 7130615 981380..982702 1 NC_011742.1 acts with MukB and MukE to condense the chromosome and allow for segregation during cell division; condesin subunit F 982702 mukF 7130615 mukF Escherichia coli S88 condesin subunit F YP_002390740.1 981380 D 585035 CDS YP_002390741.1 218557828 7129629 982710..983387 1 NC_011742.1 acts with MukB and MukF to condense the chromosome and allow for segregation during cell division; condesin subunit E 983387 mukE 7129629 mukE Escherichia coli S88 condesin subunit E YP_002390741.1 982710 D 585035 CDS YP_002390742.1 218557829 7129628 983387..987847 1 NC_011742.1 SMC (structural maintenance of chromosomes) family of proteins; involved in chromosome condensatin and partitioning; forms a homodimer and the C-terminal is essential for DNA-binding activity while the purified N-terminal domain binds FtsZ; mutations result in cell division defects; cell division protein MukB 987847 mukB 7129628 mukB Escherichia coli S88 cell division protein MukB YP_002390742.1 983387 D 585035 CDS YP_002390743.1 218557830 7129627 988108..989955 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 989955 ycbB 7129627 ycbB Escherichia coli S88 hypothetical protein YP_002390743.1 988108 D 585035 CDS YP_002390744.1 218557831 7130153 990136..990684 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 990684 ycbK 7130153 ycbK Escherichia coli S88 hypothetical protein YP_002390744.1 990136 D 585035 CDS YP_002390745.1 218557832 7130157 990711..991358 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 14529289; Product type pe : putative enzyme; putative metal-binding hydrolase 991358 ycbL 7130157 ycbL Escherichia coli S88 putative metal-binding hydrolase YP_002390745.1 990711 D 585035 CDS YP_002390746.1 218557833 7130158 complement(991408..992598) 1 NC_011742.1 catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate; aromatic amino acid aminotransferase 992598 aspC 7130158 aspC Escherichia coli S88 aromatic amino acid aminotransferase YP_002390746.1 991408 R 585035 CDS YP_002390747.1 218557834 7129951 complement(992783..993871) 1 NC_011742.1 outer membrane porin F; 1a; Ia; b; outer membrane protein F 993871 ompF 7129951 ompF Escherichia coli S88 outer membrane protein F YP_002390747.1 992783 R 585035 CDS YP_002390748.1 218557835 7133125 complement(994473..995873) 1 NC_011742.1 catalyzes a two-step reaction, first charging an asparagine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; asparaginyl-tRNA synthetase 995873 asnC 7133125 asnC Escherichia coli S88 asparaginyl-tRNA synthetase YP_002390748.1 994473 R 585035 CDS YP_002390749.1 218557836 7129949 complement(996042..997244) 1 NC_011742.1 catalyzes the formation of nictonate and 5-phospho-alpha-D-ribose 1-diphosphate from nicotinate D-ribonucleotide and diphosphate; nicotinate phosphoribosyltransferase 997244 pncB 7129949 pncB Escherichia coli S88 nicotinate phosphoribosyltransferase YP_002390749.1 996042 R 585035 CDS YP_002390750.1 218557837 7133747 997510..1000122 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21101837, 86164315, 87163509, 2436977, 3018440; Product type e : enzyme; aminopeptidase N 1000122 pepN 7133747 pepN Escherichia coli S88 aminopeptidase N YP_002390750.1 997510 D 585035 CDS YP_002390751.1 218557838 7133673 complement(1000317..1001084) 1 NC_011742.1 part of the ABC type transport system SsuABC for aliphatic sulfonates; with SsuA being the periplasmic substrate-binding subunit, SsuB the ATP-binding subunit and SsuC the permease; aliphatic sulfonates transport ATP-binding subunit 1001084 ssuB 7133673 ssuB Escherichia coli S88 aliphatic sulfonates transport ATP-binding subunit YP_002390751.1 1000317 R 585035 CDS YP_002390752.1 218557839 7130658 complement(1001081..1001872) 1 NC_011742.1 part of the ABC type transport system for alkanesulfonate SsuABC; SsuB the ATP-binding subunit and SsuC the permease; alkanesulfonate transporter permease subunit 1001872 ssuC 7130658 ssuC Escherichia coli S88 alkanesulfonate transporter permease subunit YP_002390752.1 1001081 R 585035 CDS YP_002390753.1 218557840 7129678 complement(1001884..1003029) 1 NC_011742.1 catalyzes the release of sulfite from alkanesulfonates; alkanesulfonate monooxygenase 1003029 ssuD 7129678 ssuD Escherichia coli S88 alkanesulfonate monooxygenase YP_002390753.1 1001884 R 585035 CDS YP_002390754.1 218557841 7131229 complement(1003026..1003985) 1 NC_011742.1 part of the ABC type transport system SsuABC for aliphatic sulfonates; with SsuA being the periplasmic subunit SsuB the ATP-binding subunit and SsuC the permease; alkanesulfonate transporter substrate-binding subunit 1003985 ssuA 7131229 ssuA Escherichia coli S88 alkanesulfonate transporter substrate-binding subunit YP_002390754.1 1003026 R 585035 CDS YP_002390755.1 218557842 7130657 complement(1003978..1004553) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20245523, 99410391, 99436146, 8774726; Product type e : enzyme; NAD(P)H-dependent FMN reductase 1004553 ssuE 7130657 ssuE Escherichia coli S88 NAD(P)H-dependent FMN reductase YP_002390755.1 1003978 R 585035 CDS YP_002390756.1 218557843 7131230 1004790..1005800 1 NC_011742.1 catalyzes the conversion of dihydroorotate to orotate in the pyrimidine biosynthesis pathway; uses a flavin nucleotide as an essential cofactor; class 2 enzymes are monomeric and compared to the class 1 class 2 possess an extended N terminus, which plays a role in the membrane association of the enzyme and provides the binding site for the respiratory quinones that serve as physiological electron acceptors; dihydroorotate dehydrogenase 2 1005800 pyrD 7131230 pyrD Escherichia coli S88 dihydroorotate dehydrogenase 2 YP_002390756.1 1004790 D 585035 CDS YP_002390757.1 218557844 7131765 1005974..1006516 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1006516 ycbW 7131765 ycbW Escherichia coli S88 hypothetical protein YP_002390757.1 1005974 D 585035 CDS YP_002390758.1 218557845 7130159 complement(1006513..1007622) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1327782; Product type pe : putative enzyme; putative 2Fe-2S cluster-containing protein 1007622 ycbX 7130159 ycbX Escherichia coli S88 putative 2Fe-2S cluster-containing protein YP_002390758.1 1006513 R 585035 CDS YP_002390759.1 218557846 7130160 1007720..1009828 1 NC_011742.1 catalyzes the N2-methyl guanosine modification of the G2445 residue of 23S rRNA; 23S rRNA m(2)G2445 methyltransferase 1009828 rlmL 7130160 rlmL Escherichia coli S88 23S rRNA m(2)G2445 methyltransferase YP_002390759.1 1007720 D 585035 CDS YP_002390760.1 218557847 7130161 1009840..1011747 1 NC_011742.1 Uup; in Escherichia coli this cytoplasmic protein was shown to contain ATPase activity; mutations in this gene affect RecA-independent excision of transposons and affects Mu bacteriophage growth; ABC transporter ATPase component 1011747 uup 7130161 uup Escherichia coli S88 ABC transporter ATPase component YP_002390760.1 1009840 D 585035 CDS YP_002390761.1 218557848 7132457 1011877..1013130 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95270582; Product type cp : cell process; paraquat-inducible membrane protein A 1013130 pqiA 7132457 pqiA Escherichia coli S88 paraquat-inducible membrane protein A YP_002390761.1 1011877 D 585035 CDS YP_002390762.1 218557849 7130768 1013135..1014775 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95270582; Product type cp : cell process; paraquat-inducible protein B 1014775 pqiB 7130768 pqiB Escherichia coli S88 paraquat-inducible protein B YP_002390762.1 1013135 D 585035 CDS YP_002390763.1 218557850 7130769 1014787..1015335 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1015335 ymbA 7130769 ymbA Escherichia coli S88 hypothetical protein YP_002390763.1 1014787 D 585035 CDS YP_002390764.1 218557851 7131118 1015591..1015758 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1101029, 90207255, 2832401, 8440252; Product type f : factor; ribosome modulation factor 1015758 rmf 7131118 rmf Escherichia coli S88 ribosome modulation factor YP_002390764.1 1015591 D 585035 CDS YP_002390765.1 218557852 7132735 complement(1015828..1016346) 1 NC_011742.1 catalyzes the dehydration of (3R)-3-hydroxydecanoyl-ACP to 2,3-decenoyl-ACP or 3,4-decenoyl-ACP; 3-hydroxydecanoyl-(acyl carrier protein) dehydratase 1016346 fabA 7132735 fabA Escherichia coli S88 3-hydroxydecanoyl-(acyl carrier protein) dehydratase YP_002390765.1 1015828 R 585035 CDS YP_002390766.1 218557853 7132442 complement(1016415..1018175) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative ATP-dependent protease 1018175 ycbZ 7132442 ycbZ Escherichia coli S88 putative ATP-dependent protease YP_002390766.1 1016415 R 585035 CDS YP_002390767.1 218557854 7130162 1018361..1018813 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1018813 ycbG 7130162 ycbG Escherichia coli S88 hypothetical protein YP_002390767.1 1018361 D 585035 CDS YP_002390768.1 218557855 7130155 complement(1018891..1019931) 1 NC_011742.1 OmpA is believed to be a porin, involved in diffusion of nonspecific small solutes across the outer membrane. It is the most abundant integral protein of the outer membrane of E. coli, and it is known to play a role as a phage receptor, a mediator of F-factor dependent conjugation, and in maintaining the structural shape of the outer membrane; 3a; II*; G; d; outer membrane protein A 1019931 ompA 7130155 ompA Escherichia coli S88 outer membrane protein A YP_002390768.1 1018891 R 585035 CDS YP_002390769.1 218557856 7133123 1020085..1020303 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1020303 7133123 ECS88_0979 Escherichia coli S88 hypothetical protein YP_002390769.1 1020085 D 585035 CDS YP_002390770.1 218557857 7130417 complement(1020287..1020796) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10368140, 91072263, 93163041, 98348458, 3297925, 6253901, 6306396; Product type cp : cell process; SOS cell division inhibitor 1020796 sulA 7130417 sulA Escherichia coli S88 SOS cell division inhibitor YP_002390770.1 1020287 R 585035 CDS YP_002390771.1 218557858 7131250 1021015..1021644 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1021644 yccR 7131250 yccR Escherichia coli S88 hypothetical protein YP_002390771.1 1021015 D 585035 CDS YP_002390772.1 218557859 7130167 complement(1021607..1023760) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1023760 yccS 7130167 yccS Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390772.1 1021607 R 585035 CDS YP_002390773.1 218557860 7132691 complement(1023779..1024225) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1024225 yccF 7132691 yccF Escherichia coli S88 hypothetical protein YP_002390773.1 1023779 R 585035 CDS YP_002390774.1 218557861 7130164 1024348..1026402 1 NC_011742.1 catalyzes the ATP-dependent unwinding of duplex DNA in the 3' to 5' direction with respect to the bound single strand; DNA helicase IV 1026402 helD 7130164 helD Escherichia coli S88 DNA helicase IV YP_002390774.1 1024348 D 585035 CDS YP_002390775.1 218557862 7128895 complement(1026434..1026892) 1 NC_011742.1 catalyzes the formation of methylglyoxal from glycerone phosphate; methylglyoxal synthase 1026892 mgsA 7128895 mgsA Escherichia coli S88 methylglyoxal synthase YP_002390775.1 1026434 R 585035 CDS YP_002390776.1 218557863 7128829 complement(1026988..1027650) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1027650 yccT 7128829 yccT Escherichia coli S88 hypothetical protein YP_002390776.1 1026988 R 585035 CDS YP_002390777.1 218557864 7131419 1027823..1028236 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative CoA-binding protein 1028236 yccU 7131419 yccU Escherichia coli S88 putative CoA-binding protein YP_002390777.1 1027823 D 585035 CDS YP_002390778.1 218557865 7131420 complement(1028281..1028598) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12700277, 15569148; Product type f : factor; heat shock protein HspQ 1028598 yccV 7131420 yccV Escherichia coli S88 heat shock protein HspQ YP_002390778.1 1028281 R 585035 CDS YP_002390779.1 218557866 7131421 complement(1028656..1029759) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative AdoMet-dependent methyltransferase, UPF0064 family 1029759 yccW 7131421 yccW Escherichia coli S88 putative AdoMet-dependent methyltransferase, UPF0064 family YP_002390779.1 1028656 R 585035 CDS YP_002390780.1 218557867 7131422 1029712..1030218 1 NC_011742.1 catalyzes the hydrolysis of acylphosphate; acylphosphatase 1030218 yccX 7131422 yccX Escherichia coli S88 acylphosphatase YP_002390780.1 1029712 D 585035 CDS YP_002390781.1 218557868 7131423 complement(1030215..1030544) 1 NC_011742.1 transfers sulfur from TusBCD complex to MnmA; involved in thiouridation of U34 position of some tRNAs; sulfur transfer protein TusE 1030544 tusE 7131423 tusE Escherichia coli S88 sulfur transfer protein TusE YP_002390781.1 1030215 R 585035 CDS YP_002390782.1 218557869 7130373 complement(1030636..1031295) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 6376117; Product type m : membrane component; hypothetical protein 1031295 yccA 7130373 yccA Escherichia coli S88 hypothetical protein YP_002390782.1 1030636 R 585035 CDS YP_002390783.1 218557870 7132004 1032016..1033134 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86192450, 90202716, 92215587; Product type e : enzyme; hydrogenase 1, small subunit 1033134 hyaA 7132004 hyaA Escherichia coli S88 hydrogenase 1, small subunit YP_002390783.1 1032016 D 585035 CDS YP_002390784.1 218557871 7131406 1033131..1034924 1 NC_011742.1 involved in hydrogen cycling during fermentative growth; hydrogenase 1 large subunit 1034924 hyaB 7131406 hyaB Escherichia coli S88 hydrogenase 1 large subunit YP_002390784.1 1033131 D 585035 CDS YP_002390785.1 218557872 7131407 1034943..1035650 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90202716, 91310595, 92215587; Product type c : carrier; hydrogenase 1 b-type cytochrome subunit 1035650 hyaC 7131407 hyaC Escherichia coli S88 hydrogenase 1 b-type cytochrome subunit YP_002390785.1 1034943 D 585035 CDS YP_002390786.1 218557873 7131408 1035647..1036234 1 NC_011742.1 HyaD; endopeptidase involved in the cleavage of the C-terminus end of HyaB (the large subunit of hydrogenase 1); hydrogenase 1 maturation protease 1036234 hyaD 7131408 hyaD Escherichia coli S88 hydrogenase 1 maturation protease YP_002390786.1 1035647 D 585035 CDS YP_002390787.1 218557874 7131409 1036231..1036629 1 NC_011742.1 involved in processing hydrogenase proteins HyaA and HyaB; hydrogenase-1 operon protein HyaE 1036629 hyaE 7131409 hyaE Escherichia coli S88 hydrogenase-1 operon protein HyaE YP_002390787.1 1036231 D 585035 CDS YP_002390788.1 218557875 7131410 1036626..1037483 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90202716, 91310595, 92215587; Product type f : factor; protein involved in nickel incorporation into hydrogenase-1 proteins 1037483 hyaF 7131410 hyaF Escherichia coli S88 protein involved in nickel incorporation into hydrogenase-1 proteins YP_002390788.1 1036626 D 585035 CDS YP_002390789.1 218557876 7131411 1037617..1039161 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92049231, 96198179; Product type c : carrier; cytochrome bd-II oxidase, subunit I 1039161 appC 7131411 appC Escherichia coli S88 cytochrome bd-II oxidase, subunit I YP_002390789.1 1037617 D 585035 CDS YP_002390790.1 218557877 7133077 1039173..1040309 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92049231, 96198179; Product type c : carrier; cytochrome bd-II oxidase, subunit II 1040309 appB 7133077 appB Escherichia coli S88 cytochrome bd-II oxidase, subunit II YP_002390790.1 1039173 D 585035 CDS YP_002390791.1 218557878 7133076 1040494..1041804 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20122624, 92049231, 93054596, 10696472, 2168385, 3038201, 8387749; Product type e : enzyme; phosphoanhydride phosphorylase 1041804 appA 7133076 appA Escherichia coli S88 phosphoanhydride phosphorylase YP_002390791.1 1040494 D 585035 CDS YP_002390792.1 218557879 7133075 complement(1041792..1042004) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 9484881, 9439003; Product type f : factor; stress protein, member of the CspA-family 1042004 cspH 7133075 cspH Escherichia coli S88 stress protein, member of the CspA-family YP_002390792.1 1041792 R 585035 CDS YP_002390793.1 218557880 7130500 1041906..1042049 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1042049 7130500 ECS88_1004 Escherichia coli S88 hypothetical protein YP_002390793.1 1041906 D 585035 CDS YP_002390794.1 218557881 7130731 1042290..1042502 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9484881, 15466053, 8631696, 9439003; Product type r : regulator; cold shock protein CspG 1042502 cspG 7130731 cspG Escherichia coli S88 cold shock protein CspG YP_002390794.1 1042290 D 585035 CDS YP_002390795.1 218557882 7130499 1042896..1043069 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15317805, 11544213; Product type pr : putative regulator; putative regulator of phosphatidylethanolamine synthesis 1043069 gnsA 7130499 gnsA Escherichia coli S88 putative regulator of phosphatidylethanolamine synthesis YP_002390795.1 1042896 D 585035 CDS YP_002390796.1 218557883 7130049 complement(1043118..1044191) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative 4Fe-4S membrane protein 1044191 yccM 7130049 yccM Escherichia coli S88 putative 4Fe-4S membrane protein YP_002390796.1 1043118 R 585035 CDS YP_002390797.1 218557884 7130166 complement(1044274..1047006) 1 NC_011742.1 Member of the two-component regulatory system torS/torR involved in the anaerobic utilization of trimethylamine-N-oxide; hybrid sensory histidine kinase TorS 1047006 torS 7130166 torS Escherichia coli S88 hybrid sensory histidine kinase TorS YP_002390797.1 1044274 R 585035 CDS YP_002390798.1 218557885 7133497 1047089..1048117 1 NC_011742.1 periplasmic sensory protein associated with the TorRS two-component regulatory system; TMAO reductase system periplasmic protein TorT 1048117 torT 7133497 torT Escherichia coli S88 TMAO reductase system periplasmic protein TorT YP_002390798.1 1047089 D 585035 CDS YP_002390799.1 218557886 7133498 complement(1048090..1048782) 1 NC_011742.1 response regulator in two-component regulatory system with TorS; involved in regulation of trimethylamine N-oxide reductase genes; DNA-binding transcriptional regulator TorR 1048782 torR 7133498 torR Escherichia coli S88 DNA-binding transcriptional regulator TorR YP_002390799.1 1048090 R 585035 CDS YP_002390800.1 218557887 7133496 1048912..1050084 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94293785, 94314186, 99340208, 11056172, 11562502; Product type c : carrier; trimethylamine N-oxide (TMAO) reductase I, cytochrome c-type subunit 1050084 torC 7133496 torC Escherichia coli S88 trimethylamine N-oxide (TMAO) reductase I, cytochrome c-type subunit YP_002390800.1 1048912 D 585035 CDS YP_002390801.1 218557888 7133493 1050084..1052630 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88193091, 90089471, 94293785, 8302830, 8022286; Product type e : enzyme; trimethylamine N-oxide (TMAO) reductase I, catalytic subunit 1052630 torA 7133493 torA Escherichia coli S88 trimethylamine N-oxide (TMAO) reductase I, catalytic subunit YP_002390801.1 1050084 D 585035 CDS YP_002390802.1 218557889 7133492 1052627..1053226 1 NC_011742.1 TorD; involved in the biogenesis of torA; acts on torA before the insertion of the molybdenum cofactor and, as a result, probably favors a conformation of the apoenzyme that is competent for acquiring the cofactor; chaperone protein TorD 1053226 torD 7133492 torD Escherichia coli S88 chaperone protein TorD YP_002390802.1 1052627 D 585035 CDS YP_002390803.1 218557890 7133494 complement(1053582..1053887) 1 NC_011742.1 with CpbA modulates the activity of the dnaK chaperone system; interacts with CbpA and inhibits both the DnaJ-like co-chaperone activity and the DNA binding activity of CbpA; chaperone-modulator protein CbpM 1053887 cbpM 7133494 cbpM Escherichia coli S88 chaperone-modulator protein CbpM YP_002390803.1 1053582 R 585035 CDS YP_002390804.1 218557891 7129163 complement(1053887..1054807) 1 NC_011742.1 functional analog of DnaJ; co-chaperone with DnaK, molecular chaperone in an adaptive response to environmental stresses other than heat shock; curved DNA-binding protein CbpA 1054807 cbpA 7129163 cbpA Escherichia coli S88 curved DNA-binding protein CbpA YP_002390804.1 1053887 R 585035 CDS YP_002390805.1 218557892 7129162 1055342..1056583 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12455612, 90368616, 91297199, 2153660, 9298646; Product type e : enzyme; glucose-1-phosphatase/inositol phosphatase 1056583 agp 7129162 agp Escherichia coli S88 glucose-1-phosphatase/inositol phosphatase YP_002390805.1 1055342 D 585035 CDS YP_002390806.1 218557893 7133034 complement(1056621..1056848) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1056848 yccJ 7133034 yccJ Escherichia coli S88 hypothetical protein YP_002390806.1 1056621 R 585035 CDS YP_002390807.1 218557894 7130165 complement(1056869..1057465) 1 NC_011742.1 stationary phase protein that binds TrpR repressor; TrpR binding protein WrbA 1057465 wrbA 7130165 wrbA Escherichia coli S88 TrpR binding protein WrbA YP_002390807.1 1056869 R 585035 CDS YP_002390808.1 218557895 7132502 1057669..1057905 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1057905 7132502 ECS88_1019 Escherichia coli S88 hypothetical protein YP_002390808.1 1057669 D 585035 CDS YP_002390809.1 218557896 7130732 1057869..1058027 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1058027 7130732 ECS88_1020 Escherichia coli S88 hypothetical protein YP_002390809.1 1057869 D 585035 CDS YP_002390810.1 218557897 7131322 complement(1059337..1059831) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16540542, 10633095; Product type e : enzyme; flavin:NADH oxidoreductase subunit of alternative pyrimidine degradation pathway 1059831 rutF 7131322 rutF Escherichia coli S88 flavin:NADH oxidoreductase subunit of alternative pyrimidine degradation pathway YP_002390810.1 1059337 R 585035 CDS YP_002390811.1 218557898 7131320 complement(1059842..1060432) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16540542; Product type e : enzyme; hypothetical protein 1060432 rutE 7131320 rutE Escherichia coli S88 hypothetical protein YP_002390811.1 1059842 R 585035 CDS YP_002390812.1 218557899 7131319 complement(1060442..1061242) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16540542; Product type e : enzyme; enzyme of the alternative pyrimidine degradation pathway 1061242 rutD 7131319 rutD Escherichia coli S88 enzyme of the alternative pyrimidine degradation pathway YP_002390812.1 1060442 R 585035 CDS YP_002390813.1 218557900 7131318 complement(1061250..1061636) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16540542; Product type e : enzyme; enzyme of the alternative pyrimidine degradation pathway 1061636 rutC 7131318 rutC Escherichia coli S88 enzyme of the alternative pyrimidine degradation pathway YP_002390813.1 1061250 R 585035 CDS YP_002390814.1 218557901 7131317 complement(1061648..1062340) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16540542; Product type e : enzyme; enzyme of the alternative pyrimidine degradation pathway 1062340 rutB 7131317 rutB Escherichia coli S88 enzyme of the alternative pyrimidine degradation pathway YP_002390814.1 1061648 R 585035 CDS YP_002390815.1 218557902 7131316 complement(1062340..1063488) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16540542; Product type e : enzyme; monooxygenase of the alternative pyrimidine degradation pathway 1063488 rutA 7131316 rutA Escherichia coli S88 monooxygenase of the alternative pyrimidine degradation pathway YP_002390815.1 1062340 R 585035 CDS YP_002390816.1 218557903 7131315 1063718..1064356 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16540542; Product type r : regulator; DNA-binding transcriptional regulator of the alternative pyrimidine degradation pathway 1064356 rutR 7131315 rutR Escherichia coli S88 DNA-binding transcriptional regulator of the alternative pyrimidine degradation pathway YP_002390816.1 1063718 D 585035 CDS YP_002390817.1 218557904 7131323 complement(1064396..1068358) 1 NC_011742.1 proline utilization protein A; multifunctional protein that functions in proline catabolism in the first two enzymatic steps resulting in the conversion of proline to glutamate; in Escherichai coli this protein also self-regulates transcription via a DNA-binding domain at the N-terminus; forms dimers and is a peripherally membrane-associated protein; trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase 1068358 putA 7131323 putA Escherichia coli S88 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase YP_002390817.1 1064396 R 585035 CDS YP_002390818.1 218557905 7131758 1068781..1070289 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12923181, 88213396, 91227628, 93132799, 98359785, 1400239, 1567896, 3053649, 3053687, 3302614, 3325781, 8119910; Product type t : transporter; proline:sodium symporter 1070289 putP 7131758 putP Escherichia coli S88 proline:sodium symporter YP_002390818.1 1068781 D 585035 CDS YP_002390819.1 218557906 7131759 1070500..1071339 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; Product type t : transporter; ferrous iron permease 1071339 efeU 7131759 efeU Escherichia coli S88 ferrous iron permease YP_002390819.1 1070500 D 585035 CDS YP_002390820.1 218557907 7132385 1071397..1072524 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 17627767, 10493123; Product type t : transporter; hypothetical protein 1072524 efeO 7132385 efeO Escherichia coli S88 hypothetical protein YP_002390820.1 1071397 D 585035 CDS YP_002390821.1 218557908 7132384 1072530..1073801 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 17627767, 16551627, 15375152; Product type t : transporter; iron transport heme-binding periplasmic protein 1073801 efeB 7132384 efeB Escherichia coli S88 iron transport heme-binding periplasmic protein YP_002390821.1 1072530 D 585035 CDS YP_002390822.1 218557909 7132383 1074292..1075215 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8444794, 2160940; Product type pe : putative enzyme; hypothetical protein 1075215 phoH 7132383 phoH Escherichia coli S88 hypothetical protein YP_002390822.1 1074292 D 585035 CDS YP_002390823.1 218557910 7133725 complement(1075265..1075678) 1 NC_011742.1 in Yersinia this gene is involved in biofilm formation and hemin adsorption; in Escherichia coli it is involved in PGA biosynthesis and export; putative PGA biosynthesis protein 1075678 pgaD 7133725 pgaD Escherichia coli S88 putative PGA biosynthesis protein YP_002390823.1 1075265 R 585035 CDS YP_002390824.1 218557911 7133689 complement(1075680..1077005) 1 NC_011742.1 predicted polysaccharide polymerase involved in biofilm formation; required for the synthesis of the beta-1,6-N-acetylglucosamine polysaccharide; PgaC; in Yersinia the HmsR protein is an inner membrane protein; N-glycosyltransferase 1077005 pgaC 7133689 pgaC Escherichia coli S88 N-glycosyltransferase YP_002390824.1 1075680 R 585035 CDS YP_002390825.1 218557912 7133688 complement(1076998..1079016) 1 NC_011742.1 in Yersinia this protein is involved in biofilm formation and hemin adsorption; related protein PgaB in Escherichia coli is an outer membrane N-deacetylase involved in poly-beta-1,6-N-acetyl-D-glucosamine (PGA) export; outer membrane N-deacetylase 1079016 pgaB 7133688 pgaB Escherichia coli S88 outer membrane N-deacetylase YP_002390825.1 1076998 R 585035 CDS YP_002390826.1 218557913 7133686 1082036..1083403 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 99392474; Product type pe : putative enzyme; putative diguanylate cyclase 1083403 ycdT 7133686 ycdT Escherichia coli S88 putative diguanylate cyclase YP_002390826.1 1082036 D 585035 CDS YP_002390827.1 218557914 7132003 1083829..1084767 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11237876, 10493123; Product type e : enzyme; 2-ketoacid reductase 1084767 ycdW 7132003 ycdW Escherichia coli S88 2-ketoacid reductase YP_002390827.1 1083829 D 585035 CDS YP_002390828.1 218557915 7131425 1084822..1085559 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12661000; Product type pe : putative enzyme; putative hydrolase 1085559 ycdX 7131425 ycdX Escherichia coli S88 putative hydrolase YP_002390828.1 1084822 D 585035 CDS YP_002390829.1 218557916 7131426 1085583..1086137 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1086137 ycdY 7131426 ycdY Escherichia coli S88 hypothetical protein YP_002390829.1 1085583 D 585035 CDS YP_002390830.1 218557917 7131427 1086239..1086730 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1086730 ycdZ 7131427 ycdZ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390830.1 1086239 D 585035 CDS YP_002390831.1 218557918 7131428 complement(1086795..1087628) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8817489; Product type lp : lipoprotein; putative outer membrane lipoprotein involved in curli production assembly/transport 1087628 csgG 7131428 csgG Escherichia coli S88 putative outer membrane lipoprotein involved in curli production assembly/transport YP_002390831.1 1086795 R 585035 CDS YP_002390832.1 218557919 7131976 complement(1087655..1088071) 1 NC_011742.1 nucleator protein that participates in the polymerization of curlin (CsgA) subunits into curli (extracellular fibers from Escherichia and Salmonella spp. that are involved in the colonization of inert surfaces and biofilm formation); part of the curli secretion and assembly protein complex; curli assembly protein CsgF 1088071 csgF 7131976 csgF Escherichia coli S88 curli assembly protein CsgF YP_002390832.1 1087655 R 585035 CDS YP_002390833.1 218557920 7131975 complement(1088096..1088485) 1 NC_011742.1 chaperone-like protein that participates in the polymerization of curlin (CsgA) subunits into curli (extracellular fibers from Escherichia and Salmonella spp. that are involved in the colonization of inert surfaces and biofilm formation); part of the curli secretion and assembly protein complex; curli assembly protein CsgE 1088485 csgE 7131975 csgE Escherichia coli S88 curli assembly protein CsgE YP_002390833.1 1088096 R 585035 CDS YP_002390834.1 218557921 7131974 complement(1088490..1089140) 1 NC_011742.1 activates the csgBA and csgDEFG operons involved in biofilm formation; DNA-binding transcriptional regulator CsgD 1089140 csgD 7131974 csgD Escherichia coli S88 DNA-binding transcriptional regulator CsgD YP_002390834.1 1088490 R 585035 CDS YP_002390835.1 218557922 7131973 1089893..1090348 1 NC_011742.1 CsgB; functions as a nucleator in the assembly of curli (coiled surface structures) on the cell surface; curlin minor subunit 1090348 csgB 7131973 csgB Escherichia coli S88 curlin minor subunit YP_002390835.1 1089893 D 585035 CDS YP_002390836.1 218557923 7131971 1090389..1090844 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89201357, 93023873, 1677357, 8459772, 8817489, 1357528; Product type s : structure; cryptic curlin major subunit 1090844 csgA 7131971 csgA Escherichia coli S88 cryptic curlin major subunit YP_002390836.1 1090389 D 585035 CDS YP_002390837.1 218557924 7131970 1090744..1091235 1 NC_011742.1 involved in autoagglutination of curliated cells; not involved in production of curli fibers; putative autoagglutination protein 1091235 csgC 7131970 csgC Escherichia coli S88 putative autoagglutination protein YP_002390837.1 1090744 D 585035 CDS YP_002390838.1 218557925 7131972 1091356..1091667 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1091667 ymdA 7131972 ymdA Escherichia coli S88 hypothetical protein YP_002390838.1 1091356 D 585035 CDS YP_002390839.1 218557926 7131119 1091762..1092295 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1092295 ymdB 7131119 ymdB Escherichia coli S88 hypothetical protein YP_002390839.1 1091762 D 585035 CDS YP_002390840.1 218557927 7131120 1092297..1093718 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase 1093718 ymdC 7131120 ymdC Escherichia coli S88 putative hydrolase YP_002390840.1 1092297 D 585035 CDS YP_002390841.1 218557928 7131121 complement(1093726..1094883) 1 NC_011742.1 required for the transfer of succinyl residues to the glucan backbone; glucans biosynthesis protein 1094883 mdoC 7131121 mdoC Escherichia coli S88 glucans biosynthesis protein YP_002390841.1 1093726 R 585035 CDS YP_002390842.1 218557929 7128785 complement(1094928..1095071) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1095071 7128785 ECS88_1060 Escherichia coli S88 hypothetical protein YP_002390842.1 1094928 R 585035 CDS YP_002390843.1 218557930 7130734 complement(1095075..1095233) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1095233 7130734 ECS88_1061 Escherichia coli S88 hypothetical protein YP_002390843.1 1095075 R 585035 CDS YP_002390844.1 218557931 7130735 1095277..1096812 1 NC_011742.1 involved in the biosynthesis of osmoregulated periplasmic glucans; required for the assembly of the polyglucose structure of glucan; glucan biosynthesis protein G 1096812 mdoG 7130735 mdoG Escherichia coli S88 glucan biosynthesis protein G YP_002390844.1 1095277 D 585035 CDS YP_002390845.1 218557932 7128787 1096805..1099348 1 NC_011742.1 necessary for biosynthesis of osmoregulated periplasmic glucans possibly involved in the transfer to the periplasmic space; glucosyltransferase MdoH 1099348 mdoH 7128787 mdoH Escherichia coli S88 glucosyltransferase MdoH YP_002390845.1 1096805 D 585035 CDS YP_002390846.1 218557933 7128788 1099520..1099747 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; hypothetical protein 1099747 yceK 7128788 yceK Escherichia coli S88 hypothetical protein YP_002390846.1 1099520 D 585035 CDS YP_002390847.1 218557934 7131437 complement(1099748..1100122) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 92165719; hypothetical protein 1100122 msyB 7131437 msyB Escherichia coli S88 hypothetical protein YP_002390847.1 1099748 R 585035 CDS YP_002390848.1 218557935 7129618 complement(1100205..1101431) 1 NC_011742.1 Confers resistance to fosfomycin and deoxycholate; drug efflux system protein MdtG 1101431 mdtG 7129618 mdtG Escherichia coli S88 drug efflux system protein MdtG YP_002390848.1 1100205 R 585035 CDS YP_002390849.1 218557936 7128795 complement(1101603..1102523) 1 NC_011742.1 Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(lauroyl)-lipid IVA; lipid A biosynthesis lauroyl acyltransferase 1102523 lpxL 7128795 lpxL Escherichia coli S88 lipid A biosynthesis lauroyl acyltransferase YP_002390849.1 1101603 R 585035 CDS YP_002390850.1 218557937 7129386 1102748..1103800 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 1840644; hypothetical protein 1103800 yceA 7129386 yceA Escherichia coli S88 hypothetical protein YP_002390850.1 1102748 D 585035 CDS YP_002390851.1 218557938 7131429 complement(1103842..1104417) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 15741337, 11298273, 1840644, 9298646; Product type c : carrier; hypothetical protein 1104417 yceI 7131429 yceI Escherichia coli S88 hypothetical protein YP_002390851.1 1103842 R 585035 CDS YP_002390852.1 218557939 7131435 complement(1104421..1104987) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative cytochrome b561 1104987 yceJ 7131435 yceJ Escherichia coli S88 putative cytochrome b561 YP_002390852.1 1104421 R 585035 CDS YP_002390853.1 218557940 7131436 complement(1105248..1105388) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1105388 yceO 7131436 yceO Escherichia coli S88 hypothetical protein YP_002390853.1 1105248 R 585035 CDS YP_002390854.1 218557941 7131438 complement(1105409..1106527) 1 NC_011742.1 catalyzes the demethylation of N-methyl-L-tryptophan forming L-tryptophan and formaldehyde; FAD-binding; can also catalyze the demethylation of other N-methyl amino acids; N-methyltryptophan oxidase 1106527 solA 7131438 solA Escherichia coli S88 N-methyltryptophan oxidase YP_002390854.1 1105409 R 585035 CDS YP_002390855.1 218557942 7130621 complement(1106642..1106896) 1 NC_011742.1 BssS; regulator of biofilm through signal secretion; disruption of this gene in Escherichia coli led to effects on biofilm formation, alteration in expression of a number of genes and mutations in bssS led to defects in indole transport and autoinducer-2 uptake and processing; biofilm formation regulatory protein BssS 1106896 bssS 7130621 bssS Escherichia coli S88 biofilm formation regulatory protein BssS YP_002390855.1 1106642 R 585035 CDS YP_002390856.1 218557943 7129135 complement(1107186..1107563) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11230150, 11152126; Product type f : factor; DNA damage-inducible protein I 1107563 dinI 7129135 dinI Escherichia coli S88 DNA damage-inducible protein I YP_002390856.1 1107186 R 585035 CDS YP_002390857.1 218557944 7130209 complement(1107505..1108551) 1 NC_011742.1 catalyzes the formation of N-carbamoyl-L-aspartate from (S)-dihydroorotate in pyrimidine biosynthesis; dihydroorotase 1108551 pyrC 7130209 pyrC Escherichia coli S88 dihydroorotase YP_002390857.1 1107505 R 585035 CDS YP_002390858.1 218557945 7131764 complement(1108657..1109217) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; hypothetical protein 1109217 yceB 7131764 yceB Escherichia coli S88 hypothetical protein YP_002390858.1 1108657 R 585035 CDS YP_002390859.1 218557946 7131430 complement(1109351..1109998) 1 NC_011742.1 cofactor involved in the reduction of disulfides; glutaredoxin 2 1109998 grxB 7131430 grxB Escherichia coli S88 glutaredoxin 2 YP_002390859.1 1109351 R 585035 CDS YP_002390860.1 218557947 7130074 complement(1110062..1111270) 1 NC_011742.1 Confers resistance to norfloxacin and enoxacin; multidrug resistance protein MdtH 1111270 mdtH 7130074 mdtH Escherichia coli S88 multidrug resistance protein MdtH YP_002390860.1 1110062 R 585035 CDS YP_002390861.1 218557948 7128796 1111506..1112090 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88121676, 90136529, 1356970; Product type e : enzyme; ribosomal-protein-S5-alanine N-acetyltransferase 1112090 rimJ 7128796 rimJ Escherichia coli S88 ribosomal-protein-S5-alanine N-acetyltransferase YP_002390861.1 1111506 D 585035 CDS YP_002390862.1 218557949 7132724 1112101..1112748 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 1356970, 2828880; hypothetical protein 1112748 yceH 7132724 yceH Escherichia coli S88 hypothetical protein YP_002390862.1 1112101 D 585035 CDS YP_002390863.1 218557950 7131434 1112750..1113673 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase with NAD(P)-binding Rossmann-fold domain 1113673 mviM 7131434 mviM Escherichia coli S88 putative oxidoreductase with NAD(P)-binding Rossmann-fold domain YP_002390863.1 1112750 D 585035 CDS YP_002390864.1 218557951 7129645 1113783..1115318 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1115318 mviN 7129645 mviN Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390864.1 1113783 D 585035 CDS YP_002390865.1 218557952 7129646 complement(1115358..1115774) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10320579; Product type f : factor; export chaperone for FlgK and FlgL 1115774 flgN 7129646 flgN Escherichia coli S88 export chaperone for FlgK and FlgL YP_002390865.1 1115358 R 585035 CDS YP_002390866.1 218557953 7132782 complement(1115779..1116072) 1 NC_011742.1 regulates the flagellar specific sigma28 transcription factor; anti-sigma28 factor FlgM 1116072 flgM 7132782 flgM Escherichia coli S88 anti-sigma28 factor FlgM YP_002390866.1 1115779 R 585035 CDS YP_002390867.1 218557954 7132781 complement(1116148..1116807) 1 NC_011742.1 required for the assembly of the flagellar basal body P-ring; flagellar basal body P-ring biosynthesis protein FlgA 1116807 flgA 7132781 flgA Escherichia coli S88 flagellar basal body P-ring biosynthesis protein FlgA YP_002390867.1 1116148 R 585035 CDS YP_002390868.1 218557955 7129513 1116962..1117378 1 NC_011742.1 with FlgF and C makes up the proximal portion of the flagellar basal body rod; Vibrio parahaemolyticus protein is associated with the polar flagella; flagellar basal body rod protein FlgB 1117378 flgB 7129513 flgB Escherichia coli S88 flagellar basal body rod protein FlgB YP_002390868.1 1116962 D 585035 CDS YP_002390869.1 218557956 7129514 1117382..1117786 1 NC_011742.1 with FlgF and B makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgC 1117786 flgC 7129514 flgC Escherichia coli S88 flagellar basal body rod protein FlgC YP_002390869.1 1117382 D 585035 CDS YP_002390870.1 218557957 7129515 1117798..1118493 1 NC_011742.1 acts as a scaffold for the assembly of hook proteins onto the flagellar basal body rod; Yersinia, Vibrio parahaemolyticus, Bradyrhizobium and other organisms have 2 copies of some flagellar genes; in V. parahaemolyticus one set used for lateral flagella production and the other is used for the polar flagella production; flagellar basal body rod modification protein 1118493 flgD 7129515 flgD Escherichia coli S88 flagellar basal body rod modification protein YP_002390870.1 1117798 D 585035 CDS YP_002390871.1 218557958 7129516 1118518..1119723 1 NC_011742.1 the hook connects flagellar basal body to the flagellar filament; flagellar hook protein FlgE 1119723 flgE 7129516 flgE Escherichia coli S88 flagellar hook protein FlgE YP_002390871.1 1118518 D 585035 CDS YP_002390872.1 218557959 7133389 1119743..1120498 1 NC_011742.1 FlgF, with FlgB and C, makes up the proximal portion of the flagellar basal body rod; flagellar basal body rod protein FlgF 1120498 flgF 7133389 flgF Escherichia coli S88 flagellar basal body rod protein FlgF YP_002390872.1 1119743 D 585035 CDS YP_002390873.1 218557960 7132774 1120670..1121452 1 NC_011742.1 makes up the distal portion of the flagellar basal body rod; flagellar basal body rod protein FlgG 1121452 flgG 7132774 flgG Escherichia coli S88 flagellar basal body rod protein FlgG YP_002390873.1 1120670 D 585035 CDS YP_002390874.1 218557961 7132775 1121505..1122203 1 NC_011742.1 part of the flagellar basal body which consists of four rings L,P, S and M mounted on a central rod; flagellar basal body L-ring protein 1122203 flgH 7132775 flgH Escherichia coli S88 flagellar basal body L-ring protein YP_002390874.1 1121505 D 585035 CDS YP_002390875.1 218557962 7132776 1122215..1123312 1 NC_011742.1 part of the basal body which consists of four rings L, P, S, and M mounted on a central rod; Vibrio parahaemolyticus, Yersinia, Bradyrhizobium and other bacteria have two copies of this and other flagellar genes; the V. parahaemolyticus protein is associated with the polar flagella and the Bradyrhizobium protein is associated with the thick flagellum; flagellar basal body P-ring protein 1123312 flgI 7132776 flgI Escherichia coli S88 flagellar basal body P-ring protein YP_002390875.1 1122215 D 585035 CDS YP_002390876.1 218557963 7132777 1123312..1124253 1 NC_011742.1 Flagellum-specific muramidase which hydrolyzes the peptidoglycan layer to assemble the rod structure in the periplasmic space; flagellar rod assembly protein/muramidase FlgJ 1124253 flgJ 7132777 flgJ Escherichia coli S88 flagellar rod assembly protein/muramidase FlgJ YP_002390876.1 1123312 D 585035 CDS YP_002390877.1 218557964 7132778 1124319..1125962 1 NC_011742.1 with FlgL acts as a hook filament junction protein to join the flagellar filament to the hook; flagellar hook-associated protein FlgK 1125962 flgK 7132778 flgK Escherichia coli S88 flagellar hook-associated protein FlgK YP_002390877.1 1124319 D 585035 CDS YP_002390878.1 218557965 7132779 1125974..1126927 1 NC_011742.1 with FlgK acts as a hook filament junction protein to join the flagellar filament to the hook; Yersinia, Vibrio parahaemolyticus, Bradyrhizobium and other organisms have 2 copies of this and other flagellar genes; flagellar hook-associated protein FlgL 1126927 flgL 7132779 flgL Escherichia coli S88 flagellar hook-associated protein FlgL YP_002390878.1 1125974 D 585035 CDS YP_002390879.1 218557966 7132780 complement(1127122..1130307) 1 NC_011742.1 bifunctional ribonuclease E/endoribonuclease/RNA-binding protein/RNA degradosome binding protein; forms part of the membrane-associated degradosome complex along with PNPase, RhlB, and enolase; ribonuclease E 1130307 rne 7132780 rne Escherichia coli S88 ribonuclease E YP_002390879.1 1127122 R 585035 CDS YP_002390880.1 218557967 7129855 1130880..1131839 1 NC_011742.1 catalyzes the transformation of uracil to pseudouracil at nucleotides U955, U2504, and U2580 in 23S rRNA; 23S rRNA pseudouridylate synthase C 1131839 rluC 7129855 rluC Escherichia coli S88 23S rRNA pseudouridylate synthase C YP_002390880.1 1130880 D 585035 CDS YP_002390881.1 218557968 7132733 complement(1131951..1132535) 1 NC_011742.1 Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein 1132535 yceF 7132733 yceF Escherichia coli S88 Maf-like protein YP_002390881.1 1131951 R 585035 CDS YP_002390882.1 218557969 7130638 1132734..1133255 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 90008815, 1447160; hypothetical protein 1133255 yceD 7130638 yceD Escherichia coli S88 hypothetical protein YP_002390882.1 1132734 D 585035 CDS YP_002390883.1 218557970 7131431 1133307..1133480 1 NC_011742.1 some L32 proteins have zinc finger motifs consisting of CXXC while others do not; 50S ribosomal protein L32 1133480 rpmF 7131431 rpmF Escherichia coli S88 50S ribosomal protein L32 YP_002390883.1 1133307 D 585035 CDS YP_002390884.1 218557971 7133770 1133561..1134631 1 NC_011742.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsY; putative glycerol-3-phosphate acyltransferase PlsX 1134631 plsX 7133770 plsX Escherichia coli S88 putative glycerol-3-phosphate acyltransferase PlsX YP_002390884.1 1133561 D 585035 CDS YP_002390885.1 218557972 7133742 1134699..1135652 1 NC_011742.1 FabH; beta-ketoacyl-acyl carrier protein synthase III; catalyzes the condensation of acetyl-CoA with malonyl-ACP to initiate cycles of fatty acid elongation; differs from 3-oxoacyl-(acyl carrier protein) synthase I and II in that it utilizes CoA thioesters as primers rather than acyl-ACPs; 3-oxoacyl-(acyl carrier protein) synthase III 1135652 fabH 7133742 fabH Escherichia coli S88 3-oxoacyl-(acyl carrier protein) synthase III YP_002390885.1 1134699 D 585035 CDS YP_002390886.1 218557973 7129436 1135668..1136597 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92052166, 92183950, 92210530, 92234941, 7700236, 7768883, 9298646; Product type e : enzyme; malonyl-CoA-[acyl-carrier-protein] transacylase 1136597 fabD 7129436 fabD Escherichia coli S88 malonyl-CoA-[acyl-carrier-protein] transacylase YP_002390886.1 1135668 D 585035 CDS YP_002390887.1 218557974 7132444 1136610..1137344 1 NC_011742.1 catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-(acyl-carrier-protein) reductase 1137344 fabG 7132444 fabG Escherichia coli S88 3-ketoacyl-(acyl-carrier-protein) reductase YP_002390887.1 1136610 D 585035 CDS YP_002390888.1 218557975 7129435 1137555..1137791 1 NC_011742.1 carries the fatty acid chain in fatty acid biosynthesis; acyl carrier protein 1137791 acpP 7129435 acpP Escherichia coli S88 acyl carrier protein YP_002390888.1 1137555 D 585035 CDS YP_002390889.1 218557976 7132039 1137878..1139119 1 NC_011742.1 FabF; beta-ketoacyl-ACP synthase II, KASII; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP; 3-oxoacyl-(acyl carrier protein) synthase II 1139119 fabF 7132039 fabF Escherichia coli S88 3-oxoacyl-(acyl carrier protein) synthase II YP_002390889.1 1137878 D 585035 CDS YP_002390890.1 218557977 7132445 1139239..1140048 1 NC_011742.1 catalyzes the formation of 4-aminobenzoate and pyruvate from 4-amino-4-deoxychorismate; 4-amino-4-deoxychorismate lyase 1140048 pabC 7132445 pabC Escherichia coli S88 4-amino-4-deoxychorismate lyase YP_002390890.1 1139239 D 585035 CDS YP_002390891.1 218557978 7133155 1140051..1141073 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; hypothetical protein 1141073 yceG 7133155 yceG Escherichia coli S88 hypothetical protein YP_002390891.1 1140051 D 585035 CDS YP_002390892.1 218557979 7131433 1141063..1141704 1 NC_011742.1 catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to thymidine monophosphate (dTMP) to form thymidine diphosphate (dTDP); thymidylate kinase 1141704 tmk 7131433 tmk Escherichia coli S88 thymidylate kinase YP_002390892.1 1141063 D 585035 CDS YP_002390893.1 218557980 7133480 1141701..1142705 1 NC_011742.1 catalyzes the DNA-template-directed extension of the 3'-end of a DNA strand; the delta' subunit seems to interact with the gamma subunit to transfer the beta subunit on the DNA; DNA polymerase III subunit delta' 1142705 holB 7133480 holB Escherichia coli S88 DNA polymerase III subunit delta' YP_002390893.1 1141701 D 585035 CDS YP_002390894.1 218557981 7128942 1142716..1143513 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8505303, 8509334, 10747959; Product type pe : putative enzyme; putative metallodependent hydrolase 1143513 ycfH 7128942 ycfH Escherichia coli S88 putative metallodependent hydrolase YP_002390894.1 1142716 D 585035 CDS YP_002390895.1 218557982 7131440 1143808..1145241 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system glucose-specific transporter subunits IIBC 1145241 ptsG 7131440 ptsG Escherichia coli S88 PTS system glucose-specific transporter subunits IIBC YP_002390895.1 1143808 D 585035 CDS YP_002390896.1 218557983 7132363 complement(1145301..1147490) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90286919, 3032906, 10529396; Product type t : transporter; ferric-rhodotorulic acid outer membrane transporter 1147490 fhuE 7132363 fhuE Escherichia coli S88 ferric-rhodotorulic acid outer membrane transporter YP_002390896.1 1145301 R 585035 CDS YP_002390897.1 218557984 7129486 1147824..1148183 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15703176, 10493123, 2162465; Product type e : enzyme; purine nucleoside phosphoramidase 1148183 hinT 7129486 hinT Escherichia coli S88 purine nucleoside phosphoramidase YP_002390897.1 1147824 D 585035 CDS YP_002390898.1 218557985 7128916 1148186..1148563 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1148563 ycfL 7128916 ycfL Escherichia coli S88 hypothetical protein YP_002390898.1 1148186 D 585035 CDS YP_002390899.1 218557986 7131442 1148577..1149218 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative outer membrane lipoprotein 1149218 ycfM 7131442 ycfM Escherichia coli S88 putative outer membrane lipoprotein YP_002390899.1 1148577 D 585035 CDS YP_002390900.1 218557987 7131443 1149199..1150023 1 NC_011742.1 catalyzes the phosphorylation of thiamine to thiamine phosphate; thiamine kinase 1150023 thiK 7131443 thiK Escherichia coli S88 thiamine kinase YP_002390900.1 1149199 D 585035 CDS YP_002390901.1 218557988 7131444 1150034..1151059 1 NC_011742.1 hydrolyzes the terminal non-reducing N-acetyl-D-hexosamine residues in N-acetyl-beta-D-hexosaminides; beta-hexosaminidase 1151059 nagZ 7131444 nagZ Escherichia coli S88 beta-hexosaminidase YP_002390901.1 1150034 D 585035 CDS YP_002390902.1 218557989 7129661 1151082..1151624 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1151624 ycfP 7129661 ycfP Escherichia coli S88 hypothetical protein YP_002390902.1 1151082 D 585035 CDS YP_002390903.1 218557990 7131445 1152023..1153327 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14766919, 20130027, 81256452, 92296775, 94042945, 99441207, 6265208; Product type e : enzyme; respiratory NADH dehydrogenase 2/cupric reductase 1153327 ndh 7131445 ndh Escherichia coli S88 respiratory NADH dehydrogenase 2/cupric reductase YP_002390903.1 1152023 D 585035 CDS YP_002390904.1 218557991 7129690 1153554..1154093 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 6265208, 7984428; hypothetical protein 1154093 ycfJ 7129690 ycfJ Escherichia coli S88 hypothetical protein YP_002390904.1 1153554 D 585035 CDS YP_002390905.1 218557992 7131441 complement(1154155..1154787) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1154787 ycfQ 7131441 ycfQ Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390905.1 1154155 R 585035 CDS YP_002390906.1 218557993 7131446 1155028..1155285 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 14727089; hypothetical protein 1155285 ycfR 7131446 ycfR Escherichia coli S88 hypothetical protein YP_002390906.1 1155028 D 585035 CDS YP_002390907.1 218557994 7131447 complement(1155367..1156329) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1156329 ycfS 7131447 ycfS Escherichia coli S88 hypothetical protein YP_002390907.1 1155367 R 585035 CDS YP_002390908.1 218557995 7131448 complement(1156474..1159920) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14602898, 90158497, 92107993, 8465200; Product type f : factor; transcription-repair coupling factor 1159920 mfd 7131448 mfd Escherichia coli S88 transcription-repair coupling factor YP_002390908.1 1156474 R 585035 CDS YP_002390909.1 218557996 7128825 complement(1160048..1161121) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1161121 ycfT 7128825 ycfT Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390909.1 1160048 R 585035 CDS YP_002390910.1 218557997 7131449 1161383..1162582 1 NC_011742.1 part of the ATP-dependent transport system LolCDE; responsible for the localization of lipoproteins to the periplasmic surface of the outer membrane; outer membrane-specific lipoprotein transporter subunit LolC 1162582 lolC 7131449 lolC Escherichia coli S88 outer membrane-specific lipoprotein transporter subunit LolC YP_002390910.1 1161383 D 585035 CDS YP_002390911.1 218557998 7129370 1162575..1163276 1 NC_011742.1 outer membrane specific; part of transporter complex lolCDE involved in the translocation of mature outer membrane-directed lipoproteins, from the inner membrane to the periplasmic chaperone; lipoprotein transporter ATP-binding subunit 1163276 lolD 7129370 lolD Escherichia coli S88 lipoprotein transporter ATP-binding subunit YP_002390911.1 1162575 D 585035 CDS YP_002390912.1 218557999 7129371 1163276..1164520 1 NC_011742.1 part of the ATP-dependent transport system LolCDE; responsible for the localization of lipoproteins to the periplasmic surface of the outer membrane; outer membrane-specific lipoprotein transporter subunit LolE 1164520 lolE 7129371 lolE Escherichia coli S88 outer membrane-specific lipoprotein transporter subunit LolE YP_002390912.1 1163276 D 585035 CDS YP_002390913.1 218558000 7129372 1164549..1165460 1 NC_011742.1 catalyzes the formation of N-acetyl-D-glucosamine-6-phosphate from N-acetyl-D-glucosamine; N-acetyl-D-glucosamine kinase 1165460 ycfX 7129372 ycfX Escherichia coli S88 N-acetyl-D-glucosamine kinase YP_002390913.1 1164549 D 585035 CDS YP_002390914.1 218558001 7131450 1165476..1166297 1 NC_011742.1 Modulates the activities of several enzymes which are inactive in their acetylated form; NAD-dependent deacetylase 1166297 cobB 7131450 cobB Escherichia coli S88 NAD-dependent deacetylase YP_002390914.1 1165476 D 585035 CDS YP_002390915.1 218558002 7131941 complement(1166435..1167325) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1167325 ycfZ 7131941 ycfZ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390915.1 1166435 R 585035 CDS YP_002390916.1 218558003 7131451 complement(1167220..1167681) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1167681 ymfA 7131451 ymfA Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002390916.1 1167220 R 585035 CDS YP_002390917.1 218558004 7131122 complement(1167739..1168785) 1 NC_011742.1 can transport spermidine and putrescine but affinity is higher for spermidine; forms a complex of PotA2BCD; PotD is a periplasmic component that binds the substrate; spermidine/putrescine ABC transporter periplasmic substrate-binding protein 1168785 potD 7131122 potD Escherichia coli S88 spermidine/putrescine ABC transporter periplasmic substrate-binding protein YP_002390917.1 1167739 R 585035 CDS YP_002390918.1 218558005 7130744 complement(1168782..1169576) 1 NC_011742.1 can transport spermidine and putrescine but affinity is higher for spermidine; forms a complex of PotA2BCD; PotC is a membrane component; spermidine/putrescine ABC transporter membrane protein 1169576 potC 7130744 potC Escherichia coli S88 spermidine/putrescine ABC transporter membrane protein YP_002390918.1 1168782 R 585035 CDS YP_002390919.1 218558006 7130743 complement(1169573..1170400) 1 NC_011742.1 can transport spermidine and putrescine but affinity is higher for spermidine; forms a complex of PotA2BCD; PotB is a membrane component; spermidine/putrescine ABC transporter membrane protein 1170400 potB 7130743 potB Escherichia coli S88 spermidine/putrescine ABC transporter membrane protein YP_002390919.1 1169573 R 585035 CDS YP_002390920.1 218558007 7130742 complement(1170414..1171550) 1 NC_011742.1 functions together with PotBCD (A2BCD) in ATP-dependent polyamine transport; PotA is the membrane-associated ATPase; putrescine/spermidine ABC transporter ATPase protein 1171550 potA 7130742 potA Escherichia coli S88 putrescine/spermidine ABC transporter ATPase protein YP_002390920.1 1170414 R 585035 CDS YP_002390921.1 218558008 7130741 complement(1171529..1171780) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1171780 7130741 ECS88_1141 Escherichia coli S88 hypothetical protein YP_002390921.1 1171529 R 585035 CDS YP_002390922.1 218558009 7130736 1171800..1173026 1 NC_011742.1 catalyzes the release of the N-terminal amino acid from a tripeptide; peptidase T 1173026 pepT 7130736 pepT Escherichia coli S88 peptidase T YP_002390922.1 1171800 D 585035 CDS YP_002390923.1 218558010 7133676 complement(1173075..1174196) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1174196 ycfD 7133676 ycfD Escherichia coli S88 hypothetical protein YP_002390923.1 1173075 R 585035 CDS YP_002390924.1 218558011 7131439 complement(1174272..1175732) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92105017; Product type r : regulator; sensor protein PhoQ 1175732 phoQ 7131439 phoQ Escherichia coli S88 sensor protein PhoQ YP_002390924.1 1174272 R 585035 CDS YP_002390925.1 218558012 7133727 complement(1175732..1176403) 1 NC_011742.1 response regulator in two-component regulatory system with PhoQ; involved in magnesium starvation and stress; DNA-binding transcriptional regulator PhoP 1176403 phoP 7133727 phoP Escherichia coli S88 DNA-binding transcriptional regulator PhoP YP_002390925.1 1175732 R 585035 CDS YP_002390926.1 218558013 7133726 complement(1176572..1177942) 1 NC_011742.1 Catalyzes two discrete reactions in the de novo synthesis of purines: the cleavage of adenylosuccinate and succinylaminoimidazole carboxamide ribotide; adenylosuccinate lyase 1177942 purB 7133726 purB Escherichia coli S88 adenylosuccinate lyase YP_002390926.1 1176572 R 585035 CDS YP_002390927.1 218558014 7131745 complement(1177946..1178587) 1 NC_011742.1 HflD; UPF0274; in Escherichia coli this protein is peripherally associated with the membrane and appears to act with lambda CII protein; in Haemophilus influenzae a knockout of the HI0638 gene affected paracytosis; hypothetical protein 1178587 hflD 7131745 hflD Escherichia coli S88 hypothetical protein YP_002390927.1 1177946 R 585035 CDS YP_002390928.1 218558015 7128910 complement(1178623..1179729) 1 NC_011742.1 catalyzes a sulfuration reaction to synthesize 2-thiouridine at the U34 position of tRNAs; tRNA-specific 2-thiouridylase MnmA 1179729 mnmA 7128910 mnmA Escherichia coli S88 tRNA-specific 2-thiouridylase MnmA YP_002390928.1 1178623 R 585035 CDS YP_002390929.1 218558016 7130342 complement(1179783..1180244) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15292217; Product type e : enzyme; bifunctional thiamin pyrimidine pyrophosphate hydrolase and thiamin pyrophosphate hydrolase 1180244 ymfB 7130342 ymfB Escherichia coli S88 bifunctional thiamin pyrimidine pyrophosphate hydrolase and thiamin pyrophosphate hydrolase YP_002390929.1 1179783 R 585035 CDS YP_002390930.1 218558017 7131123 complement(1180254..1180907) 1 NC_011742.1 catalyzes the formation of pseudouridine from uracil-2457 in 23S ribosomal RNA; 23S rRNA pseudouridine synthase E 1180907 ymfC 7131123 ymfC Escherichia coli S88 23S rRNA pseudouridine synthase E YP_002390930.1 1180254 R 585035 CDS YP_002390931.1 218558018 7131124 1181079..1182329 1 NC_011742.1 Converts isocitrate to alpha ketoglutarate; isocitrate dehydrogenase 1182329 icd 7131124 icd Escherichia coli S88 isocitrate dehydrogenase YP_002390931.1 1181079 D 585035 CDS YP_002390932.1 218558019 7131611 complement(1182443..1183585) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; phage integrase 1183585 int 7131611 int Escherichia coli S88 phage integrase YP_002390932.1 1182443 R 585035 CDS YP_002390933.1 218558020 7131648 complement(1183575..1183811) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative excisionase 1183811 ymfG 7131648 ymfG Escherichia coli S88 putative excisionase YP_002390933.1 1183575 R 585035 CDS YP_002390934.1 218558021 7131125 complement(1183951..1184190) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1184190 7131125 ECS88_1154 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390934.1 1183951 R 585035 CDS YP_002390935.1 218558022 7130737 complement(1184174..1184503) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1184503 7130737 ECS88_1155 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390935.1 1184174 R 585035 CDS YP_002390936.1 218558023 7130738 1184515..1184682 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein; putative exported protein 1184682 7130738 ECS88_1156 Escherichia coli S88 hypothetical protein; putative exported protein YP_002390936.1 1184515 D 585035 CDS YP_002390937.1 218558024 7130819 complement(1184915..1185097) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1185097 7130819 ECS88_1157 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390937.1 1184915 R 585035 CDS YP_002390938.1 218558025 7131500 complement(1185108..1185299) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1185299 7131500 ECS88_1158 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390938.1 1185108 R 585035 CDS YP_002390939.1 218558026 7131501 complement(1185272..1185460) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1185460 7131501 ECS88_1159 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390939.1 1185272 R 585035 CDS YP_002390940.1 218558027 7131502 complement(1185451..1186131) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; exonuclease from phage origin 1186131 7131502 ECS88_1160 Escherichia coli S88 exonuclease from phage origin YP_002390940.1 1185451 R 585035 CDS YP_002390941.1 218558028 7131503 complement(1186128..1186913) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 6458018, 6221115; Product type h : extrachromosomal origin; Recombination protein bet from phage origin 1186913 7131503 ECS88_1161 Escherichia coli S88 Recombination protein bet from phage origin YP_002390941.1 1186128 R 585035 CDS YP_002390942.1 218558029 7131504 complement(1186919..1187215) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative host-nuclease inhibitor protein Gam of bacteriophage 1187215 7131504 ECS88_1162 Escherichia coli S88 putative host-nuclease inhibitor protein Gam of bacteriophage YP_002390942.1 1186919 R 585035 CDS YP_002390943.1 218558030 7131505 complement(1187403..1187567) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Regulatory protein CIII 1187567 7131505 ECS88_1163 Escherichia coli S88 Regulatory protein CIII YP_002390943.1 1187403 R 585035 CDS YP_002390944.1 218558031 7131506 complement(1187640..1188008) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; Putative single-stranded DNA binding protein of prophage 1188008 7131506 ECS88_1164 Escherichia coli S88 Putative single-stranded DNA binding protein of prophage YP_002390944.1 1187640 R 585035 CDS YP_002390945.1 218558032 7131507 complement(1188191..1188391) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Restriction inhibitor protein ral (Antirestriction protein) 1188391 7131507 ECS88_1165 Escherichia coli S88 Restriction inhibitor protein ral (Antirestriction protein) YP_002390945.1 1188191 R 585035 CDS YP_002390947.1 218558034 7131509 1188605..1189186 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8335629; Product type h : extrachromosomal origin; Superinfection exclusion protein B 1189186 7131509 ECS88_1167 Escherichia coli S88 Superinfection exclusion protein B YP_002390947.1 1188605 D 585035 CDS YP_002390948.1 218558035 7131510 1189447..1189668 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 1189668 7131510 ECS88_1168 Escherichia coli S88 hypothetical protein YP_002390948.1 1189447 D 585035 CDS YP_002390949.1 218558036 7131511 complement(1189860..1190012) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 1190012 7131511 ECS88_1169 Escherichia coli S88 hypothetical protein YP_002390949.1 1189860 R 585035 CDS YP_002390950.1 218558037 7131512 complement(1189912..1190664) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1190664 7131512 ECS88_1170 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390950.1 1189912 R 585035 CDS YP_002390951.1 218558038 7131513 complement(1191258..1191959) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Repressor protein CI from phage origin 1191959 7131513 ECS88_1171 Escherichia coli S88 Repressor protein CI from phage origin YP_002390951.1 1191258 R 585035 CDS YP_002390952.1 218558039 7131514 1191858..1192244 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative repressor protein 1192244 7131514 ECS88_1172 Escherichia coli S88 putative repressor protein YP_002390952.1 1191858 D 585035 CDS YP_002390953.1 218558040 7131515 1192386..1192682 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 375198; Product type h : extrachromosomal origin; Regulatory protein CII from phage origin 1192682 7131515 ECS88_1173 Escherichia coli S88 Regulatory protein CII from phage origin YP_002390953.1 1192386 D 585035 CDS YP_002390954.1 218558041 7131518 1193544..1194245 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative replication protein P of bacteriophage 1194245 7131518 ECS88_1176 Escherichia coli S88 putative replication protein P of bacteriophage YP_002390954.1 1193544 D 585035 CDS YP_002390955.1 218558042 7131519 1194242..1194532 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Ren protein from phage origin 1194532 7131519 ECS88_1177 Escherichia coli S88 Ren protein from phage origin YP_002390955.1 1194242 D 585035 CDS YP_002390956.1 218558043 7131520 1194588..1195046 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; recombination protein ninB from phage origin 1195046 7131520 ECS88_1178 Escherichia coli S88 recombination protein ninB from phage origin YP_002390956.1 1194588 D 585035 CDS YP_002390957.1 218558044 7131521 1194983..1195570 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DNA N-6-adenine-methyltransferase from phage origin 1195570 7131521 ECS88_1179 Escherichia coli S88 putative DNA N-6-adenine-methyltransferase from phage origin YP_002390957.1 1194983 D 585035 CDS YP_002390958.1 218558045 7131522 1195704..1196087 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein, putative protein ninX from phage origin 1196087 7131522 ECS88_1180 Escherichia coli S88 conserved hypothetical protein, putative protein ninX from phage origin YP_002390958.1 1195704 D 585035 CDS YP_002390959.1 218558046 7131523 1196294..1196656 1 NC_011742.1 DLP12 prophage; Holliday junction resolvase; endodeoxyribonuclease RUS 1196656 rusA 7131523 rusA Escherichia coli S88 endodeoxyribonuclease RUS YP_002390959.1 1196294 D 585035 CDS YP_002390960.1 218558047 7131312 1196879..1197262 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8648624, 9278503; Product type pf : putative factor; putative antitermination protein Q homolog; DLP12 prophage 1197262 ybcQ 7131312 ybcQ Escherichia coli S88 putative antitermination protein Q homolog; DLP12 prophage YP_002390960.1 1196879 D 585035 CDS YP_002390961.1 218558048 7131187 complement(1197451..1198593) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative outer membrane porin 1198593 nmpC 7131187 nmpC Escherichia coli S88 putative outer membrane porin YP_002390961.1 1197451 R 585035 CDS YP_002390962.1 218558049 7129726 1199122..1199337 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2019562; Product type pe : putative enzyme; putative phage lysis protein S; DLP12 prophage 1199337 essD 7129726 essD Escherichia coli S88 putative phage lysis protein S; DLP12 prophage YP_002390962.1 1199122 D 585035 CDS YP_002390963.1 218558050 7132419 1199337..1199834 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 3017988; Product type pe : putative enzyme; putative lysozyme; DLP12 prophage 1199834 ybcS 7132419 ybcS Escherichia coli S88 putative lysozyme; DLP12 prophage YP_002390963.1 1199337 D 585035 CDS YP_002390964.1 218558051 7131188 1199831..1200292 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2019562; Product type pe : putative enzyme; putative murein endopeptidase; DLP12 prophage 1200292 rzpD 7131188 rzpD Escherichia coli S88 putative murein endopeptidase; DLP12 prophage YP_002390964.1 1199831 D 585035 CDS YP_002390965.1 218558052 7131355 complement(1200324..1200617) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 95173101; Product type pm : putative membrane component; putative lipoprotein; DLP12 prophage 1200617 borD 7131355 borD Escherichia coli S88 putative lipoprotein; DLP12 prophage YP_002390965.1 1200324 R 585035 CDS YP_002390966.1 218558053 7129132 1201044..1201424 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tonB-like membrane protein encoded within prophage 1201424 7129132 ECS88_1188 Escherichia coli S88 putative tonB-like membrane protein encoded within prophage YP_002390966.1 1201044 D 585035 CDS YP_002390967.1 218558054 7131524 1201631..1201813 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1201813 7131524 ECS88_1189 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390967.1 1201631 D 585035 CDS YP_002390968.1 218558055 7131525 1202040..1202294 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 1202294 7131525 ECS88_1190 Escherichia coli S88 hypothetical protein YP_002390968.1 1202040 D 585035 CDS YP_002390969.1 218558056 7131526 1202376..1202924 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type f : factor; Terminase small subunit (Gp1) 1202924 7131526 ECS88_1191 Escherichia coli S88 Terminase small subunit (Gp1) YP_002390969.1 1202376 D 585035 CDS YP_002390970.1 218558057 7131527 1202854..1204824 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Terminase large subunit (Gp2) 1204824 7131527 ECS88_1192 Escherichia coli S88 Terminase large subunit (Gp2) YP_002390970.1 1202854 D 585035 CDS YP_002390971.1 218558058 7131528 1204808..1205014 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head-stabilizing protein (Head protein gp3) 1205014 7131528 ECS88_1193 Escherichia coli S88 Head-stabilizing protein (Head protein gp3) YP_002390971.1 1204808 D 585035 CDS YP_002390972.1 218558059 7131529 1204981..1206603 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Portal protein (Head protein Gp4) 1206603 7131529 ECS88_1194 Escherichia coli S88 Portal protein (Head protein Gp4) YP_002390972.1 1204981 D 585035 CDS YP_002390973.1 218558060 7131530 1206593..1208098 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head-tail preconnector protein GP5 [Contains: Scaffold protein GP6 (Head protein GP6)] 1208098 7131530 ECS88_1195 Escherichia coli S88 Head-tail preconnector protein GP5 [Contains: Scaffold protein GP6 (Head protein GP6)] YP_002390973.1 1206593 D 585035 CDS YP_002390974.1 218558061 7131531 1208135..1208482 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head decoration protein (Head protein GPshp) 1208482 7131531 ECS88_1196 Escherichia coli S88 Head decoration protein (Head protein GPshp) YP_002390974.1 1208135 D 585035 CDS YP_002390975.1 218558062 7131532 1208540..1209568 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major head protein (Head protein gp7) 1209568 7131532 ECS88_1197 Escherichia coli S88 Major head protein (Head protein gp7) YP_002390975.1 1208540 D 585035 CDS YP_002390976.1 218558063 7131533 1209572..1209994 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1209994 7131533 ECS88_1198 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390976.1 1209572 D 585035 CDS YP_002390977.1 218558064 7131534 1209951..1210340 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail attachment protein (Minor capsid protein FII) 1210340 7131534 ECS88_1199 Escherichia coli S88 Tail attachment protein (Minor capsid protein FII) YP_002390977.1 1209951 D 585035 CDS YP_002390978.1 218558065 7131535 1210286..1210930 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein Z (GpZ) 1210930 7131535 ECS88_1200 Escherichia coli S88 Minor tail protein Z (GpZ) YP_002390978.1 1210286 D 585035 CDS YP_002390979.1 218558066 7131536 1210927..1211322 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein U 1211322 7131536 ECS88_1201 Escherichia coli S88 Minor tail protein U YP_002390979.1 1210927 D 585035 CDS YP_002390980.1 218558067 7131537 1211300..1212070 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major tail protein V 1212070 7131537 ECS88_1202 Escherichia coli S88 Major tail protein V YP_002390980.1 1211300 D 585035 CDS YP_002390981.1 218558068 7131538 1212086..1212508 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein G 1212508 7131538 ECS88_1203 Escherichia coli S88 Minor tail protein G YP_002390981.1 1212086 D 585035 CDS YP_002390982.1 218558069 7131539 1212490..1212924 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein T 1212924 7131539 ECS88_1204 Escherichia coli S88 Minor tail protein T YP_002390982.1 1212490 D 585035 CDS YP_002390983.1 218558070 7131540 1212917..1215478 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein precursor H 1215478 7131540 ECS88_1205 Escherichia coli S88 Minor tail protein precursor H YP_002390983.1 1212917 D 585035 CDS YP_002390984.1 218558071 7131541 1215475..1215804 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein M 1215804 7131541 ECS88_1206 Escherichia coli S88 Minor tail protein M YP_002390984.1 1215475 D 585035 CDS YP_002390985.1 218558072 7131542 1215804..1216502 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein L 1216502 7131542 ECS88_1207 Escherichia coli S88 Minor tail protein L YP_002390985.1 1215804 D 585035 CDS YP_002390986.1 218558073 7131543 1216508..1217251 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tail fiber component K of prophage 1217251 7131543 ECS88_1208 Escherichia coli S88 putative tail fiber component K of prophage YP_002390986.1 1216508 D 585035 CDS YP_002390987.1 218558074 7131544 1217149..1217820 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail assembly protein I 1217820 7131544 ECS88_1209 Escherichia coli S88 Tail assembly protein I YP_002390987.1 1217149 D 585035 CDS YP_002390988.1 218558075 7131545 1217881..1221363 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Host specificity protein J of prophage 1221363 7131545 ECS88_1210 Escherichia coli S88 Host specificity protein J of prophage YP_002390988.1 1217881 D 585035 CDS YP_002390989.1 218558076 7131546 1221416..1223482 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative side tail fiber protein homolog from lambdoid prophage 1223482 7131546 ECS88_1211 Escherichia coli S88 putative side tail fiber protein homolog from lambdoid prophage YP_002390989.1 1221416 D 585035 CDS YP_002390990.1 218558077 7131547 1223479..1223757 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1223757 7131547 ECS88_1212 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002390990.1 1223479 D 585035 CDS YP_002390991.1 218558078 7131548 1223770..1224063 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1224063 7131548 ECS88_1213 Escherichia coli S88 hypothetical protein YP_002390991.1 1223770 D 585035 CDS YP_002390992.1 218558079 7131549 complement(1224155..1225012) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12654809, 10085045; Product type m : membrane component; iron transport protein, inner membrane component 1225012 sitD 7131549 sitD Escherichia coli S88 iron transport protein, inner membrane component YP_002390992.1 1224155 R 585035 CDS YP_002390993.1 218558080 7130603 complement(1225009..1225866) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12654809, 10085045; Product type m : membrane component; iron transport protein, inner membrane component 1225866 sitC 7130603 sitC Escherichia coli S88 iron transport protein, inner membrane component YP_002390993.1 1225009 R 585035 CDS YP_002390994.1 218558081 7130602 complement(1225863..1226690) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12654809, 10085045; Product type m : membrane component; iron transport protein, ATP-binding component 1226690 sitB 7130602 sitB Escherichia coli S88 iron transport protein, ATP-binding component YP_002390994.1 1225863 R 585035 CDS YP_002390995.1 218558082 7130601 complement(1226690..1227604) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12654809, 10085045; Product type t : transporter; iron transport protein, periplasmic-binding protein 1227604 sitA 7130601 sitA Escherichia coli S88 iron transport protein, periplasmic-binding protein YP_002390995.1 1226690 R 585035 CDS YP_002390996.1 218558083 7130600 1228291..1229061 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1229061 7130600 ECS88_1218 Escherichia coli S88 hypothetical protein YP_002390996.1 1228291 D 585035 CDS YP_002390997.1 218558084 7131550 1229184..1229339 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1229339 7131550 ECS88_1219 Escherichia coli S88 hypothetical protein YP_002390997.1 1229184 D 585035 CDS YP_002390998.1 218558085 7131612 complement(1229947..1230351) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1230351 ycgX 7131612 ycgX Escherichia coli S88 hypothetical protein YP_002390998.1 1229947 R 585035 CDS YP_002390999.1 218558086 7131462 complement(1230572..1231303) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1231303 ycgE 7131462 ycgE Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002390999.1 1230572 R 585035 CDS YP_002391000.1 218558087 7131453 complement(1231213..1231365) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1231365 7131453 ECS88_1223 Escherichia coli S88 hypothetical protein YP_002391000.1 1231213 R 585035 CDS YP_002391001.1 218558088 7131552 complement(1231508..1232719) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16533062, 15453820; Product type pe : putative enzyme; putative cyclic-di-GMP phosphodiesterase; blue-light sensing protein using FAD (BLUF) 1232719 ycgF 7131552 ycgF Escherichia coli S88 putative cyclic-di-GMP phosphodiesterase; blue-light sensing protein using FAD (BLUF) YP_002391001.1 1231508 R 585035 CDS YP_002391002.1 218558089 7131454 1233033..1233269 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1233269 ycgZ 7131454 ycgZ Escherichia coli S88 hypothetical protein YP_002391002.1 1233033 D 585035 CDS YP_002391003.1 218558090 7131463 1233312..1233584 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1233584 ymgA 7131463 ymgA Escherichia coli S88 hypothetical protein YP_002391003.1 1233312 D 585035 CDS YP_002391004.1 218558091 7131133 1233613..1233879 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1233879 ymgB 7131133 ymgB Escherichia coli S88 hypothetical protein YP_002391004.1 1233613 D 585035 CDS YP_002391005.1 218558092 7131134 1233992..1234240 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1234240 ymgC 7131134 ymgC Escherichia coli S88 hypothetical protein YP_002391005.1 1233992 D 585035 CDS YP_002391006.1 218558093 7131455 1235563..1235781 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1235781 ymgF 7131455 ymgF Escherichia coli S88 hypothetical protein YP_002391006.1 1235563 D 585035 CDS YP_002391007.1 218558094 7131138 1236179..1236358 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein; putative exported protein 1236358 7131138 ECS88_1231 Escherichia coli S88 hypothetical protein; putative exported protein YP_002391007.1 1236179 D 585035 CDS YP_002391008.1 218558095 7131553 1236648..1237025 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1237025 7131553 ECS88_1232 Escherichia coli S88 hypothetical protein YP_002391008.1 1236648 D 585035 CDS YP_002391009.1 218558096 7131554 1237171..1237698 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1237698 7131554 ECS88_1233 Escherichia coli S88 hypothetical protein YP_002391009.1 1237171 D 585035 CDS YP_002391010.1 218558097 7131555 complement(1237756..1238085) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1238085 ymgD 7131555 ymgD Escherichia coli S88 hypothetical protein YP_002391010.1 1237756 R 585035 CDS YP_002391011.1 218558098 7131136 complement(1238095..1238370) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1238370 ymgG 7131136 ymgG Escherichia coli S88 hypothetical protein YP_002391011.1 1238095 R 585035 CDS YP_002391012.1 218558099 7132074 complement(1239731..1239997) 1 NC_011742.1 works in conjunction with MinC and MinD to enable cell division at the midpoint of the long axis of the cell; cell division topological specificity factor MinE 1239997 minE 7132074 minE Escherichia coli S88 cell division topological specificity factor MinE YP_002391012.1 1239731 R 585035 CDS YP_002391013.1 218558100 7128838 complement(1240001..1240813) 1 NC_011742.1 ATPase; with MinC inhibits cell division by blocking formation of the polar Z ring septums; cell division inhibitor MinD 1240813 minD 7128838 minD Escherichia coli S88 cell division inhibitor MinD YP_002391013.1 1240001 R 585035 CDS YP_002391014.1 218558101 7128837 complement(1240837..1241532) 1 NC_011742.1 blocks the formation of polar Z-ring septums; septum formation inhibitor 1241532 minC 7128837 minC Escherichia coli S88 septum formation inhibitor YP_002391014.1 1240837 R 585035 CDS YP_002391015.1 218558102 7128836 1242052..1242420 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1242420 ycgJ 7128836 ycgJ Escherichia coli S88 hypothetical protein YP_002391015.1 1242052 D 585035 CDS YP_002391016.1 218558103 7131456 complement(1242540..1242941) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1242941 ycgK 7131456 ycgK Escherichia coli S88 hypothetical protein YP_002391016.1 1242540 R 585035 CDS YP_002391017.1 218558104 7131457 1243150..1243476 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1243476 ycgL 7131457 ycgL Escherichia coli S88 hypothetical protein YP_002391017.1 1243150 D 585035 CDS YP_002391018.1 218558105 7131458 1243548..1244207 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15551868; Product type pe : putative enzyme; hypothetical protein 1244207 ycgM 7131458 ycgM Escherichia coli S88 hypothetical protein YP_002391018.1 1243548 D 585035 CDS YP_002391019.1 218558106 7131459 1244299..1244745 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1244745 ycgN 7131459 ycgN Escherichia coli S88 hypothetical protein YP_002391019.1 1244299 D 585035 CDS YP_002391020.1 218558107 7129856 1245539..1245958 1 NC_011742.1 binds with UmuC protein to form functional DNA pol V (UmuD'2UmuC); involved in translesion polymerization; DNA polymerase V subunit UmuD 1245958 umuD 7129856 umuD Escherichia coli S88 DNA polymerase V subunit UmuD YP_002391020.1 1245539 D 585035 CDS YP_002391021.1 218558108 7132447 1245958..1247226 1 NC_011742.1 binds processed UmuD protein to form functional DNA pol V (UmuD'2UmuC); involved in translesion polymerization; DNA polymerase V subunit UmuC 1247226 umuC 7132447 umuC Escherichia coli S88 DNA polymerase V subunit UmuC YP_002391021.1 1245958 D 585035 CDS YP_002391022.1 218558109 7132446 complement(1247271..1247801) 1 NC_011742.1 disulfide oxidoreductase; integral membrane protein; required for perioplasmic disulfide bond formation; oxidizes DsbA protein; disulfide bond formation protein B 1247801 dsbB 7132446 dsbB Escherichia coli S88 disulfide bond formation protein B YP_002391022.1 1247271 R 585035 CDS YP_002391023.1 218558110 7130240 complement(1247947..1249488) 1 NC_011742.1 involved in regulation of intracellular pH under alkaline conditions; sodium/proton antiporter 1249488 nhaB 7130240 nhaB Escherichia coli S88 sodium/proton antiporter YP_002391023.1 1247947 R 585035 CDS YP_002391024.1 218558111 7129707 1249710..1250429 1 NC_011742.1 Multifunctional regulator of fatty acid metabolism; fatty acid metabolism regulator 1250429 fadR 7129707 fadR Escherichia coli S88 fatty acid metabolism regulator YP_002391024.1 1249710 D 585035 CDS YP_002391025.1 218558112 7129446 complement(1250592..1252124) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; SpoVR family protein 1252124 ycgB 7129446 ycgB Escherichia coli S88 SpoVR family protein YP_002391025.1 1250592 R 585035 CDS YP_002391026.1 218558113 7131452 1252454..1253752 1 NC_011742.1 catalyzes the oxidative deamination of D-amino acids; D-amino acid dehydrogenase small subunit 1253752 dadA 7131452 dadA Escherichia coli S88 D-amino acid dehydrogenase small subunit YP_002391026.1 1252454 D 585035 CDS YP_002391027.1 218558114 7130557 1253762..1254832 1 NC_011742.1 catabolic enzyme, converts L-alanine to D-alanine which is then oxidized to pyruvate by dadA; alanine racemase 1254832 dadX 7130557 dadX Escherichia coli S88 alanine racemase YP_002391027.1 1253762 D 585035 CDS YP_002391028.1 218558115 7130558 complement(1254889..1256625) 1 NC_011742.1 the Vibrio parahaemolyticus gene VP2867 was found to be a potassium/proton antiporter; can rapidly extrude potassium against a potassium gradient at alkaline pH when cloned and expressed in Escherichia coli; potassium/proton antiporter 1256625 cvrA 7130558 cvrA Escherichia coli S88 potassium/proton antiporter YP_002391028.1 1254889 R 585035 CDS YP_002391029.1 218558116 7130518 complement(1256720..1257634) 1 NC_011742.1 catalyzes the release of D-alanine from L-alanyl-D-glutamyl-meso-diaminopimelyl-D-alanine; L,D-carboxypeptidase A 1257634 ldcA 7130518 ldcA Escherichia coli S88 L,D-carboxypeptidase A YP_002391029.1 1256720 R 585035 CDS YP_002391030.1 218558117 7130475 1257734..1258345 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 98317285; Product type e : enzyme; lytic murein endotransglycosylase E 1258345 emtA 7130475 emtA Escherichia coli S88 lytic murein endotransglycosylase E YP_002391030.1 1257734 D 585035 CDS YP_002391031.1 218558118 7132397 complement(1258347..1259081) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 11031114; Product type cp : cell process; protein involved in flagellar function 1259081 ycgR 7132397 ycgR Escherichia coli S88 protein involved in flagellar function YP_002391031.1 1258347 R 585035 CDS YP_002391032.1 218558119 7131461 1259282..1259536 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative inner membrane protein with transglycosylase-associated domain 1259536 ymgE 7131461 ymgE Escherichia coli S88 putative inner membrane protein with transglycosylase-associated domain YP_002391032.1 1259282 D 585035 CDS YP_002391033.1 218558120 7131137 complement(1259586..1261577) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type prc : putative receptor; putative outer membrane receptor, probably tonB dependent 1261577 prrA 7131137 prrA Escherichia coli S88 putative outer membrane receptor, probably tonB dependent YP_002391033.1 1259586 R 585035 CDS YP_002391034.1 218558121 7130799 complement(1261582..1262436) 1 NC_011742.1 involved in molybdenum transport; molybdenum transport protein ModD 1262436 modD 7130799 modD Escherichia coli S88 molybdenum transport protein ModD YP_002391034.1 1261582 R 585035 CDS YP_002391035.1 218558122 7128858 complement(1262433..1263245) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative SAM-dependent methyltransferase 1263245 7128858 ECS88_1261 Escherichia coli S88 conserved hypothetical protein, putative SAM-dependent methyltransferase YP_002391035.1 1262433 R 585035 CDS YP_002391036.1 218558123 7131556 complement(1263255..1264151) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative ABC transporter, ATP-binding protein 1264151 7131556 ECS88_1262 Escherichia coli S88 putative ABC transporter, ATP-binding protein YP_002391036.1 1263255 R 585035 CDS YP_002391037.1 218558124 7131557 complement(1264010..1264990) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative ABC transporter permease protein 1264990 7131557 ECS88_1263 Escherichia coli S88 putative ABC transporter permease protein YP_002391037.1 1264010 R 585035 CDS YP_002391038.1 218558125 7131558 complement(1264990..1266054) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC transporter periplasmic binding protein 1266054 7131558 ECS88_1264 Escherichia coli S88 putative ABC transporter periplasmic binding protein YP_002391038.1 1264990 R 585035 CDS YP_002391039.1 218558126 7131559 complement(1266349..1268046) 1 NC_011742.1 periplasmic; catalyzes the hydrolysis of trehalose to glucose which can then be imported into the cell; trehalase 1268046 treA 7131559 treA Escherichia coli S88 trehalase YP_002391039.1 1266349 R 585035 CDS YP_002391040.1 218558127 7133506 complement(1268365..1269783) 1 NC_011742.1 phosphotransferaese subunit; phosphorylates dihydroxyacetone along with DhaK/DhaL; dihydroxyacetone kinase subunit M 1269783 dhaH 7133506 dhaH Escherichia coli S88 dihydroxyacetone kinase subunit M YP_002391040.1 1268365 R 585035 CDS YP_002391041.1 218558128 7130200 complement(1269794..1270426) 1 NC_011742.1 with DhaK and DhaM catalyzes the phosphorylation of dihydroxyacetone; dihydroxyacetone kinase subunit DhaL 1270426 dhaL 7130200 dhaL Escherichia coli S88 dihydroxyacetone kinase subunit DhaL YP_002391041.1 1269794 R 585035 CDS YP_002391042.1 218558129 7130202 complement(1270437..1271507) 1 NC_011742.1 with DhaL and DhaM forms dihydroxyacetone kinase, which is responsible for phosphorylating dihydroxyacetone; DhaK is the dihydroxyacetone binding subunit of the dihydroxyacetone kinase; dihydroxyacetone kinase subunit DhaK 1271507 dhaK 7130202 dhaK Escherichia coli S88 dihydroxyacetone kinase subunit DhaK YP_002391042.1 1270437 R 585035 CDS YP_002391043.1 218558130 7130201 1271735..1273654 1 NC_011742.1 Positively regulates the dhaKLM operon from a sigma-70 promoter; DNA-binding transcriptional regulator DhaR 1273654 dhaR 7130201 dhaR Escherichia coli S88 DNA-binding transcriptional regulator DhaR YP_002391043.1 1271735 D 585035 CDS YP_002391044.1 218558131 7130203 complement(1273692..1273922) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 1273922 7130203 ECS88_1270 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002391044.1 1273692 R 585035 CDS YP_002391045.1 218558132 7131560 complement(1274058..1275149) 1 NC_011742.1 translation-associated GTPase; the crystal structure of the Haemophilus influenzae YchF protein showed similarity to the yeast structure (PDB: 1NI3); fluorescence spectroscopy revealed nucleic acid binding; the yeast protein YBR025c interacts with the translation elongation factor eEF1; GTP-dependent nucleic acid-binding protein EngD 1275149 ychF 7131560 ychF Escherichia coli S88 GTP-dependent nucleic acid-binding protein EngD YP_002391045.1 1274058 R 585035 CDS YP_002391046.1 218558133 7131466 complement(1275266..1275850) 1 NC_011742.1 Enables the recycling of peptidyl-tRNAs produced at termination of translation; peptidyl-tRNA hydrolase 1275850 pth 7131466 pth Escherichia coli S88 peptidyl-tRNA hydrolase YP_002391046.1 1275266 R 585035 CDS YP_002391047.1 218558134 7130815 1276128..1276406 1 NC_011742.1 YchH; transcription activated by CRP (cyclic AMP receptor protein), a global transcription factor involved in regulation of metabolism in enteric bacteria; ychH presents a class II promoter to bind CRP; unknown function; hypothetical protein 1276406 ychH 7130815 ychH Escherichia coli S88 hypothetical protein YP_002391047.1 1276128 D 585035 CDS YP_002391048.1 218558135 7131467 complement(1276461..1278140) 1 NC_011742.1 putative role in sulfate transport across the inner membrane; member of the SulP family of sulfate transporters; seems to mediate transport via sulfate/proton symport; putative sulfate transporter YchM 1278140 ychM 7131467 ychM Escherichia coli S88 putative sulfate transporter YchM YP_002391048.1 1276461 R 585035 CDS YP_002391049.1 218558136 7131469 complement(1278265..1279212) 1 NC_011742.1 catalyzes the formation of 5-phospho-alpha-D-ribose 1-phosphate from D-ribose 5-phosphate and ATP; ribose-phosphate pyrophosphokinase 1279212 prsA 7131469 prsA Escherichia coli S88 ribose-phosphate pyrophosphokinase YP_002391049.1 1278265 R 585035 CDS YP_002391050.1 218558137 7130800 complement(1279363..1280214) 1 NC_011742.1 An essential enzyme in the nonmevalonate pathway of isopentenyl diphosphate and dimethylallyl diphosphate biosynthesis; 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase 1280214 ipk 7130800 ipk Escherichia coli S88 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase YP_002391050.1 1279363 R 585035 CDS YP_002391051.1 218558138 7130421 complement(1280214..1280837) 1 NC_011742.1 Incorporates lipoproteins in the outer membrane after they are released by the LolA protein; outer membrane lipoprotein LolB 1280837 lolB 7130421 lolB Escherichia coli S88 outer membrane lipoprotein LolB YP_002391051.1 1280214 R 585035 CDS YP_002391052.1 218558139 7129369 1281051..1282307 1 NC_011742.1 catalyzes the formation of glutamate-1-semialdehyde from glutamyl-tRNA(Glu) and NADPH; the second step of the pathway is catalyzed by glutamate-1-semialdehyde aminomutase which results in the formation of 5-aminolevulinic acid; functions in porphyrin (tetrapyrroles) biosynthesis; the crystal structure showed a C-terminal dimerization domain that appears to be absent in Chlamydial proteins; glutamyl-tRNA reductase 1282307 hemA 7129369 hemA Escherichia coli S88 glutamyl-tRNA reductase YP_002391052.1 1281051 D 585035 CDS YP_002391053.1 218558140 7128896 1282349..1283431 1 NC_011742.1 recognizes the termination signals UAG and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF1; this protein is similar to release factor 2; peptide chain release factor 1 1283431 prfA 7128896 prfA Escherichia coli S88 peptide chain release factor 1 YP_002391053.1 1282349 D 585035 CDS YP_002391054.1 218558141 7130772 1283431..1284264 1 NC_011742.1 HemK; PrmC; transfers a methyl group from S-adenosylmethionine to amide nitrogen of specific glutamine residues in protein chain release factors PrfA and PrfB; N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase 1284264 prmC 7130772 prmC Escherichia coli S88 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase YP_002391054.1 1283431 D 585035 CDS YP_002391055.1 218558142 7130783 1284261..1284653 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10322010; Product type pr : putative regulator; putative transcriptional regulator 1284653 ychQ 7130783 ychQ Escherichia coli S88 putative transcriptional regulator YP_002391055.1 1284261 D 585035 CDS YP_002391056.1 218558143 7131472 1284657..1285466 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10322010; Product type pr : putative regulator; putative transcriptional regulator 1285466 ychA 7131472 ychA Escherichia coli S88 putative transcriptional regulator YP_002391056.1 1284657 D 585035 CDS YP_002391057.1 218558144 7131464 1285502..1286356 1 NC_011742.1 catalyzes the formation of 2-dehydro-3-deoxy-D-octonate 8-phosphate from phosphoenolpyruvate and D-arabinose 5-phosphate in LPS biosynthesis; 2-dehydro-3-deoxyphosphooctonate aldolase 1286356 kdsA 7131464 kdsA Escherichia coli S88 2-dehydro-3-deoxyphosphooctonate aldolase YP_002391057.1 1285502 D 585035 CDS YP_002391058.1 218558145 7130446 complement(1286504..1286671) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type f : factor; small toxic polypeptide 1286671 ldrB 7130446 ldrB Escherichia coli S88 small toxic polypeptide YP_002391058.1 1286504 R 585035 CDS YP_002391059.1 218558146 7131800 complement(1287017..1288117) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93266586, 94193576, 94292460; Product type t : transporter; calcium/sodium:proton antiporter 1288117 chaA 7131800 chaA Escherichia coli S88 calcium/sodium:proton antiporter YP_002391059.1 1287017 R 585035 CDS YP_002391060.1 218558147 7129181 1288387..1288617 1 NC_011742.1 in Escherichia coli this protein putatively regulates the sodium/proton (also pH-independent calcium/proton) antiporter chaA; has weak affinity for calcium and magnesium ions; cation transport regulator 1288617 chaB 7129181 chaB Escherichia coli S88 cation transport regulator YP_002391060.1 1288387 D 585035 CDS YP_002391061.1 218558148 7129182 1288754..1289470 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type r : regulator; regulatory protein for cation transport 1289470 chaC 7129182 chaC Escherichia coli S88 regulatory protein for cation transport YP_002391061.1 1288754 D 585035 CDS YP_002391062.1 218558149 7129183 complement(1289514..1289867) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1289867 ychN 7129183 ychN Escherichia coli S88 hypothetical protein YP_002391062.1 1289514 R 585035 CDS YP_002391063.1 218558150 7131470 1290193..1291446 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7567469; Product type pf : putative factor; hypothetical protein 1291446 ychP 7131470 ychP Escherichia coli S88 hypothetical protein YP_002391063.1 1290193 D 585035 CDS YP_002391064.1 218558151 7131471 complement(1291447..1292097) 1 NC_011742.1 two-component response regulator NarL; phosphorylated by NarQ; activates transcription of nitrate and nitrite reductase genes and represses transcription of fumarate reductase; transcriptional regulator NarL 1292097 narL 7131471 narL Escherichia coli S88 transcriptional regulator NarL YP_002391064.1 1291447 R 585035 CDS YP_002391065.1 218558152 7129681 complement(1292090..1293886) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92276349, 92374842, 94083940, 2649492, 2657652, 2668029; Product type r : regulator; nitrate/nitrite sensor protein NarX 1293886 narX 7129681 narX Escherichia coli S88 nitrate/nitrite sensor protein NarX YP_002391065.1 1292090 R 585035 CDS YP_002391066.1 218558153 7129687 1293912..1294130 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1294130 7129687 ECS88_1292 Escherichia coli S88 hypothetical protein YP_002391066.1 1293912 D 585035 CDS YP_002391067.1 218558154 7131561 1294225..1295616 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91258310, 2657652, 2668029; Product type t : transporter; nitrate/nitrite transporter 1295616 narK 7131561 narK Escherichia coli S88 nitrate/nitrite transporter YP_002391067.1 1294225 D 585035 CDS YP_002391068.1 218558155 7131580 1296009..1299752 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 74167294, 89384449, 92121125, 2233673, 2668029, 2995309, 3053688, 3308846, 6094247; Product type e : enzyme; nitrate reductase 1, alpha subunit 1299752 narG 7131580 narG Escherichia coli S88 nitrate reductase 1, alpha subunit YP_002391068.1 1296009 D 585035 CDS YP_002391069.1 218558156 7129674 1299749..1301287 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 74167294, 89384449, 92121125, 1321049, 2832376, 3053688, 8383531, 8388253, 8664273, 9516445; Product type c : carrier; nitrate reductase 1, beta (Fe-S) subunit 1301287 narH 7129674 narH Escherichia coli S88 nitrate reductase 1, beta (Fe-S) subunit YP_002391069.1 1299749 D 585035 CDS YP_002391070.1 218558157 7129675 1301284..1301994 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89384449, 92121125, 9632249, 2832376; Product type f : factor; molybdenum-cofactor-assembly chaperone subunit (delta subunit) of nitrate reductase 1 1301994 narJ 7129675 narJ Escherichia coli S88 molybdenum-cofactor-assembly chaperone subunit (delta subunit) of nitrate reductase 1 YP_002391070.1 1301284 D 585035 CDS YP_002391071.1 218558158 7129677 1301994..1302671 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 75114694, 89384449, 92121125, 2832376, 3053688; Product type c : carrier; nitrate reductase 1, gamma (cytochrome b(NR)) subunit 1302671 narI 7129677 narI Escherichia coli S88 nitrate reductase 1, gamma (cytochrome b(NR)) subunit YP_002391071.1 1301994 D 585035 CDS YP_002391072.1 218558159 7129676 complement(1302724..1303953) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative transposase 1303953 7129676 ECS88_1298 Escherichia coli S88 putative transposase YP_002391072.1 1302724 R 585035 CDS YP_002391073.1 218558160 7132001 complement(1304716..1305558) 1 NC_011742.1 produces formate from formyl-tetrahydrofolate which is the major source of formate for PurT in de novo purine nucleotide biosynthesis; has a role in one-carbon metabolism; forms a homohexamer; activated by methionine and inhibited by glycine; formyltetrahydrofolate deformylase 1305558 purU 7132001 purU Escherichia coli S88 formyltetrahydrofolate deformylase YP_002391073.1 1304716 R 585035 CDS YP_002391074.1 218558161 7131757 complement(1305608..1306066) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1306066 ychJ 7131757 ychJ Escherichia coli S88 hypothetical protein YP_002391074.1 1305608 R 585035 CDS YP_002391075.1 218558162 7131468 1306140..1307084 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 1307084 rssA 7131468 rssA Escherichia coli S88 hypothetical protein YP_002391075.1 1306140 D 585035 CDS YP_002391076.1 218558163 7133819 1307176..1308189 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10339606, 12912910, 9495753; Product type r : regulator; response regulator of RpoS 1308189 rssB 7133819 rssB Escherichia coli S88 response regulator of RpoS YP_002391076.1 1307176 D 585035 CDS YP_002391077.1 218558164 7133820 1308391..1309299 1 NC_011742.1 together with GalF subunit composes the UTP--glucose-1-phosphate uridylyltransferase, an enzyme that catalyzes the formation of UDP-glucose from UTP and alpha-D-glucose 1-phosphate; regulates cellular levels of UDP-glucose; UTP--glucose-1-phosphate uridylyltransferase subunit GalU 1309299 galU 7133820 galU Escherichia coli S88 UTP--glucose-1-phosphate uridylyltransferase subunit GalU YP_002391077.1 1308391 D 585035 CDS YP_002391078.1 218558165 7132178 complement(1309443..1309856) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89056689, 94335643, 95267838, 95286558, 99355427, 2404280, 11298273; Product type r : regulator; global DNA-binding transcriptional dual regulator H-NS 1309856 hns 7132178 hns Escherichia coli S88 global DNA-binding transcriptional dual regulator H-NS YP_002391078.1 1309443 R 585035 CDS YP_002391079.1 218558166 7128936 1310460..1311077 1 NC_011742.1 catalyzes the formation of thymidine 5'-phosphate from thymidine; thymidine kinase 1311077 tdk 7128936 tdk Escherichia coli S88 thymidine kinase YP_002391079.1 1310460 D 585035 CDS YP_002391080.1 218558167 7131280 complement(1311204..1312409) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 6271469; Product type pe : putative enzyme; transposase IS4 1312409 7131280 ECS88_1307 Escherichia coli S88 transposase IS4 YP_002391080.1 1311204 R 585035 CDS YP_002391081.1 218558168 7131563 complement(1312535..1315210) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12783863, 4301680, 89291706, 91200315; Product type e : enzyme; bifunctional acetaldehyde-CoA/alcohol dehydrogenase 1315210 adhE 7131563 adhE Escherichia coli S88 bifunctional acetaldehyde-CoA/alcohol dehydrogenase YP_002391081.1 1312535 R 585035 CDS YP_002391082.1 218558169 7132053 1315687..1316334 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1316334 ychE 7132053 ychE Escherichia coli S88 hypothetical protein YP_002391082.1 1315687 D 585035 CDS YP_002391083.1 218558170 7131465 complement(1316492..1316806) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1316806 7131465 ECS88_1310 Escherichia coli S88 hypothetical protein YP_002391083.1 1316492 R 585035 CDS YP_002391084.1 218558171 7131564 1317072..1318703 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20256410, 86111605, 90256748, 92325017, 2015910, 9298646, 9600841, 2187863, 8740179, 9740056, 10972807; Product type t : transporter; oligopeptide transporter subunit ; periplasmic-binding component of ABC superfamily 1318703 oppA 7131564 oppA Escherichia coli S88 oligopeptide transporter subunit ; periplasmic-binding component of ABC superfamily YP_002391084.1 1317072 D 585035 CDS YP_002391085.1 218558172 7133137 1318789..1319709 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86111606, 93106975, 2187863; Product type t : transporter; oligopeptide transporter permease 1319709 oppB 7133137 oppB Escherichia coli S88 oligopeptide transporter permease YP_002391085.1 1318789 D 585035 CDS YP_002391086.1 218558173 7133138 1319724..1320632 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86111606; Product type t : transporter; oligopeptide transporter subunit ; membrane component of ABC superfamily 1320632 oppC 7133138 oppC Escherichia coli S88 oligopeptide transporter subunit ; membrane component of ABC superfamily YP_002391086.1 1319724 D 585035 CDS YP_002391087.1 218558174 7133139 1320644..1321657 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86111606; Product type t : transporter; oligopeptide transporter ATP-binding component 1321657 oppD 7133139 oppD Escherichia coli S88 oligopeptide transporter ATP-binding component YP_002391087.1 1320644 D 585035 CDS YP_002391088.1 218558175 7133140 1321654..1322658 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86111606; Product type t : transporter; oligopeptide transporter subunit ; ATP-binding component of ABC superfamily 1322658 oppF 7133140 oppF Escherichia coli S88 oligopeptide transporter subunit ; ATP-binding component of ABC superfamily YP_002391088.1 1321654 D 585035 CDS YP_002391089.1 218558176 7133141 complement(1322711..1323040) 1 NC_011742.1 highly acidic protein; the structure of the Haemophilus influenzae protein shows similarity to uracil DNA glycosylase inhibitor (Ugi); binds heat-unstable protein (HU-alpha) which is a histone-like protein; dsDNA-mimic protein 1323040 yciU 7133141 yciU Escherichia coli S88 dsDNA-mimic protein YP_002391089.1 1322711 R 585035 CDS YP_002391090.1 218558177 7131487 complement(1323075..1324535) 1 NC_011742.1 catalyzes the transfer of a phosphatidyl group to phosphodidylglycerol to form cardiolipin (diphosphatidylglycerol); cardiolipin synthetase 1324535 cls 7131487 cls Escherichia coli S88 cardiolipin synthetase YP_002391090.1 1323075 R 585035 CDS YP_002391091.1 218558178 7131933 1324567..1324851 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1324851 7131933 ECS88_1318 Escherichia coli S88 hypothetical protein YP_002391091.1 1324567 D 585035 CDS YP_002391092.1 218558179 7131565 complement(1324906..1326159) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12220501, 12912904, 94224769, 98319474; Product type t : transporter; voltage-gated potassium channel 1326159 kch 7131565 kch Escherichia coli S88 voltage-gated potassium channel YP_002391092.1 1324906 R 585035 CDS YP_002391093.1 218558180 7130436 complement(1326459..1326755) 1 NC_011742.1 unknown function; YciI from Haemophilus influenzae presents crystal structure similarity to a muconolactone isomerase, but does not seem to catalyze any of the predicted reactions based on sequence and structure similarity; YciI-like protein 1326755 yciI 7130436 yciI Escherichia coli S88 YciI-like protein YP_002391093.1 1326459 R 585035 CDS YP_002391094.1 218558181 7131480 1326979..1327695 1 NC_011742.1 membrane spanning protein in TonB-ExbB-ExbD complex; transduces proton motive force of the cytoplasmic membrane to outer membrane transporters; involved in the transport of ron-siderophore complexes, vitamin B12 and colicins; transport protein TonB 1327695 tonB 7131480 tonB Escherichia coli S88 transport protein TonB YP_002391094.1 1326979 D 585035 CDS YP_002391095.1 218558182 7133489 complement(1327735..1328133) 1 NC_011742.1 YciA; hydrolase that catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA and malonyl-CoA; member of the the acyl coenzyme A hydrolase family of proteins; acyl-CoA thioester hydrolase 1328133 yciA 7133489 yciA Escherichia coli S88 acyl-CoA thioester hydrolase YP_002391095.1 1327735 R 585035 CDS YP_002391096.1 218558183 7131473 complement(1328239..1328778) 1 NC_011742.1 Involved in cell division; probably involved in intracellular septation; intracellular septation protein A 1328778 yciB 7131473 yciB Escherichia coli S88 intracellular septation protein A YP_002391096.1 1328239 R 585035 CDS YP_002391097.1 218558184 7131474 complement(1328808..1329551) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1329551 yciC 7131474 yciC Escherichia coli S88 hypothetical protein YP_002391097.1 1328808 R 585035 CDS YP_002391098.1 218558185 7131475 1329907..1330545 1 NC_011742.1 receptor for colicin S4; outer membrane protein W 1330545 ompW 7131475 ompW Escherichia coli S88 outer membrane protein W YP_002391098.1 1329907 D 585035 CDS YP_002391099.1 218558186 7133131 complement(1330591..1331721) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; phage integrase 1331721 7133131 ECS88_1327 Escherichia coli S88 phage integrase YP_002391099.1 1330591 R 585035 CDS YP_002391100.1 218558187 7131566 complement(1331699..1331947) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; phage excisionase 1331947 7131566 ECS88_1328 Escherichia coli S88 phage excisionase YP_002391100.1 1331699 R 585035 CDS YP_002391101.1 218558188 7131567 complement(1332012..1334483) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative exonuclease from phage origin 1334483 7131567 ECS88_1329 Escherichia coli S88 putative exonuclease from phage origin YP_002391101.1 1332012 R 585035 CDS YP_002391102.1 218558189 7131568 complement(1334576..1334767) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; Qin prophage 1334767 ydfD 7131568 ydfD Escherichia coli S88 conserved hypothetical protein; Qin prophage YP_002391102.1 1334576 R 585035 CDS YP_002391103.1 218558190 7129329 complement(1334764..1335057) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative regulator of cell division encoded by prophage 1335057 7129329 ECS88_1331 Escherichia coli S88 putative regulator of cell division encoded by prophage YP_002391103.1 1334764 R 585035 CDS YP_002391104.1 218558191 7130204 1335302..1335517 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1335517 7130204 ECS88_1332 Escherichia coli S88 hypothetical protein YP_002391104.1 1335302 D 585035 CDS YP_002391105.1 218558192 7131570 complement(1335518..1335739) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; Qin prophage 1335739 ydfC 7131570 ydfC Escherichia coli S88 conserved hypothetical protein; Qin prophage YP_002391105.1 1335518 R 585035 CDS YP_002391106.1 218558193 7129328 complement(1335769..1335897) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; Qin prophage 1335897 ydfB 7129328 ydfB Escherichia coli S88 conserved hypothetical protein; Qin prophage YP_002391106.1 1335769 R 585035 CDS YP_002391107.1 218558194 7129327 complement(1335899..1336135) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1336135 ydfA 7129327 ydfA Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391107.1 1335899 R 585035 CDS YP_002391108.1 218558195 7129326 complement(1336347..1336985) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative repressor protein from phage origin 1336985 7129326 ECS88_1336 Escherichia coli S88 putative repressor protein from phage origin YP_002391108.1 1336347 R 585035 CDS YP_002391109.1 218558196 7131571 1337029..1337319 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1337319 7131571 ECS88_1337 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391109.1 1337029 D 585035 CDS YP_002391110.1 218558197 7131572 1337231..1337728 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1337728 7131572 ECS88_1338 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391110.1 1337231 D 585035 CDS YP_002391111.1 218558198 7131573 1337794..1338870 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1338870 7131573 ECS88_1339 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391111.1 1337794 D 585035 CDS YP_002391112.1 218558199 7131574 1338911..1339333 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1339333 7131574 ECS88_1340 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391112.1 1338911 D 585035 CDS YP_002391113.1 218558200 7131575 1339375..1340487 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 1340487 7131575 ECS88_1341 Escherichia coli S88 hypothetical protein YP_002391113.1 1339375 D 585035 CDS YP_002391114.1 218558201 7131576 1340503..1341504 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1341504 7131576 ECS88_1342 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391114.1 1340503 D 585035 CDS YP_002391115.1 218558202 7131577 1341616..1341906 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1341906 7131577 ECS88_1343 Escherichia coli S88 hypothetical protein YP_002391115.1 1341616 D 585035 CDS YP_002391116.1 218558203 7131578 1342725..1343771 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; Qin prophage 1343771 ydfU 7131578 ydfU Escherichia coli S88 conserved hypothetical protein; Qin prophage YP_002391116.1 1342725 D 585035 CDS YP_002391117.1 218558204 7129340 1343777..1343977 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1343977 7129340 ECS88_1346 Escherichia coli S88 hypothetical protein YP_002391117.1 1343777 D 585035 CDS YP_002391118.1 218558205 7131579 1343784..1344158 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative crossover junction endodeoxyribonuclease rusA (Holliday junction nuclease rusA) (Holliday juction resolvase) (Gp67) 1344158 7131579 ECS88_1347 Escherichia coli S88 putative crossover junction endodeoxyribonuclease rusA (Holliday junction nuclease rusA) (Holliday juction resolvase) (Gp67) YP_002391118.1 1343784 D 585035 CDS YP_002391119.1 218558206 7129680 1344155..1344976 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative antitermination protein Q of prophage 1344976 7129680 ECS88_1348 Escherichia coli S88 putative antitermination protein Q of prophage YP_002391119.1 1344155 D 585035 CDS YP_002391120.1 218558207 7129192 1345201..1345398 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1345398 7129192 ECS88_1349 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391120.1 1345201 D 585035 CDS YP_002391121.1 218558208 7129193 1345549..1346598 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DNA adenine methyltransferase ( DNA methylase) from phage origin 1346598 7129193 ECS88_1350 Escherichia coli S88 putative DNA adenine methyltransferase ( DNA methylase) from phage origin YP_002391121.1 1345549 D 585035 CDS YP_002391122.1 218558209 7129196 1348264..1348584 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Lysis protein S homolog from lambdoid prophage 1348584 7129196 ECS88_1353 Escherichia coli S88 Lysis protein S homolog from lambdoid prophage YP_002391122.1 1348264 D 585035 CDS YP_002391123.1 218558210 7129198 complement(1348899..1349171) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1349171 7129198 ECS88_1355 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391123.1 1348899 R 585035 CDS YP_002391124.1 218558211 7129201 1349935..1350108 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1350108 7129201 ECS88_1358 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391124.1 1349935 D 585035 CDS YP_002391125.1 218558212 7129202 1350110..1350574 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2019562; Product type pe : putative enzyme; putative murein endopeptidase; DLP12 prophage 1350574 rzpD 7129202 rzpD Escherichia coli S88 putative murein endopeptidase; DLP12 prophage YP_002391125.1 1350110 D 585035 CDS YP_002391126.1 218558213 7131356 complement(1350738..1350836) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1350836 7131356 ECS88_1361 Escherichia coli S88 hypothetical protein YP_002391126.1 1350738 R 585035 CDS YP_002391127.1 218558214 7129203 complement(1350882..1351307) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1351307 7129203 ECS88_1362 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391127.1 1350882 R 585035 CDS YP_002391128.1 218558215 7129204 complement(1351350..1351583) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; Qin prophage 1351583 ynfO 7129204 ynfO Escherichia coli S88 conserved hypothetical protein; Qin prophage YP_002391128.1 1351350 R 585035 CDS YP_002391129.1 218558216 7133616 1351946..1352518 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Terminase small subunit (gp1) 1352518 7133616 ECS88_1364 Escherichia coli S88 Terminase small subunit (gp1) YP_002391129.1 1351946 D 585035 CDS YP_002391130.1 218558217 7129207 1354401..1354607 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head stabilization protein (Head protein GP3) 1354607 7129207 ECS88_1367 Escherichia coli S88 Head stabilization protein (Head protein GP3) YP_002391130.1 1354401 D 585035 CDS YP_002391131.1 218558218 7129208 1354604..1356196 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Portal protein (Head protein GP4) 1356196 7129208 ECS88_1368 Escherichia coli S88 Portal protein (Head protein GP4) YP_002391131.1 1354604 D 585035 CDS YP_002391132.1 218558219 7129209 1356186..1357691 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head-tail preconnector protein GP5 [Contains: Scaffold protein GP6 (Head protein GP6)] 1357691 7129209 ECS88_1369 Escherichia coli S88 Head-tail preconnector protein GP5 [Contains: Scaffold protein GP6 (Head protein GP6)] YP_002391132.1 1356186 D 585035 CDS YP_002391133.1 218558220 7129210 1357728..1358075 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head decoration protein (gpD) (Major capsid protein D) 1358075 7129210 ECS88_1370 Escherichia coli S88 Head decoration protein (gpD) (Major capsid protein D) YP_002391133.1 1357728 D 585035 CDS YP_002391134.1 218558221 7129211 1358133..1359161 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major head protein (Head protein GP7) 1359161 7129211 ECS88_1371 Escherichia coli S88 Major head protein (Head protein GP7) YP_002391134.1 1358133 D 585035 CDS YP_002391135.1 218558222 7129212 1359165..1359587 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DNA packaging protein from phage origin 1359587 7129212 ECS88_1372 Escherichia coli S88 putative DNA packaging protein from phage origin YP_002391135.1 1359165 D 585035 CDS YP_002391136.1 218558223 7129213 1359544..1359933 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail attachment protein (Minor capsid protein FII) 1359933 7129213 ECS88_1373 Escherichia coli S88 Tail attachment protein (Minor capsid protein FII) YP_002391136.1 1359544 D 585035 CDS YP_002391137.1 218558224 7129214 1359949..1360482 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein Z (GpZ) 1360482 7129214 ECS88_1374 Escherichia coli S88 Minor tail protein Z (GpZ) YP_002391137.1 1359949 D 585035 CDS YP_002391138.1 218558225 7129215 1360479..1360874 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein U 1360874 7129215 ECS88_1375 Escherichia coli S88 Minor tail protein U YP_002391138.1 1360479 D 585035 CDS YP_002391139.1 218558226 7129216 1360882..1361634 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major tail protein V 1361634 7129216 ECS88_1376 Escherichia coli S88 Major tail protein V YP_002391139.1 1360882 D 585035 CDS YP_002391140.1 218558227 7129217 1361648..1362079 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein G 1362079 7129217 ECS88_1377 Escherichia coli S88 Minor tail protein G YP_002391140.1 1361648 D 585035 CDS YP_002391141.1 218558228 7129218 1362106..1362519 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein T 1362519 7129218 ECS88_1378 Escherichia coli S88 Minor tail protein T YP_002391141.1 1362106 D 585035 CDS YP_002391142.1 218558229 7129219 1362500..1365073 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein precursor H 1365073 7129219 ECS88_1379 Escherichia coli S88 Minor tail protein precursor H YP_002391142.1 1362500 D 585035 CDS YP_002391143.1 218558230 7129220 1365070..1365339 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein M 1365339 7129220 ECS88_1380 Escherichia coli S88 Minor tail protein M YP_002391143.1 1365070 D 585035 CDS YP_002391144.1 218558231 7129221 1365399..1366097 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein L 1366097 7129221 ECS88_1381 Escherichia coli S88 Minor tail protein L YP_002391144.1 1365399 D 585035 CDS YP_002391145.1 218558232 7129222 1366060..1366845 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tail fiber component K of prophage 1366845 7129222 ECS88_1382 Escherichia coli S88 putative tail fiber component K of prophage YP_002391145.1 1366060 D 585035 CDS YP_002391146.1 218558233 7129223 1366743..1367384 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail assembly protein I from putative prophage 1367384 7129223 ECS88_1383 Escherichia coli S88 Tail assembly protein I from putative prophage YP_002391146.1 1366743 D 585035 CDS YP_002391147.1 218558234 7129224 1367446..1367796 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 1367796 7129224 ECS88_1384 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391147.1 1367446 D 585035 CDS YP_002391148.1 218558235 7129225 1367863..1371342 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Host specificity protein J 1371342 7129225 ECS88_1385 Escherichia coli S88 Host specificity protein J YP_002391148.1 1367863 D 585035 CDS YP_002391149.1 218558236 7129226 1371410..1372009 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; Putative Lom-like outer membrane protein of phage origin 1372009 7129226 ECS88_1386 Escherichia coli S88 Putative Lom-like outer membrane protein of phage origin YP_002391149.1 1371410 D 585035 CDS YP_002391150.1 218558237 7129227 1372161..1375268 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tail fiber protein 1375268 7129227 ECS88_1387 Escherichia coli S88 putative tail fiber protein YP_002391150.1 1372161 D 585035 CDS YP_002391151.1 218558238 7129228 1375268..1375852 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative tail fibre chaperone; Qin prophage 1375852 tfaQ 7129228 tfaQ Escherichia coli S88 putative tail fibre chaperone; Qin prophage YP_002391151.1 1375268 D 585035 CDS YP_002391152.1 218558239 7131288 complement(1375907..1376491) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative AdoMet-dependent methyltransferase; DLP12 prophage 1376491 ybcY 7131288 ybcY Escherichia coli S88 putative AdoMet-dependent methyltransferase; DLP12 prophage YP_002391152.1 1375907 R 585035 CDS YP_002391153.1 218558240 7131191 1376632..1376901 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; Putative tail fiber assembly protein 1376901 7131191 ECS88_1390 Escherichia coli S88 Putative tail fiber assembly protein YP_002391153.1 1376632 D 585035 CDS YP_002391154.1 218558241 7129229 1376905..1377186 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tail component 1377186 7129229 ECS88_1391 Escherichia coli S88 putative tail component YP_002391154.1 1376905 D 585035 CDS YP_002391155.1 218558242 7129230 complement(1377674..1378180) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 15388941, 3058546, 8455549; hypothetical protein 1378180 yciE 7129230 yciE Escherichia coli S88 hypothetical protein YP_002391155.1 1377674 R 585035 CDS YP_002391156.1 218558243 7131476 complement(1378226..1378726) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 3058546, 8455549; hypothetical protein 1378726 yciF 7131476 yciF Escherichia coli S88 hypothetical protein YP_002391156.1 1378226 R 585035 CDS YP_002391157.1 218558244 7131477 complement(1378812..1378991) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1378991 yciG 7131477 yciG Escherichia coli S88 hypothetical protein YP_002391157.1 1378812 R 585035 CDS YP_002391158.1 218558245 7131478 complement(1379372..1380178) 1 NC_011742.1 catalyzes the formation of indole and glyceraldehyde 3-phosphate from indoleglycerol phosphate in tryptophan biosynthesis; tryptophan synthase subunit alpha 1380178 trpA 7131478 trpA Escherichia coli S88 tryptophan synthase subunit alpha YP_002391158.1 1379372 R 585035 CDS YP_002391159.1 218558246 7130343 complement(1380178..1381371) 1 NC_011742.1 catalyzes the formation of L-tryptophan from L-serine and 1-(indol-3-yl)glycerol 3-phosphate; tryptophan synthase subunit beta 1381371 trpB 7130343 trpB Escherichia coli S88 tryptophan synthase subunit beta YP_002391159.1 1380178 R 585035 CDS YP_002391160.1 218558247 7130344 complement(1381383..1382741) 1 NC_011742.1 monomeric bifunctional protein; functions in tryptophan biosynthesis pathway; phosphoribosylanthranilate is rearranged to carboxyphenylaminodeoxyribulosephosphate which is then closed to form indole-3-glycerol phosphate; bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase 1382741 trpC 7130344 trpC Escherichia coli S88 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase YP_002391160.1 1381383 R 585035 CDS YP_002391161.1 218558248 7130345 complement(1382745..1384340) 1 NC_011742.1 bifunctional anthranilate synthase II/anthranilate phosphoribosyltransferase; TrpD; forms a heterotetramer with Trp E and the complex catalyzes the formation of anthranilate from chorismate and glutamine; also catalyzes the formation of N-(5-phospho-D-ribosyl)-anthranilate from athranilate and 5-phospho-alpha-D-ribose 1-diphosphate; functions in tryptophan biosynthesis; bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase 1384340 trpD 7130345 trpD Escherichia coli S88 bifunctional glutamine amidotransferase/anthranilate phosphoribosyltransferase YP_002391161.1 1382745 R 585035 CDS YP_002391162.1 218558249 7130346 complement(1384340..1385902) 1 NC_011742.1 with component II, the glutamine amidotransferase, catalyzes the formation of anthranilate from chorismate and glutamine; anthranilate synthase component I 1385902 trpE 7130346 trpE Escherichia coli S88 anthranilate synthase component I YP_002391162.1 1384340 R 585035 CDS YP_002391163.1 218558250 7130347 complement(1385994..1386038) 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type l : leader peptide; trp operon leader peptide 1386038 trpL 7130347 trpL Escherichia coli S88 trp operon leader peptide YP_002391163.1 1385994 R 585035 CDS YP_002391164.1 218558251 7130348 1386176..1387057 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1387057 yciV 7130348 yciV Escherichia coli S88 hypothetical protein YP_002391164.1 1386176 D 585035 CDS YP_002391165.1 218558252 7131488 1387054..1387674 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1387674 yciO 7131488 yciO Escherichia coli S88 hypothetical protein YP_002391165.1 1387054 D 585035 CDS YP_002391166.1 218558253 7131484 1387702..1389597 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1389597 yciQ 7131484 yciQ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391166.1 1387702 D 585035 CDS YP_002391167.1 218558254 7131485 1389810..1390685 1 NC_011742.1 catalyzes the synthesis of pseudouridine from uracil-2605 in 23S ribosomal RNA; 23S rRNA pseudouridylate synthase B 1390685 rluB 7131485 rluB Escherichia coli S88 23S rRNA pseudouridylate synthase B YP_002391167.1 1389810 D 585035 CDS YP_002391168.1 218558255 7132732 complement(1390725..1391315) 1 NC_011742.1 catalyzes the formation of adenosylcob(III)yrinic acid a,c-diamide from cob(I)yrinic acid a,c-diamide; cob(I)yrinic acid a,c-diamide adenosyltransferase 1391315 btuR 7132732 btuR Escherichia coli S88 cob(I)yrinic acid a,c-diamide adenosyltransferase YP_002391168.1 1390725 R 585035 CDS YP_002391169.1 218558256 7129141 complement(1391312..1392070) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; short chain dehydrogenase 1392070 yciK 7129141 yciK Escherichia coli S88 short chain dehydrogenase YP_002391169.1 1391312 R 585035 CDS YP_002391170.1 218558257 7131481 complement(1392114..1392278) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1392278 7131481 ECS88_1406 Escherichia coli S88 hypothetical protein YP_002391170.1 1392114 R 585035 CDS YP_002391171.1 218558258 7129231 1392290..1393339 1 NC_011742.1 SohB; periplasmic protein; member of the peptidase S49 family; putative periplasmic protease 1393339 sohB 7129231 sohB Escherichia coli S88 putative periplasmic protease YP_002391171.1 1392290 D 585035 CDS YP_002391172.1 218558259 7130619 complement(1393375..1393626) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 3029379, 7567469, 9868784; hypothetical protein 1393626 yciN 7130619 yciN Escherichia coli S88 hypothetical protein YP_002391172.1 1393375 R 585035 CDS YP_002391173.1 218558260 7131483 1393619..1393774 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1393774 7131483 ECS88_1410 Escherichia coli S88 hypothetical protein YP_002391173.1 1393619 D 585035 CDS YP_002391174.1 218558261 7129232 1393671..1393883 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1393883 7129232 ECS88_1411 Escherichia coli S88 hypothetical protein YP_002391174.1 1393671 D 585035 CDS YP_002391175.1 218558262 7129233 1394006..1396603 1 NC_011742.1 catalyzes the ATP-dependent breakage of single-stranded DNA followed by passage and rejoining, maintains net negative superhelicity; DNA topoisomerase I 1396603 topA 7129233 topA Escherichia coli S88 DNA topoisomerase I YP_002391175.1 1394006 D 585035 CDS YP_002391176.1 218558263 7133490 1396813..1397787 1 NC_011742.1 LysR-type transcriptional regulator; contains helix-turn-helix (HTH) motif; in Escherichia coli this protein regulates cysteine biosynthesis by controlling expression of the cys regulon; autoregulates expression; crystal structure of Klebsiella aerogenes showed tetramer formation; transcriptional regulator CysB 1397787 cysB 7133490 cysB Escherichia coli S88 transcriptional regulator CysB YP_002391176.1 1396813 D 585035 CDS YP_002391177.1 218558264 7130534 1398082..1398246 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1398246 7130534 ECS88_1414 Escherichia coli S88 hypothetical protein YP_002391177.1 1398082 D 585035 CDS YP_002391178.1 218558265 7129234 1398228..1398416 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1398416 7129234 ECS88_1415 Escherichia coli S88 hypothetical protein YP_002391178.1 1398228 D 585035 CDS YP_002391179.1 218558266 7129235 1398775..1401450 1 NC_011742.1 Catalyzes the conversion of citrate to isocitrate; aconitate hydratase 1401450 acnA 7129235 acnA Escherichia coli S88 aconitate hydratase YP_002391179.1 1398775 D 585035 CDS YP_002391180.1 218558267 7132036 complement(1401514..1402104) 1 NC_011742.1 catalyzes the conversion of GTP to formate and 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine and diphosphate; GTP cyclohydrolase II 1402104 ribA 7132036 ribA Escherichia coli S88 GTP cyclohydrolase II YP_002391180.1 1401514 R 585035 CDS YP_002391181.1 218558268 7132714 1402274..1403038 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89033893, 92104964; Product type e : enzyme; phosphatidylglycerophosphatase B 1403038 pgpB 7132714 pgpB Escherichia coli S88 phosphatidylglycerophosphatase B YP_002391181.1 1402274 D 585035 CDS YP_002391182.1 218558269 7133695 1403187..1403495 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1403495 yciS 7133695 yciS Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391182.1 1403187 D 585035 CDS YP_002391183.1 218558270 7131486 1403502..1404671 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; tetratricopeptide repeat protein 1404671 yciM 7131486 yciM Escherichia coli S88 tetratricopeptide repeat protein YP_002391183.1 1403502 D 585035 CDS YP_002391184.1 218558271 7131482 1404863..1405600 1 NC_011742.1 type 1 subfamily; involved in last step of pyrimidine biosynthesis; converts orotidine 5'-phosphate to UMP and carbon dioxide; OMP decarboxylase; OMPDCase; OMPdecase; orotidine 5'-phosphate decarboxylase 1405600 pyrF 7131482 pyrF Escherichia coli S88 orotidine 5'-phosphate decarboxylase YP_002391184.1 1404863 D 585035 CDS YP_002391185.1 218558272 7131767 1405600..1405926 1 NC_011742.1 involved in start site selection during the initiation of translation; translation initiation factor Sui1 1405926 yciH 7131767 yciH Escherichia coli S88 translation initiation factor Sui1 YP_002391185.1 1405600 D 585035 CDS YP_002391186.1 218558273 7131479 complement(1406052..1406270) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92078100, 2644204; Product type lp : lipoprotein; lipoprotein 1406270 osmB 7131479 osmB Escherichia coli S88 lipoprotein YP_002391186.1 1406052 R 585035 CDS YP_002391187.1 218558274 7133143 complement(1406539..1407288) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16451192; Product type r : regulator; DNA-binding transcriptional repressor, DeoR family 1407288 deoT 7133143 deoT Escherichia coli S88 DNA-binding transcriptional repressor, DeoR family YP_002391187.1 1406539 R 585035 CDS YP_002391188.1 218558275 7130189 complement(1407378..1407560) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1407560 7130189 ECS88_1426 Escherichia coli S88 hypothetical protein YP_002391188.1 1407378 R 585035 CDS YP_002391189.1 218558276 7129236 complement(1407699..1409684) 1 NC_011742.1 c-di-GMP phosphodiesterase; probably degrades signalling molecule c-di-GMP; RNase II stability modulator 1409684 gmr 7129236 gmr Escherichia coli S88 RNase II stability modulator YP_002391189.1 1407699 R 585035 CDS YP_002391190.1 218558277 7130047 complement(1409918..1411852) 1 NC_011742.1 Involved in mRNA degradation. Hydrolyzes single-stranded polyribonucleotides processively in the 3' to 5' direction; exoribonuclease II 1411852 rnb 7130047 rnb Escherichia coli S88 exoribonuclease II YP_002391190.1 1409918 R 585035 CDS YP_002391191.1 218558278 7132742 complement(1411920..1413047) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative amidase or amidotransferase 1413047 yciW 7132742 yciW Escherichia coli S88 putative amidase or amidotransferase YP_002391191.1 1411920 R 585035 CDS YP_002391192.1 218558279 7131489 complement(1413192..1413980) 1 NC_011742.1 Catalyzes a key regulatory step in fatty acid biosynthesis; enoyl-(acyl carrier protein) reductase 1413980 fabI 7131489 fabI Escherichia coli S88 enoyl-(acyl carrier protein) reductase YP_002391192.1 1413192 R 585035 CDS YP_002391193.1 218558280 7129437 1414437..1415024 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional repressor 1415024 7129437 ECS88_1431 Escherichia coli S88 putative transcriptional repressor YP_002391193.1 1414437 D 585035 CDS YP_002391194.1 218558281 7129237 1415140..1416294 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; Putative efflux protein, membrane fusion (MFP) family precursor 1416294 7129237 ECS88_1432 Escherichia coli S88 Putative efflux protein, membrane fusion (MFP) family precursor YP_002391194.1 1415140 D 585035 CDS YP_002391195.1 218558282 7129238 1416294..1419401 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; Putative efflux pump (Putative multidrug-efflux transport protein) 1419401 7129238 ECS88_1433 Escherichia coli S88 Putative efflux pump (Putative multidrug-efflux transport protein) YP_002391195.1 1416294 D 585035 CDS YP_002391196.1 218558283 7129239 1419405..1420778 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative outer membrane channel protein of an efflux system 1420778 7129239 ECS88_1434 Escherichia coli S88 putative outer membrane channel protein of an efflux system YP_002391196.1 1419405 D 585035 CDS YP_002391197.1 218558284 7129240 1420787..1421950 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative membrane transport protein of an efflux system 1421950 7129240 ECS88_1435 Escherichia coli S88 putative membrane transport protein of an efflux system YP_002391197.1 1420787 D 585035 CDS YP_002391198.1 218558285 7129241 complement(1421998..1422804) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2109018, 10720487, 9634580; Product type t : transporter; antimicrobial peptide transporter subunit ; ATP-binding component of ABC superfamily transporter 1422804 sapF 7129241 sapF Escherichia coli S88 antimicrobial peptide transporter subunit ; ATP-binding component of ABC superfamily transporter YP_002391198.1 1421998 R 585035 CDS YP_002391199.1 218558286 7131362 complement(1422806..1423798) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2109018, 10720487, 9634580, 1987159; Product type t : transporter; antimicrobial peptide transporter subunit; ATP-binding component of ABC superfamily transporter 1423798 sapD 7131362 sapD Escherichia coli S88 antimicrobial peptide transporter subunit; ATP-binding component of ABC superfamily transporter YP_002391199.1 1422806 R 585035 CDS YP_002391200.1 218558287 7131361 complement(1423798..1424688) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2109018, 9634580; Product type t : transporter; antimicrobial peptide transporter subunit ; permease component of ABC superfamily transporter 1424688 sapC 7131361 sapC Escherichia coli S88 antimicrobial peptide transporter subunit ; permease component of ABC superfamily transporter YP_002391200.1 1423798 R 585035 CDS YP_002391201.1 218558288 7131360 complement(1424675..1425640) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2109018, 9634580; Product type t : transporter; antimicrobial peptide transporter subunit ; permease component of ABC superfamily transporter 1425640 sapB 7131360 sapB Escherichia coli S88 antimicrobial peptide transporter subunit ; permease component of ABC superfamily transporter YP_002391201.1 1424675 R 585035 CDS YP_002391202.1 218558289 7131359 complement(1425637..1427280) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2109018, 9634580; Product type t : transporter; antimicrobial peptide transporter subunit; periplasmic-binding component of ABC superfamily transporter 1427280 sapA 7131359 sapA Escherichia coli S88 antimicrobial peptide transporter subunit; periplasmic-binding component of ABC superfamily transporter YP_002391202.1 1425637 R 585035 CDS YP_002391203.1 218558290 7131358 complement(1427593..1427838) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1427838 ymjA 7131358 ymjA Escherichia coli S88 hypothetical protein YP_002391203.1 1427593 R 585035 CDS YP_002391204.1 218558291 7131760 complement(1428265..1429242) 1 NC_011742.1 transcriptional activator for pspABCE which are induced in response to phage proteins, membrane altering stresses, and impaired proton expor; phage shock protein operon transcriptional activator 1429242 pspF 7131760 pspF Escherichia coli S88 phage shock protein operon transcriptional activator YP_002391204.1 1428265 R 585035 CDS YP_002391205.1 218558292 7130808 1429408..1430076 1 NC_011742.1 involved in maintaining membrane potential under membrane stress conditions; also acts as a negative transcriptional regulator of the phage shock protein (psp) operon(pspABCDE) by regulating the transcriptional activator PspF; phage shock protein PspA 1430076 pspA 7130808 pspA Escherichia coli S88 phage shock protein PspA YP_002391205.1 1429408 D 585035 CDS YP_002391206.1 218558293 7130803 1430130..1430354 1 NC_011742.1 acts together with PspC to induce psp operon during infection with phage, exposure to ethanol or osmotic shock; forms a complex with PspA and C; PspC is required for PspAB binding; phage shock protein B 1430354 pspB 7130803 pspB Escherichia coli S88 phage shock protein B YP_002391206.1 1430130 D 585035 CDS YP_002391207.1 218558294 7130804 1430354..1430713 1 NC_011742.1 with PsbB forms toxin/antitoxin pair; activates the psp operon in response to phage infection, exposure to ethanol or osmotic shock; DNA-binding transcriptional activator PspC 1430713 pspC 7130804 pspC Escherichia coli S88 DNA-binding transcriptional activator PspC YP_002391207.1 1430354 D 585035 CDS YP_002391208.1 218558295 7130805 1430722..1430943 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91295203, 97303082; Product type ph : phenotype; peripheral inner membrane phage-shock protein 1430943 pspD 7130805 pspD Escherichia coli S88 peripheral inner membrane phage-shock protein YP_002391208.1 1430722 D 585035 CDS YP_002391209.1 218558296 7130806 1431018..1431332 1 NC_011742.1 rhodanese; catalyzes the formation of thiocyanate from thiosulfate and hydrogen cyanide; thiosulfate:cyanide sulfurtransferase 1431332 pspE 7130806 pspE Escherichia coli S88 thiosulfate:cyanide sulfurtransferase YP_002391209.1 1431018 D 585035 CDS YP_002391210.1 218558297 7130807 1431542..1433221 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative glucosyltransferase 1433221 ycjM 7130807 ycjM Escherichia coli S88 putative glucosyltransferase YP_002391210.1 1431542 D 585035 CDS YP_002391211.1 218558298 7131492 1433235..1434527 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: periplasmic-binding component of ABC superfamily transporter 1434527 ycjN 7131492 ycjN Escherichia coli S88 putative sugar transporter subunit: periplasmic-binding component of ABC superfamily transporter YP_002391211.1 1433235 D 585035 CDS YP_002391212.1 218558299 7131493 1434548..1435429 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: permease component of ABC superfamily transporter 1435429 ycjO 7131493 ycjO Escherichia coli S88 putative sugar transporter subunit: permease component of ABC superfamily transporter YP_002391212.1 1434548 D 585035 CDS YP_002391213.1 218558300 7131494 1435416..1436258 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: permease component of ABC superfamily transporter 1436258 ycjP 7131494 ycjP Escherichia coli S88 putative sugar transporter subunit: permease component of ABC superfamily transporter YP_002391213.1 1435416 D 585035 CDS YP_002391214.1 218558301 7131497 1437360..1438148 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative isomerase/epimerase 1438148 ycjR 7131497 ycjR Escherichia coli S88 putative isomerase/epimerase YP_002391214.1 1437360 D 585035 CDS YP_002391215.1 218558302 7131498 1438158..1439213 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase, NADH-binding 1439213 ycjS 7131498 ycjS Escherichia coli S88 putative oxidoreductase, NADH-binding YP_002391215.1 1438158 D 585035 CDS YP_002391216.1 218558303 7131499 1439210..1441477 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative glycosyl hydrolase/phosphorylase 1441477 ycjT 7131499 ycjT Escherichia coli S88 putative glycosyl hydrolase/phosphorylase YP_002391216.1 1439210 D 585035 CDS YP_002391217.1 218558304 7129191 1441474..1442133 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11972617; Product type pe : putative enzyme; putative glucose-1-phosphate phosphodismutase, beta-phosphoglucomutase 1442133 ycjU 7129191 ycjU Escherichia coli S88 putative glucose-1-phosphate phosphodismutase, beta-phosphoglucomutase YP_002391217.1 1441474 D 585035 CDS YP_002391218.1 218558305 7129272 1442147..1443229 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: ATP-binding component of ABC superfamily transporter 1443229 ycjV 7129272 ycjV Escherichia coli S88 putative sugar transporter subunit: ATP-binding component of ABC superfamily transporter YP_002391218.1 1442147 D 585035 CDS YP_002391219.1 218558306 7129273 1443274..1444179 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20464934, 89327119, 9721282; Product type t : transporter; outer membrane porin 1444179 ompG 7129273 ompG Escherichia coli S88 outer membrane porin YP_002391219.1 1443274 D 585035 CDS YP_002391220.1 218558307 7133126 complement(1444230..1445228) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1445228 ycjW 7133126 ycjW Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391220.1 1444230 R 585035 CDS YP_002391221.1 218558308 7129274 1445384..1446781 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain 1446781 ycjX 7129274 ycjX Escherichia coli S88 conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain YP_002391221.1 1445384 D 585035 CDS YP_002391222.1 218558309 7129275 1446778..1447839 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1447839 ycjF 7129275 ycjF Escherichia coli S88 hypothetical protein YP_002391222.1 1446778 D 585035 CDS YP_002391223.1 218558310 7131490 1447987..1449528 1 NC_011742.1 regulates genes involved in the biosynthesis and transport of aromatic amino acids; DNA-binding transcriptional regulator TyrR 1449528 tyrR 7131490 tyrR Escherichia coli S88 DNA-binding transcriptional regulator TyrR YP_002391223.1 1447987 D 585035 CDS YP_002391224.1 218558311 7130377 complement(1449572..1450078) 1 NC_011742.1 antioxidant activity; thioredoxin-dependent thiol peroxidase; forms homodimers in solution; shows substrate specificity to alkyl hydroperoxides; periplasmic protein; thiol peroxidase 1450078 tpx 7130377 tpx Escherichia coli S88 thiol peroxidase YP_002391224.1 1449572 R 585035 CDS YP_002391225.1 218558312 7133505 1450197..1451162 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11747447, 11747448, 7499381; Product type e : enzyme; L-Ala-D/L-Glu epimerase 1451162 ycjG 7133505 ycjG Escherichia coli S88 L-Ala-D/L-Glu epimerase YP_002391225.1 1450197 D 585035 CDS YP_002391226.1 218558313 7131491 complement(1451137..1451925) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12511517; Product type e : enzyme; murein peptide amidase A 1451925 mpaA 7131491 mpaA Escherichia coli S88 murein peptide amidase A YP_002391226.1 1451137 R 585035 CDS YP_002391227.1 218558314 7129597 complement(1452156..1452794) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative NAD(P) binding enzyme 1452794 ymjC 7129597 ymjC Escherichia coli S88 putative NAD(P) binding enzyme YP_002391227.1 1452156 R 585035 CDS YP_002391228.1 218558315 7131141 complement(1452865..1453797) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase 1453797 ycjY 7131141 ycjY Escherichia coli S88 putative hydrolase YP_002391228.1 1452865 R 585035 CDS YP_002391229.1 218558316 7129276 1453923..1454822 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 17366475; Product type pr : putative regulator; putative nucleic acid-binding regulator 1454822 ycjZ 7129276 ycjZ Escherichia coli S88 putative nucleic acid-binding regulator YP_002391229.1 1453923 D 585035 CDS YP_002391230.1 218558317 7129277 1455159..1456772 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10438753, 9495761; Product type t : transporter; murein tripeptide (L-ala-gamma-D-glutamyl-meso-DAP) transporter subunit ; periplasmic-binding component of ABC superfamily 1456772 mppA 7129277 mppA Escherichia coli S88 murein tripeptide (L-ala-gamma-D-glutamyl-meso-DAP) transporter subunit ; periplasmic-binding component of ABC superfamily YP_002391230.1 1455159 D 585035 CDS YP_002391231.1 218558318 7129599 complement(1456823..1457854) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1457854 ynaI 7129599 ynaI Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391231.1 1456823 R 585035 CDS YP_002391232.1 218558319 7131142 1458098..1458355 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1458355 ynaJ 7131142 ynaJ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391232.1 1458098 D 585035 CDS YP_002391233.1 218558320 7131143 complement(1458405..1459355) 1 NC_011742.1 with UspC and UspD is involved in resistance to UV irradiation; universal stress protein UspE 1459355 uspE 7131143 uspE Escherichia coli S88 universal stress protein UspE YP_002391233.1 1458405 R 585035 CDS YP_002391234.1 218558321 7132454 complement(1459507..1460259) 1 NC_011742.1 Global transcription factor that controls the expression of over 100 target genes in response to anoxia; fumarate/nitrate reduction transcriptional regulator 1460259 fnr 7132454 fnr Escherichia coli S88 fumarate/nitrate reduction transcriptional regulator YP_002391234.1 1459507 R 585035 CDS YP_002391235.1 218558322 7132811 complement(1460454..1460969) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88067749, 91161525, 94252990, 98125595, 1520330; Product type e : enzyme; O-6-alkylguanine-DNA:cysteine-protein methyltransferase 1460969 ogt 7132811 ogt Escherichia coli S88 O-6-alkylguanine-DNA:cysteine-protein methyltransferase YP_002391235.1 1460454 R 585035 CDS YP_002391236.1 218558323 7130426 complement(1461501..1462316) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; Putative HTH-type transcriptional regulator 1462316 7130426 ECS88_1479 Escherichia coli S88 Putative HTH-type transcriptional regulator YP_002391236.1 1461501 R 585035 CDS YP_002391237.1 218558324 7129243 1462410..1463441 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; Putative HlyD family secretion protein 1463441 7129243 ECS88_1481 Escherichia coli S88 Putative HlyD family secretion protein YP_002391237.1 1462410 D 585035 CDS YP_002391238.1 218558325 7129244 1463438..1464952 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative drug resistance transporter EmrB/QacA subfamily 1464952 7129244 ECS88_1482 Escherichia coli S88 putative drug resistance transporter EmrB/QacA subfamily YP_002391238.1 1463438 D 585035 CDS YP_002391239.1 218558326 7129245 1465147..1465710 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1465710 ydaL 7129245 ydaL Escherichia coli S88 hypothetical protein YP_002391239.1 1465147 D 585035 CDS YP_002391240.1 218558327 7129278 complement(1465731..1466963) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16045609; Product type pe : putative enzyme; putative diguanylate cyclase, GG[D/E]EF domain signalling protein 1466963 ydaM 7129278 ydaM Escherichia coli S88 putative diguanylate cyclase, GG[D/E]EF domain signalling protein YP_002391240.1 1465731 R 585035 CDS YP_002391241.1 218558328 7129279 1467218..1468201 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; zinc transporter 1468201 zntB 7129279 zntB Escherichia coli S88 zinc transporter YP_002391241.1 1467218 D 585035 CDS YP_002391242.1 218558329 7129280 1468476..1468649 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 1468649 7129280 ECS88_1486 Escherichia coli S88 hypothetical protein YP_002391242.1 1468476 D 585035 CDS YP_002391243.1 218558330 7129143 1468679..1470052 1 NC_011742.1 exhibits an RNA-dependent ATPase activity, specifically stimulated by bacterial 23S rRNA; ATP-dependent RNA helicase DbpA 1470052 dbpA 7129143 dbpA Escherichia coli S88 ATP-dependent RNA helicase DbpA YP_002391243.1 1468679 D 585035 CDS YP_002391244.1 218558331 7130569 complement(1470181..1471116) 1 NC_011742.1 TtcA; YdaO; catalyzes the thiolation of cytosine 32 in specific tRNAs; C32 tRNA thiolase 1471116 ydaO 7130569 ydaO Escherichia coli S88 C32 tRNA thiolase YP_002391244.1 1470181 R 585035 CDS YP_002391245.1 218558332 7129248 complement(1473443..1473877) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12732303, 12381839, 11849540, 9298646; Product type f : factor; stress-induced protein, ATP-binding protein 1473877 uspF 7129248 uspF Escherichia coli S88 stress-induced protein, ATP-binding protein YP_002391245.1 1473443 R 585035 CDS YP_002391246.1 218558333 7132455 complement(1474018..1475151) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9642192; Product type t : transporter; outer membrane pore protein N, non-specific 1475151 ompN 7132455 ompN Escherichia coli S88 outer membrane pore protein N, non-specific YP_002391246.1 1474018 R 585035 CDS YP_002391247.1 218558334 7128834 complement(1475517..1479041) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9025293; Product type pe : putative enzyme; putative 2-oxoacid-flavodoxin fused oxidoreductase:conserved protein; 4Fe-4S cluster binding protein 1479041 ydbK 7128834 ydbK Escherichia coli S88 putative 2-oxoacid-flavodoxin fused oxidoreductase:conserved protein; 4Fe-4S cluster binding protein YP_002391247.1 1475517 R 585035 CDS YP_002391248.1 218558335 7129286 1479315..1479581 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1479581 ydbJ 7129286 ydbJ Escherichia coli S88 hypothetical protein YP_002391248.1 1479315 D 585035 CDS YP_002391249.1 218558336 7129285 complement(1479578..1480000) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12892888, 8349564, 9025293; Product type f : factor; heat-inducible protein 1480000 hslJ 7129285 hslJ Escherichia coli S88 heat-inducible protein YP_002391249.1 1479578 R 585035 CDS YP_002391250.1 218558337 7131393 complement(1480111..1481100) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 4297266, 89123040, 90198524, 8349564, 9025293; Product type e : enzyme; fermentative D-lactate dehydrogenase, NAD-dependent 1481100 ldhA 7131393 ldhA Escherichia coli S88 fermentative D-lactate dehydrogenase, NAD-dependent YP_002391250.1 1480111 R 585035 CDS YP_002391251.1 218558338 7130477 1481308..1483947 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1483947 ydbH 7130477 ydbH Escherichia coli S88 hypothetical protein YP_002391251.1 1481308 D 585035 CDS YP_002391252.1 218558339 7129284 1483944..1484129 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; putative lipoprotein 1484129 ynbE 7129284 ynbE Escherichia coli S88 putative lipoprotein YP_002391252.1 1483944 D 585035 CDS YP_002391253.1 218558340 7133590 1484137..1484463 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1484463 ydbL 7133590 ydbL Escherichia coli S88 hypothetical protein YP_002391253.1 1484137 D 585035 CDS YP_002391254.1 218558341 7129287 1484839..1493154 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type prc : putative receptor; putative autotransported outer membrane protein involved in cell adhesion 1493154 ydbA 7129287 ydbA Escherichia coli S88 putative autotransported outer membrane protein involved in cell adhesion YP_002391254.1 1484839 D 585035 CDS YP_002391255.1 218558342 7129282 1493374..1494234 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase 1494234 ydbC 7129282 ydbC Escherichia coli S88 putative oxidoreductase YP_002391255.1 1493374 D 585035 CDS YP_002391256.1 218558343 7129283 complement(1494279..1494503) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1494503 7129283 ECS88_1502 Escherichia coli S88 hypothetical protein YP_002391256.1 1494279 R 585035 CDS YP_002391257.1 218558344 7129249 1494533..1495138 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1495138 ynbA 7129249 ynbA Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391257.1 1494533 D 585035 CDS YP_002391258.1 218558345 7131144 1495138..1496034 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane associated CTP-phosphosubstrate transferase 1496034 ynbB 7131144 ynbB Escherichia coli S88 putative membrane associated CTP-phosphosubstrate transferase YP_002391258.1 1495138 D 585035 CDS YP_002391259.1 218558346 7131145 1496050..1497807 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase 1497807 ynbC 7131145 ynbC Escherichia coli S88 putative hydrolase YP_002391259.1 1496050 D 585035 CDS YP_002391260.1 218558347 7132939 1497821..1499113 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane associated phosphatase 1499113 ynbD 7132939 ynbD Escherichia coli S88 putative membrane associated phosphatase YP_002391260.1 1497821 D 585035 CDS YP_002391261.1 218558348 7133589 complement(1499167..1499772) 1 NC_011742.1 FMN-dependent; requires NADH; catalyzes the cleavage of azo bond in aromatic azo compounds; azoreductase 1499772 azoR 7133589 azoR Escherichia coli S88 azoreductase YP_002391261.1 1499167 R 585035 CDS YP_002391262.1 218558349 7129983 1500030..1503875 1 NC_011742.1 involved in the post-transcriptional processing of the daa operon mRNA, which encodes proteins involved in fimbrial biogenesis of an enteropathogenic E. coli strain; ATP-dependent RNA helicase HrpA 1503875 hrpA 7129983 hrpA Escherichia coli S88 ATP-dependent RNA helicase HrpA YP_002391262.1 1500030 D 585035 CDS YP_002391263.1 218558350 7131389 1504148..1504948 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1504948 ydcF 7131389 ydcF Escherichia coli S88 hypothetical protein YP_002391263.1 1504148 D 585035 CDS YP_002391264.1 218558351 7129290 1505145..1506584 1 NC_011742.1 NAD-linked; aldehyde dehydrogenase A 1506584 aldA 7129290 aldA Escherichia coli S88 aldehyde dehydrogenase A YP_002391264.1 1505145 D 585035 CDS YP_002391265.1 218558352 7133040 complement(1506626..1507627) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 9622357, 9019141, 1917845, 3780374; Product type e : enzyme; glyceraldehyde-3-phosphate dehydrogenase C 1507627 gapC 7133040 gapC Escherichia coli S88 glyceraldehyde-3-phosphate dehydrogenase C YP_002391265.1 1506626 R 585035 CDS YP_002391266.1 218558353 7132180 1507816..1508346 1 NC_011742.1 B-type di-heme cytochrome with a major alpha-absorption peak at 561 nm and a minor peak at 555 nm; cytochrome b561 1508346 cybB 7132180 cybB Escherichia coli S88 cytochrome b561 YP_002391266.1 1507816 D 585035 CDS YP_002391267.1 218558354 7131332 1508591..1508764 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1508764 ydcA 7131332 ydcA Escherichia coli S88 hypothetical protein YP_002391267.1 1508591 D 585035 CDS YP_002391268.1 218558355 7130333 complement(1509430..1510353) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1510353 ydcI 7130333 ydcI Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391268.1 1509430 R 585035 CDS YP_002391269.1 218558356 7129292 1510570..1511913 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1511913 ydcJ 7129292 ydcJ Escherichia coli S88 hypothetical protein YP_002391269.1 1510570 D 585035 CDS YP_002391270.1 218558357 7129293 1512168..1513793 1 NC_011742.1 involved in the control of the structural glucose backbone of osmoregulated periplasmic glucans; glucan biosynthesis protein D 1513793 mdoD 7129293 mdoD Escherichia coli S88 glucan biosynthesis protein D YP_002391270.1 1512168 D 585035 CDS YP_002391271.1 218558358 7128786 complement(1513714..1513917) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1513917 7128786 ECS88_1520 Escherichia coli S88 hypothetical protein YP_002391271.1 1513714 R 585035 CDS YP_002391272.1 218558359 7129250 1513933..1514157 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1514157 ydcH 7129250 ydcH Escherichia coli S88 hypothetical protein YP_002391272.1 1513933 D 585035 CDS YP_002391273.1 218558360 7129291 1514220..1514759 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89364711; Product type e : enzyme; ribosomal-protein-L7/L12-serine acetyltransferase 1514759 rimL 7129291 rimL Escherichia coli S88 ribosomal-protein-L7/L12-serine acetyltransferase YP_002391273.1 1514220 D 585035 CDS YP_002391274.1 218558361 7132726 complement(1514751..1515731) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative enzyme 1515731 ydcK 7132726 ydcK Escherichia coli S88 putative enzyme YP_002391274.1 1514751 R 585035 CDS YP_002391275.1 218558362 7129294 1515855..1516847 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94222856, 2060788; Product type t : transporter; potassium-tellurite ethidium and proflavin transporter 1516847 tehA 7129294 tehA Escherichia coli S88 potassium-tellurite ethidium and proflavin transporter YP_002391275.1 1515855 D 585035 CDS YP_002391276.1 218558363 7131281 1516844..1517437 1 NC_011742.1 with TehA confers resistance to tellurite; tellurite resistance protein TehB 1517437 tehB 7131281 tehB Escherichia coli S88 tellurite resistance protein TehB YP_002391276.1 1516844 D 585035 CDS YP_002391277.1 218558364 7131282 1517740..1518408 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; putative lipoprotein 1518408 ydcL 7131282 ydcL Escherichia coli S88 putative lipoprotein YP_002391277.1 1517740 D 585035 CDS YP_002391278.1 218558365 7129295 complement(1518443..1519615) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1885518; Product type pt : putative transporter; putative benzoate transporter 1519615 ydcO 7129295 ydcO Escherichia coli S88 putative benzoate transporter YP_002391278.1 1518443 R 585035 CDS YP_002391279.1 218558366 7129297 1519707..1520243 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1520243 ydcN 7129297 ydcN Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391279.1 1519707 D 585035 CDS YP_002391280.1 218558367 7129296 1520316..1522277 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative peptidase 1522277 ydcP 7129296 ydcP Escherichia coli S88 putative peptidase YP_002391280.1 1520316 D 585035 CDS YP_002391281.1 218558368 7129298 complement(1522369..1522599) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1522599 yncJ 7129298 yncJ Escherichia coli S88 hypothetical protein YP_002391281.1 1522369 R 585035 CDS YP_002391282.1 218558369 7129299 1523093..1524499 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15223311; Product type pr : putative regulator; putative DNA-binding transcriptional regulator fused with a domain with PLP-binding motif 1524499 ydcR 7129299 ydcR Escherichia coli S88 putative DNA-binding transcriptional regulator fused with a domain with PLP-binding motif YP_002391282.1 1523093 D 585035 CDS YP_002391283.1 218558370 7129300 1524744..1525889 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11683869; Product type pt : putative transporter; putative spermidine/putrescine transporter subunit ; periplasmic-binding component of ABC superfamily transporter 1525889 ydcS 7129300 ydcS Escherichia coli S88 putative spermidine/putrescine transporter subunit ; periplasmic-binding component of ABC superfamily transporter YP_002391283.1 1524744 D 585035 CDS YP_002391284.1 218558371 7129301 1525907..1526740 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative spermidine/putrescine transporter subunit ; ATP-binding component of ABC superfamily tranporter 1526740 ydcT 7129301 ydcT Escherichia coli S88 putative spermidine/putrescine transporter subunit ; ATP-binding component of ABC superfamily tranporter YP_002391284.1 1525907 D 585035 CDS YP_002391285.1 218558372 7129303 1526921..1527862 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative spermidine/putrescine transporter subunit ; permease of ABC superfamily transporter 1527862 ydcU 7129303 ydcU Escherichia coli S88 putative spermidine/putrescine transporter subunit ; permease of ABC superfamily transporter YP_002391285.1 1526921 D 585035 CDS YP_002391286.1 218558373 7129304 1527852..1528646 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative spermidine/putrescine transporter subunit; permease component of ABC superfamily 1528646 ydcV 7129304 ydcV Escherichia coli S88 putative spermidine/putrescine transporter subunit; permease component of ABC superfamily YP_002391286.1 1527852 D 585035 CDS YP_002391287.1 218558374 7129305 1528668..1530092 1 NC_011742.1 catalyzes the formation of 4-aminobutanoate from 4-aminobutanal; involved in putrescine degradation; gamma-aminobutyraldehyde dehydrogenase 1530092 ydcW 7129305 ydcW Escherichia coli S88 gamma-aminobutyraldehyde dehydrogenase YP_002391287.1 1528668 D 585035 CDS YP_002391288.1 218558375 7129306 1530404..1530652 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1530652 ydcX 7129306 ydcX Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391288.1 1530404 D 585035 CDS YP_002391289.1 218558376 7129307 1530738..1530971 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1530971 ydcY 7129307 ydcY Escherichia coli S88 hypothetical protein YP_002391289.1 1530738 D 585035 CDS YP_002391290.1 218558377 7129308 complement(1530972..1531421) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1531421 ydcZ 7129308 ydcZ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391290.1 1530972 R 585035 CDS YP_002391291.1 218558378 7129309 complement(1531418..1531936) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acyltransferase with acyl-CoA N-acyltransferase domain 1531936 yncA 7129309 yncA Escherichia coli S88 putative acyltransferase with acyl-CoA N-acyltransferase domain YP_002391291.1 1531418 R 585035 CDS YP_002391292.1 218558379 7129251 complement(1532417..1534519) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type prc : putative receptor; putative iron outer membrane receptor 1534519 yncD 7129251 yncD Escherichia coli S88 putative iron outer membrane receptor YP_002391292.1 1532417 R 585035 CDS YP_002391293.1 218558380 7133593 1534761..1535822 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1535822 yncE 7133593 yncE Escherichia coli S88 hypothetical protein YP_002391293.1 1534761 D 585035 CDS YP_002391294.1 218558381 7133594 complement(1535935..1537434) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 76005443; Product type t : transporter; L-asparagine transporter 1537434 ansP 7133594 ansP Escherichia coli S88 L-asparagine transporter YP_002391294.1 1535935 R 585035 CDS YP_002391295.1 218558382 7133596 1538842..1539126 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, PAAR motifs 1539126 7133596 ECS88_1551 Escherichia coli S88 conserved hypothetical protein, PAAR motifs YP_002391295.1 1538842 D 585035 CDS YP_002391296.1 218558383 7129252 1539145..1541550 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative VgrG/E protein associated with Rhs elements 1541550 7129252 ECS88_1552 Escherichia coli S88 conserved hypothetical protein, putative VgrG/E protein associated with Rhs elements YP_002391296.1 1539145 D 585035 CDS YP_002391297.1 218558384 7129253 1541504..1542301 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative zinc-dependent metallopeptidase 1542301 7129253 ECS88_1553 Escherichia coli S88 putative zinc-dependent metallopeptidase YP_002391297.1 1541504 D 585035 CDS YP_002391298.1 218558385 7129254 1542354..1543073 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 1543073 7129254 ECS88_1554 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002391298.1 1542354 D 585035 CDS YP_002391299.1 218558386 7129289 1543472..1543687 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 1543687 7129289 ECS88_1556 Escherichia coli S88 hypothetical protein YP_002391299.1 1543472 D 585035 CDS YP_002391300.1 218558387 7129256 complement(1544004..1544573) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1544573 yddH 7129256 yddH Escherichia coli S88 hypothetical protein YP_002391300.1 1544004 R 585035 CDS YP_002391301.1 218558388 7129314 1544748..1545593 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20267568; Product type e : enzyme; N-hydroxyarylamine O-acetyltransferase 1545593 nhoA 7129314 nhoA Escherichia coli S88 N-hydroxyarylamine O-acetyltransferase YP_002391301.1 1544748 D 585035 CDS YP_002391302.1 218558389 7129709 complement(1545689..1546582) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 14611652, 15103639, 2233673; hypothetical protein 1546582 yddE 7129709 yddE Escherichia coli S88 hypothetical protein YP_002391302.1 1545689 R 585035 CDS YP_002391303.1 218558390 7129312 complement(1546662..1547342) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91042410; Product type e : enzyme; nitrate reductase 2 (NRZ), gamma subunit 1547342 narV 7129312 narV Escherichia coli S88 nitrate reductase 2 (NRZ), gamma subunit YP_002391303.1 1546662 R 585035 CDS YP_002391304.1 218558391 7129685 complement(1547339..1548034) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91042410, 92186712; Product type f : factor; nitrate reductase 2 (NRZ), delta subunit (assembly subunit) 1548034 narW 7129685 narW Escherichia coli S88 nitrate reductase 2 (NRZ), delta subunit (assembly subunit) YP_002391304.1 1547339 R 585035 CDS YP_002391305.1 218558392 7129686 complement(1548034..1549578) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91042410; Product type c : carrier; nitrate reductase 2 (NRZ), beta subunit 1549578 narY 7129686 narY Escherichia coli S88 nitrate reductase 2 (NRZ), beta subunit YP_002391305.1 1548034 R 585035 CDS YP_002391306.1 218558393 7129688 complement(1549575..1553315) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91042410; Product type e : enzyme; nitrate reductase 2 (NRZ), alpha subunit 1553315 narZ 7129688 narZ Escherichia coli S88 nitrate reductase 2 (NRZ), alpha subunit YP_002391306.1 1549575 R 585035 CDS YP_002391307.1 218558394 7129689 complement(1553410..1554798) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95266795, 2233673; Product type t : transporter; nitrate/nitrite transporter 1554798 narU 7129689 narU Escherichia coli S88 nitrate/nitrite transporter YP_002391307.1 1553410 R 585035 CDS YP_002391308.1 218558395 7129684 complement(1555071..1555895) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 12410826; Product type t : transporter; hypothetical protein 1555895 yddG 7129684 yddG Escherichia coli S88 hypothetical protein YP_002391308.1 1555071 R 585035 CDS YP_002391309.1 218558396 7129313 1556184..1559231 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type e : enzyme; formate dehydrogenase-N, alpha subunit, nitrate-inducible 1559231 fdnG 7129313 fdnG Escherichia coli S88 formate dehydrogenase-N, alpha subunit, nitrate-inducible YP_002391309.1 1556184 D 585035 CDS YP_002391310.1 218558397 7129454 1559244..1560128 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 76005553, 90375017, 92332427, 11884747, 1834669; Product type c : carrier; formate dehydrogenase-N, Fe-S (beta) subunit, nitrate-inducible 1560128 fdnH 7129454 fdnH Escherichia coli S88 formate dehydrogenase-N, Fe-S (beta) subunit, nitrate-inducible YP_002391310.1 1559244 D 585035 CDS YP_002391311.1 218558398 7129455 1560121..1560774 1 NC_011742.1 nitrate-inducible, cytochrome b556(fdn) component of formate dehydrogenase; formate dehydrogenase-N subunit gamma 1560774 fdnI 7129455 fdnI Escherichia coli S88 formate dehydrogenase-N subunit gamma YP_002391311.1 1560121 D 585035 CDS YP_002391312.1 218558399 7129315 complement(1561287..1561565) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative plasmid maintenance system killer protein 1561565 7129315 ECS88_1571 Escherichia coli S88 conserved hypothetical protein, putative plasmid maintenance system killer protein YP_002391312.1 1561287 R 585035 CDS YP_002391313.1 218558400 7129257 complement(1561751..1562761) 1 NC_011742.1 similar to zinc-dependent eukaryotic ADH enzymes and distinct from fermentative ADHs; alcohol dehydrogenase 1562761 adhP 7129257 adhP Escherichia coli S88 alcohol dehydrogenase YP_002391313.1 1561751 R 585035 CDS YP_002391314.1 218558401 7132054 complement(1562895..1564592) 1 NC_011742.1 malic enzyme; oxaloacetate-decarboxylating; NAD-dependent; catalyzes the formation of pyruvate form malate; malate dehydrogenase 1564592 sfcA 7132054 sfcA Escherichia coli S88 malate dehydrogenase YP_002391314.1 1562895 R 585035 CDS YP_002391315.1 218558402 7130584 complement(1564987..1565202) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10498711, 13129944; Product type f : factor; biofilm-dependent modulation protein 1565202 bdm 7130584 bdm Escherichia coli S88 biofilm-dependent modulation protein YP_002391315.1 1564987 R 585035 CDS YP_002391316.1 218558403 7130001 1565547..1565978 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14512736, 91350191, 9298646; Product type m : membrane component; osmotically inducible, stress-inducible membrane protein 1565978 osmC 7130001 osmC Escherichia coli S88 osmotically inducible, stress-inducible membrane protein YP_002391316.1 1565547 D 585035 CDS YP_002391317.1 218558404 7133144 complement(1566168..1568567) 1 NC_011742.1 heme-regulated phosphodiesterase with phosphodiesterase activity with cAMP but not with cGMP, bis(p-nitrophenyl) phosphate or p-nitrophenyl phosphate; cAMP phosphodiesterase 1568567 dos 7133144 dos Escherichia coli S88 cAMP phosphodiesterase YP_002391317.1 1566168 R 585035 CDS YP_002391318.1 218558405 7130231 complement(1568592..1568810) 1 NC_011742.1 Evidence 7 : Gene remnant; Product type pe : putative enzyme; putative diguanylate cyclase YddV (partial) 1568810 yddV 7130231 yddV Escherichia coli S88 putative diguanylate cyclase YddV (partial) YP_002391318.1 1568592 R 585035 CDS YP_002391319.1 218558406 7129316 complement(1569134..1570453) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10960106; Product type lp : lipoprotein; putative lipoprotein 1570453 yddW 7129316 yddW Escherichia coli S88 putative lipoprotein YP_002391319.1 1569134 R 585035 CDS YP_002391320.1 218558407 7129317 complement(1570584..1572119) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15795232, 15489450; Product type t : transporter; glutamate:gamma-aminobutyric acid antiporter 1572119 gadC 7129317 gadC Escherichia coli S88 glutamate:gamma-aminobutyric acid antiporter YP_002391320.1 1570584 R 585035 CDS YP_002391321.1 218558408 7132165 complement(1572275..1573675) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12912902, 92155241, 92394884, 99406302, 8455549; Product type e : enzyme; glutamate decarboxylase B, PLP-dependent 1573675 gadB 7132165 gadB Escherichia coli S88 glutamate decarboxylase B, PLP-dependent YP_002391321.1 1572275 R 585035 CDS YP_002391322.1 218558409 7132164 complement(1574036..1576831) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1659611, 11514505; Product type pe : putative enzyme; putative membrane-associated peptidase 1576831 pqqL 7132164 pqqL Escherichia coli S88 putative membrane-associated peptidase YP_002391322.1 1574036 R 585035 CDS YP_002391323.1 218558410 7130770 complement(1576876..1579248) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative porin protein 1579248 yddB 7130770 yddB Escherichia coli S88 putative porin protein YP_002391323.1 1576876 R 585035 CDS YP_002391324.1 218558411 7129311 complement(1579286..1580971) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative multidrug transporter fused subunits of ABC superfamily transporter: permease component; ATP-binding component 1580971 yddA 7129311 yddA Escherichia coli S88 putative multidrug transporter fused subunits of ABC superfamily transporter: permease component; ATP-binding component YP_002391324.1 1579286 R 585035 CDS YP_002391325.1 218558412 7129310 complement(1581262..1582419) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pr : putative regulator; hypothetical protein 1582419 ydeM 7129310 ydeM Escherichia coli S88 hypothetical protein YP_002391325.1 1581262 R 585035 CDS YP_002391326.1 218558413 7129321 complement(1582471..1584153) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative sulfatase 1584153 ydeN 7129321 ydeN Escherichia coli S88 putative sulfatase YP_002391326.1 1582471 R 585035 CDS YP_002391327.1 218558414 7129322 complement(1584555..1585316) 1 NC_011742.1 regulates the cellular response to acid resistance; transcriptional regulator YdeO 1585316 ydeO 7129322 ydeO Escherichia coli S88 transcriptional regulator YdeO YP_002391327.1 1584555 R 585035 CDS YP_002391328.1 218558415 7129323 complement(1585391..1585588) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1585588 7129323 ECS88_1588 Escherichia coli S88 hypothetical protein YP_002391328.1 1585391 R 585035 CDS YP_002391329.1 218558416 7129258 complement(1585836..1588115) 1 NC_011742.1 in Escherichia coli it may be involved in repression of type III secretion system (TTSS) genes of the host cell; involved with increased resistance to low pH; member of the prokaryotic molybdopterin-containing oxidoreductase family; putative oxidoreductase 1588115 ydeP 7129258 ydeP Escherichia coli S88 putative oxidoreductase YP_002391329.1 1585836 R 585035 CDS YP_002391330.1 218558417 7129325 complement(1589273..1589884) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative major fimbrial subunit FmlA 1589884 7129325 ECS88_1591 Escherichia coli S88 putative major fimbrial subunit FmlA YP_002391330.1 1589273 R 585035 CDS YP_002391331.1 218558418 7129259 complement(1590199..1590486) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative NAD(P)-binding Rossmann-fold domain 1590486 7129259 ECS88_1592 Escherichia coli S88 conserved hypothetical protein, putative NAD(P)-binding Rossmann-fold domain YP_002391331.1 1590199 R 585035 CDS YP_002391332.1 218558419 7129260 1590596..1590853 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1590853 7129260 ECS88_1593 Escherichia coli S88 hypothetical protein YP_002391332.1 1590596 D 585035 CDS YP_002391333.1 218558420 7129261 complement(1591112..1592434) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91358364, 94292428, 15576765; Product type r : regulator; regulator with hipB 1592434 hipA 7129261 hipA Escherichia coli S88 regulator with hipB YP_002391333.1 1591112 R 585035 CDS YP_002391334.1 218558421 7128917 complement(1592434..1592700) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91358364, 94292428, 15576765, 8021189; Product type r : regulator; DNA-binding transcriptional regulator HipB 1592700 hipB 7128917 hipB Escherichia coli S88 DNA-binding transcriptional regulator HipB YP_002391334.1 1592434 R 585035 CDS YP_002391335.1 218558422 7128918 1593008..1593766 1 NC_011742.1 catalyzes the formation of (E)-3-(methoxycarbonyl)pent-2-enedioate and S-adenosyl-L-homocysteine from S-adenosyl-L-methionine and trans-aconitate; trans-aconitate 2-methyltransferase 1593766 tam 7128918 tam Escherichia coli S88 trans-aconitate 2-methyltransferase YP_002391335.1 1593008 D 585035 CDS YP_002391336.1 218558423 7131259 complement(1593770..1594684) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1594684 yneE 7131259 yneE Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391336.1 1593770 R 585035 CDS YP_002391337.1 218558424 7133598 complement(1594881..1596332) 1 NC_011742.1 catalyzes the formation of D-tagaturonate from D-altronate; altronate oxidoreductase 1596332 uxaB 7133598 uxaB Escherichia coli S88 altronate oxidoreductase YP_002391337.1 1594881 R 585035 CDS YP_002391338.1 218558425 7132464 complement(1596559..1597977) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane-associated diguanylate cyclase (GGDEF domain) 1597977 yneF 7132464 yneF Escherichia coli S88 putative membrane-associated diguanylate cyclase (GGDEF domain) YP_002391338.1 1596559 R 585035 CDS YP_002391339.1 218558426 7133599 complement(1598116..1598475) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1598475 yneG 7133599 yneG Escherichia coli S88 hypothetical protein YP_002391339.1 1598116 R 585035 CDS YP_002391340.1 218558427 7133600 complement(1598475..1599401) 1 NC_011742.1 catalyzes the formation of glutamate from glutamine; glutaminase 1599401 yneH 7133600 yneH Escherichia coli S88 glutaminase YP_002391340.1 1598475 R 585035 CDS YP_002391341.1 218558428 7133601 complement(1599465..1600853) 1 NC_011742.1 in Escherichia coli this enzyme appears to be an NAD+/NADP+-dependent succinate semialdehyde dehydrogenase; putative succinate semialdehyde dehydrogenase 1600853 yneI 7133601 yneI Escherichia coli S88 putative succinate semialdehyde dehydrogenase YP_002391341.1 1599465 R 585035 CDS YP_002391342.1 218558429 7133602 1600954..1601835 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1601835 yneJ 7133602 yneJ Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391342.1 1600954 D 585035 CDS YP_002391343.1 218558430 7133603 1602174..1603364 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10094697, 99369894, 8383113, 10438792; Product type t : transporter; sugar efflux transporter 1603364 ydeA 7133603 ydeA Escherichia coli S88 sugar efflux transporter YP_002391343.1 1602174 D 585035 CDS YP_002391344.1 218558431 7129318 complement(1603389..1604054) 1 NC_011742.1 protein involved in resistance to different drugs (tetracycline, chloramphenicol, beta-lactams, and quinolones); part of the multiple antibiotic resistance (mar) locus, which is composed by the genes marC and marRAB; unknown function; multiple drug resistance protein MarC 1604054 marC 7129318 marC Escherichia coli S88 multiple drug resistance protein MarC YP_002391344.1 1603389 R 585035 CDS YP_002391345.1 218558432 7129426 1604266..1604700 1 NC_011742.1 Repressor of the marRAB operon which is involved in the activation of both antibiotic resistance and oxidative stress genes; DNA-binding transcriptional repressor MarR 1604700 marR 7129426 marR Escherichia coli S88 DNA-binding transcriptional repressor MarR YP_002391345.1 1604266 D 585035 CDS YP_002391346.1 218558433 7129427 1604721..1605104 1 NC_011742.1 transcriptional activator of genes involved in the multiple antibiotic resistance (Mar) phenotype; also activates sodA, zwf and micF; DNA-binding transcriptional activator MarA 1605104 marA 7129427 marA Escherichia coli S88 DNA-binding transcriptional activator MarA YP_002391346.1 1604721 D 585035 CDS YP_002391347.1 218558434 7129424 1605136..1605354 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8383113; hypothetical protein 1605354 marB 7129424 marB Escherichia coli S88 hypothetical protein YP_002391347.1 1605136 D 585035 CDS YP_002391348.1 218558435 7129425 complement(1605411..1606880) 1 NC_011742.1 converts 6-phospho-beta-D-glucosyl-(1,4)-D-glucose to glucose and glucose 6-phosphate; required for cellobiose uptake and metabolism; 6-phospho-beta-glucosidase 1606880 celA 7129425 celA Escherichia coli S88 6-phospho-beta-glucosidase YP_002391348.1 1605411 R 585035 CDS YP_002391349.1 218558436 7129262 complement(1606874..1608547) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative carbohydrate-specific outer membrane porin 1608547 7129262 ECS88_1610 Escherichia coli S88 putative carbohydrate-specific outer membrane porin YP_002391349.1 1606874 R 585035 CDS YP_002391350.1 218558437 7129263 complement(1608602..1608916) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotransferase system PTS, lactose/cellobiose-specific IIA subunit 1608916 7129263 ECS88_1611 Escherichia coli S88 putative phosphotransferase system PTS, lactose/cellobiose-specific IIA subunit YP_002391350.1 1608602 R 585035 CDS YP_002391351.1 218558438 7129264 complement(1608941..1610302) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotransferase system IIC component 1610302 7129264 ECS88_1612 Escherichia coli S88 putative phosphotransferase system IIC component YP_002391351.1 1608941 R 585035 CDS YP_002391352.1 218558439 7129265 complement(1610378..1610689) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative cellobiose-specific phosphotransferase enzyme IIB component 1610689 7129265 ECS88_1613 Escherichia coli S88 putative cellobiose-specific phosphotransferase enzyme IIB component YP_002391352.1 1610378 R 585035 CDS YP_002391353.1 218558440 7129266 1610888..1611586 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator HTH family 1611586 7129266 ECS88_1614 Escherichia coli S88 putative DNA-binding transcriptional regulator HTH family YP_002391353.1 1610888 D 585035 CDS YP_002391354.1 218558441 7129267 complement(1611631..1612530) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20305052; Product type t : transporter; O-acetylserine/cysteine export protein 1612530 eamA 7129267 eamA Escherichia coli S88 O-acetylserine/cysteine export protein YP_002391354.1 1611631 R 585035 CDS YP_002391355.1 218558442 7132371 1612725..1613912 1 NC_011742.1 YdeF; uncharacterized member of the major facilitator superfamily (MFS) of transporters; putative MFS-type transporter YdeE 1613912 ydeE 7132371 ydeE Escherichia coli S88 putative MFS-type transporter YdeE YP_002391355.1 1612725 D 585035 CDS YP_002391356.1 218558443 7129319 complement(1614353..1615243) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1615243 ydeH 7129319 ydeH Escherichia coli S88 hypothetical protein YP_002391356.1 1614353 R 585035 CDS YP_002391357.1 218558444 7129320 complement(1615751..1617796) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 216006, 8226676; Product type e : enzyme; dipeptidyl carboxypeptidase II 1617796 dcp 7129320 dcp Escherichia coli S88 dipeptidyl carboxypeptidase II YP_002391357.1 1615751 R 585035 CDS YP_002391358.1 218558445 7130572 1617933..1618679 1 NC_011742.1 NADP(+)-dependent; catalyzes the formation of 2-aminomalonate-semialdehyde from L-serine; can also use 3-hydroxybutyrate, 3-hydroxy-isobutyrate, D-threonine, L-allo-threonine,D-serine; 3-hydroxy acid dehydrogenase 1618679 ydfG 7130572 ydfG Escherichia coli S88 3-hydroxy acid dehydrogenase YP_002391358.1 1617933 D 585035 CDS YP_002391359.1 218558446 7129330 1618768..1619454 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1619454 ydfH 7129330 ydfH Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391359.1 1618768 D 585035 CDS YP_002391360.1 218558447 7129331 1619631..1619834 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12084818; Product type pc : putative carrier; putative selenium carrying protein 1619834 ydfZ 7129331 ydfZ Escherichia coli S88 putative selenium carrying protein YP_002391360.1 1619631 D 585035 CDS YP_002391361.1 218558448 7129341 complement(1619870..1621330) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative mannonate dehydrogenase 1621330 ydfI 7129341 ydfI Escherichia coli S88 putative mannonate dehydrogenase YP_002391361.1 1619870 R 585035 CDS YP_002391362.1 218558449 7129333 complement(1621681..1621773) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1621773 ynfP 7129333 ynfP Escherichia coli S88 hypothetical protein YP_002391362.1 1621681 R 585035 CDS YP_002391363.1 218558450 7133617 complement(1621831..1622850) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7545940; Product type pe : putative enzyme; putative dehydrogenase 1622850 rspB 7133617 rspB Escherichia coli S88 putative dehydrogenase YP_002391363.1 1621831 R 585035 CDS YP_002391364.1 218558451 7133818 complement(1622862..1624076) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 93341455, 94310441; Product type pe : putative enzyme; putative enolase/dehydratase 1624076 rspA 7133818 rspA Escherichia coli S88 putative enolase/dehydratase YP_002391364.1 1622862 R 585035 CDS YP_002391365.1 218558452 7133816 complement(1624282..1624608) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1624608 ynfA 7133816 ynfA Escherichia coli S88 hypothetical protein YP_002391365.1 1624282 R 585035 CDS YP_002391366.1 218558453 7133604 1624743..1625084 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1625084 ynfB 7133604 ynfB Escherichia coli S88 hypothetical protein YP_002391366.1 1624743 D 585035 CDS YP_002391367.1 218558454 7133605 1625119..1625679 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94357898; Product type e : enzyme; spermidine N1-acetyltransferase 1625679 speG 7133605 speG Escherichia coli S88 spermidine N1-acetyltransferase YP_002391367.1 1625119 D 585035 CDS YP_002391368.1 218558455 7130630 complement(1625682..1626392) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1626392 ynfC 7130630 ynfC Escherichia coli S88 hypothetical protein YP_002391368.1 1625682 R 585035 CDS YP_002391369.1 218558456 7133606 1626500..1626805 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 9868784; hypothetical protein 1626805 ynfD 7133606 ynfD Escherichia coli S88 hypothetical protein YP_002391369.1 1626500 D 585035 CDS YP_002391370.1 218558457 7133607 1627004..1629430 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14522592; Product type e : enzyme; oxidoreductase subunit 1629430 ynfE 7133607 ynfE Escherichia coli S88 oxidoreductase subunit YP_002391370.1 1627004 D 585035 CDS YP_002391371.1 218558458 7133608 1629491..1631914 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14522592; Product type e : enzyme; oxidoreductase subunit 1631914 ynfF 7133608 ynfF Escherichia coli S88 oxidoreductase subunit YP_002391371.1 1629491 D 585035 CDS YP_002391372.1 218558459 7133609 1631925..1632542 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14522592; Product type c : carrier; oxidoreductase, Fe-S subunit 1632542 ynfG 7133609 ynfG Escherichia coli S88 oxidoreductase, Fe-S subunit YP_002391372.1 1631925 D 585035 CDS YP_002391373.1 218558460 7133610 1632544..1633398 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14522592; Product type m : membrane component; oxidoreductase, membrane subunit 1633398 ynfH 7133610 ynfH Escherichia coli S88 oxidoreductase, membrane subunit YP_002391373.1 1632544 D 585035 CDS YP_002391374.1 218558461 7133611 1633441..1634055 1 NC_011742.1 binds to the twin-arginine signal peptides of certain proteins, including dimethylsulfoxide reductase and trimethylamine N-oxide reductase that are translocated to the cytoplasmic membrane; twin-argninine leader-binding protein DmsD 1634055 dmsD 7133611 dmsD Escherichia coli S88 twin-argninine leader-binding protein DmsD YP_002391374.1 1633441 D 585035 CDS YP_002391375.1 218558462 7130219 1634253..1635434 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12384697; Product type pt : putative transporter; putative voltage-gated ClC-type chloride channel ClcB 1635434 clcB 7130219 clcB Escherichia coli S88 putative voltage-gated ClC-type chloride channel ClcB YP_002391375.1 1634253 D 585035 CDS YP_002391376.1 218558463 7131926 complement(1635387..1636082) 1 NC_011742.1 DTB synthetase; dethiobiotin synthase; involved in production of dethiobiotin from ATP and 7,8-diaminononanoate and carbon dioxide; contains magnesium; putative dithiobiotin synthetase 1636082 ynfK 7131926 ynfK Escherichia coli S88 putative dithiobiotin synthetase YP_002391376.1 1635387 R 585035 CDS YP_002391377.1 218558464 7133612 complement(1636207..1637427) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10318813, 20490366, 6989798, 99340206, 99395104, 99398866, 7766024; Product type r : regulator; DNA-binding transcriptional repressor 1637427 dgsA 7133612 dgsA Escherichia coli S88 DNA-binding transcriptional repressor YP_002391377.1 1636207 R 585035 CDS YP_002391378.1 218558465 7130198 complement(1637562..1638455) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1638455 ynfL 7130198 ynfL Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391378.1 1637562 R 585035 CDS YP_002391379.1 218558466 7133613 1638562..1639815 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter; MFS type 1639815 ynfM 7133613 ynfM Escherichia coli S88 putative transporter; MFS type YP_002391379.1 1638562 D 585035 CDS YP_002391380.1 218558467 7133614 1640240..1640548 1 NC_011742.1 required for growth and survival under moderately acid conditions; acid shock protein precursor 1640548 asr 7133614 asr Escherichia coli S88 acid shock protein precursor YP_002391380.1 1640240 D 585035 CDS YP_002391381.1 218558468 7129953 1640824..1641645 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative exported metallopeptidase 1641645 ydgD 7129953 ydgD Escherichia coli S88 putative exported metallopeptidase YP_002391381.1 1640824 D 585035 CDS YP_002391382.1 218558469 7129344 complement(1641684..1642013) 1 NC_011742.1 with MdtJ is involved in resistance to deoxycholate, nalidixic acid, fosfomycin, and SDS; multidrug efflux system protein MdtI 1642013 mdtI 7129344 mdtI Escherichia coli S88 multidrug efflux system protein MdtI YP_002391382.1 1641684 R 585035 CDS YP_002391383.1 218558470 7128797 complement(1642000..1642365) 1 NC_011742.1 with MdtI is involved in resistance to deoxycholate , nalidixic acid, fosfomycin, and SDS; multidrug efflux system protein MdtJ 1642365 mdtJ 7128797 mdtJ Escherichia coli S88 multidrug efflux system protein MdtJ YP_002391383.1 1642000 R 585035 CDS YP_002391384.1 218558471 7128798 1642776..1643810 1 NC_011742.1 transport of quorum-sensing signal; mutations in this gene alters the transport of the quorum-sensing signal autoinducer 2 (AI-2) which affects expression of a large number of genes; putative transport protein 1643810 tqsA 7128798 tqsA Escherichia coli S88 putative transport protein YP_002391384.1 1642776 D 585035 CDS YP_002391385.1 218558472 7129345 complement(1643835..1645223) 1 NC_011742.1 catalyzes reversible transfer of hydride ion equivalent between NAD and NADP; membrane-bound proton pump that translocates protons from cytosolic to periplasmic side of the inner membrane; forms a tetramer composed of two alpha and 2 beta subunits; AB-stereospecific enzyme; pyridine nucleotide transhydrogenase 1645223 pntB 7129345 pntB Escherichia coli S88 pyridine nucleotide transhydrogenase YP_002391385.1 1643835 R 585035 CDS YP_002391386.1 218558473 7133750 complement(1645234..1646766) 1 NC_011742.1 forms a tetramer composed of 2 alpha subunits and 2 beta subunits in the inner membrane; involved in catalyzing transfer of hydride ion equivalents between NAD and NADP; stereospecific (AB-specific); functions as a proton pump by translocating protons from cytoplasm to periplasm; NAD(P) transhydrogenase subunit alpha 1646766 pntA 7133750 pntA Escherichia coli S88 NAD(P) transhydrogenase subunit alpha YP_002391386.1 1645234 R 585035 CDS YP_002391387.1 218558474 7133749 1647290..1648234 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1648234 ydgH 7133749 ydgH Escherichia coli S88 hypothetical protein YP_002391387.1 1647290 D 585035 CDS YP_002391388.1 218558475 7129346 1648420..1649802 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1311296; Product type pt : putative transporter; putative arginine/ornithine antiporter transporter 1649802 ydgI 7129346 ydgI Escherichia coli S88 putative arginine/ornithine antiporter transporter YP_002391388.1 1648420 D 585035 CDS YP_002391389.1 218558476 7129347 1649839..1650561 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14617668; Product type e : enzyme; short chain dehydrogenase 1650561 folM 7129347 folM Escherichia coli S88 short chain dehydrogenase YP_002391389.1 1649839 D 585035 CDS YP_002391390.1 218558477 7132819 complement(1650558..1650893) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein associated with alginate biosynthesis 1650893 ydgC 7132819 ydgC Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein associated with alginate biosynthesis YP_002391390.1 1650558 R 585035 CDS YP_002391391.1 218558478 7129343 1651013..1651741 1 NC_011742.1 response regulator in two-component regulatory system with RstB; DNA-binding transcriptional regulator RstA 1651741 rstA 7129343 rstA Escherichia coli S88 DNA-binding transcriptional regulator RstA YP_002391391.1 1651013 D 585035 CDS YP_002391392.1 218558479 7133821 1651745..1653046 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93086426, 1495392, 1925016, 2646639; Product type r : regulator; sensor protein RstB 1653046 rstB 7133821 rstB Escherichia coli S88 sensor protein RstB YP_002391392.1 1651745 D 585035 CDS YP_002391393.1 218558480 7133822 1653122..1654051 1 NC_011742.1 binds to DNA replication terminator sequences to prevent passage of replication forks; DNA replication terminus site-binding protein 1654051 tus 7133822 tus Escherichia coli S88 DNA replication terminus site-binding protein YP_002391393.1 1653122 D 585035 CDS YP_002391394.1 218558481 7130368 complement(1654048..1655451) 1 NC_011742.1 class II family (does not require metal); tetrameric enzyme; fumarase C; reversibly converts (S)-malate to fumarate and water; functions in the TCA cycle; fumarate hydratase 1655451 fumC 7130368 fumC Escherichia coli S88 fumarate hydratase YP_002391394.1 1654048 R 585035 CDS YP_002391395.1 218558482 7132155 complement(1655594..1657240) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88193096, 88268900, 92011457, 3005475, 6328431, 9298646; Product type e : enzyme; fumarate hydratase (fumarase A), aerobic Class I 1657240 fumA 7132155 fumA Escherichia coli S88 fumarate hydratase (fumarase A), aerobic Class I YP_002391395.1 1655594 R 585035 CDS YP_002391396.1 218558483 7132153 1657439..1658614 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 82100097, 6397402; Product type e : enzyme; mannose-6-phosphate isomerase 1658614 manA 7132153 manA Escherichia coli S88 mannose-6-phosphate isomerase YP_002391396.1 1657439 D 585035 CDS YP_002391397.1 218558484 7129419 1658715..1660223 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1660223 ydgA 7129419 ydgA Escherichia coli S88 hypothetical protein YP_002391397.1 1658715 D 585035 CDS YP_002391398.1 218558485 7129342 complement(1660268..1661533) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15774881; Product type t : transporter; putative outer membrane porin protein 1661533 uidC 7129342 uidC Escherichia coli S88 putative outer membrane porin protein YP_002391398.1 1660268 R 585035 CDS YP_002391399.1 218558486 7130404 complement(1661572..1662945) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3534890; Product type t : transporter; glucuronide transporter 1662945 uidB 7130404 uidB Escherichia coli S88 glucuronide transporter YP_002391399.1 1661572 R 585035 CDS YP_002391400.1 218558487 7130403 complement(1662942..1664753) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87041472, 88038341, 2103475, 8125312; Product type e : enzyme; beta-D-glucuronidase 1664753 uidA 7130403 uidA Escherichia coli S88 beta-D-glucuronidase YP_002391400.1 1662942 R 585035 CDS YP_002391401.1 218558488 7130402 complement(1665143..1665733) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88038341, 2823062, 3934044, 11115104; Product type r : regulator; DNA-binding transcriptional repressor 1665733 uidR 7130402 uidR Escherichia coli S88 DNA-binding transcriptional repressor YP_002391401.1 1665143 R 585035 CDS YP_002391402.1 218558489 7130405 complement(1665962..1666729) 1 NC_011742.1 Acts on the hydroxyl group at position 7 of the steroid frame; 7-alpha-hydroxysteroid dehydrogenase 1666729 hdhA 7130405 hdhA Escherichia coli S88 7-alpha-hydroxysteroid dehydrogenase YP_002391402.1 1665962 R 585035 CDS YP_002391403.1 218558490 7128894 complement(1666841..1667869) 1 NC_011742.1 regulates malXY which are involved in maltose-glucose transport; DNA-binding transcriptional repressor MalI 1667869 malI 7128894 malI Escherichia coli S88 DNA-binding transcriptional repressor MalI YP_002391403.1 1666841 R 585035 CDS YP_002391404.1 218558491 7129409 1668044..1669636 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS); catalyzes the phosphorylation of maltose and glucose concomitant with their translocation across the cell membrane; component IIB catalyzes the phosphorylation of the sugar molecule; IIC forms the translocation channel and contains the substrate specific binding site; bifunctional PTS system maltose and glucose-specific transporter subunits IICB 1669636 malX 7129409 malX Escherichia coli S88 bifunctional PTS system maltose and glucose-specific transporter subunits IICB YP_002391404.1 1668044 D 585035 CDS YP_002391405.1 218558492 7129416 1669646..1670818 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20164451, 7665481, 91310596; Product type e : enzyme; bifunctional beta-cystathionase, PLP-dependent and regulator of maltose regulon 1670818 malY 7129416 malY Escherichia coli S88 bifunctional beta-cystathionase, PLP-dependent and regulator of maltose regulon YP_002391405.1 1669646 D 585035 CDS YP_002391406.1 218558493 7129417 1670922..1671923 1 NC_011742.1 catalyzes the formation of inosine from adenosine; adenosine deaminase 1671923 add 7129417 add Escherichia coli S88 adenosine deaminase YP_002391406.1 1670922 D 585035 CDS YP_002391407.1 218558494 7132051 complement(1671959..1672999) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase 1672999 ydgJ 7132051 ydgJ Escherichia coli S88 putative oxidoreductase YP_002391407.1 1671959 R 585035 CDS YP_002391408.1 218558495 7129348 1673167..1673367 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20392465, 10931331; Product type m : membrane component; beta-lactam resistance membrane protein 1673367 blr 7129348 blr Escherichia coli S88 beta-lactam resistance membrane protein YP_002391408.1 1673167 D 585035 CDS YP_002391409.1 218558496 7129130 1673640..1673855 1 NC_011742.1 YdgT; in E. coli, when complexed with H-NS or StpA binds a 26 base-pair DNA sequence of oriC; seems to play a role in optimizing the activity of oriC; non-essential; Hha protein paralog; in an hha mutant background, cnu is overexpressed and can compensate hha-induced phenotypes; oriC-binding nucleoid-associated protein 1673855 ydgT 7129130 ydgT Escherichia coli S88 oriC-binding nucleoid-associated protein YP_002391409.1 1673640 D 585035 CDS YP_002391410.1 218558497 7129351 1673941..1674381 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1674381 ydgK 7129351 ydgK Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391410.1 1673941 D 585035 CDS YP_002391411.1 218558498 7129349 1674458..1675039 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10411911, 10637328, 12773378; Product type pm : putative membrane component; Na(+)-translocating NADH-quinone reductase subunit E 1675039 rsxA 7129349 rsxA Escherichia coli S88 Na(+)-translocating NADH-quinone reductase subunit E YP_002391411.1 1674458 D 585035 CDS YP_002391412.1 218558499 7133824 1675039..1675617 1 NC_011742.1 part of membrane-bound complex thought to be involved in electron transport to nitrogen; electron transport complex protein RnfB 1675617 rsxB 7133824 rsxB Escherichia coli S88 electron transport complex protein RnfB YP_002391412.1 1675039 D 585035 CDS YP_002391413.1 218558500 7133825 1675610..1677736 1 NC_011742.1 part of membrane-bound complex thought to be involved in electron transport to nitrogen; electron transport complex protein RnfC 1677736 rsxC 7133825 rsxC Escherichia coli S88 electron transport complex protein RnfC YP_002391413.1 1675610 D 585035 CDS YP_002391414.1 218558501 7133826 1677737..1678795 1 NC_011742.1 RnfD; RsxD; required for nitrogen fixation in Rhodobacter capsulatus; part of a membrane-bound complex thought to be involved in electron transport to nitrogenase; in Escherichia coli this gene is part of a cluster controlling SoxR-mediated induction of the SoxS transcription factor in the absence of oxidizing agents; electron transport complex protein RnfD 1678795 rnfD 7133826 rnfD Escherichia coli S88 electron transport complex protein RnfD YP_002391414.1 1677737 D 585035 CDS YP_002391415.1 218558502 7133827 1678799..1679419 1 NC_011742.1 part of membrane-bound complex hought to be involved in electron transport to nitrogen; electron transport complex protein RnfG 1679419 rsxG 7133827 rsxG Escherichia coli S88 electron transport complex protein RnfG YP_002391415.1 1678799 D 585035 CDS YP_002391416.1 218558503 7133829 1679423..1680118 1 NC_011742.1 in Excherichia coli RsxABCDEG reduces SoxR which turns off induction of SoxS transcription factor in the absence of oxidizing agents; similar to the rnfABCDGE operon in Rhodobacter capsulatus involved in transferring electrons to nitrogenase; electron transport complex RsxE subunit 1680118 rsxE 7133829 rsxE Escherichia coli S88 electron transport complex RsxE subunit YP_002391416.1 1679423 D 585035 CDS YP_002391417.1 218558504 7133828 1680118..1680753 1 NC_011742.1 DNA-(apurinic or apyrimidinic site) lyase; has apurinic or apyrimidinic endonuclease activity and DNA N-glycosylase activity; removed damaged DNA at cytosines, thymines and guanines; endonuclease III 1680753 nth 7133828 nth Escherichia coli S88 endonuclease III YP_002391417.1 1680118 D 585035 CDS YP_002391418.1 218558505 7129749 1681364..1682866 1 NC_011742.1 mutations in this gene confer resistance to the toxic peptide alafosfalin in Salmonella typhimurium; member of proton-dependent oligopeptide transport (POT) system family; in Escherichia coli this gene is regulated by OmpR although not via osmoregulation; putative tripeptide transporter permease 1682866 tppB 7129749 tppB Escherichia coli S88 putative tripeptide transporter permease YP_002391418.1 1681364 D 585035 CDS YP_002391419.1 218558506 7129350 1682971..1683576 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95096109, 2185038, 9680481; Product type e : enzyme; glutathionine S-transferase 1683576 gst 7129350 gst Escherichia coli S88 glutathionine S-transferase YP_002391419.1 1682971 D 585035 CDS YP_002391420.1 218558507 7128873 complement(1683620..1684483) 1 NC_011742.1 catalyzes the formation of pyridoxal 5'-phosphate from pyridoxal; pyridoxamine kinase 1684483 pdxY 7128873 pdxY Escherichia coli S88 pyridoxamine kinase YP_002391420.1 1683620 R 585035 CDS YP_002391421.1 218558508 7133186 complement(1684542..1685816) 1 NC_011742.1 catalyzes the formation of tyrosyl-tRNA(Tyr) from tyrosine and tRNA(Tyr); tyrosyl-tRNA synthetase 1685816 tyrS 7133186 tyrS Escherichia coli S88 tyrosyl-tRNA synthetase YP_002391421.1 1684542 R 585035 CDS YP_002391422.1 218558509 7130378 complement(1685945..1686601) 1 NC_011742.1 catalyzes the formation of pyridoxal 5'-phosphate from pyridoxamine 5'-phosphate; pyridoxamine 5'-phosphate oxidase 1686601 pdxH 7130378 pdxH Escherichia coli S88 pyridoxamine 5'-phosphate oxidase YP_002391422.1 1685945 R 585035 CDS YP_002391423.1 218558510 7133183 complement(1686660..1686989) 1 NC_011742.1 MliC; membrane-bound lysozyme inhibitor of c-type lysozyme; lysozyme inhibitor 1686989 ydhA 7133183 ydhA Escherichia coli S88 lysozyme inhibitor YP_002391423.1 1686660 R 585035 CDS YP_002391424.1 218558511 7129352 complement(1687087..1688196) 1 NC_011742.1 catalyzes hydrolysis of 1,6-anhydro bond of anyhydro-N-acetylmuramic acid (anhMurNAc) and phosphorylates anhMurNAc to produce N-acetyl-muramate-6-phosphate; involved in murein recycling; anhydro-N-acetylmuramic acid kinase 1688196 anmK 7129352 anmK Escherichia coli S88 anhydro-N-acetylmuramic acid kinase YP_002391424.1 1687087 R 585035 CDS YP_002391425.1 218558512 7133068 1688470..1688937 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8544813; Product type lp : lipoprotein; putative outer membrane lipoprotein 1688937 slyB 7133068 slyB Escherichia coli S88 putative outer membrane lipoprotein YP_002391425.1 1688470 D 585035 CDS YP_002391426.1 218558513 7130608 complement(1688984..1689418) 1 NC_011742.1 Transcription regulator that can both activate or repress expression; transcriptional regulator SlyA 1689418 slyA 7130608 slyA Escherichia coli S88 transcriptional regulator SlyA YP_002391426.1 1688984 R 585035 CDS YP_002391427.1 218558514 7130607 1689619..1689855 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1689855 ydhI 7130607 ydhI Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391427.1 1689619 D 585035 CDS YP_002391428.1 218558515 7133198 1689858..1690715 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12900028; Product type e : enzyme; undecaprenyl pyrophosphate phosphatase 1690715 ydhJ 7133198 ydhJ Escherichia coli S88 undecaprenyl pyrophosphate phosphatase YP_002391428.1 1689858 D 585035 CDS YP_002391429.1 218558516 7133199 1690715..1692727 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1692727 ydhK 7133199 ydhK Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391429.1 1690715 D 585035 CDS YP_002391430.1 218558517 7133200 complement(1692728..1693249) 1 NC_011742.1 SodC; copper and zinc binding; converts superoxide radicals to hydrogen peroxide and water; superoxide dismutase 1693249 sodC 7133200 sodC Escherichia coli S88 superoxide dismutase YP_002391430.1 1692728 R 585035 CDS YP_002391431.1 218558518 7130618 complement(1693330..1694226) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase 1694226 ydhF 7130618 ydhF Escherichia coli S88 putative oxidoreductase YP_002391431.1 1693330 R 585035 CDS YP_002391432.1 218558519 7133197 complement(1694275..1694685) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1694685 ydhL 7133197 ydhL Escherichia coli S88 hypothetical protein YP_002391432.1 1694275 R 585035 CDS YP_002391433.1 218558520 7133201 1694701..1695216 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1695216 ydhM 7133201 ydhM Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391433.1 1694701 D 585035 CDS YP_002391434.1 218558521 7133202 1695253..1696350 1 NC_011742.1 FMN-linked; catalyzes the formation of N-ethylsuccinimide from N-ethylmaleimide; N-ethylmaleimide reductase 1696350 nemA 7133202 nemA Escherichia coli S88 N-ethylmaleimide reductase YP_002391434.1 1695253 D 585035 CDS YP_002391435.1 218558522 7129693 1696431..1696838 1 NC_011742.1 Ni-dependent; catalyzes the formation of S-lactoylglutathione from methylglyoxal and glutathione; glyoxalase I 1696838 gloA 7129693 gloA Escherichia coli S88 glyoxalase I YP_002391435.1 1696431 D 585035 CDS YP_002391436.1 218558523 7130015 1696941..1697588 1 NC_011742.1 Responsible for the end-turnover of tRNA: specifically removes the terminal AMP residue from uncharged tRNA (tRNA-C-C-A); ribonuclease T 1697588 rnt 7130015 rnt Escherichia coli S88 ribonuclease T YP_002391436.1 1696941 D 585035 CDS YP_002391437.1 218558524 7132754 1697681..1697824 1 NC_011742.1 Evidence 7 : Gene remnant; hypothetical protein, putative fragment of lhr gene 1697824 7132754 ECS88_1702 Escherichia coli S88 hypothetical protein, putative fragment of lhr gene YP_002391437.1 1697681 D 585035 CDS YP_002391438.1 218558525 7128949 complement(1697960..1698307) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15833738, 15840565, 11950925, 12730244; Product type e : enzyme; hypothetical protein 1698307 ydhD 7128949 ydhD Escherichia coli S88 hypothetical protein YP_002391438.1 1697960 R 585035 CDS YP_002391439.1 218558526 7133196 1698642..1699457 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative exported hydrolase 1699457 ydhO 7133196 ydhO Escherichia coli S88 putative exported hydrolase YP_002391439.1 1698642 D 585035 CDS YP_002391440.1 218558527 7133203 1699585..1700166 1 NC_011742.1 SodB; iron binding; present under aerobic and anaerobic conditions; destroys free radicals; superoxide dismutase 1700166 sodB 7133203 sodB Escherichia coli S88 superoxide dismutase YP_002391440.1 1699585 D 585035 CDS YP_002391441.1 218558528 7130617 complement(1700312..1701481) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative efflux protein; MFS family 1701481 ydhP 7130617 ydhP Escherichia coli S88 putative efflux protein; MFS family YP_002391441.1 1700312 R 585035 CDS YP_002391442.1 218558529 7133204 1702035..1703060 1 NC_011742.1 binds to the purF operator and coregulates other genes for de novo purine nucleotide synthesis; is involved in regulation of purB, purC, purEK, purHD, purL, purMN and guaBA expression; binds hypoxanthine and guanine as inducers; DNA-binding transcriptional repressor PurR 1703060 purR 7133204 purR Escherichia coli S88 DNA-binding transcriptional repressor PurR YP_002391442.1 1702035 D 585035 CDS YP_002391443.1 218558530 7131755 complement(1703057..1703989) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2404765; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1703989 ydhB 7131755 ydhB Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391443.1 1703057 R 585035 CDS YP_002391444.1 218558531 7132364 1704102..1705313 1 NC_011742.1 uncharacterized member of the major facilitator superfamily (MFS); inner membrane transport protein YdhC 1705313 ydhC 7132364 ydhC Escherichia coli S88 inner membrane transport protein YdhC YP_002391444.1 1704102 D 585035 CDS YP_002391445.1 218558532 7133195 1705604..1706752 1 NC_011742.1 catalyzes the transfer of a methylene group from S-adenosyl-L-methionine to the cis double bond of an unsaturated fatty acid chain resulting in the replacement of the double bond with a methylene bridge; cyclopropane fatty acyl phospholipid synthase 1706752 cfa 7133195 cfa Escherichia coli S88 cyclopropane fatty acyl phospholipid synthase YP_002391445.1 1705604 D 585035 CDS YP_002391446.1 218558533 7129180 complement(1706792..1707433) 1 NC_011742.1 catalyzes the formation of riboflavin from 6,7-dimethyl-8-(1-D-ribityl)lumazine; riboflavin synthase subunit alpha 1707433 ribC 7129180 ribC Escherichia coli S88 riboflavin synthase subunit alpha YP_002391446.1 1706792 R 585035 CDS YP_002391447.1 218558534 7132716 1707648..1709021 1 NC_011742.1 NorM; MdtK; functions as a Na(+)/drug antiporter; inactivation in Vibrio cholerae results in susceptibility to fluoroquinolones; multidrug efflux protein 1709021 mdtK 7132716 mdtK Escherichia coli S88 multidrug efflux protein YP_002391447.1 1707648 D 585035 CDS YP_002391448.1 218558535 7128799 complement(1709062..1710318) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1710318 ydhQ 7128799 ydhQ Escherichia coli S88 hypothetical protein YP_002391448.1 1709062 R 585035 CDS YP_002391449.1 218558536 7129879 1710892..1711197 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1711197 ydhR 7129879 ydhR Escherichia coli S88 hypothetical protein YP_002391449.1 1710892 D 585035 CDS YP_002391450.1 218558537 7133206 1711323..1712927 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1712927 ydhS 7133206 ydhS Escherichia coli S88 hypothetical protein YP_002391450.1 1711323 D 585035 CDS YP_002391451.1 218558538 7133207 complement(1712939..1713751) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1713751 ydhT 7133207 ydhT Escherichia coli S88 hypothetical protein YP_002391451.1 1712939 R 585035 CDS YP_002391452.1 218558539 7133208 complement(1713755..1714540) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative cytochrome b subunit of a reductase 1714540 ydhU 7133208 ydhU Escherichia coli S88 putative cytochrome b subunit of a reductase YP_002391452.1 1713755 R 585035 CDS YP_002391453.1 218558540 7133209 complement(1714537..1715205) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative 4Fe-4S ferridoxin-type subunit of oxidoreductase 1715205 ydhX 7133209 ydhX Escherichia coli S88 putative 4Fe-4S ferridoxin-type subunit of oxidoreductase YP_002391453.1 1714537 R 585035 CDS YP_002391454.1 218558541 7133212 complement(1715269..1715916) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1715916 ydhW 7133212 ydhW Escherichia coli S88 hypothetical protein YP_002391454.1 1715269 R 585035 CDS YP_002391455.1 218558542 7133211 complement(1715920..1718022) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase 1718022 ydhV 7133211 ydhV Escherichia coli S88 putative oxidoreductase YP_002391455.1 1715920 R 585035 CDS YP_002391456.1 218558543 7133210 complement(1718043..1718669) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; hypothetical protein 1718669 ydhY 7133210 ydhY Escherichia coli S88 hypothetical protein YP_002391456.1 1718043 R 585035 CDS YP_002391457.1 218558544 7133213 complement(1719125..1719334) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1719334 ydhZ 7133213 ydhZ Escherichia coli S88 hypothetical protein YP_002391457.1 1719125 R 585035 CDS YP_002391458.1 218558545 7133214 1719891..1721303 1 NC_011742.1 catalyzes the formation of phosphoenolpyruvate from pyruvate; pyruvate kinase 1721303 pykF 7133214 pykF Escherichia coli S88 pyruvate kinase YP_002391458.1 1719891 D 585035 CDS YP_002391459.1 218558546 7131762 1721614..1721850 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 334727, 338599, 322142, 353292, 391404, 4261992, 4575979, 6765942; Product type lp : lipoprotein; murein lipoprotein 1721850 lpp 7131762 lpp Escherichia coli S88 murein lipoprotein YP_002391459.1 1721614 D 585035 CDS YP_002391460.1 218558547 7129377 complement(1721913..1722917) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1722917 ynhG 7129377 ynhG Escherichia coli S88 hypothetical protein YP_002391460.1 1721913 R 585035 CDS YP_002391461.1 218558548 7133618 complement(1723066..1723482) 1 NC_011742.1 Acts with SufS to catalyze the formation of L-alanine from L-cysteine; cysteine desufuration protein SufE 1723482 sufE 7133618 sufE Escherichia coli S88 cysteine desufuration protein SufE YP_002391461.1 1723066 R 585035 CDS YP_002391462.1 218558549 7131245 complement(1723495..1724715) 1 NC_011742.1 catalyzes the formation of L-alanine and selenide or sulfanylcysteine from selenocysteine or cysteine; bifunctional cysteine desulfurase/selenocysteine lyase 1724715 sufS 7131245 sufS Escherichia coli S88 bifunctional cysteine desulfurase/selenocysteine lyase YP_002391462.1 1723495 R 585035 CDS YP_002391463.1 218558550 7131247 complement(1724712..1725983) 1 NC_011742.1 with SufBC activates cysteine desulfurase SufS; cysteine desulfurase activator complex subunit SufD 1725983 sufD 7131247 sufD Escherichia coli S88 cysteine desulfurase activator complex subunit SufD YP_002391463.1 1724712 R 585035 CDS YP_002391464.1 218558551 7131244 complement(1725958..1726704) 1 NC_011742.1 part of SUF system involved in inserting iron-sulfur clusters into proteins; in Escherichia coli this protein forms a complex with SufBD; the SufBCD complex stimulates the cysteine desulfurase SufS in conjunction with SufE; cysteine desulfurase ATPase component 1726704 sufC 7131244 sufC Escherichia coli S88 cysteine desulfurase ATPase component YP_002391464.1 1725958 R 585035 CDS YP_002391465.1 218558552 7131243 complement(1726714..1728201) 1 NC_011742.1 with SufCD activates cysteine desulfurase SufS; cysteine desulfurase activator complex subunit SufB 1728201 sufB 7131243 sufB Escherichia coli S88 cysteine desulfurase activator complex subunit SufB YP_002391465.1 1726714 R 585035 CDS YP_002391466.1 218558553 7131242 complement(1728210..1728578) 1 NC_011742.1 functions as a scaffold on which iron-sulfur clusters ([2Fe-2S]; [4Fe-4S]) are assembled; forms a homodimer; similar to IscA protein; iron-sulfur cluster assembly scaffold protein 1728578 sufA 7131242 sufA Escherichia coli S88 iron-sulfur cluster assembly scaffold protein YP_002391466.1 1728210 R 585035 CDS YP_002391467.1 218558554 7131331 complement(1729127..1729396) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1729396 ydiH 7131331 ydiH Escherichia coli S88 hypothetical protein YP_002391467.1 1729127 R 585035 CDS YP_002391468.1 218558555 7133220 complement(1729415..1729825) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15808744; Product type pe : putative enzyme; hypothetical protein 1729825 ydiI 7133220 ydiI Escherichia coli S88 hypothetical protein YP_002391468.1 1729415 R 585035 CDS YP_002391469.1 218558556 7133221 complement(1729822..1732878) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11102686; Product type pe : putative enzyme; putative conserved FAD-linked oxidoreductase 1732878 ydiJ 7133221 ydiJ Escherichia coli S88 putative conserved FAD-linked oxidoreductase YP_002391469.1 1729822 R 585035 CDS YP_002391470.1 218558557 7133222 1733092..1734204 1 NC_011742.1 YdiK; inner membrane protein; ydiK promoter presents a PurR sequence, suggesting that its expression is purine-regulated; unknown function; putative inner membrane protein 1734204 ydiK 7133222 ydiK Escherichia coli S88 putative inner membrane protein YP_002391470.1 1733092 D 585035 CDS YP_002391471.1 218558558 7133783 1734633..1734989 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1734989 ydiL 7133783 ydiL Escherichia coli S88 hypothetical protein YP_002391471.1 1734633 D 585035 CDS YP_002391472.1 218558559 7133224 1735089..1736303 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter; MFS superfamily 1736303 ydiM 7133224 ydiM Escherichia coli S88 putative transporter; MFS superfamily YP_002391472.1 1735089 D 585035 CDS YP_002391473.1 218558560 7133225 1736530..1737795 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 1737795 ydiN 7133225 ydiN Escherichia coli S88 putative transporter YP_002391473.1 1736530 D 585035 CDS YP_002391474.1 218558561 7133226 1737807..1738673 1 NC_011742.1 YdiB; quinate/shikimate dehydrogenase from Escherichia coli uses both NAD and NAD(P) to convert quinate and shikimate to 3-dehydroquinate and 3-dehydroshikimate; quinate/shikimate dehydrogenase 1738673 ydiB 7133226 ydiB Escherichia coli S88 quinate/shikimate dehydrogenase YP_002391474.1 1737807 D 585035 CDS YP_002391475.1 218558562 7133216 1738704..1739462 1 NC_011742.1 catalyzes the dehydration of 3-dehydroquinate to form 3-dehydroshikimate in aromatic amino acid biosynthesis; 3-dehydroquinate dehydratase 1739462 aroD 7133216 aroD Escherichia coli S88 3-dehydroquinate dehydratase YP_002391475.1 1738704 D 585035 CDS YP_002391476.1 218558563 7129924 1739608..1741203 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16253988; Product type e : enzyme; short chain acyl-CoA transferase: fused alpha subunit ; beta subunit 1741203 ydiF 7129924 ydiF Escherichia coli S88 short chain acyl-CoA transferase: fused alpha subunit ; beta subunit YP_002391476.1 1739608 D 585035 CDS YP_002391477.1 218558564 7133219 1741217..1742368 1 NC_011742.1 may play a role in electron transport between the anaerobic fatty acid oxidation pathway and the respiratory chain; putative acyl-CoA dehydrogenase 1742368 ydiO 7133219 ydiO Escherichia coli S88 putative acyl-CoA dehydrogenase YP_002391477.1 1741217 D 585035 CDS YP_002391478.1 218558565 7133227 complement(1742411..1743322) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1743322 ydiP 7133227 ydiP Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391478.1 1742411 R 585035 CDS YP_002391479.1 218558566 7133228 complement(1743425..1743601) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1743601 7133228 ECS88_1747 Escherichia coli S88 hypothetical protein YP_002391479.1 1743425 R 585035 CDS YP_002391480.1 218558567 7128950 1743638..1744402 1 NC_011742.1 YdiO, YdiQ, YdiR, YdiS, and YdiT may play a role in electron transport between the anaerobic fatty acid oxidation pathway and the respiratory chain; putative electron transfer flavoprotein YdiQ 1744402 ydiQ 7128950 ydiQ Escherichia coli S88 putative electron transfer flavoprotein YdiQ YP_002391480.1 1743638 D 585035 CDS YP_002391481.1 218558568 7133229 1744422..1745360 1 NC_011742.1 May play a role in a redox process; electron transfer flavoprotein subunit YdiR 1745360 ydiR 7133229 ydiR Escherichia coli S88 electron transfer flavoprotein subunit YdiR YP_002391481.1 1744422 D 585035 CDS YP_002391482.1 218558569 7133230 1745415..1746704 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; hypothetical protein 1746704 ydiS 7133230 ydiS Escherichia coli S88 hypothetical protein YP_002391482.1 1745415 D 585035 CDS YP_002391483.1 218558570 7133231 1746701..1746994 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative 4Fe-4S ferredoxin-type oxidoreductase subunit 1746994 ydiT 7133231 ydiT Escherichia coli S88 putative 4Fe-4S ferredoxin-type oxidoreductase subunit YP_002391483.1 1746701 D 585035 CDS YP_002391484.1 218558571 7133232 1746997..1748697 1 NC_011742.1 acts in anaerobic beta-oxidation of fatty acids; possible ligase/synthase involved in anaerobic growth on fatty acids; short chain acyl-CoA synthetase 1748697 ydiD 7133232 ydiD Escherichia coli S88 short chain acyl-CoA synthetase YP_002391484.1 1746997 D 585035 CDS YP_002391485.1 218558572 7133217 complement(1748754..1751132) 1 NC_011742.1 catalyzes the formation of phosphoenolpyruvate from pyruvate; phosphoenolpyruvate synthase 1751132 pps 7133217 pps Escherichia coli S88 phosphoenolpyruvate synthase YP_002391485.1 1748754 R 585035 CDS YP_002391486.1 218558573 7130766 1751465..1752298 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1752298 ydiA 7130766 ydiA Escherichia coli S88 hypothetical protein YP_002391486.1 1751465 D 585035 CDS YP_002391487.1 218558574 7133215 1752455..1753501 1 NC_011742.1 tryptophan sensitive; catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate; phospho-2-dehydro-3-deoxyheptonate aldolase 1753501 aroH 7133215 aroH Escherichia coli S88 phospho-2-dehydro-3-deoxyheptonate aldolase YP_002391487.1 1752455 D 585035 CDS YP_002391488.1 218558575 7129928 1753633..1753824 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 15039350; hypothetical protein 1753824 ydiE 7129928 ydiE Escherichia coli S88 hypothetical protein YP_002391488.1 1753633 D 585035 CDS YP_002391489.1 218558576 7133218 complement(1753828..1755264) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1755264 ydiU 7133218 ydiU Escherichia coli S88 hypothetical protein YP_002391489.1 1753828 R 585035 CDS YP_002391490.1 218558577 7133233 complement(1755327..1756040) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1756040 ydiV 7133233 ydiV Escherichia coli S88 hypothetical protein YP_002391490.1 1755327 R 585035 CDS YP_002391491.1 218558578 7133234 complement(1756287..1756751) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12620121; Product type lp : lipoprotein; putative peptidase lipoprotein 1756751 nlpC 7133234 nlpC Escherichia coli S88 putative peptidase lipoprotein YP_002391491.1 1756287 R 585035 CDS YP_002391492.1 218558579 7129722 complement(1756829..1757578) 1 NC_011742.1 ATP-binding protein that acts with the transmembrane protein BtuC and the solute binding protein BtuF to transport vitamin B12 into the cell; vitamin B12-transporter ATPase 1757578 btuD 7129722 btuD Escherichia coli S88 vitamin B12-transporter ATPase YP_002391492.1 1756829 R 585035 CDS YP_002391493.1 218558580 7129138 complement(1757578..1758129) 1 NC_011742.1 similar to glutathione peroxidase; member of the btuCED operon which is required for vitamin B12 transport across the inner membrane; putative glutathione peroxidase 1758129 btuE 7129138 btuE Escherichia coli S88 putative glutathione peroxidase YP_002391493.1 1757578 R 585035 CDS YP_002391494.1 218558581 7129139 complement(1758191..1759171) 1 NC_011742.1 with BtuD and BtuF transports vitamin B12 into the cell; vtamin B12-transporter permease 1759171 btuC 7129139 btuC Escherichia coli S88 vtamin B12-transporter permease YP_002391494.1 1758191 R 585035 CDS YP_002391495.1 218558582 7129137 complement(1759272..1759571) 1 NC_011742.1 This protein is one of the two subunits of integration host factor, a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control; integration host factor subunit alpha 1759571 ihfA 7129137 ihfA Escherichia coli S88 integration host factor subunit alpha YP_002391495.1 1759272 R 585035 CDS YP_002391496.1 218558583 7131616 complement(1759576..1761963) 1 NC_011742.1 catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a tetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 2 subfamily; phenylalanyl-tRNA synthetase subunit beta 1761963 pheT 7131616 pheT Escherichia coli S88 phenylalanyl-tRNA synthetase subunit beta YP_002391496.1 1759576 R 585035 CDS YP_002391497.1 218558584 7133706 complement(1761978..1762961) 1 NC_011742.1 catalyzes a two-step reaction, first charging a phenylalanine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; forms a heterotetramer of alpha(2)beta(2); binds two magnesium ions per tetramer; type 1 subfamily; phenylalanyl-tRNA synthetase subunit alpha 1762961 pheS 7133706 pheS Escherichia coli S88 phenylalanyl-tRNA synthetase subunit alpha YP_002391497.1 1761978 R 585035 CDS YP_002391498.1 218558585 7133705 complement(1763245..1763289) 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type l : leader peptide; phenylalanyl-tRNA synthetase operon leader peptide 1763289 pheM 7133705 pheM Escherichia coli S88 phenylalanyl-tRNA synthetase operon leader peptide YP_002391498.1 1763245 R 585035 CDS YP_002391499.1 218558586 7133703 complement(1763412..1763768) 1 NC_011742.1 binds directly to 23S ribosomal RNA prior to in vitro assembly of the 50S ribosomal subunit; 50S ribosomal protein L20 1763768 rplT 7133703 rplT Escherichia coli S88 50S ribosomal protein L20 YP_002391499.1 1763412 R 585035 CDS YP_002391500.1 218558587 7133759 complement(1763821..1764018) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93085722, 10094780, 3298224, 3542048, 6325158; Product type s : structure; 50S ribosomal protein L35 1764018 rpmI 7133759 rpmI Escherichia coli S88 50S ribosomal protein L35 YP_002391500.1 1763821 R 585035 CDS YP_002391501.1 218558588 7131635 complement(1764661..1766589) 1 NC_011742.1 catalyzes the formation of threonyl-tRNA(Thr) from threonine and tRNA(Thr); catalyzes a two-step reaction, first charging a threonine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; threonyl-tRNA synthetase 1766589 thrS 7131635 thrS Escherichia coli S88 threonyl-tRNA synthetase YP_002391501.1 1764661 R 585035 CDS YP_002391502.1 218558589 7128951 1767595..1768035 1 NC_011742.1 hypothetical protein 1768035 7128951 ECS88_1771 Escherichia coli S88 hypothetical protein YP_002391502.1 1767595 D 585035 CDS YP_002391503.1 218558590 7128953 1768202..1768420 1 NC_011742.1 hypothetical protein 1768420 7128953 ECS88_1773 Escherichia coli S88 hypothetical protein YP_002391503.1 1768202 D 585035 CDS YP_002391504.1 218558591 7128954 complement(1768473..1769231) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1769231 ydiY 7128954 ydiY Escherichia coli S88 hypothetical protein YP_002391504.1 1768473 R 585035 CDS YP_002391505.1 218558592 7133235 1769517..1770446 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 78194149, 88292964, 6235149, 6310120; Product type e : enzyme; 6-phosphofructokinase 2 1770446 pfkB 7133235 pfkB Escherichia coli S88 6-phosphofructokinase 2 YP_002391505.1 1769517 D 585035 CDS YP_002391506.1 218558593 7133679 1770547..1770837 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1770837 ydiZ 7133679 ydiZ Escherichia coli S88 hypothetical protein YP_002391506.1 1770547 D 585035 CDS YP_002391507.1 218558594 7133236 1770943..1771803 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotransferase/kinase 1771803 yniA 7133236 yniA Escherichia coli S88 putative phosphotransferase/kinase YP_002391507.1 1770943 D 585035 CDS YP_002391508.1 218558595 7133619 complement(1771844..1772380) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1772380 yniB 7133619 yniB Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391508.1 1771844 R 585035 CDS YP_002391509.1 218558596 7133620 1772527..1773195 1 NC_011742.1 YniC; catalyzes the dephosphorylation of 2-deoxyglucose 6-phosphate, mannose 6-phosphate and p-nitrophenyl phosphate; 2-deoxyglucose-6-phosphatase 1773195 yniC 7133620 yniC Escherichia coli S88 2-deoxyglucose-6-phosphatase YP_002391509.1 1772527 D 585035 CDS YP_002391510.1 218558597 7133621 1773359..1773949 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 10760155; Product type pm : putative membrane component; hypothetical protein 1773949 ydjM 7133621 ydjM Escherichia coli S88 hypothetical protein YP_002391510.1 1773359 D 585035 CDS YP_002391511.1 218558598 7133246 1774082..1775473 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative cation-acid symporter 1775473 ydjN 7133246 ydjN Escherichia coli S88 putative cation-acid symporter YP_002391511.1 1774082 D 585035 CDS YP_002391512.1 218558599 7133247 complement(1775520..1775774) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9427399; Product type cp : cell process; cell division modulator 1775774 cedA 7133247 cedA Escherichia coli S88 cell division modulator YP_002391512.1 1775520 R 585035 CDS YP_002391513.1 218558600 7129179 1775966..1778227 1 NC_011742.1 Catalase HPII; monofunctional catalase that decomposes hydrogen peroxide into water and oxygen; serves to protect cells from the toxic effects of hydrogen peroxide; hydroperoxidase II 1778227 katE 7129179 katE Escherichia coli S88 hydroperoxidase II YP_002391513.1 1775966 D 585035 CDS YP_002391514.1 218558601 7130431 complement(1778273..1779031) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 20042356, 1987146, 2179047, 8121401, 9405618; hypothetical protein 1779031 chbG 7130431 chbG Escherichia coli S88 hypothetical protein YP_002391514.1 1778273 R 585035 CDS YP_002391515.1 218558602 7129188 complement(1779044..1780396) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20042356, 90185127, 9405618; Product type e : enzyme; cryptic phospho-beta-glucosidase, NAD(P)-binding 1780396 chbF 7129188 chbF Escherichia coli S88 cryptic phospho-beta-glucosidase, NAD(P)-binding YP_002391515.1 1779044 R 585035 CDS YP_002391516.1 218558603 7129187 complement(1780500..1781342) 1 NC_011742.1 represses the celABCDF-ydjC operon involved in carbon uptake; DNA-binding transcriptional regulator ChbR 1781342 chbR 7129187 chbR Escherichia coli S88 DNA-binding transcriptional regulator ChbR YP_002391516.1 1780500 R 585035 CDS YP_002391517.1 218558604 7129189 complement(1781350..1781700) 1 NC_011742.1 catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; involved N,N'-diacetylchitobiose transport; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA 1781700 chbA 7129189 chbA Escherichia coli S88 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIA YP_002391517.1 1781350 R 585035 CDS YP_002391518.1 218558605 7129184 complement(1781751..1783109) 1 NC_011742.1 catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; involved in N,N'-diacetylchitobiose transport; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC 1783109 chbC 7129184 chbC Escherichia coli S88 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIC YP_002391518.1 1781751 R 585035 CDS YP_002391519.1 218558606 7129186 complement(1783194..1783514) 1 NC_011742.1 catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; involved in N,N'-diacetylchitobiose transport; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system N,N'-diacetylchitobiose-specific transporter subunit IIB 1783514 chbB 7129186 chbB Escherichia coli S88 PTS system N,N'-diacetylchitobiose-specific transporter subunit IIB YP_002391519.1 1783194 R 585035 CDS YP_002391520.1 218558607 7129185 complement(1783813..1784151) 1 NC_011742.1 osmotically-inducible lipoprotein E; activator of ntr-like gene protein; DNA-binding transcriptional activator OsmE 1784151 osmE 7129185 osmE Escherichia coli S88 DNA-binding transcriptional activator OsmE YP_002391520.1 1783813 R 585035 CDS YP_002391521.1 218558608 7133145 1784353..1785180 1 NC_011742.1 catalyzes the formation of nicotinamide adenine dinucleotide (NAD) from nicotinic acid adenine dinucleotide (NAAD) using either ammonia or glutamine as the amide donor and ATP; ammonia-utilizing enzymes include the ones from Bacillus and Escherichia coli while glutamine-utilizing enzymes include the Mycobacterial one; forms homodimers; NAD synthetase 1785180 nadE 7133145 nadE Escherichia coli S88 NAD synthetase YP_002391521.1 1784353 D 585035 CDS YP_002391522.1 218558609 7129654 1785410..1786297 1 NC_011742.1 3' incision activity; acts with UvrC; nucleotide excision repair endonuclease 1786297 ydjQ 7129654 ydjQ Escherichia coli S88 nucleotide excision repair endonuclease YP_002391522.1 1785410 D 585035 CDS YP_002391523.1 218558610 7133248 complement(1786257..1786832) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 21862596; hypothetical protein 1786832 ydjR 7133248 ydjR Escherichia coli S88 hypothetical protein YP_002391523.1 1786257 R 585035 CDS YP_002391524.1 218558611 7133249 complement(1787035..1787520) 1 NC_011742.1 periplasmic protein induced by stress response via Cpx and BaeSR system; similar to CpxP; periplasmic protein 1787520 spy 7133249 spy Escherichia coli S88 periplasmic protein YP_002391524.1 1787035 R 585035 CDS YP_002391525.1 218558612 7130636 complement(1787850..1788818) 1 NC_011742.1 catalyzes the formation of succinate and glutamate from N(2)-succinylglutamate in arginine catabolism; succinylglutamate desuccinylase 1788818 astE 7130636 astE Escherichia coli S88 succinylglutamate desuccinylase YP_002391525.1 1787850 R 585035 CDS YP_002391526.1 218558613 7129959 complement(1788811..1790154) 1 NC_011742.1 catalyzes the hydrolysis of 2-N-succinylarginine into 2-N-succinylornithine, ammonia and carbon dioxide in arginine degradation; succinylarginine dihydrolase 1790154 astB 7129959 astB Escherichia coli S88 succinylarginine dihydrolase YP_002391526.1 1788811 R 585035 CDS YP_002391527.1 218558614 7129956 complement(1790151..1791629) 1 NC_011742.1 a high throughput screen identified this enzyme as an aldehyde dehydrogenase with broad substrate specificity; converts succinylglutamate semialdehyde and NAD to succinylglutamate and NADH; succinylglutamic semialdehyde dehydrogenase 1791629 astD 7129956 astD Escherichia coli S88 succinylglutamic semialdehyde dehydrogenase YP_002391527.1 1790151 R 585035 CDS YP_002391528.1 218558615 7129958 complement(1791626..1792660) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14675764, 98361920; Product type e : enzyme; arginine succinyltransferase 1792660 astA 7129958 astA Escherichia coli S88 arginine succinyltransferase YP_002391528.1 1791626 R 585035 CDS YP_002391529.1 218558616 7129955 complement(1792657..1793877) 1 NC_011742.1 catalyzes the transamination of 2-N-succinylornithine and alpha-ketoglutarate into 2-N-succinylglutamate semialdehyde and glutamate; also functions as the catabolic acetylornithine aminotransferase catalyzing the formation of 2-N-acetylglutamate semialdehyde and glutamate from 2-N-acetylornithine and alpha-ketoglutarate; bifunctional succinylornithine transaminase/acetylornithine transaminase 1793877 astC 7129955 astC Escherichia coli S88 bifunctional succinylornithine transaminase/acetylornithine transaminase YP_002391529.1 1792657 R 585035 CDS YP_002391530.1 218558617 7129957 1794323..1795129 1 NC_011742.1 removes the damaged DNA at cytosines and guanines by cleaving on the 3' side of the AP site by a beta-elimination reaction; exonuclease III 1795129 xthA 7129957 xthA Escherichia coli S88 exonuclease III YP_002391530.1 1794323 D 585035 CDS YP_002391531.1 218558618 7132524 1795296..1796006 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1796006 ydjX 7132524 ydjX Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391531.1 1795296 D 585035 CDS YP_002391532.1 218558619 7133250 1796011..1796688 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1796688 ydjY 7133250 ydjY Escherichia coli S88 hypothetical protein YP_002391532.1 1796011 D 585035 CDS YP_002391533.1 218558620 7133251 1796702..1797409 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1797409 ydjZ 7133251 ydjZ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391533.1 1796702 D 585035 CDS YP_002391534.1 218558621 7133252 1797409..1797957 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1797957 ynjA 7133252 ynjA Escherichia coli S88 hypothetical protein YP_002391534.1 1797409 D 585035 CDS YP_002391535.1 218558622 7133622 1797967..1799133 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; putative ABC transporter solute-binding protein 1799133 ynjB 7133622 ynjB Escherichia coli S88 putative ABC transporter solute-binding protein YP_002391535.1 1797967 D 585035 CDS YP_002391536.1 218558623 7133623 1799151..1800641 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; fused putative transporter subunits of ABC superfamily: membrane components 1800641 ynjC 7133623 ynjC Escherichia coli S88 fused putative transporter subunits of ABC superfamily: membrane components YP_002391536.1 1799151 D 585035 CDS YP_002391537.1 218558624 7133624 1800641..1801294 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sulfate/thiosulfate transporter subunit: ATP-binding component of ABC superfamily transporter 1801294 ynjD 7133624 ynjD Escherichia coli S88 putative sulfate/thiosulfate transporter subunit: ATP-binding component of ABC superfamily transporter YP_002391537.1 1800641 D 585035 CDS YP_002391538.1 218558625 7133625 1801361..1802668 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative exported thiosulfate sulfur transferase / thiosulfate binding protein 1802668 ynjE 7133625 ynjE Escherichia coli S88 putative exported thiosulfate sulfur transferase / thiosulfate binding protein YP_002391538.1 1801361 D 585035 CDS YP_002391539.1 218558626 7133626 complement(1802677..1803297) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type m : membrane component; putative phosphatidyl transferase, inner membrane protein 1803297 ynjF 7133626 ynjF Escherichia coli S88 putative phosphatidyl transferase, inner membrane protein YP_002391539.1 1802677 R 585035 CDS YP_002391540.1 218558627 7133627 1803384..1803791 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21101911; Product type e : enzyme; pyrimidine (deoxy)nucleoside triphosphate pyrophosphohydrolase 1803791 nudG 7133627 nudG Escherichia coli S88 pyrimidine (deoxy)nucleoside triphosphate pyrophosphohydrolase YP_002391540.1 1803384 D 585035 CDS YP_002391541.1 218558628 7129755 1804265..1805608 1 NC_011742.1 converts 2-oxoglutarate to glutamate; in Escherichia coli this enzyme plays a role in glutamate synthesis when the cell is under energy restriction; uses NADPH; forms a homohexamer; glutamate dehydrogenase 1805608 gdhA 7129755 gdhA Escherichia coli S88 glutamate dehydrogenase YP_002391541.1 1804265 D 585035 CDS YP_002391542.1 218558629 7132202 complement(1805685..1807640) 1 NC_011742.1 decatenates replicating daughter chromosomes; DNA topoisomerase III 1807640 topB 7132202 topB Escherichia coli S88 DNA topoisomerase III YP_002391542.1 1805685 R 585035 CDS YP_002391543.1 218558630 7133491 complement(1807645..1808688) 1 NC_011742.1 catalyzes the formation of selenophosphate from selenide and ATP; selenophosphate synthetase 1808688 selD 7133491 selD Escherichia coli S88 selenophosphate synthetase YP_002391543.1 1807645 R 585035 CDS YP_002391544.1 218558631 7131388 complement(1808630..1808779) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1808779 7131388 ECS88_1815 Escherichia coli S88 hypothetical protein YP_002391544.1 1808630 R 585035 CDS YP_002391545.1 218558632 7128955 complement(1808805..1809356) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 1809356 ydjA 7128955 ydjA Escherichia coli S88 hypothetical protein YP_002391545.1 1808805 R 585035 CDS YP_002391546.1 218558633 7133237 1809410..1809574 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1809574 7133237 ECS88_1817 Escherichia coli S88 hypothetical protein YP_002391546.1 1809410 D 585035 CDS YP_002391547.1 218558634 7128956 1809517..1811373 1 NC_011742.1 SppA; catalyzes the degradation of cleaved signal peptides; essential to maintain secretion of mature proteins across the membrane; protease 4 1811373 sppA 7128956 sppA Escherichia coli S88 protease 4 YP_002391547.1 1809517 D 585035 CDS YP_002391548.1 218558635 7130633 1811540..1812556 1 NC_011742.1 converts asparagine to aspartate and ammonia; cytoplasmic asparaginase I 1812556 ansA 7130633 ansA Escherichia coli S88 cytoplasmic asparaginase I YP_002391548.1 1811540 D 585035 CDS YP_002391549.1 218558636 7133069 1812567..1813208 1 NC_011742.1 catalyzes the formation of nicotinate from nicotinamide in NAD biosynthesis and the formation of pyrazinoate from pyrazinamide; nicotinamidase/pyrazinamidase 1813208 pncA 7133069 pncA Escherichia coli S88 nicotinamidase/pyrazinamidase YP_002391549.1 1812567 D 585035 CDS YP_002391550.1 218558637 7133746 complement(1813301..1814659) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter; MFS superfamily 1814659 ydjE 7133746 ydjE Escherichia coli S88 putative transporter; MFS superfamily YP_002391550.1 1813301 R 585035 CDS YP_002391551.1 218558638 7133238 complement(1814777..1815535) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1815535 ydjF 7133238 ydjF Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391551.1 1814777 R 585035 CDS YP_002391552.1 218558639 7133239 complement(1815672..1816652) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase 1816652 ydjG 7133239 ydjG Escherichia coli S88 putative oxidoreductase YP_002391552.1 1815672 R 585035 CDS YP_002391553.1 218558640 7133240 complement(1816662..1817609) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative sugar kinase 1817609 ydjH 7133240 ydjH Escherichia coli S88 putative sugar kinase YP_002391553.1 1816662 R 585035 CDS YP_002391554.1 218558641 7133241 complement(1817614..1818450) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative aldolase 1818450 ydjI 7133241 ydjI Escherichia coli S88 putative aldolase YP_002391554.1 1817614 R 585035 CDS YP_002391555.1 218558642 7133242 complement(1818471..1819514) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12897001; Product type pe : putative enzyme; putative iditol dehydrogenase 1819514 ydjJ 7133242 ydjJ Escherichia coli S88 putative iditol dehydrogenase YP_002391555.1 1818471 R 585035 CDS YP_002391556.1 218558643 7133243 complement(1819531..1820910) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter; MFS superfamily 1820910 ydjK 7133243 ydjK Escherichia coli S88 putative transporter; MFS superfamily YP_002391556.1 1819531 R 585035 CDS YP_002391557.1 218558644 7133244 complement(1820937..1822013) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase, Zn-dependent and NAD(P)-binding 1822013 ydjL 7133244 ydjL Escherichia coli S88 putative oxidoreductase, Zn-dependent and NAD(P)-binding YP_002391557.1 1820937 R 585035 CDS YP_002391558.1 218558645 7133245 complement(1822383..1822655) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1822655 yeaC 7133245 yeaC Escherichia coli S88 hypothetical protein YP_002391558.1 1822383 R 585035 CDS YP_002391559.1 218558646 7133254 complement(1822697..1823110) 1 NC_011742.1 this stereospecific enzymes reduces the R isomer of methionine sulfoxide while MsrA reduces the S form; provides protection against oxidative stress; methionine sulfoxide reductase B 1823110 msrB 7133254 msrB Escherichia coli S88 methionine sulfoxide reductase B YP_002391559.1 1822697 R 585035 CDS YP_002391560.1 218558647 7129617 1823452..1824447 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 775311, 94131963, 98361923, 1862091, 2124629, 2990926, 7896119, 8636984, 9298646; Product type e : enzyme; glyceraldehyde-3-phosphate dehydrogenase A 1824447 gapA 7129617 gapA Escherichia coli S88 glyceraldehyde-3-phosphate dehydrogenase A YP_002391560.1 1823452 D 585035 CDS YP_002391561.1 218558648 7132179 1824531..1825415 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1825415 yeaD 7132179 yeaD Escherichia coli S88 hypothetical protein YP_002391561.1 1824531 D 585035 CDS YP_002391562.1 218558649 7133255 complement(1825466..1826320) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase 1826320 yeaE 7133255 yeaE Escherichia coli S88 putative oxidoreductase YP_002391562.1 1825466 R 585035 CDS YP_002391563.1 218558650 7133256 complement(1826410..1827156) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10037771, 20267815; Product type f : factor; scaffolding protein for murein synthesizing machinery 1827156 mipA 7133256 mipA Escherichia coli S88 scaffolding protein for murein synthesizing machinery YP_002391563.1 1826410 R 585035 CDS YP_002391564.1 218558651 7128840 1827592..1829526 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain 1829526 yeaG 7128840 yeaG Escherichia coli S88 conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain YP_002391564.1 1827592 D 585035 CDS YP_002391565.1 218558652 7133257 1829639..1830922 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1830922 yeaH 7133257 yeaH Escherichia coli S88 hypothetical protein YP_002391565.1 1829639 D 585035 CDS YP_002391566.1 218558653 7133258 1831069..1832544 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative diguanylate cyclase 1832544 yeaI 7133258 yeaI Escherichia coli S88 putative diguanylate cyclase YP_002391566.1 1831069 D 585035 CDS YP_002391567.1 218558654 7133261 1834258..1834761 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1834761 yeaK 7133261 yeaK Escherichia coli S88 hypothetical protein YP_002391567.1 1834258 D 585035 CDS YP_002391568.1 218558655 7133262 complement(1834762..1834914) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1834914 7133262 ECS88_1842 Escherichia coli S88 hypothetical protein YP_002391568.1 1834762 R 585035 CDS YP_002391569.1 218558656 7128957 1835036..1835482 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1835482 yeaL 7128957 yeaL Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391569.1 1835036 D 585035 CDS YP_002391570.1 218558657 7133263 complement(1835439..1836260) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 1836260 yeaM 7133263 yeaM Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391570.1 1835439 R 585035 CDS YP_002391571.1 218558658 7133264 1836357..1837538 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter; MFS superfamily 1837538 yeaN 7133264 yeaN Escherichia coli S88 putative transporter; MFS superfamily YP_002391571.1 1836357 D 585035 CDS YP_002391572.1 218558659 7133265 1837593..1837940 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1837940 yeaO 7133265 yeaO Escherichia coli S88 hypothetical protein YP_002391572.1 1837593 D 585035 CDS YP_002391573.1 218558660 7133266 complement(1837962..1838216) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative outer membrane protein 1838216 yoaF 7133266 yoaF Escherichia coli S88 conserved hypothetical protein; putative outer membrane protein YP_002391573.1 1837962 R 585035 CDS YP_002391574.1 218558661 7133632 1838399..1839424 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative diguanylate cyclase 1839424 yeaP 7133632 yeaP Escherichia coli S88 putative diguanylate cyclase YP_002391574.1 1838399 D 585035 CDS YP_002391575.1 218558662 7133267 complement(1839691..1839939) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1839939 yeaQ 7133267 yeaQ Escherichia coli S88 hypothetical protein YP_002391575.1 1839691 R 585035 CDS YP_002391576.1 218558663 7133268 complement(1840087..1840269) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1840269 yoaG 7133268 yoaG Escherichia coli S88 hypothetical protein YP_002391576.1 1840087 R 585035 CDS YP_002391577.1 218558664 7133633 complement(1840273..1840632) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1840632 yeaR 7133633 yeaR Escherichia coli S88 hypothetical protein YP_002391577.1 1840273 R 585035 CDS YP_002391578.1 218558665 7133269 complement(1840805..1841443) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; leucine export protein LeuE 1841443 yeaS 7133269 yeaS Escherichia coli S88 leucine export protein LeuE YP_002391578.1 1840805 R 585035 CDS YP_002391579.1 218558666 7133271 complement(1841986..1843113) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88289400, 89053950, 93015723, 8107670; Product type e : enzyme; ribonuclease D 1843113 rnd 7133271 rnd Escherichia coli S88 ribonuclease D YP_002391579.1 1841986 R 585035 CDS YP_002391580.1 218558667 7132745 complement(1843183..1844868) 1 NC_011742.1 Activates fatty acids by binding to coenzyme A; long-chain-fatty-acid--CoA ligase 1844868 fadD 7132745 fadD Escherichia coli S88 long-chain-fatty-acid--CoA ligase YP_002391580.1 1843183 R 585035 CDS YP_002391581.1 218558668 7129442 complement(1845073..1845654) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16079137; Product type lp : lipoprotein; putative outer membrane-associated lipoprotein 1845654 yeaY 7129442 yeaY Escherichia coli S88 putative outer membrane-associated lipoprotein YP_002391581.1 1845073 R 585035 CDS YP_002391582.1 218558669 7133272 complement(1845694..1846389) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative peptidase 1846389 yeaZ 7133272 yeaZ Escherichia coli S88 putative peptidase YP_002391582.1 1845694 R 585035 CDS YP_002391583.1 218558670 7133273 complement(1846447..1848357) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative ATP-dependent helicase 1848357 yoaA 7133273 yoaA Escherichia coli S88 putative ATP-dependent helicase YP_002391583.1 1846447 R 585035 CDS YP_002391584.1 218558671 7133628 1848489..1848833 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1848833 yoaB 7133628 yoaB Escherichia coli S88 hypothetical protein YP_002391584.1 1848489 D 585035 CDS YP_002391585.1 218558672 7133629 1849195..1849554 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1849554 yoaC 7133629 yoaC Escherichia coli S88 hypothetical protein YP_002391585.1 1849195 D 585035 CDS YP_002391586.1 218558673 7133630 complement(1849674..1849853) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1849853 yoaH 7133630 yoaH Escherichia coli S88 hypothetical protein YP_002391586.1 1849674 R 585035 CDS YP_002391587.1 218558674 7133634 1849927..1851288 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88025006, 91067712, 91302313, 96011382, 6330050, 7896119; Product type e : enzyme; aminodeoxychorismate synthase, subunit I 1851288 pabB 7133634 pabB Escherichia coli S88 aminodeoxychorismate synthase, subunit I YP_002391587.1 1849927 D 585035 CDS YP_002391588.1 218558675 7133154 1851292..1851870 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7567469; Product type pe : putative enzyme; hypothetical protein 1851870 yeaB 7133154 yeaB Escherichia coli S88 hypothetical protein YP_002391588.1 1851292 D 585035 CDS YP_002391589.1 218558676 7133253 1852054..1853418 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15155761, 89359152, 91056090, 93170282; Product type e : enzyme; L-serine deaminase I 1853418 sdaA 7133253 sdaA Escherichia coli S88 L-serine deaminase I YP_002391589.1 1852054 D 585035 CDS YP_002391590.1 218558677 7131370 1853549..1855147 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16513732; Product type pe : putative enzyme; putative cyclic di-GMP phosphodiesterase 1855147 adrB 7131370 adrB Escherichia coli S88 putative cyclic di-GMP phosphodiesterase YP_002391590.1 1853549 D 585035 CDS YP_002391591.1 218558678 7132059 complement(1855151..1856707) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative membrane protein fused with conserved domain 1856707 yoaE 7132059 yoaE Escherichia coli S88 putative membrane protein fused with conserved domain YP_002391591.1 1855151 R 585035 CDS YP_002391592.1 218558679 7133631 1857170..1858141 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87165962, 90036983, 8131846, 8676384, 9074635, 9298646; Product type t : transporter; fused mannose-specific PTS enzymes: IIA component ; IIB component 1858141 manX 7133631 manX Escherichia coli S88 fused mannose-specific PTS enzymes: IIA component ; IIB component YP_002391592.1 1857170 D 585035 CDS YP_002391593.1 218558680 7129420 1858204..1859004 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10473571, 87165962, 90036983, 94086520, 97128775, 7811395, 8774730; Product type t : transporter; mannose-specific enzyme IIC component of PTS 1859004 manY 7129420 manY Escherichia coli S88 mannose-specific enzyme IIC component of PTS YP_002391593.1 1858204 D 585035 CDS YP_002391594.1 218558681 7129421 1859008..1859868 1 NC_011742.1 hosphoenolpyruvate-dependent sugar phosphotransferase system catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IID with IIC forms the translocation channel; PTS system mannose-specific transporter subunit IID 1859868 manZ 7129421 manZ Escherichia coli S88 PTS system mannose-specific transporter subunit IID YP_002391594.1 1859008 D 585035 CDS YP_002391595.1 218558682 7129422 1859923..1860381 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1860381 yobD 7129422 yobD Escherichia coli S88 hypothetical protein YP_002391595.1 1859923 D 585035 CDS YP_002391596.1 218558683 7129858 1860810..1861376 1 NC_011742.1 membrane protein YebN; hypothetical protein 1861376 yebN 7129858 yebN Escherichia coli S88 hypothetical protein YP_002391596.1 1860810 D 585035 CDS YP_002391597.1 218558684 7131824 complement(1861373..1862182) 1 NC_011742.1 methylates the guanosine in position 745 of 23S rRNA; required for translation and cell growth; 23S rRNA methyltransferase A 1862182 rrmA 7131824 rrmA Escherichia coli S88 23S rRNA methyltransferase A YP_002391597.1 1861373 R 585035 CDS YP_002391598.1 218558685 7133806 complement(1862348..1862557) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20345064, 21101802, 94293754, 12071744, 7984109, 8022261, 9298646, 9868784, 9921691; Product type f : factor; cold shock-like protein CspC 1862557 cspC 7133806 cspC Escherichia coli S88 cold shock-like protein CspC YP_002391598.1 1862348 R 585035 CDS YP_002391599.1 218558686 7130495 complement(1862570..1862713) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1862713 yobF 7130495 yobF Escherichia coli S88 hypothetical protein YP_002391599.1 1862570 R 585035 CDS YP_002391600.1 218558687 7133638 complement(1863384..1863671) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1863671 yebO 7133638 yebO Escherichia coli S88 hypothetical protein YP_002391600.1 1863384 R 585035 CDS YP_002391601.1 218558688 7131825 complement(1863746..1863889) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1863889 yobG 7131825 yobG Escherichia coli S88 hypothetical protein YP_002391601.1 1863746 R 585035 CDS YP_002391602.1 218558689 7133639 1864048..1864287 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1864287 yobH 7133639 yobH Escherichia coli S88 hypothetical protein YP_002391602.1 1864048 D 585035 CDS YP_002391603.1 218558690 7133640 complement(1864431..1865222) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15659677, 4359651; Product type r : regulator; DNA-binding transcriptional repressor KdgR 1865222 kdgR 7133640 kdgR Escherichia coli S88 DNA-binding transcriptional repressor KdgR YP_002391603.1 1864431 R 585035 CDS YP_002391604.1 218558691 7130438 1865399..1866772 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter; MFS superfamily 1866772 yebQ 7130438 yebQ Escherichia coli S88 putative transporter; MFS superfamily YP_002391604.1 1865399 D 585035 CDS YP_002391605.1 218558692 7131826 complement(1866818..1867699) 1 NC_011742.1 putative metalloprotease; heat shock protein HtpX 1867699 htpX 7131826 htpX Escherichia coli S88 heat shock protein HtpX YP_002391605.1 1866818 R 585035 CDS YP_002391606.1 218558693 7131400 complement(1867891..1869939) 1 NC_011742.1 Involved in the cleavage of a C-terminal peptide of 11 residues from the precursor form of penicillin-binding protein 3; carboxy-terminal protease 1869939 prc 7131400 prc Escherichia coli S88 carboxy-terminal protease YP_002391606.1 1867891 R 585035 CDS YP_002391607.1 218558694 7130771 complement(1869959..1870657) 1 NC_011742.1 affects solute and DNA transport through an unknown mechanism; putative solute/DNA competence effector 1870657 proQ 7130771 proQ Escherichia coli S88 putative solute/DNA competence effector YP_002391607.1 1869959 R 585035 CDS YP_002391608.1 218558695 7130788 complement(1870754..1871305) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1871305 yebR 7130788 yebR Escherichia coli S88 hypothetical protein YP_002391608.1 1870754 R 585035 CDS YP_002391609.1 218558696 7131827 1871381..1872664 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1872664 yebS 7131827 yebS Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391609.1 1871381 D 585035 CDS YP_002391610.1 218558697 7131828 1872633..1875266 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1875266 yebT 7131828 yebT Escherichia coli S88 hypothetical protein YP_002391610.1 1872633 D 585035 CDS YP_002391611.1 218558698 7131829 1875346..1876785 1 NC_011742.1 in Escherichia coli this enzyme specifically methylates C1407 of the 16S rRNA; rRNA (cytosine-C(5)-)-methyltransferase RsmF 1876785 yebU 7131829 yebU Escherichia coli S88 rRNA (cytosine-C(5)-)-methyltransferase RsmF YP_002391611.1 1875346 D 585035 CDS YP_002391612.1 218558699 7131830 1876903..1877139 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1877139 yebV 7131830 yebV Escherichia coli S88 hypothetical protein YP_002391612.1 1876903 D 585035 CDS YP_002391613.1 218558700 7131831 1877160..1877435 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1877435 yebW 7131831 yebW Escherichia coli S88 hypothetical protein YP_002391613.1 1877160 D 585035 CDS YP_002391614.1 218558701 7131832 complement(1877436..1878092) 1 NC_011742.1 Plays a key role in signaling protein misfolding via the cpxR/cpxA transducing system; modulates the phosphorylated status of many phosphoproteins; serine/threonine protein phosphatase 1 1878092 pphA 7131832 pphA Escherichia coli S88 serine/threonine protein phosphatase 1 YP_002391614.1 1877436 R 585035 CDS YP_002391615.1 218558702 7131334 complement(1878317..1878469) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1878469 7131334 ECS88_1892 Escherichia coli S88 hypothetical protein YP_002391615.1 1878317 R 585035 CDS YP_002391616.1 218558703 7128959 complement(1878487..1878828) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1878828 yebY 7128959 yebY Escherichia coli S88 hypothetical protein YP_002391616.1 1878487 R 585035 CDS YP_002391617.1 218558704 7131833 complement(1878841..1879713) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1879713 yebZ 7131833 yebZ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391617.1 1878841 R 585035 CDS YP_002391618.1 218558705 7131834 complement(1879717..1880091) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1880091 yobA 7131834 yobA Escherichia coli S88 hypothetical protein YP_002391618.1 1879717 R 585035 CDS YP_002391619.1 218558706 7133635 1880230..1880460 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15090519, 92147649, 92156151, 94131961, 1575709, 8341603, 8505306; Product type e : enzyme; DNA polymerase III subunit theta 1880460 holE 7133635 holE Escherichia coli S88 DNA polymerase III subunit theta YP_002391619.1 1880230 D 585035 CDS YP_002391620.1 218558707 7128945 1880562..1881218 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1881218 yobB 7128945 yobB Escherichia coli S88 hypothetical protein YP_002391620.1 1880562 D 585035 CDS YP_002391621.1 218558708 7133636 1881241..1881903 1 NC_011742.1 3'-5' exonuclease activity on single or double-strand DNA; exodeoxyribonuclease X 1881903 exoX 7133636 exoX Escherichia coli S88 exodeoxyribonuclease X YP_002391621.1 1881241 D 585035 CDS YP_002391622.1 218558709 7132439 complement(1881900..1883960) 1 NC_011742.1 PtrB; oligopeptidase that cleaves peptide bonds following arginine and lysine residues; protease 2 1883960 ptrB 7132439 ptrB Escherichia coli S88 protease 2 YP_002391622.1 1881900 R 585035 CDS YP_002391623.1 218558710 7130817 complement(1884169..1884828) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative inner membrane protein 1884828 yebE 7130817 yebE Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391623.1 1884169 R 585035 CDS YP_002391624.1 218558711 7131820 complement(1885155..1885523) 1 NC_011742.1 secreted protein; unknown function; hypothetical protein 1885523 yebF 7131820 yebF Escherichia coli S88 hypothetical protein YP_002391624.1 1885155 R 585035 CDS YP_002391625.1 218558712 7131821 complement(1885578..1885868) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 9368369, 99403401; Product type cp : cell process; DNA damage-inducible protein YebG 1885868 yebG 7131821 yebG Escherichia coli S88 DNA damage-inducible protein YebG YP_002391625.1 1885578 R 585035 CDS YP_002391626.1 218558713 7131822 1886002..1887180 1 NC_011742.1 non-folate utilizing enzyme, catalyzes the production of beta-formyl glycinamide ribonucleotide from formate, ATP, and beta-GAR and a side reaction producing acetyl phosphate and ADP from acetate and ATP; involved in de novo purine biosynthesis; phosphoribosylglycinamide formyltransferase 2 1887180 purT 7131822 purT Escherichia coli S88 phosphoribosylglycinamide formyltransferase 2 YP_002391626.1 1886002 D 585035 CDS YP_002391627.1 218558714 7131756 complement(1887236..1887877) 1 NC_011742.1 catalyzes the formation of pyruvate and glyoxylate from 4-hydroxy-2-oxoglutarate; or pyruvate and D-glyceraldehyde 3-phosphate from 2-dehydro-3-deoxy-D-glyconate 6-phosphate; keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase 1887877 eda 7131756 eda Escherichia coli S88 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase YP_002391627.1 1887236 R 585035 CDS YP_002391628.1 218558715 7132381 complement(1887914..1889725) 1 NC_011742.1 catalyzes the formation of 2-dehydro-3-deoxy-6-phospho-D-gluconate from 6-phospho-D-gluconate; phosphogluconate dehydratase 1889725 edd 7132381 edd Escherichia coli S88 phosphogluconate dehydratase YP_002391628.1 1887914 R 585035 CDS YP_002391629.1 218558716 7132382 1889688..1889846 1 NC_011742.1 hypothetical protein 1889846 7132382 ECS88_1908 Escherichia coli S88 hypothetical protein YP_002391629.1 1889688 D 585035 CDS YP_002391630.1 218558717 7128960 complement(1889960..1891435) 1 NC_011742.1 catalyzes the formation of D-glucono-1,5-lactone 6-phosphate from D-glucose 6-phosphate; glucose-6-phosphate 1-dehydrogenase 1891435 zwf 7128960 zwf Escherichia coli S88 glucose-6-phosphate 1-dehydrogenase YP_002391630.1 1889960 R 585035 CDS YP_002391631.1 218558718 7131896 1891773..1892642 1 NC_011742.1 Represses the expression of the zwf, eda, glp and gap; DNA-binding transcriptional regulator HexR 1892642 yebK 7131896 yebK Escherichia coli S88 DNA-binding transcriptional regulator HexR YP_002391631.1 1891773 D 585035 CDS YP_002391632.1 218558719 7131823 1892770..1894212 1 NC_011742.1 catalyzes the formation of phosphoenolpyruvate from pyruvate; pyruvate kinase 1894212 pykA 7131823 pykA Escherichia coli S88 pyruvate kinase YP_002391632.1 1892770 D 585035 CDS YP_002391633.1 218558720 7131761 complement(1894344..1895315) 1 NC_011742.1 Transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA; lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 1895315 lpxM 7131761 lpxM Escherichia coli S88 lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase YP_002391633.1 1894344 R 585035 CDS YP_002391634.1 218558721 7129387 complement(1895434..1896756) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1732206; Product type pe : putative enzyme; hypothetical protein 1896756 yebA 7129387 yebA Escherichia coli S88 hypothetical protein YP_002391634.1 1895434 R 585035 CDS YP_002391635.1 218558722 7133274 complement(1896772..1897704) 1 NC_011742.1 involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter periplasmic component 1897704 znuA 7133274 znuA Escherichia coli S88 high-affinity zinc transporter periplasmic component YP_002391635.1 1896772 R 585035 CDS YP_002391636.1 218558723 7131888 1897783..1898538 1 NC_011742.1 involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter ATPase 1898538 znuC 7131888 znuC Escherichia coli S88 high-affinity zinc transporter ATPase YP_002391636.1 1897783 D 585035 CDS YP_002391637.1 218558724 7131890 1898535..1899320 1 NC_011742.1 involved in transport of zinc(II) with ZnuA and C; high-affinity zinc transporter membrane component 1899320 znuB 7131890 znuB Escherichia coli S88 high-affinity zinc transporter membrane component YP_002391637.1 1898535 D 585035 CDS YP_002391638.1 218558725 7131889 complement(1899537..1900547) 1 NC_011742.1 promotes strand exchange during homologous recombination; RuvAB complex promotes branch migration; RuvABC complex scans the DNA during branch migration and resolves Holliday junctions at consensus sequences; forms hexameric rings around opposite DNA arms; requires ATP for branch migration and orientation of RuvAB complex determines direction of migration; Holliday junction DNA helicase RuvB 1900547 ruvB 7131889 ruvB Escherichia coli S88 Holliday junction DNA helicase RuvB YP_002391638.1 1899537 R 585035 CDS YP_002391639.1 218558726 7131325 complement(1900556..1901167) 1 NC_011742.1 plays an essential role in ATP-dependent branch migration of the Holliday junction; Holliday junction DNA helicase RuvA 1901167 ruvA 7131325 ruvA Escherichia coli S88 Holliday junction DNA helicase RuvA YP_002391639.1 1900556 R 585035 CDS YP_002391640.1 218558727 7131324 1901443..1902045 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1902045 yebB 7131324 yebB Escherichia coli S88 hypothetical protein YP_002391640.1 1901443 D 585035 CDS YP_002391641.1 218558728 7133275 complement(1902047..1902568) 1 NC_011742.1 endonuclease; resolves Holliday structures; forms a complex of RuvABC; the junction binding protein RuvA forms a hexameric ring along with the RuvB helicase and catalyzes branch migration; RuvC then interacts with RuvAB to resolve the Holliday junction by nicking DNA strands of like polarity; Holliday junction resolvase 1902568 ruvC 7133275 ruvC Escherichia coli S88 Holliday junction resolvase YP_002391641.1 1902047 R 585035 CDS YP_002391642.1 218558729 7131326 complement(1902603..1903343) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1903343 yebC 7131326 yebC Escherichia coli S88 hypothetical protein YP_002391642.1 1902603 R 585035 CDS YP_002391643.1 218558730 7132062 complement(1903372..1903815) 1 NC_011742.1 converts dATP to dAMP and pyrophosphate; dATP pyrophosphohydrolase 1903815 ntpA 7132062 ntpA Escherichia coli S88 dATP pyrophosphohydrolase YP_002391643.1 1903372 R 585035 CDS YP_002391644.1 218558731 7129750 complement(1903817..1905589) 1 NC_011742.1 catalyzes a two-step reaction, first charging an aspartate molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; contains discriminating and non-discriminating subtypes; aspartyl-tRNA synthetase 1905589 aspS 7129750 aspS Escherichia coli S88 aspartyl-tRNA synthetase YP_002391644.1 1903817 R 585035 CDS YP_002391645.1 218558732 7129952 1905899..1906465 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 1906465 yecD 7129952 yecD Escherichia coli S88 hypothetical protein YP_002391645.1 1905899 D 585035 CDS YP_002391646.1 218558733 7131837 1906462..1907280 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 2129559, 7984428; hypothetical protein 1907280 yecE 7131837 yecE Escherichia coli S88 hypothetical protein YP_002391646.1 1906462 D 585035 CDS YP_002391647.1 218558734 7131838 1907333..1907728 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1907728 yecN 7131838 yecN Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391647.1 1907333 D 585035 CDS YP_002391648.1 218558735 7131845 1907769..1908512 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 11746687; Product type e : enzyme; AdoMet-dependent methyltransferase 1908512 yecO 7131845 yecO Escherichia coli S88 AdoMet-dependent methyltransferase YP_002391648.1 1907769 D 585035 CDS YP_002391649.1 218558736 7131846 1908509..1909480 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1909480 yecP 7131846 yecP Escherichia coli S88 hypothetical protein YP_002391649.1 1908509 D 585035 CDS YP_002391650.1 218558737 7131847 complement(1909645..1912074) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 97077292, 11004177; Product type e : enzyme; trimethylamine N-oxide reductase system III, catalytic subunit 1912074 torZ 7131847 torZ Escherichia coli S88 trimethylamine N-oxide reductase system III, catalytic subunit YP_002391650.1 1909645 R 585035 CDS YP_002391651.1 218558738 7133500 complement(1912099..1913199) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20461225, 8919859; Product type c : carrier; TMAO reductase III (TorYZ), cytochrome c-type subunit 1913199 torY 7133500 torY Escherichia coli S88 TMAO reductase III (TorYZ), cytochrome c-type subunit YP_002391651.1 1912099 R 585035 CDS YP_002391652.1 218558739 7133499 complement(1913587..1914333) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95362641, 7635807; Product type t : transporter; copper homeostasis protein CutC 1914333 cutC 7133499 cutC Escherichia coli S88 copper homeostasis protein CutC YP_002391652.1 1913587 R 585035 CDS YP_002391653.1 218558740 7130516 complement(1914347..1914913) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12660999; Product type pe : putative enzyme; hypothetical protein 1914913 yecM 7130516 yecM Escherichia coli S88 hypothetical protein YP_002391653.1 1914347 R 585035 CDS YP_002391654.1 218558741 7131844 1915129..1916862 1 NC_011742.1 catalyzes a two-step reaction, first charging an arginine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class-I aminoacyl-tRNA synthetase; arginyl-tRNA synthetase 1916862 argS 7131844 argS Escherichia coli S88 arginyl-tRNA synthetase YP_002391654.1 1915129 D 585035 CDS YP_002391655.1 218558742 7133102 complement(1916915..1917307) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8002587, 1482109, 89181349; hypothetical protein 1917307 flhE 7133102 flhE Escherichia coli S88 hypothetical protein YP_002391655.1 1916915 R 585035 CDS YP_002391656.1 218558743 7132787 complement(1917307..1919385) 1 NC_011742.1 membrane protein involved in the flagellar export apparatus; flagellar biosynthesis protein FlhA 1919385 flhA 7132787 flhA Escherichia coli S88 flagellar biosynthesis protein FlhA YP_002391656.1 1917307 R 585035 CDS YP_002391657.1 218558744 7132783 complement(1919378..1920526) 1 NC_011742.1 membrane protein responsible for substrate specificity switching from rod/hook-type export to filament-type export; flagellar biosynthesis protein FlhB 1920526 flhB 7132783 flhB Escherichia coli S88 flagellar biosynthesis protein FlhB YP_002391657.1 1919378 R 585035 CDS YP_002391658.1 218558745 7132784 complement(1920735..1921379) 1 NC_011742.1 cytosolic phosphatase which functions in the chemotaxis signal transduction complex by controlling the level of phosphorylated CheY through dephosphorylation; chemotaxis regulator CheZ 1921379 cheZ 7132784 cheZ Escherichia coli S88 chemotaxis regulator CheZ YP_002391658.1 1920735 R 585035 CDS YP_002391659.1 218558746 7131902 complement(1921390..1921779) 1 NC_011742.1 chemotaxis regulator that, when phosphorylated, interacts with the flagellar motor causing the flagella to spin clockwise which causes the cell to tumble; chemotaxis regulatory protein CheY 1921779 cheY 7131902 cheY Escherichia coli S88 chemotaxis regulatory protein CheY YP_002391659.1 1921390 R 585035 CDS YP_002391660.1 218558747 7131901 complement(1921794..1922843) 1 NC_011742.1 regulates chemotaxis by demethylation of methyl-accepting chemotaxis proteins; chemotaxis-specific methylesterase 1922843 cheB 7131901 cheB Escherichia coli S88 chemotaxis-specific methylesterase YP_002391660.1 1921794 R 585035 CDS YP_002391661.1 218558748 7131898 complement(1922846..1923706) 1 NC_011742.1 methylates the MCP; chemotaxis methyltransferase CheR 1923706 cheR 7131898 cheR Escherichia coli S88 chemotaxis methyltransferase CheR YP_002391661.1 1922846 R 585035 CDS YP_002391662.1 218558749 7131899 complement(1923997..1925658) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90094243, 92165727, 6305515, 9315712; Product type r : regulator; methyl-accepting chemotaxis protein II 1925658 tar 7131899 tar Escherichia coli S88 methyl-accepting chemotaxis protein II YP_002391662.1 1923997 R 585035 CDS YP_002391663.1 218558750 7129145 complement(1925803..1926306) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91126073, 91296802, 91317710, 2002011, 3510184; Product type r : regulator; purine-binding chemotaxis protein 1926306 cheW 7129145 cheW Escherichia coli S88 purine-binding chemotaxis protein YP_002391663.1 1925803 R 585035 CDS YP_002391664.1 218558751 7131900 complement(1926327..1928291) 1 NC_011742.1 chemotactic sensory histidine kinase in two-component regulatory system with CheB and CheY; sensory histidine kinase/signal sensing protein; CheA is the histidine kinase component; chemotaxis protein CheA 1928291 cheA 7131900 cheA Escherichia coli S88 chemotaxis protein CheA YP_002391664.1 1926327 R 585035 CDS YP_002391665.1 218558752 7129190 complement(1928296..1929222) 1 NC_011742.1 with MotA forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine; flagellar motor protein MotB 1929222 motB 7129190 motB Escherichia coli S88 flagellar motor protein MotB YP_002391665.1 1928296 R 585035 CDS YP_002391666.1 218558753 7128784 complement(1929219..1930106) 1 NC_011742.1 With MotB forms the ion channels that couple flagellar rotation to proton/sodium motive force across the membrane and forms the stator elements of the rotary flagellar machine; flagellar motor protein MotA 1930106 motA 7128784 motA Escherichia coli S88 flagellar motor protein MotA YP_002391666.1 1929219 R 585035 CDS YP_002391667.1 218558754 7128865 complement(1930233..1930811) 1 NC_011742.1 With FlhD is involved in the activation of class 2 flagellar genes and as well as a number of other genetic systems; transcriptional activator FlhC 1930811 flhC 7128865 flhC Escherichia coli S88 transcriptional activator FlhC YP_002391667.1 1930233 R 585035 CDS YP_002391668.1 218558755 7132785 complement(1930814..1931173) 1 NC_011742.1 with FlhC is involved in the activation of class 2 flagellar genes and is involved in the regulation of a number of other genetic systems; transcriptional activator FlhD 1931173 flhD 7132785 flhD Escherichia coli S88 transcriptional activator FlhD YP_002391668.1 1930814 R 585035 CDS YP_002391669.1 218558756 7132786 1931944..1932372 1 NC_011742.1 ppGpp-dependent; membrane-associated, stress protein produced under conditions of nutrient deprivation, osmotic shock and oxidative stress; universal stress protein UspC 1932372 yecG 7132786 yecG Escherichia coli S88 universal stress protein UspC YP_002391669.1 1931944 D 585035 CDS YP_002391670.1 218558757 7131840 complement(1932379..1933803) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92078100, 92121128, 93302496, 8045430; Product type e : enzyme; trehalose-6-phosphate synthase 1933803 otsA 7131840 otsA Escherichia coli S88 trehalose-6-phosphate synthase YP_002391670.1 1932379 R 585035 CDS YP_002391671.1 218558758 7133147 complement(1933778..1934578) 1 NC_011742.1 biosynthetic; catalyzes the formation of trehalose and phosphate from trehalose-6-phosphate; expression is increased under osmotic stress and induced during the transition to stationary phase and by decreased temperature; trehalose-6-phosphate phosphatase 1934578 otsB 7133147 otsB Escherichia coli S88 trehalose-6-phosphate phosphatase YP_002391671.1 1933778 R 585035 CDS YP_002391672.1 218558759 7133148 complement(1934745..1935734) 1 NC_011742.1 Part of the ABC transporter complex AraFGH involved in the high affinity transport of arabinose; L-arabinose transporter permease protein 1935734 araH 7133148 araH Escherichia coli S88 L-arabinose transporter permease protein YP_002391672.1 1934745 R 585035 CDS YP_002391673.1 218558760 7133087 complement(1935746..1937260) 1 NC_011742.1 Part of the ABC transporter complex AraFGH involved in the high affinity transport of arabinose; L-arabinose transporter ATP-binding protein 1937260 araG 7133087 araG Escherichia coli S88 L-arabinose transporter ATP-binding protein YP_002391673.1 1935746 R 585035 CDS YP_002391674.1 218558761 7133086 complement(1937330..1938319) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89255061, 90375534, 2445996, 326784, 326785, 6885805, 7031057, 9298646; Product type t : transporter; L-arabinose transporter subunit ; periplasmic-binding component of ABC superfamily 1938319 araF 7133086 araF Escherichia coli S88 L-arabinose transporter subunit ; periplasmic-binding component of ABC superfamily YP_002391674.1 1937330 R 585035 CDS YP_002391675.1 218558762 7133085 1939116..1939619 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative ferritin-like protein 1939619 yecI 7133085 yecI Escherichia coli S88 putative ferritin-like protein YP_002391675.1 1939116 D 585035 CDS YP_002391676.1 218558763 7131842 complement(1939697..1939948) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1939948 yecJ 7131842 yecJ Escherichia coli S88 hypothetical protein YP_002391676.1 1939697 R 585035 CDS YP_002391677.1 218558764 7130427 1940060..1940206 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1940206 7130427 ECS88_1959 Escherichia coli S88 hypothetical protein YP_002391677.1 1940060 D 585035 CDS YP_002391678.1 218558765 7128961 1940413..1940736 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1940736 yecR 7128961 yecR Escherichia coli S88 hypothetical protein YP_002391678.1 1940413 D 585035 CDS YP_002391679.1 218558766 7131848 1940908..1941405 1 NC_011742.1 cytoplasmic iron storage protein; ferritin 1941405 ftn 7131848 ftn Escherichia coli S88 ferritin YP_002391679.1 1940908 D 585035 CDS YP_002391680.1 218558767 7132845 complement(1941443..1941682) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1941682 yecH 7132845 yecH Escherichia coli S88 hypothetical protein YP_002391680.1 1941443 R 585035 CDS YP_002391681.1 218558768 7131841 1941873..1943084 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89008121, 2022620; Product type t : transporter; tyrosine transporter 1943084 tyrP 7131841 tyrP Escherichia coli S88 tyrosine transporter YP_002391681.1 1941873 D 585035 CDS YP_002391682.1 218558769 7130376 complement(1943135..1943800) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1943800 yecA 7130376 yecA Escherichia coli S88 hypothetical protein YP_002391682.1 1943135 R 585035 CDS YP_002391683.1 218558770 7131997 complement(1944450..1944998) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 381294, 7007311, 94253011, 1323047, 3003065, 8917447; Product type e : enzyme; phosphatidylglycerophosphate synthetase 1944998 pgsA 7131997 pgsA Escherichia coli S88 phosphatidylglycerophosphate synthetase YP_002391683.1 1944450 R 585035 CDS YP_002391684.1 218558771 7133696 complement(1945055..1946887) 1 NC_011742.1 The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrC both incises the 5' and 3' sides of the lesion. The N-terminal half is responsible for the 3' incision and the C-terminal half is responsible for the 5' incision; excinuclease ABC subunit C 1946887 uvrC 7133696 uvrC Escherichia coli S88 excinuclease ABC subunit C YP_002391684.1 1945055 R 585035 CDS YP_002391685.1 218558772 7132460 complement(1946884..1947540) 1 NC_011742.1 in Escherichia coli the protein UvrY is part of a two-component system along with BarA that is needed for efficient switching between glycolytic and gluconeogenic carbon sources possibly by regulating the Csr system; in Salmonella SirA and BarA regulate virulence gene expression also via the Csr system; response regulator 1947540 uvrY 7132460 uvrY Escherichia coli S88 response regulator YP_002391685.1 1946884 R 585035 CDS YP_002391686.1 218558773 7132462 1947999..1948223 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 3515318, 7567469; hypothetical protein 1948223 yecF 7132462 yecF Escherichia coli S88 hypothetical protein YP_002391686.1 1947999 D 585035 CDS YP_002391687.1 218558774 7131839 complement(1948291..1949013) 1 NC_011742.1 regulates genes involved in cell division; DNA-binding transcriptional activator SdiA 1949013 sdiA 7131839 sdiA Escherichia coli S88 DNA-binding transcriptional activator SdiA YP_002391687.1 1948291 R 585035 CDS YP_002391688.1 218558775 7131377 complement(1949243..1949995) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative amino-acid ABC transporter ATP-binding protein YecC 1949995 yecC 7131377 yecC Escherichia coli S88 putative amino-acid ABC transporter ATP-binding protein YecC YP_002391688.1 1949243 R 585035 CDS YP_002391689.1 218558776 7131836 complement(1949992..1950660) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter subunit: permease component of ABC superfamily transporter 1950660 yecS 7131836 yecS Escherichia coli S88 putative transporter subunit: permease component of ABC superfamily transporter YP_002391689.1 1949992 R 585035 CDS YP_002391690.1 218558777 7131849 complement(1950675..1951661) 1 NC_011742.1 catalyzes the formation of pyruvate from D-cysteine; D-cysteine desulfhydrase 1951661 yedO 7131849 yedO Escherichia coli S88 D-cysteine desulfhydrase YP_002391690.1 1950675 R 585035 CDS YP_002391691.1 218558778 7131857 complement(1951766..1952566) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96125225, 8450713, 8774726, 9298646, 9740056; Product type t : transporter; cystine transporter subunit 1952566 fliY 7131857 fliY Escherichia coli S88 cystine transporter subunit YP_002391691.1 1951766 R 585035 CDS YP_002391692.1 218558779 7132807 complement(1952654..1953205) 1 NC_011742.1 expression activator of the class 2 type of flagellar operons, essential to achieve maximal cell motility; activator of type 1 fimbrial gene expression; cell density-responsive regulator; FliZ in Salmonella typhimurium induces HilA, an activator of invasion genes necessary to achieve full virulence; flagella biosynthesis protein FliZ 1953205 fliZ 7132807 fliZ Escherichia coli S88 flagella biosynthesis protein FliZ YP_002391692.1 1952654 R 585035 CDS YP_002391693.1 218558780 7132808 complement(1953251..1953970) 1 NC_011742.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor directs late flagellar biosynthesis genes; flagellar biosynthesis sigma factor 1953970 fliA 7132808 fliA Escherichia coli S88 flagellar biosynthesis sigma factor YP_002391693.1 1953251 R 585035 CDS YP_002391694.1 218558781 7132788 complement(1954290..1956047) 1 NC_011742.1 structural flagella protein; individual Salmonella serotypes usually alternate between the production of 2 antigenic forms of flagella, termed phase 1 and phase 2, each specified by separate structural genes; flagellin 1956047 FliC 7132788 FliC Escherichia coli S88 flagellin YP_002391694.1 1954290 R 585035 CDS YP_002391695.1 218558782 7132789 1956313..1957719 1 NC_011742.1 involved in flagellin assembly; flagellar capping protein 1957719 fliD 7132789 fliD Escherichia coli S88 flagellar capping protein YP_002391695.1 1956313 D 585035 CDS YP_002391696.1 218558783 7132790 1957744..1958154 1 NC_011742.1 flagellin specific chaperone; flagellar protein FliS 1958154 fliS 7132790 fliS Escherichia coli S88 flagellar protein FliS YP_002391696.1 1957744 D 585035 CDS YP_002391697.1 218558784 7132805 1958154..1958519 1 NC_011742.1 binds flagellar cap subunits (FliD) and seems to prevents their oligomerization prior to its translocation through the flagellum-specific type III export pathway; acts as a repressor of flagellar class 2 operons by preventing FlhD2C2 to bind the promoter and inhibiting the FlhD2C2-dependent transcription; member of the type III cytoplasmic chaperone family; flagellar biosynthesis protein FliT 1958519 fliT 7132805 fliT Escherichia coli S88 flagellar biosynthesis protein FliT YP_002391697.1 1958154 D 585035 CDS YP_002391698.1 218558785 7132806 1958597..1960084 1 NC_011742.1 converts 1,4-alpha-D-glucans to maltodextrin; cytoplasmic alpha-amylase 1960084 amyA 7132806 amyA Escherichia coli S88 cytoplasmic alpha-amylase YP_002391698.1 1958597 D 585035 CDS YP_002391699.1 218558786 7133067 complement(1960118..1960531) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1960531 yedD 7133067 yedD Escherichia coli S88 hypothetical protein YP_002391699.1 1960118 R 585035 CDS YP_002391700.1 218558787 7131851 1960718..1961923 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; putative inner membrane protein 1961923 yedE 7131851 yedE Escherichia coli S88 putative inner membrane protein YP_002391700.1 1960718 D 585035 CDS YP_002391701.1 218558788 7131852 1961920..1962153 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1962153 yedF 7131852 yedF Escherichia coli S88 hypothetical protein YP_002391701.1 1961920 D 585035 CDS YP_002391702.1 218558789 7131853 1962262..1962930 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1962930 yedK 7131853 yedK Escherichia coli S88 hypothetical protein YP_002391702.1 1962262 D 585035 CDS YP_002391703.1 218558790 7131856 1963443..1964525 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 3017988, 8057841; Product type m : membrane component; outer membrane porin; DLP12 prophage 1964525 nmpC 7131856 nmpC Escherichia coli S88 outer membrane porin; DLP12 prophage YP_002391703.1 1963443 D 585035 CDS YP_002391704.1 218558791 7129727 complement(1965027..1965824) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12270809; Product type pr : putative regulator; putative DNA-binding transcriptional regulator; DLP12 prophage 1965824 ybcM 7129727 ybcM Escherichia coli S88 putative DNA-binding transcriptional regulator; DLP12 prophage YP_002391704.1 1965027 R 585035 CDS YP_002391705.1 218558792 7131186 complement(1965834..1966385) 1 NC_011742.1 DLP12 prophage; similar to PEBP/RK1P protein family in eukaryotes that inhibits MEK phosphorylation by Raf-1; crystal structure suggests similar properties but exact function is unknown; putative kinase inhibitor 1966385 ybcL 7131186 ybcL Escherichia coli S88 putative kinase inhibitor YP_002391705.1 1965834 R 585035 CDS YP_002391706.1 218558793 7131185 complement(1966554..1967066) 1 NC_011742.1 member of the small MDR (multidrug resistance) family of transporters; in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin; proton-dependent secondary transporter which exchanges protons for compound translocation; multidrug efflux protein 1967066 emrE 7131185 emrE Escherichia coli S88 multidrug efflux protein YP_002391706.1 1966554 R 585035 CDS YP_002391707.1 218558794 7132394 complement(1967231..1967545) 1 NC_011742.1 forms a junction between the M-ring and FlgB during flagella biosynthesis; flagellar hook-basal body protein FliE 1967545 fliE 7132394 fliE Escherichia coli S88 flagellar hook-basal body protein FliE YP_002391707.1 1967231 R 585035 CDS YP_002391708.1 218558795 7132791 1967760..1969418 1 NC_011742.1 the MS-ring anchors the flagellum to the cytoplasmic membrane; part of the flagellar basal body which consists of four rings L, P, S, and M mounted on a central rod; flagellar MS-ring protein 1969418 fliF 7132791 fliF Escherichia coli S88 flagellar MS-ring protein YP_002391708.1 1967760 D 585035 CDS YP_002391709.1 218558796 7132792 1969411..1970406 1 NC_011742.1 One of three proteins involved in switching the direction of the flagellar rotation; flagellar motor switch protein G 1970406 fliG 7132792 fliG Escherichia coli S88 flagellar motor switch protein G YP_002391709.1 1969411 D 585035 CDS YP_002391710.1 218558797 7132793 1970399..1971085 1 NC_011742.1 binds to and inhibits the function of flagella specific ATPase FliI; flagellar assembly protein H 1971085 fliH 7132793 fliH Escherichia coli S88 flagellar assembly protein H YP_002391710.1 1970399 D 585035 CDS YP_002391711.1 218558798 7132794 1971085..1972458 1 NC_011742.1 involved in type III protein export during flagellum assembly; flagellum-specific ATP synthase 1972458 fliI 7132794 fliI Escherichia coli S88 flagellum-specific ATP synthase YP_002391711.1 1971085 D 585035 CDS YP_002391712.1 218558799 7132795 1972477..1972920 1 NC_011742.1 rod/hook and filament chaperone; flagellar biosynthesis chaperone 1972920 fliJ 7132795 fliJ Escherichia coli S88 flagellar biosynthesis chaperone YP_002391712.1 1972477 D 585035 CDS YP_002391713.1 218558800 7132796 1972917..1974044 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1482109, 8631687; Product type s : structure; flagellar hook-length control protein 1974044 fliK 7132796 fliK Escherichia coli S88 flagellar hook-length control protein YP_002391713.1 1972917 D 585035 CDS YP_002391714.1 218558801 7132797 1974149..1974613 1 NC_011742.1 interacts with cytoplasmic MS ring of the basal body and may act to stabilize the MotAB complexes which surround the MS ring; flagellar basal body-associated protein FliL 1974613 fliL 7132797 fliL Escherichia coli S88 flagellar basal body-associated protein FliL YP_002391714.1 1974149 D 585035 CDS YP_002391715.1 218558802 7132798 1974618..1975622 1 NC_011742.1 with FliG and FliN makes up the switch complex which is involved in switching the direction of the flagella rotation; flagellar motor switch protein FliM 1975622 fliM 7132798 fliM Escherichia coli S88 flagellar motor switch protein FliM YP_002391715.1 1974618 D 585035 CDS YP_002391716.1 218558803 7132799 1975619..1976032 1 NC_011742.1 One of three proteins involved in switching the direction of the flagellar rotation; flagellar motor switch protein FliN 1976032 fliN 7132799 fliN Escherichia coli S88 flagellar motor switch protein FliN YP_002391716.1 1975619 D 585035 CDS YP_002391717.1 218558804 7132800 1976035..1976400 1 NC_011742.1 with FlhA, FlhB, FliP, FliQ and FliR is one of the membrane components of the flagellar export apparatus; flagellar biosynthesis protein FliO 1976400 fliO 7132800 fliO Escherichia coli S88 flagellar biosynthesis protein FliO YP_002391717.1 1976035 D 585035 CDS YP_002391718.1 218558805 7132801 1976400..1977137 1 NC_011742.1 FliP, with proteins FliQ and FliR, forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliP 1977137 fliP 7132801 fliP Escherichia coli S88 flagellar biosynthesis protein FliP YP_002391718.1 1976400 D 585035 CDS YP_002391719.1 218558806 7132802 1977147..1977416 1 NC_011742.1 with proteins FliP and FliR forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliQ 1977416 fliQ 7132802 fliQ Escherichia coli S88 flagellar biosynthesis protein FliQ YP_002391719.1 1977147 D 585035 CDS YP_002391720.1 218558807 7132803 1977425..1978210 1 NC_011742.1 FliR, with proteins FliP and FliQ, forms the core of the central channel in the flagella export apparatus; flagellar biosynthesis protein FliR 1978210 fliR 7132803 fliR Escherichia coli S88 flagellar biosynthesis protein FliR YP_002391720.1 1977425 D 585035 CDS YP_002391721.1 218558808 7132804 1978495..1979118 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14514676, 14766922, 20167175, 90130299, 91154130, 92048476, 9882673, 7534408; Product type r : regulator; DNA-binding transcriptional activator, co-regulator with RcsB 1979118 rcsA 7132804 rcsA Escherichia coli S88 DNA-binding transcriptional activator, co-regulator with RcsB YP_002391721.1 1978495 D 585035 CDS YP_002391722.1 218558809 7131794 complement(1979162..1979350) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 96324407, 7534408; hypothetical protein 1979350 dsrB 7131794 dsrB Escherichia coli S88 hypothetical protein YP_002391722.1 1979162 R 585035 CDS YP_002391723.1 218558810 7129763 1979513..1979740 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1979740 yodD 7129763 yodD Escherichia coli S88 hypothetical protein YP_002391723.1 1979513 D 585035 CDS YP_002391724.1 218558811 7130246 1980038..1980853 1 NC_011742.1 catalyzes the hydrolysis of mannosyl-3-phosphoglycerate to form the osmolyte mannosylglycerate; mannosyl-3-phosphoglycerate phosphatase 1980853 yedP 7130246 yedP Escherichia coli S88 mannosyl-3-phosphoglycerate phosphatase YP_002391724.1 1980038 D 585035 CDS YP_002391725.1 218558812 7131858 complement(1980850..1982544) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16530465; Product type pe : putative enzyme; putative diguanylate cyclase 1982544 yedQ 7131858 yedQ Escherichia coli S88 putative diguanylate cyclase YP_002391725.1 1980850 R 585035 CDS YP_002391726.1 218558813 7131859 complement(1982465..1982653) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1982653 7131859 ECS88_2010 Escherichia coli S88 hypothetical protein YP_002391726.1 1982465 R 585035 CDS YP_002391727.1 218558814 7128962 complement(1982976..1983893) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1983893 yedI 7128962 yedI Escherichia coli S88 hypothetical protein YP_002391727.1 1982976 R 585035 CDS YP_002391728.1 218558815 7131854 1984066..1984986 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 1984986 yedA 7131854 yedA Escherichia coli S88 hypothetical protein YP_002391728.1 1984066 D 585035 CDS YP_002391729.1 218558816 7131850 complement(1984975..1985445) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90330522, 92049708, 94049122, 10360178, 10612397, 10871403, 2527357; Product type e : enzyme; DNA mismatch endonuclease of very short patch repair 1985445 vsr 7131850 vsr Escherichia coli S88 DNA mismatch endonuclease of very short patch repair YP_002391729.1 1984975 R 585035 CDS YP_002391730.1 218558817 7132474 complement(1985426..1986844) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90280700, 91285397, 93367813, 2198248, 2527357; Product type e : enzyme; DNA cytosine methylase 1986844 dcm 7132474 dcm Escherichia coli S88 DNA cytosine methylase YP_002391730.1 1985426 R 585035 CDS YP_002391731.1 218558818 7130571 complement(1986911..1987606) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7567469; Product type pe : putative enzyme; hypothetical protein 1987606 yedJ 7130571 yedJ Escherichia coli S88 hypothetical protein YP_002391731.1 1986911 R 585035 CDS YP_002391732.1 218558819 7131855 complement(1987646..1988011) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 1988011 yedR 7131855 yedR Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391732.1 1987646 R 585035 CDS YP_002391733.1 218558820 7133812 1988547..1989692 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pm : putative membrane component; outer membrane protein F precursor (Porin ompF) 1989692 7133812 ECS88_2017 Escherichia coli S88 outer membrane protein F precursor (Porin ompF) YP_002391733.1 1988547 D 585035 CDS YP_002391734.1 218558821 7128963 1990288..1991139 1 NC_011742.1 Hsp31 stabilizes early unfolding protein intermediates under severe heat stress; chaperone protein HchA 1991139 hchA 7128963 hchA Escherichia coli S88 chaperone protein HchA YP_002391734.1 1990288 D 585035 CDS YP_002391735.1 218558822 7128886 complement(1991246..1992604) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15522865; Product type rc : receptor; sensory kinase in two-component regulatory system with YedW 1992604 yedV 7128886 yedV Escherichia coli S88 sensory kinase in two-component regulatory system with YedW YP_002391735.1 1991246 R 585035 CDS YP_002391736.1 218558823 7132941 complement(1992604..1993275) 1 NC_011742.1 induced by CusR in the presence of copper; YedW induces the expression of the upstream gene yedV (encoding a sensor kinase) as well as yedW; yedVW is one of four copper regulons found in E. coli; part of the copper homeostasis mechanism; confers resistance to copper and several drugs when induced; transcriptional regulatory protein YedW 1993275 yedW 7132941 yedW Escherichia coli S88 transcriptional regulatory protein YedW YP_002391736.1 1992604 R 585035 CDS YP_002391737.1 218558824 7132942 1993408..1993821 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1993821 yedX 7132942 yedX Escherichia coli S88 hypothetical protein YP_002391737.1 1993408 D 585035 CDS YP_002391738.1 218558825 7132943 1993930..1994934 1 NC_011742.1 in Escherichia coli this periplasmic enzyme was found to encode the periplasmic catalytic subunit of an oxidoreductase; sulfite oxidase activity not demonstrated; requires inner membrane anchor protein YedZ; putative sulfite oxidase subunit YedY 1994934 yedY 7132943 yedY Escherichia coli S88 putative sulfite oxidase subunit YedY YP_002391738.1 1993930 D 585035 CDS YP_002391739.1 218558826 7132944 1994935..1995570 1 NC_011742.1 in Escherichia coli this inner membrane protein was found to anchor the periplasmic catalytic oxidoreductase YedY; sulfite oxidase activity not demonstrated; contains heme; putative sulfite oxidase subunit YedZ 1995570 yedZ 7132944 yedZ Escherichia coli S88 putative sulfite oxidase subunit YedZ YP_002391739.1 1994935 D 585035 CDS YP_002391740.1 218558827 7132945 1995827..1996477 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 12077457, 12480884, 12909634, 9579078; hypothetical protein 1996477 yodA 7132945 yodA Escherichia coli S88 hypothetical protein YP_002391740.1 1995827 D 585035 CDS YP_002391741.1 218558828 7131996 1997330..1998127 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 1998127 yeeI 7131996 yeeI Escherichia coli S88 hypothetical protein YP_002391741.1 1997330 D 585035 CDS YP_002391742.1 218558829 7129880 complement(1998438..1998665) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 1998665 7129880 ECS88_2030 Escherichia coli S88 hypothetical protein YP_002391742.1 1998438 R 585035 CDS YP_002391743.1 218558830 7131649 complement(1999921..2001225) 1 NC_011742.1 catalyzes the conversion of chorismate to salicylate in the biosynthesis of the siderophore yersiniabactin; salicylate synthase Irp9 2001225 irp 7131649 irp Escherichia coli S88 salicylate synthase Irp9 YP_002391743.1 1999921 R 585035 CDS YP_002391744.1 218558831 7131655 complement(2001253..2002656) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; yersiniabactin-iron transporter permease YbtX 2002656 irp 7131655 irp Escherichia coli S88 yersiniabactin-iron transporter permease YbtX YP_002391744.1 2001253 R 585035 CDS YP_002391745.1 218558832 7131656 complement(2002526..2004355) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 10231486, 11320115; Product type t : transporter; permease and ATP-binding protein of yersiniabactin-iron ABC transporter YbtQ 2004355 irp 7131656 irp Escherichia coli S88 permease and ATP-binding protein of yersiniabactin-iron ABC transporter YbtQ YP_002391745.1 2002526 R 585035 CDS YP_002391746.1 218558833 7131657 complement(2004315..2006117) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 10231486, 11320115; Product type t : transporter; permease and ATP-binding protein of yersiniabactin-iron ABC transporter YbtP 2006117 irp 7131657 irp Escherichia coli S88 permease and ATP-binding protein of yersiniabactin-iron ABC transporter YbtP YP_002391746.1 2004315 R 585035 CDS YP_002391747.1 218558834 7131658 2006284..2007243 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 8930916; Product type r : regulator; AraC family transcriptional regulator 2007243 ybtA 7131658 ybtA Escherichia coli S88 AraC family transcriptional regulator YP_002391747.1 2006284 D 585035 CDS YP_002391748.1 218558835 7130143 2007416..2013541 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 15719346, 15582399, 8366034, 11927258, 9709002; Product type e : enzyme; High-molecular-weight nonribosomal peptide/polyketide synthetase 2 (HMWP2) 2013541 irp 7130143 irp Escherichia coli S88 High-molecular-weight nonribosomal peptide/polyketide synthetase 2 (HMWP2) YP_002391748.1 2007416 D 585035 CDS YP_002391749.1 218558836 7131659 2013629..2023120 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 15719346, 15582399, 11927258; Product type e : enzyme; High-molecular-weight nonribosomal peptide/polyketide synthetase 1 (HMWP1) 2023120 irp 7131659 irp Escherichia coli S88 High-molecular-weight nonribosomal peptide/polyketide synthetase 1 (HMWP1) YP_002391749.1 2013629 D 585035 CDS YP_002391750.1 218558837 7131660 2023057..2024217 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 11927258; Product type e : enzyme; Thiazolinyl-S-HMWP1 reductase YbtU 2024217 irp 7131660 irp Escherichia coli S88 Thiazolinyl-S-HMWP1 reductase YbtU YP_002391750.1 2023057 D 585035 CDS YP_002391751.1 218558838 7131661 2024214..2025017 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative thioesterase YbtT 2025017 irp 7131661 irp Escherichia coli S88 putative thioesterase YbtT YP_002391751.1 2024214 D 585035 CDS YP_002391752.1 218558839 7131662 2025021..2026598 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 9818149, 11927258, 9709002; Product type e : enzyme; salicyl-AMP ligase YbtE 2026598 irp 7131662 irp Escherichia coli S88 salicyl-AMP ligase YbtE YP_002391752.1 2025021 D 585035 CDS YP_002391753.1 218558840 7130331 2026729..2028750 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 7896707, 7984105; Product type rc : receptor; Yersiniabactin/pesticin outer membrane receptor (IRPC) 2028750 fyuA 7130331 fyuA Escherichia coli S88 Yersiniabactin/pesticin outer membrane receptor (IRPC) YP_002391753.1 2026729 D 585035 CDS YP_002391754.1 218558841 7132953 complement(2032369..2033484) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2033484 7132953 ECS88_2047 Escherichia coli S88 hypothetical protein YP_002391754.1 2032369 R 585035 CDS YP_002391755.1 218558842 7128965 2033736..2035052 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 5332864, 9524262; Product type t : transporter; shikimate transporter 2035052 shiA 7128965 shiA Escherichia coli S88 shikimate transporter YP_002391755.1 2033736 D 585035 CDS YP_002391756.1 218558843 7130599 2035154..2036608 1 NC_011742.1 Catalyzes the hydrolysis of AMP to form adenine and ribose 5-phosphate using water as the nucleophile; AMP nucleosidase 2036608 amn 7130599 amn Escherichia coli S88 AMP nucleosidase YP_002391756.1 2035154 D 585035 CDS YP_002391757.1 218558844 7133060 2036951..2037667 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2037667 yeeN 7133060 yeeN Escherichia coli S88 hypothetical protein YP_002391757.1 2036951 D 585035 CDS YP_002391758.1 218558845 7131995 complement(2038297..2039937) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16042411; Product type pt : putative transporter; hypothetical protein 2039937 yeeO 7131995 yeeO Escherichia coli S88 hypothetical protein YP_002391758.1 2038297 R 585035 CDS YP_002391759.1 218558846 7129881 complement(2040058..2041008) 1 NC_011742.1 LysR-type transcriptional regulator similar to CysB; contains helix-turn-helix (HTH) motif; in Escherichia coli this protein regulates two operons consisting of ABC transporters that are part of the cys regulon; regulated by CysB; transcriptional regulator Cbl 2041008 cbl 7129881 cbl Escherichia coli S88 transcriptional regulator Cbl YP_002391759.1 2040058 R 585035 CDS YP_002391760.1 218558847 7129161 complement(2041110..2042027) 1 NC_011742.1 Transcriptional activator for the hut, put and ure operons and repressor for the gdh and gltB operons in response to nitrogen limitation; nitrogen assimilation transcriptional regulator 2042027 nac 7129161 nac Escherichia coli S88 nitrogen assimilation transcriptional regulator YP_002391760.1 2041110 R 585035 CDS YP_002391761.1 218558848 7129882 complement(2042484..2043416) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 9298646; hypothetical protein 2043416 erfK 7129882 erfK Escherichia coli S88 hypothetical protein YP_002391761.1 2042484 R 585035 CDS YP_002391762.1 218558849 7132417 complement(2043481..2044560) 1 NC_011742.1 catalyzes the synthesis of alpha-ribazole-5'-phosphate from nicotinate mononucleotide and 5,6-dimethylbenzimidazole; nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase 2044560 cobT 7132417 cobT Escherichia coli S88 nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase YP_002391762.1 2043481 R 585035 CDS YP_002391763.1 218558850 7131943 complement(2044572..2045315) 1 NC_011742.1 catalyzes the formation of adenosylcobalamin from Ado-cobinamide-GDP and alpha-ribazole; cobalamin synthase 2045315 cobS 7131943 cobS Escherichia coli S88 cobalamin synthase YP_002391763.1 2044572 R 585035 CDS YP_002391764.1 218558851 7131942 complement(2045312..2045857) 1 NC_011742.1 catalyzes ATP-dependent phosphorylation of adenosylcobinamide to form adenosylcobinamide phosphate and the addition of guanosine monophosphate to adenosylcobinamide phosphate to form adenosylcobinamide-GDP; adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase 2045857 cobU 7131942 cobU Escherichia coli S88 adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase YP_002391764.1 2045312 R 585035 CDS YP_002391765.1 218558852 7128966 complement(2046322..2046486) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2046486 7128966 ECS88_2061 Escherichia coli S88 hypothetical protein YP_002391765.1 2046322 R 585035 CDS YP_002391766.1 218558853 7128967 complement(2047732..2047848) 1 NC_011742.1 Evidence 7 : Gene remnant; Product type pe : putative enzyme; transposase, IS3 family 2047848 7128967 ECS88_2063 Escherichia coli S88 transposase, IS3 family YP_002391766.1 2047732 R 585035 CDS YP_002391767.1 218558854 7128968 complement(2048202..2048345) 1 NC_011742.1 Evidence 7 : Gene remnant; hypothetical protein 2048345 7128968 ECS88_2064 Escherichia coli S88 hypothetical protein YP_002391767.1 2048202 R 585035 CDS YP_002391768.1 218558855 7128969 2048392..2048544 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2048544 7128969 ECS88_2065 Escherichia coli S88 hypothetical protein YP_002391768.1 2048392 D 585035 CDS YP_002391769.1 218558856 7128970 2048651..2048767 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2048767 7128970 ECS88_2066 Escherichia coli S88 hypothetical protein YP_002391769.1 2048651 D 585035 CDS YP_002391770.1 218558857 7128971 2048963..2050177 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative carbohydrate kinase 2050177 7128971 ECS88_2067 Escherichia coli S88 putative carbohydrate kinase YP_002391770.1 2048963 D 585035 CDS YP_002391771.1 218558858 7128972 2050191..2050949 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2050949 7128972 ECS88_2068 Escherichia coli S88 hypothetical protein YP_002391771.1 2050191 D 585035 CDS YP_002391772.1 218558859 7128973 2051006..2051971 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2051971 7128973 ECS88_2069 Escherichia coli S88 hypothetical protein YP_002391772.1 2051006 D 585035 CDS YP_002391773.1 218558860 7128974 2051974..2053008 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotriesterase-related protein 2053008 7128974 ECS88_2070 Escherichia coli S88 putative phosphotriesterase-related protein YP_002391773.1 2051974 D 585035 CDS YP_002391774.1 218558861 7128978 complement(2055323..2055820) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2055820 7128978 ECS88_2074 Escherichia coli S88 hypothetical protein YP_002391774.1 2055323 R 585035 CDS YP_002391775.1 218558862 7128979 complement(2055721..2056128) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2056128 7128979 ECS88_2075 Escherichia coli S88 hypothetical protein YP_002391775.1 2055721 R 585035 CDS YP_002391776.1 218558863 7128980 complement(2056382..2056987) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2056987 7128980 ECS88_2076 Escherichia coli S88 hypothetical protein YP_002391776.1 2056382 R 585035 CDS YP_002391777.1 218558864 7128981 complement(2057746..2059359) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative transposase ORF1, IS66 family 2059359 7128981 ECS88_2079 Escherichia coli S88 conserved hypothetical protein, putative transposase ORF1, IS66 family YP_002391777.1 2057746 R 585035 CDS YP_002391778.1 218558865 7128982 complement(2059390..2059740) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative transposase ORF2, IS66 family 2059740 7128982 ECS88_2080 Escherichia coli S88 conserved hypothetical protein, putative transposase ORF2, IS66 family YP_002391778.1 2059390 R 585035 CDS YP_002391779.1 218558866 7128983 complement(2059737..2060162) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative transposase OrfA from plasmid origin 2060162 7128983 ECS88_2081 Escherichia coli S88 putative transposase OrfA from plasmid origin YP_002391779.1 2059737 R 585035 CDS YP_002391780.1 218558867 7128984 2060817..2061224 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; putative InterPro motifs Prophage CP4-57 regulatory protein (AlpA) 2061224 7128984 ECS88_2082 Escherichia coli S88 conserved hypothetical protein; putative InterPro motifs Prophage CP4-57 regulatory protein (AlpA) YP_002391780.1 2060817 D 585035 CDS YP_002391781.1 218558868 7128985 2061303..2061920 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2061920 7128985 ECS88_2083 Escherichia coli S88 hypothetical protein YP_002391781.1 2061303 D 585035 CDS YP_002391782.1 218558869 7128986 2062348..2062608 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2062608 7128986 ECS88_2085 Escherichia coli S88 hypothetical protein YP_002391782.1 2062348 D 585035 CDS YP_002391784.1 218558871 7128988 complement(2062879..2064447) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative transposase ORF 1, IS66 family 2064447 7128988 ECS88_2087 Escherichia coli S88 putative transposase ORF 1, IS66 family YP_002391784.1 2062879 R 585035 CDS YP_002391785.1 218558872 7128989 complement(2064463..2064810) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative transposase ORF 2, IS66 family 2064810 7128989 ECS88_2088 Escherichia coli S88 putative transposase ORF 2, IS66 family YP_002391785.1 2064463 R 585035 CDS YP_002391787.1 218558874 7128991 2066746..2067909 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2067909 7128991 ECS88_2090 Escherichia coli S88 hypothetical protein YP_002391787.1 2066746 D 585035 CDS YP_002391788.1 218558875 7128992 2067954..2068865 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative GTP-binding domain 2068865 7128992 ECS88_2091 Escherichia coli S88 conserved hypothetical protein; putative GTP-binding domain YP_002391788.1 2067954 D 585035 CDS YP_002391789.1 218558876 7128993 2069083..2071479 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2071479 7128993 ECS88_2092 Escherichia coli S88 hypothetical protein YP_002391789.1 2069083 D 585035 CDS YP_002391790.1 218558877 7128994 2071476..2072381 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2072381 7128994 ECS88_2093 Escherichia coli S88 hypothetical protein YP_002391790.1 2071476 D 585035 CDS YP_002391791.1 218558878 7128995 2072378..2073448 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2073448 7128995 ECS88_2094 Escherichia coli S88 hypothetical protein YP_002391791.1 2072378 D 585035 CDS YP_002391792.1 218558879 7128996 2073476..2074267 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 2074267 7128996 ECS88_2095 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002391792.1 2073476 D 585035 CDS YP_002391793.1 218558880 7128997 2074283..2074693 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2074693 7128997 ECS88_2096 Escherichia coli S88 hypothetical protein YP_002391793.1 2074283 D 585035 CDS YP_002391794.1 218558881 7128998 2074914..2075735 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2075735 7128998 ECS88_2097 Escherichia coli S88 hypothetical protein YP_002391794.1 2074914 D 585035 CDS YP_002391795.1 218558882 7128999 2075817..2076296 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7519596; Product type h : extrachromosomal origin; putative antirestriction protein of plasmid origin 2076296 7128999 ECS88_2098 Escherichia coli S88 putative antirestriction protein of plasmid origin YP_002391795.1 2075817 D 585035 CDS YP_002391796.1 218558883 7129000 2076342..2076788 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11053371; Product type pf : putative factor; putative DNA repair protein; CP4-44 prophage 2076788 yeeS 7129000 yeeS Escherichia coli S88 putative DNA repair protein; CP4-44 prophage YP_002391796.1 2076342 D 585035 CDS YP_002391797.1 218558884 7132956 2076851..2077072 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CP4-44 prophage 2077072 yeeT 7132956 yeeT Escherichia coli S88 conserved hypothetical protein; CP4-44 prophage YP_002391797.1 2076851 D 585035 CDS YP_002391798.1 218558885 7132960 2077146..2077514 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14594833; Product type h : extrachromosomal origin; antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage 2077514 yeeU 7132960 yeeU Escherichia coli S88 antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage YP_002391798.1 2077146 D 585035 CDS YP_002391799.1 218558886 7132968 2077973..2078167 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CP4-44 prophage 2078167 yeeW 7132968 yeeW Escherichia coli S88 conserved hypothetical protein; CP4-44 prophage YP_002391799.1 2077973 D 585035 CDS YP_002391800.1 218558887 7132971 2078608..2078964 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2078964 yoeF 7132971 yoeF Escherichia coli S88 hypothetical protein YP_002391800.1 2078608 D 585035 CDS YP_002391801.1 218558888 7133644 complement(2079065..2079460) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2079460 yeeX 7133644 yeeX Escherichia coli S88 hypothetical protein YP_002391801.1 2079065 R 585035 CDS YP_002391802.1 218558889 7132974 complement(2079566..2080624) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2080624 yeeA 7132974 yeeA Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391802.1 2079566 R 585035 CDS YP_002391803.1 218558890 7132946 complement(2080823..2081296) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11850398, 9442027, 8709849; Product type r : regulator; DNA gyrase inhibitor 2081296 sbmC 7132946 sbmC Escherichia coli S88 DNA gyrase inhibitor YP_002391803.1 2080823 R 585035 CDS YP_002391804.1 218558891 7131368 complement(2081415..2082581) 1 NC_011742.1 removes C-terminal D-alanyl residues from sugar-peptide cell wall precursors; penicillin-binding protein 6B; one of four, DD-carboxypeptidase low-molecular weight penicillin-binding proteins that remove terminal D-alanine from pentapeptide side chains; D-alanyl-D-alanine carboxypeptidase 2082581 dacD 7131368 dacD Escherichia coli S88 D-alanyl-D-alanine carboxypeptidase YP_002391804.1 2081415 R 585035 CDS YP_002391805.1 218558892 7130556 2082790..2084217 1 NC_011742.1 Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates; exonuclease I 2084217 sbcB 7130556 sbcB Escherichia coli S88 exonuclease I YP_002391805.1 2082790 D 585035 CDS YP_002391806.1 218558893 7131364 complement(2084260..2084487) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2084487 yeeD 7131364 yeeD Escherichia coli S88 hypothetical protein YP_002391806.1 2084260 R 585035 CDS YP_002391807.1 218558894 7132947 complement(2084501..2085559) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2085559 yeeE 7132947 yeeE Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391807.1 2084501 R 585035 CDS YP_002391808.1 218558895 7132948 complement(2085738..2087096) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative amino-acid/amine transporter 2087096 yeeF 7132948 yeeF Escherichia coli S88 putative amino-acid/amine transporter YP_002391808.1 2085738 R 585035 CDS YP_002391809.1 218558896 7132949 complement(2087363..2088292) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2088292 yeeY 7132949 yeeY Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391809.1 2087363 R 585035 CDS YP_002391810.1 218558897 7132975 complement(2088338..2089162) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative epimerase, with NAD(P)-binding Rossmann-fold domain 2089162 yeeZ 7132975 yeeZ Escherichia coli S88 putative epimerase, with NAD(P)-binding Rossmann-fold domain YP_002391810.1 2088338 R 585035 CDS YP_002391811.1 218558898 7132976 complement(2089245..2089499) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type f : factor; toxin of the YoeB-YefM toxin-antitoxin system 2089499 yoeB 7132976 yoeB Escherichia coli S88 toxin of the YoeB-YefM toxin-antitoxin system YP_002391811.1 2089245 R 585035 CDS YP_002391812.1 218558899 7133643 complement(2089496..2089747) 1 NC_011742.1 Antitoxin that counteracts the effect of the YoeB toxin; antitoxin YefM 2089747 yefM 7133643 yefM Escherichia coli S88 antitoxin YefM YP_002391812.1 2089496 R 585035 CDS YP_002391813.1 218558900 7132977 2090031..2090081 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type l : leader peptide; his operon leader peptide 2090081 hisL 7132977 hisL Escherichia coli S88 his operon leader peptide YP_002391813.1 2090031 D 585035 CDS YP_002391814.1 218558901 7128928 2090227..2091126 1 NC_011742.1 long form of enzyme; catalyzes the formation of N'-5'-phosphoribosyl-ATP from phosphoribosyl pyrophosphate; crucial role in histidine biosynthesis; forms active dimers and inactive hexamers which is dependent on concentration of substrates and inhibitors; ATP phosphoribosyltransferase 2091126 hisG 7128928 hisG Escherichia coli S88 ATP phosphoribosyltransferase YP_002391814.1 2090227 D 585035 CDS YP_002391815.1 218558902 7128924 2091132..2092436 1 NC_011742.1 catalyzes the oxidation of L-histidinol to L-histidinaldehyde and then to L-histidine in histidine biosynthesis; functions as a dimer; histidinol dehydrogenase 2092436 hisD 7128924 hisD Escherichia coli S88 histidinol dehydrogenase YP_002391815.1 2091132 D 585035 CDS YP_002391816.1 218558903 7128922 2092433..2093503 1 NC_011742.1 catalyzes the formation of L-histidinol phosphate from imidazole-acetol phosphate and glutamate in histidine biosynthesis; histidinol-phosphate aminotransferase 2093503 hisC 7128922 hisC Escherichia coli S88 histidinol-phosphate aminotransferase YP_002391816.1 2092433 D 585035 CDS YP_002391817.1 218558904 7128921 2093503..2094570 1 NC_011742.1 catalyzes the formation of 3-(imidazol-4-yl)-2-oxopropyl phosphate from D-ethythro-1-(imidazol-4-yl)glycerol 3-phosphate and histidinol from histidinol phosphate; imidazole glycerol-phosphate dehydratase/histidinol phosphatase 2094570 hisB 7128921 hisB Escherichia coli S88 imidazole glycerol-phosphate dehydratase/histidinol phosphatase YP_002391817.1 2093503 D 585035 CDS YP_002391818.1 218558905 7128920 2094570..2095160 1 NC_011742.1 with HisF IGPS catalyzes the conversion of phosphoribulosyl-formimino-5-aminoimidazole-4-carboxamide ribonucleotide phosphate and glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamide ribonucleotide, and glutamate in histidine biosynthesis; the HisH subunit provides the glutamine amidotransferase activity that produces the ammonia necessary to HisF for the synthesis of imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide ribonucleotide; imidazole glycerol phosphate synthase subunit HisH 2095160 hisH 7128920 hisH Escherichia coli S88 imidazole glycerol phosphate synthase subunit HisH YP_002391818.1 2094570 D 585035 CDS YP_002391819.1 218558906 7128925 2095160..2095897 1 NC_011742.1 catalyzes the formation of 5-(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino-l- (5-phosphoribosyl)imidazole-4-carboxamide from 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide; 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase 2095897 hisA 7128925 hisA Escherichia coli S88 1-(5-phosphoribosyl)-5-[(5- phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase YP_002391819.1 2095160 D 585035 CDS YP_002391820.1 218558907 7128919 2095879..2096655 1 NC_011742.1 catalyzes the conversion of 5-[(5-phospho-1-deoxyribulos-1-ylamino)methylideneamino]- 1-(5-phosphoribosyl)imidazole-4-carboxamideand glutamine to imidazole-glycerol phosphate, 5-aminoimidazol-4-carboxamideribonucleotide and glutamate; the HisF subunit acts as a cyclase; imidazole glycerol phosphate synthase subunit HisF 2096655 hisF 7128919 hisF Escherichia coli S88 imidazole glycerol phosphate synthase subunit HisF YP_002391820.1 2095879 D 585035 CDS YP_002391821.1 218558908 7128923 2096649..2097260 1 NC_011742.1 catalyzes the formation of 1-(5-phosphoribosyl)-AMP from 1-(5-phosphoribosyl)-ATP and the subsequent formation of 1-(5-phosphoribosyl)-5-((5- phosphoribosylamino)methylideneamino)imidazole-4- carboxamide from 1-(5-phosphoribosyl)-AMP in histidine biosynthesis; bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein 2097260 hisI 7128923 hisI Escherichia coli S88 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein YP_002391821.1 2096649 D 585035 CDS YP_002391822.1 218558909 7128926 complement(2097432..2098409) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 98241528; Product type r : regulator; regulator of length of O-antigen component of lipopolysaccharide chains 2098409 cld 7128926 cld Escherichia coli S88 regulator of length of O-antigen component of lipopolysaccharide chains YP_002391822.1 2097432 R 585035 CDS YP_002391823.1 218558910 7131927 complement(2098556..2099722) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9150218, 96326333; Product type e : enzyme; UDP-glucose 6-dehydrogenase 2099722 ugd 7131927 ugd Escherichia coli S88 UDP-glucose 6-dehydrogenase YP_002391823.1 2098556 R 585035 CDS YP_002391824.1 218558911 7130392 complement(2099971..2101377) 1 NC_011742.1 catalyzes the formation of D-ribulose 5-phosphate from 6-phospho-D-gluconate; 6-phosphogluconate dehydrogenase 2101377 gnd 7130392 gnd Escherichia coli S88 6-phosphogluconate dehydrogenase YP_002391824.1 2099971 R 585035 CDS YP_002391825.1 218558912 7130048 complement(2101558..2102424) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 12171937, 14670712; Product type e : enzyme; glucose-1-phosphate thymidylyltransferase 2102424 rmlA 7130048 rmlA Escherichia coli S88 glucose-1-phosphate thymidylyltransferase YP_002391825.1 2101558 R 585035 CDS YP_002391826.1 218558913 7132736 complement(2102569..2103099) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative O-acetyltransferase 2103099 wbvC 7132736 wbvC Escherichia coli S88 putative O-acetyltransferase YP_002391826.1 2102569 R 585035 CDS YP_002391827.1 218558914 7132490 complement(2103065..2104156) 1 NC_011742.1 Evidence 1a : Function experimentally demonstrated in the studied strain; PubMedId : 14670712; Product type e : enzyme; O-antigen polymerase 2104156 wzy 7132490 wzy Escherichia coli S88 O-antigen polymerase YP_002391827.1 2103065 R 585035 CDS YP_002391828.1 218558915 7132509 complement(2104149..2105126) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15695667; Product type pe : putative enzyme; putative glycosyl transferase 2105126 wbvB 7132509 wbvB Escherichia coli S88 putative glycosyl transferase YP_002391828.1 2104149 R 585035 CDS YP_002391829.1 218558916 7132489 complement(2105113..2106375) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15695667, 14670712; Product type pt : putative transporter; putative O antigen flippase 2106375 wzx 7132489 wzx Escherichia coli S88 putative O antigen flippase YP_002391829.1 2105113 R 585035 CDS YP_002391830.1 218558917 7132506 complement(2106362..2107360) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2107360 wbvA 7132506 wbvA Escherichia coli S88 hypothetical protein YP_002391830.1 2106362 R 585035 CDS YP_002391831.1 218558918 7132488 complement(2107362..2108177) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 14670712; Product type pe : putative enzyme; putative dTDP-6-deoxy-D-xylo-4-hexulose reductase 2108177 tll 7132488 tll Escherichia coli S88 putative dTDP-6-deoxy-D-xylo-4-hexulose reductase YP_002391831.1 2107362 R 585035 CDS YP_002391832.1 218558919 7133479 complement(2108240..2108782) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 10074083, 14670712; Product type e : enzyme; dTDP-6-deoxy-D-glucose-3,5 epimerase 2108782 rmlC 7133479 rmlC Escherichia coli S88 dTDP-6-deoxy-D-glucose-3,5 epimerase YP_002391832.1 2108240 R 585035 CDS YP_002391833.1 218558920 7132738 complement(2108854..2109936) 1 NC_011742.1 NAD(P) binding; catalyzes the formation of dTDP-4-dehydro-6-deoxy-D-glucose from dTDP-glucose; dTDP-glucose 4,6 dehydratase 2109936 rmlB 7132738 rmlB Escherichia coli S88 dTDP-glucose 4,6 dehydratase YP_002391833.1 2108854 R 585035 CDS YP_002391834.1 218558921 7132737 complement(2110308..2111201) 1 NC_011742.1 together with GalU subunit composes the UTP--glucose-1-phosphate uridylyltransferase, an enzyme that catalyzes the formation of UDP-glucose from UTP and alpha-D-glucose 1-phosphate; regulates cellular levels of UDP-glucose; UTP--glucose-1-phosphate uridylyltransferase subunit GalF 2111201 galF 7132737 galF Escherichia coli S88 UTP--glucose-1-phosphate uridylyltransferase subunit GalF YP_002391834.1 2110308 R 585035 CDS YP_002391835.1 218558922 7132171 complement(2111376..2112770) 1 NC_011742.1 WcaM from Salmonella enterica is essential for biofilm formation on HEp-2 cells and chicken intestinal tissue but not on a plastic surface; may be involved in the biosynthesis of colanic acid; putative colanic acid biosynthesis protein 2112770 wcaM 7132171 wcaM Escherichia coli S88 putative colanic acid biosynthesis protein YP_002391835.1 2111376 R 585035 CDS YP_002391836.1 218558923 7132501 complement(2112781..2114001) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96326333; Product type pe : putative enzyme; putative glycosyl transferase 2114001 wcaL 7132501 wcaL Escherichia coli S88 putative glycosyl transferase YP_002391836.1 2112781 R 585035 CDS YP_002391837.1 218558924 7132500 complement(2113998..2115278) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96326333, 8759852, 11004393; Product type pe : putative enzyme; putative pyruvyl transferase 2115278 wcaK 7132500 wcaK Escherichia coli S88 putative pyruvyl transferase YP_002391837.1 2113998 R 585035 CDS YP_002391838.1 218558925 7132499 complement(2115554..2117032) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96326333, 8759852; Product type pt : putative transporter; colanic acid exporter 2117032 wzxC 7132499 wzxC Escherichia coli S88 colanic acid exporter YP_002391838.1 2115554 R 585035 CDS YP_002391839.1 218558926 7132507 complement(2117034..2118428) 1 NC_011742.1 WcaJ; glucose-1-phosphate transferase responsible for the addition of the first glucose-1-phosphate from UDP-glucose to the lipid carrier undecaprenyl phosphate in the biosynthesis of colanic acid; putative UDP-glucose lipid carrier transferase 2118428 wcaJ 7132507 wcaJ Escherichia coli S88 putative UDP-glucose lipid carrier transferase YP_002391839.1 2117034 R 585035 CDS YP_002391840.1 218558927 7132498 complement(2118483..2119853) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93106949, 96326333, 7815923, 8759852; Product type e : enzyme; phosphomannomutase 2119853 cpsG 7132498 cpsG Escherichia coli S88 phosphomannomutase YP_002391840.1 2118483 R 585035 CDS YP_002391841.1 218558928 7131954 complement(2120046..2121482) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 82100097, 85006781, 92048476, 93122523, 96326333, 7815923, 8759852; Product type e : enzyme; mannose-1-phosphate guanyltransferase 2121482 cpsB 7131954 cpsB Escherichia coli S88 mannose-1-phosphate guanyltransferase YP_002391841.1 2120046 R 585035 CDS YP_002391842.1 218558929 7131953 complement(2121485..2122708) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15670885, 96326333; Product type pe : putative enzyme; putative glycosyl transferase 2122708 wcaI 7131953 wcaI Escherichia coli S88 putative glycosyl transferase YP_002391842.1 2121485 R 585035 CDS YP_002391843.1 218558930 7132497 complement(2122705..2123184) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96326333, 10913267, 7592609, 7815923, 8759852; Product type e : enzyme; GDP-mannose mannosyl hydrolase 2123184 nudD 7132497 nudD Escherichia coli S88 GDP-mannose mannosyl hydrolase YP_002391843.1 2122705 R 585035 CDS YP_002391844.1 218558931 7129752 complement(2123187..2124152) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96326333, 98132401, 9862812, 7815923, 8759852, 9473059; Product type e : enzyme; bifunctional GDP-fucose synthetase: GDP-4-dehydro-6-deoxy-D-mannose epimerase and GDP-4-dehydro-6-L-deoxygalactose reductase 2124152 fcl 7129752 fcl Escherichia coli S88 bifunctional GDP-fucose synthetase: GDP-4-dehydro-6-deoxy-D-mannose epimerase and GDP-4-dehydro-6-L-deoxygalactose reductase YP_002391844.1 2123187 R 585035 CDS YP_002391845.1 218558932 7129450 complement(2124155..2125276) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20139699, 97400210, 10673432, 7815923, 8759852, 9257704, 14299611; Product type e : enzyme; GDP-D-mannose dehydratase, NAD(P)-binding 2125276 gmd 7129450 gmd Escherichia coli S88 GDP-D-mannose dehydratase, NAD(P)-binding YP_002391845.1 2124155 R 585035 CDS YP_002391846.1 218558933 7130044 complement(2125303..2125851) 1 NC_011742.1 acetyltransferase believed to catalyze the addition of the acetyl group that is attached through an O linkage to the first fucosyl residue of the colanic acid repetitive unit (E unit); putative colanic acid biosynthesis acetyltransferase WcaF 2125851 wcaF 7130044 wcaF Escherichia coli S88 putative colanic acid biosynthesis acetyltransferase WcaF YP_002391846.1 2125303 R 585035 CDS YP_002391847.1 218558934 7132496 complement(2125867..2126613) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11371548, 96326333, 8759852; Product type pe : putative enzyme; putative glycosyl transferase 2126613 wcaE 7132496 wcaE Escherichia coli S88 putative glycosyl transferase YP_002391847.1 2125867 R 585035 CDS YP_002391848.1 218558935 7132495 complement(2126694..2127914) 1 NC_011742.1 essential for colanic acid biosynthesis; colanic acid is an exopolysaccharide produced under stress conditions that confers acid and heat tolerance; putative colanic acid biosynthesis protein 2127914 wcaD 7132495 wcaD Escherichia coli S88 putative colanic acid biosynthesis protein YP_002391848.1 2126694 R 585035 CDS YP_002391849.1 218558936 7132494 complement(2127889..2129106) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96326333; Product type pe : putative enzyme; putative glycosyl transferase 2129106 wcaC 7132494 wcaC Escherichia coli S88 putative glycosyl transferase YP_002391849.1 2127889 R 585035 CDS YP_002391850.1 218558937 7132493 complement(2129103..2129591) 1 NC_011742.1 acetyltransferase believed to catalyze the addition of the acetyl group that is attached through an O linkage to the first fucosyl residue of the colanic acid repetitive unit (E unit); wcaB is induced in sessile bacteria and by osmotic shock, and repressed when grown in rich medium; putative colanic acid biosynthesis acetyltransferase WcaB 2129591 wcaB 7132493 wcaB Escherichia coli S88 putative colanic acid biosynthesis acetyltransferase WcaB YP_002391850.1 2129103 R 585035 CDS YP_002391851.1 218558938 7132492 complement(2129594..2130433) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96326333; Product type pe : putative enzyme; putative glycosyl transferase 2130433 wcaA 7132492 wcaA Escherichia coli S88 putative glycosyl transferase YP_002391851.1 2129594 R 585035 CDS YP_002391852.1 218558939 7132491 complement(2130562..2132724) 1 NC_011742.1 Wzc; catalyzes the autophosphorylation on tyrosine residues which downregulates the biosynthesis of colonic acid (an extracellular polysaccharide); tyrosine kinase 2132724 wzc 7132491 wzc Escherichia coli S88 tyrosine kinase YP_002391852.1 2130562 R 585035 CDS YP_002391853.1 218558940 7132505 complement(2132727..2133170) 1 NC_011742.1 Wzb shows phosphatase activity towards the autophosphorylated Wzc protein, which induces colanic acid biosynthesis; catalyzes the phosphorylation of UDP-glucose dehydrogenase, an enzyme involved in colanic acid biosynthesis; tyrosine phosphatase 2133170 wzb 7132505 wzb Escherichia coli S88 tyrosine phosphatase YP_002391853.1 2132727 R 585035 CDS YP_002391854.1 218558941 7132504 complement(2133176..2134315) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 15090537, 96326333, 8759852, 8763957; Product type lp : lipoprotein; lipoprotein required for capsular polysaccharide translocation through the outer membrane 2134315 wza 7132504 wza Escherichia coli S88 lipoprotein required for capsular polysaccharide translocation through the outer membrane YP_002391854.1 2133176 R 585035 CDS YP_002391855.1 218558942 7132503 2134974..2136557 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; fused putative membrane protein ; putative membrane protein 2136557 yegH 7132503 yegH Escherichia coli S88 fused putative membrane protein ; putative membrane protein YP_002391855.1 2134974 D 585035 CDS YP_002391856.1 218558943 7132980 2136632..2136970 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2136970 7132980 ECS88_2161 Escherichia coli S88 hypothetical protein YP_002391856.1 2136632 D 585035 CDS YP_002391857.1 218558944 7129001 2136942..2137250 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2137250 7129001 ECS88_2162 Escherichia coli S88 hypothetical protein YP_002391857.1 2136942 D 585035 CDS YP_002391858.1 218558945 7129002 complement(2137303..2139156) 1 NC_011742.1 YegA; inner membrane protein involved in the assembly of outer membrane proteins (OMPs); asmA-null mutants show low lipopolysaccharide (LPS) levels, suggesting a role in LPS biogenesis and/or in restricting outer membrane fluidity, resulting on altered assembly of OMPs; putative assembly protein 2139156 asmA 7129002 asmA Escherichia coli S88 putative assembly protein YP_002391858.1 2137303 R 585035 CDS YP_002391859.1 218558946 7129945 complement(2139178..2139759) 1 NC_011742.1 Catalyzes the formation of dUTP from dCTP in thymidylate biosynthesis; deoxycytidine triphosphate deaminase 2139759 dcd 7129945 dcd Escherichia coli S88 deoxycytidine triphosphate deaminase YP_002391859.1 2139178 R 585035 CDS YP_002391860.1 218558947 7130570 complement(2139851..2140492) 1 NC_011742.1 functions in pyrimidine salvage; pyrimidine ribonucleoside kinase; phosphorylates nucleosides or dinucleosides to make UMP or CMP using ATP or GTP as the donor; uridine kinase 2140492 udk 7130570 udk Escherichia coli S88 uridine kinase YP_002391860.1 2139851 R 585035 CDS YP_002391861.1 218558948 7130390 2140810..2144127 1 NC_011742.1 contains a MASE1 (Membrane-Associated Sensor) domain; potentially involved in signal transduction; putative sensor protein 2144127 yegE 7130390 yegE Escherichia coli S88 putative sensor protein YP_002391861.1 2140810 D 585035 CDS YP_002391862.1 218558949 7132979 complement(2144238..2145086) 1 NC_011742.1 inducible, catalyzes the hydrolysis of alkylated DNA, releasing 3-methyladenine, 3-methylguanine, 7-methylguanine and 7-methyladenine; 3-methyl-adenine DNA glycosylase II 2145086 alkA 7132979 alkA Escherichia coli S88 3-methyl-adenine DNA glycosylase II YP_002391862.1 2144238 R 585035 CDS YP_002391863.1 218558950 7133042 2145220..2146572 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 6094528, 7940673, 7984428; Product type pf : putative factor; putative chaperone 2146572 yegD 7133042 yegD Escherichia coli S88 putative chaperone YP_002391863.1 2145220 D 585035 CDS YP_002391864.1 218558951 7132978 complement(2146585..2148534) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2148534 yegI 7132978 yegI Escherichia coli S88 hypothetical protein YP_002391864.1 2146585 R 585035 CDS YP_002391865.1 218558952 7132981 complement(2148522..2149283) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2149283 yegK 7132981 yegK Escherichia coli S88 hypothetical protein YP_002391865.1 2148522 R 585035 CDS YP_002391866.1 218558953 7132982 complement(2149280..2149939) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2149939 yegL 7132982 yegL Escherichia coli S88 hypothetical protein YP_002391866.1 2149280 R 585035 CDS YP_002391867.1 218558954 7131336 2150820..2152067 1 NC_011742.1 Part of a tripartite efflux system composed of MdtA, MdtB and MdtC which confers resistance against novobiocin and deoxycholate; multidrug efflux system subunit MdtA 2152067 mdtA 7131336 mdtA Escherichia coli S88 multidrug efflux system subunit MdtA YP_002391867.1 2150820 D 585035 CDS YP_002391868.1 218558955 7128789 2152067..2155189 1 NC_011742.1 Part of a tripartite efflux system composed of MdtA, MdtB and MdtC which confers resistance against novobiocin and deoxycholate; multidrug efflux system subunit MdtB 2155189 mdtB 7128789 mdtB Escherichia coli S88 multidrug efflux system subunit MdtB YP_002391868.1 2152067 D 585035 CDS YP_002391869.1 218558956 7128790 2155190..2158267 1 NC_011742.1 Part of a tripartite efflux system composed of MdtA, MdtB and MdtC; confers resistance against novobiocin and deoxycholate; multidrug efflux system subunit MdtC 2158267 mdtC 7128790 mdtC Escherichia coli S88 multidrug efflux system subunit MdtC YP_002391869.1 2155190 D 585035 CDS YP_002391870.1 218558957 7128791 2158268..2159683 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12107134, 21450803, 8282725; Product type t : transporter; multidrug efflux system protein MdtE 2159683 mdtD 7128791 mdtD Escherichia coli S88 multidrug efflux system protein MdtE YP_002391870.1 2158268 D 585035 CDS YP_002391871.1 218558958 7128792 2159680..2161083 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94110256, 8282725; Product type r : regulator; signal transduction histidine-protein kinase BaeS 2161083 baeS 7128792 baeS Escherichia coli S88 signal transduction histidine-protein kinase BaeS YP_002391871.1 2159680 D 585035 CDS YP_002391872.1 218558959 7129986 2161080..2161802 1 NC_011742.1 response regulator in two-component regulatory system with BaeS; regulator of RNA synthesis, flagellar biosynthesis, chemotaxis and transport; DNA-binding transcriptional regulator BaeR 2161802 baeR 7129986 baeR Escherichia coli S88 DNA-binding transcriptional regulator BaeR YP_002391872.1 2161080 D 585035 CDS YP_002391873.1 218558960 7129985 2161982..2162314 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2162314 yegP 7129985 yegP Escherichia coli S88 hypothetical protein YP_002391873.1 2161982 D 585035 CDS YP_002391874.1 218558961 7132984 complement(2162439..2163053) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 2163053 7132984 ECS88_2180 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002391874.1 2162439 R 585035 CDS YP_002391875.1 218558962 7129003 complement(2163105..2165252) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2165252 7129003 ECS88_2181 Escherichia coli S88 hypothetical protein YP_002391875.1 2163105 R 585035 CDS YP_002391876.1 218558963 7129004 complement(2165224..2165940) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2165940 7129004 ECS88_2182 Escherichia coli S88 hypothetical protein YP_002391876.1 2165224 R 585035 CDS YP_002391877.1 218558964 7129005 complement(2165940..2167154) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2167154 7129005 ECS88_2183 Escherichia coli S88 hypothetical protein YP_002391877.1 2165940 R 585035 CDS YP_002391878.1 218558965 7129006 2167642..2169003 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative peptidase 2169003 yegQ 7129006 yegQ Escherichia coli S88 putative peptidase YP_002391878.1 2167642 D 585035 CDS YP_002391879.1 218558966 7131337 complement(2169276..2169494) 1 NC_011742.1 in E. coli K-12 this is in prophage P2 remnant; DNA-binding transcriptional regulator 2169494 ogrK 7131337 ogrK Escherichia coli S88 DNA-binding transcriptional regulator YP_002391879.1 2169276 R 585035 CDS YP_002391880.1 218558967 7133121 complement(2169576..2170739) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 3458177; Product type h : extrachromosomal origin; Phage late control gene D protein (GpD) 2170739 GpD 7133121 GpD Escherichia coli S88 Phage late control gene D protein (GpD) YP_002391880.1 2169576 R 585035 CDS YP_002391881.1 218558968 7130058 complement(2170739..2171218) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12426340; Product type h : extrachromosomal origin; tail assembly protein (GpU) 2171218 GpU 7130058 GpU Escherichia coli S88 tail assembly protein (GpU) YP_002391881.1 2170739 R 585035 CDS YP_002391882.1 218558969 7130067 complement(2171233..2173680) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; tail fiber protein T (tape measure) (GpT) 2173680 GpT 7130067 GpT Escherichia coli S88 tail fiber protein T (tape measure) (GpT) YP_002391882.1 2171233 R 585035 CDS YP_002391883.1 218558970 7130066 complement(2173825..2174100) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; tail protein E (GpE) 2174100 GpE 7130066 GpE Escherichia coli S88 tail protein E (GpE) YP_002391883.1 2173825 R 585035 CDS YP_002391884.1 218558971 7130059 complement(2174157..2174675) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major tail tube protein (Protein FII) 2174675 7130059 ECS88_2190 Escherichia coli S88 Major tail tube protein (Protein FII) YP_002391884.1 2174157 R 585035 CDS YP_002391885.1 218558972 7129007 complement(2174688..2175878) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major tail sheath protein (Protein FI) 2175878 7129007 ECS88_2191 Escherichia coli S88 Major tail sheath protein (Protein FI) YP_002391885.1 2174688 R 585035 CDS YP_002391886.1 218558973 7129008 2176197..2176586 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin; putative membrane protein 2176586 7129008 ECS88_2192 Escherichia coli S88 conserved hypothetical protein from phage origin; putative membrane protein YP_002391886.1 2176197 D 585035 CDS YP_002391887.1 218558974 7129009 complement(2176609..2177295) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; site-specific recombinase, phage integrase family 2177295 7129009 ECS88_2193 Escherichia coli S88 site-specific recombinase, phage integrase family YP_002391887.1 2176609 R 585035 CDS YP_002391888.1 218558975 7129010 complement(2177300..2178142) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 2178142 7129010 ECS88_2194 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391888.1 2177300 R 585035 CDS YP_002391889.1 218558976 7129011 complement(2178564..2179091) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage tail fiber assembly protein (GpG) 2179091 7129011 ECS88_2195 Escherichia coli S88 putative phage tail fiber assembly protein (GpG) YP_002391889.1 2178564 R 585035 CDS YP_002391890.1 218558977 7129012 complement(2179095..2181830) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9495752; Product type h : extrachromosomal origin; putative phage tail fiber protein H (GpH) 2181830 7129012 ECS88_2196 Escherichia coli S88 putative phage tail fiber protein H (GpH) YP_002391890.1 2179095 R 585035 CDS YP_002391891.1 218558978 7129013 complement(2181841..2182371) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail protein I (GpI) 2182371 7129013 ECS88_2197 Escherichia coli S88 Tail protein I (GpI) YP_002391891.1 2181841 R 585035 CDS YP_002391892.1 218558979 7129014 complement(2182364..2183272) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Baseplate assembly protein J (GpJ) 2183272 7129014 ECS88_2198 Escherichia coli S88 Baseplate assembly protein J (GpJ) YP_002391892.1 2182364 R 585035 CDS YP_002391893.1 218558980 7129015 complement(2183277..2183624) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Baseplate assembly protein W (GpW) 2183624 7129015 ECS88_2199 Escherichia coli S88 Baseplate assembly protein W (GpW) YP_002391893.1 2183277 R 585035 CDS YP_002391894.1 218558981 7129016 complement(2183621..2184292) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Baseplate assembly protein V (GpV) 2184292 7129016 ECS88_2200 Escherichia coli S88 Baseplate assembly protein V (GpV) YP_002391894.1 2183621 R 585035 CDS YP_002391895.1 218558982 7129017 2184381..2185481 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein from phage origin 2185481 7129017 ECS88_2201 Escherichia coli S88 hypothetical protein from phage origin YP_002391895.1 2184381 D 585035 CDS YP_002391896.1 218558983 7129018 complement(2185562..2186014) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail completion protein S (GpS) 2186014 7129018 ECS88_2202 Escherichia coli S88 Tail completion protein S (GpS) YP_002391896.1 2185562 R 585035 CDS YP_002391897.1 218558984 7129019 complement(2186007..2186474) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail completion protein R (GpR) 2186474 7129019 ECS88_2203 Escherichia coli S88 Tail completion protein R (GpR) YP_002391897.1 2186007 R 585035 CDS YP_002391898.1 218558985 7129020 complement(2186437..2186844) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative host lysis related protein from prophage 2186844 7129020 ECS88_2204 Escherichia coli S88 putative host lysis related protein from prophage YP_002391898.1 2186437 R 585035 CDS YP_002391899.1 218558986 7129021 complement(2186582..2187007) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative Protein lysB from bacteriophage P2 2187007 7129021 ECS88_2205 Escherichia coli S88 putative Protein lysB from bacteriophage P2 YP_002391899.1 2186582 R 585035 CDS YP_002391900.1 218558987 7129022 complement(2186995..2187420) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative protein lysA from Bacteriophage P2 2187420 7129022 ECS88_2206 Escherichia coli S88 putative protein lysA from Bacteriophage P2 YP_002391900.1 2186995 R 585035 CDS YP_002391901.1 218558988 7129023 complement(2187435..2187932) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative Lysozyme (Lysis protein) (Muramidase) (Endolysin) (Protein gpK) 2187932 7129023 ECS88_2207 Escherichia coli S88 putative Lysozyme (Lysis protein) (Muramidase) (Endolysin) (Protein gpK) YP_002391901.1 2187435 R 585035 CDS YP_002391902.1 218558989 7129024 complement(2187932..2188213) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage lysis protein Y, holin 2188213 7129024 ECS88_2208 Escherichia coli S88 putative phage lysis protein Y, holin YP_002391902.1 2187932 R 585035 CDS YP_002391903.1 218558990 7129025 complement(2188217..2188489) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail protein X (GpX) 2188489 7129025 ECS88_2209 Escherichia coli S88 Tail protein X (GpX) YP_002391903.1 2188217 R 585035 CDS YP_002391904.1 218558991 7129026 complement(2188420..2188989) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head completion/stabilization protein (GpL) 2188989 7129026 ECS88_2210 Escherichia coli S88 Head completion/stabilization protein (GpL) YP_002391904.1 2188420 R 585035 CDS YP_002391905.1 218558992 7129027 complement(2189029..2189772) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Terminase, endonuclease subunit (GpM) 2189772 7129027 ECS88_2211 Escherichia coli S88 Terminase, endonuclease subunit (GpM) YP_002391905.1 2189029 R 585035 CDS YP_002391906.1 218558993 7133390 2190633..2192174 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF1, IS21 family 2192174 7133390 ECS88_2213 Escherichia coli S88 transposase ORF1, IS21 family YP_002391906.1 2190633 D 585035 CDS YP_002391907.1 218558994 7133391 2192186..2192935 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF2, IS21 family 2192935 7133391 ECS88_2214 Escherichia coli S88 transposase ORF2, IS21 family YP_002391907.1 2192186 D 585035 CDS YP_002391908.1 218558995 7133393 complement(2193494..2194414) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative capsid scaffolding protein (GpO) from prophage P2 2194414 7133393 ECS88_2216 Escherichia coli S88 putative capsid scaffolding protein (GpO) from prophage P2 YP_002391908.1 2193494 R 585035 CDS YP_002391909.1 218558996 7133394 2194492..2196294 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Terminase, ATPase subunit (GpP) 2196294 7133394 ECS88_2217 Escherichia coli S88 Terminase, ATPase subunit (GpP) YP_002391909.1 2194492 D 585035 CDS YP_002391910.1 218558997 7133395 2196294..2197328 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative portal vertex protein (GpQ) 2197328 7133395 ECS88_2218 Escherichia coli S88 putative portal vertex protein (GpQ) YP_002391910.1 2196294 D 585035 CDS YP_002391911.1 218558998 7133396 complement(2197668..2199602) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 2199602 7133396 ECS88_2219 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002391911.1 2197668 R 585035 CDS YP_002391912.1 218558999 7133397 complement(2199617..2201941) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Replication gene A protein (GpA) 2201941 7133397 ECS88_2220 Escherichia coli S88 Replication gene A protein (GpA) YP_002391912.1 2199617 R 585035 CDS YP_002391913.1 218559000 7133398 complement(2201889..2202164) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8510152; hypothetical protein 2202164 7133398 ECS88_2221 Escherichia coli S88 hypothetical protein YP_002391913.1 2201889 R 585035 CDS YP_002391914.1 218559001 7133399 complement(2202161..2202385) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8510152; hypothetical protein 2202385 7133399 ECS88_2222 Escherichia coli S88 hypothetical protein YP_002391914.1 2202161 R 585035 CDS YP_002391915.1 218559002 7133400 complement(2202687..2202944) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8510152; hypothetical protein 2202944 7133400 ECS88_2223 Escherichia coli S88 hypothetical protein YP_002391915.1 2202687 R 585035 CDS YP_002391916.1 218559003 7133401 complement(2202975..2203475) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Replication gene B protein (GpB) 2203475 7133401 ECS88_2224 Escherichia coli S88 Replication gene B protein (GpB) YP_002391916.1 2202975 R 585035 CDS YP_002391917.1 218559004 7133402 complement(2203472..2203666) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 2826134; hypothetical protein 2203666 7133402 ECS88_2225 Escherichia coli S88 hypothetical protein YP_002391917.1 2203472 R 585035 CDS YP_002391918.1 218559005 7133403 complement(2203653..2203928) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2826134; Product type h : extrachromosomal origin; regulatory protein 2203928 cox 7133403 cox Escherichia coli S88 regulatory protein YP_002391918.1 2203653 R 585035 CDS YP_002391919.1 218559006 7131950 2204043..2204342 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 3475531; Product type h : extrachromosomal origin; repressor protein C 2204342 7131950 ECS88_2227 Escherichia coli S88 repressor protein C YP_002391919.1 2204043 D 585035 CDS YP_002391920.1 218559007 7133406 complement(2205902..2206219) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2206219 yegR 7133406 yegR Escherichia coli S88 hypothetical protein YP_002391920.1 2205902 R 585035 CDS YP_002391921.1 218559008 7132986 2206635..2207534 1 NC_011742.1 cytosolic protein with phosphatidylglycerol kinase activity; undetermined physiological role; lipid kinase 2207534 yegS 7132986 yegS Escherichia coli S88 lipid kinase YP_002391921.1 2206635 D 585035 CDS YP_002391922.1 218559009 7132987 complement(2207616..2208395) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 7772602; Product type r : regulator; Galactitol utilization operon repressor 2208395 gatR 7132987 gatR Escherichia coli S88 Galactitol utilization operon repressor YP_002391922.1 2207616 R 585035 CDS YP_002391923.1 218559010 7132190 complement(2208495..2209535) 1 NC_011742.1 Zn-dependent; NAD(P)-binding; catalyzes the formation of tagatose-6-phosphate from galactitol-1-phosphate; galactitol-1-phosphate dehydrogenase 2209535 gatD 7132190 gatD Escherichia coli S88 galactitol-1-phosphate dehydrogenase YP_002391923.1 2208495 R 585035 CDS YP_002391924.1 218559011 7132189 complement(2209583..2210938) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 76024805, 77192083, 97113438, 7772602; Product type t : transporter; galactitol-specific enzyme IIC component of PTS 2210938 gatC 7132189 gatC Escherichia coli S88 galactitol-specific enzyme IIC component of PTS YP_002391924.1 2209583 R 585035 CDS YP_002391925.1 218559012 7132188 complement(2210942..2211226) 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system galactitol-specific transporter subunit IIB 2211226 gatB 7132188 gatB Escherichia coli S88 PTS system galactitol-specific transporter subunit IIB YP_002391925.1 2210942 R 585035 CDS YP_002391926.1 218559013 7132187 complement(2211257..2211709) 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system galactitol-specific transporter subunit IIA 2211709 gatA 7132187 gatA Escherichia coli S88 PTS system galactitol-specific transporter subunit IIA YP_002391926.1 2211257 R 585035 CDS YP_002391927.1 218559014 7132186 complement(2211719..2212981) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11976750, 97113438, 7772602, 8932697; Product type e : enzyme; D-tagatose 1,6-bisphosphate aldolase 2, subunit 2212981 gatZ 7132186 gatZ Escherichia coli S88 D-tagatose 1,6-bisphosphate aldolase 2, subunit YP_002391927.1 2211719 R 585035 CDS YP_002391928.1 218559015 7132192 complement(2213010..2213864) 1 NC_011742.1 catalyzes the reversible reaction of dihydroxyacetone phosphate with glyceraldehyde 3-phosphate to produce tagatose 1,6-bisphosphate; in enteric bacteria there are two D-tagatose 1,6-bisphosphate-specific aldolases: KbaY (also called AgaY), involved in catabolism of N-acetyl-galactosamine and D-galactosamine, and GatY which is part of the galactitol catabolism pathway; tagatose-bisphosphate aldolase 2213864 gatY 7132192 gatY Escherichia coli S88 tagatose-bisphosphate aldolase YP_002391928.1 2213010 R 585035 CDS YP_002391929.1 218559016 7132191 complement(2214093..2215145) 1 NC_011742.1 catalyzes the formation of glycerone phosphate and D-glyceraldehyde 3-phosphate from D-fructose 1,6-bisphosphate; fructose-bisphosphate aldolase 2215145 fbaB 7132191 fbaB Escherichia coli S88 fructose-bisphosphate aldolase YP_002391929.1 2214093 R 585035 CDS YP_002391930.1 218559017 7129448 2215402..2216679 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative hydrophilic substrate transporter; MFS superfamily 2216679 yegT 7129448 yegT Escherichia coli S88 putative hydrophilic substrate transporter; MFS superfamily YP_002391930.1 2215402 D 585035 CDS YP_002391931.1 218559018 7132988 2216676..2217680 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative (phospho)hydrolase 2217680 yegU 7132988 yegU Escherichia coli S88 putative (phospho)hydrolase YP_002391931.1 2216676 D 585035 CDS YP_002391932.1 218559019 7132989 2217677..2218642 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative kinase 2218642 yegV 7132989 yegV Escherichia coli S88 putative kinase YP_002391932.1 2217677 D 585035 CDS YP_002391933.1 218559020 7132990 complement(2218616..2219362) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2219362 yegW 7132990 yegW Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391933.1 2218616 R 585035 CDS YP_002391934.1 218559021 7132991 complement(2219414..2220232) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane-bound hydrolase 2220232 yegX 7132991 yegX Escherichia coli S88 putative membrane-bound hydrolase YP_002391934.1 2219414 R 585035 CDS YP_002391935.1 218559022 7132992 complement(2220297..2221097) 1 NC_011742.1 catalyzes the formation of 4-amino-2-methyl-5-diphosphomethylpyrimidine; phosphomethylpyrimidine kinase 2221097 thiD 7132992 thiD Escherichia coli S88 phosphomethylpyrimidine kinase YP_002391935.1 2220297 R 585035 CDS YP_002391936.1 218559023 7131292 complement(2221094..2221882) 1 NC_011742.1 catalyzes the formation of 4-methyl-5-(2-phosphoethyl)-thiazole and ADP from 4-methyl-5-(2-hydroxyethyl)-thiazole and ATP; hydroxyethylthiazole kinase 2221882 thiM 7131292 thiM Escherichia coli S88 hydroxyethylthiazole kinase YP_002391936.1 2221094 R 585035 CDS YP_002391937.1 218559024 7129859 complement(2222105..2222377) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2222377 yohL 7129859 yohL Escherichia coli S88 hypothetical protein YP_002391937.1 2222105 R 585035 CDS YP_002391938.1 218559025 7133651 2222498..2223322 1 NC_011742.1 membrane protein conferring nickel and cobalt resistance; nickel/cobalt efflux protein RcnA 2223322 rncA 7133651 rncA Escherichia coli S88 nickel/cobalt efflux protein RcnA YP_002391938.1 2222498 D 585035 CDS YP_002391939.1 218559026 7132744 2223361..2223879 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2223879 yohN 7132744 yohN Escherichia coli S88 hypothetical protein YP_002391939.1 2223361 D 585035 CDS YP_002391940.1 218559027 7133652 complement(2223961..2224995) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative exported fimbrial-like adhesin protein 2224995 yehA 7133652 yehA Escherichia coli S88 putative exported fimbrial-like adhesin protein YP_002391940.1 2223961 R 585035 CDS YP_002391941.1 218559028 7132993 complement(2225011..2227491) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative outer membrane protein 2227491 yehB 7132993 yehB Escherichia coli S88 conserved hypothetical protein; putative outer membrane protein YP_002391941.1 2225011 R 585035 CDS YP_002391942.1 218559029 7132994 complement(2227507..2228181) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative membrane-associated pilin chaperone 2228181 yehC 7132994 yehC Escherichia coli S88 putative membrane-associated pilin chaperone YP_002391942.1 2227507 R 585035 CDS YP_002391943.1 218559030 7132995 complement(2228262..2228804) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial-like adhesin protein 2228804 yehD 7132995 yehD Escherichia coli S88 putative fimbrial-like adhesin protein YP_002391943.1 2228262 R 585035 CDS YP_002391944.1 218559031 7132996 complement(2229098..2229379) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2229379 yehE 7132996 yehE Escherichia coli S88 hypothetical protein YP_002391944.1 2229098 R 585035 CDS YP_002391945.1 218559032 7132997 complement(2229642..2230751) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91080852, 15601724, 2259334; Product type t : transporter; putative ATPase 2230751 mrp 7132997 mrp Escherichia coli S88 putative ATPase YP_002391945.1 2229642 R 585035 CDS YP_002391946.1 218559033 7129612 2230883..2232916 1 NC_011742.1 methionine--tRNA ligase; MetRS; adds methionine to tRNA(Met) with cleavage of ATP to AMP and diphosphate; some MetRS enzymes form dimers depending on a C-terminal domain that is also found in other proteins such as Trbp111 in Aquifex aeolicus and the cold-shock protein CsaA from Bacillus subtilis while others do not; four subfamilies exist based on sequence motifs and zinc content; methionyl-tRNA synthetase 2232916 metG 7129612 metG Escherichia coli S88 methionyl-tRNA synthetase YP_002391946.1 2230883 D 585035 CDS YP_002391947.1 218559034 7128815 2233057..2236845 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2156810; Product type pr : putative regulator; putative Molybdate metabolism regulator (molR) 2236845 7128815 ECS88_2257 Escherichia coli S88 putative Molybdate metabolism regulator (molR) YP_002391947.1 2233057 D 585035 CDS YP_002391948.1 218559035 7133407 2236855..2240487 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2240487 yehI 7133407 yehI Escherichia coli S88 hypothetical protein YP_002391948.1 2236855 D 585035 CDS YP_002391949.1 218559036 7132998 2240570..2240740 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2240740 7132998 ECS88_2260 Escherichia coli S88 hypothetical protein YP_002391949.1 2240570 D 585035 CDS YP_002391950.1 218559037 7133408 2241644..2242732 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16428726; Product type pf : putative factor; putative ABC superfamily protein 2242732 yehL 7133408 yehL Escherichia coli S88 putative ABC superfamily protein YP_002391950.1 2241644 D 585035 CDS YP_002391951.1 218559038 7132999 2242739..2245015 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2245015 yehM 7132999 yehM Escherichia coli S88 hypothetical protein YP_002391951.1 2242739 D 585035 CDS YP_002391952.1 218559039 7133000 2245008..2246144 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2246144 yehP 7133000 yehP Escherichia coli S88 hypothetical protein YP_002391952.1 2245008 D 585035 CDS YP_002391953.1 218559040 7133001 2246141..2248144 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2248144 yehQ 7133001 yehQ Escherichia coli S88 hypothetical protein YP_002391953.1 2246141 D 585035 CDS YP_002391954.1 218559041 7133002 2248269..2248730 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type lp : lipoprotein; hypothetical protein 2248730 yehR 7133002 yehR Escherichia coli S88 hypothetical protein YP_002391954.1 2248269 D 585035 CDS YP_002391955.1 218559042 7133003 complement(2248771..2249241) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2249241 yehS 7133003 yehS Escherichia coli S88 hypothetical protein YP_002391955.1 2248771 R 585035 CDS YP_002391956.1 218559043 7133004 complement(2249288..2250007) 1 NC_011742.1 unknown function; when overproduced it confers drug-resistance; putative two-component response-regulatory protein YehT 2250007 yehT 7133004 yehT Escherichia coli S88 putative two-component response-regulatory protein YehT YP_002391956.1 2249288 R 585035 CDS YP_002391957.1 218559044 7133005 complement(2250004..2251689) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15522865, 15322361; Product type rc : receptor; sensory kinase in two-component system with YehT 2251689 yehU 7133005 yehU Escherichia coli S88 sensory kinase in two-component system with YehT YP_002391957.1 2250004 R 585035 CDS YP_002391958.1 218559045 7133006 2251911..2252642 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11489123; Product type r : regulator; DNA-binding transcriptional regulator 2252642 mlrA 7133006 mlrA Escherichia coli S88 DNA-binding transcriptional regulator YP_002391958.1 2251911 D 585035 CDS YP_002391959.1 218559046 7128841 2252702..2252809 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2252809 yohO 7128841 yohO Escherichia coli S88 hypothetical protein YP_002391959.1 2252702 D 585035 CDS YP_002391960.1 218559047 7133653 complement(2252790..2253521) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter subunit: permease component of ABC superfamily transporter 2253521 yehW 7133653 yehW Escherichia coli S88 putative transporter subunit: permease component of ABC superfamily transporter YP_002391960.1 2252790 R 585035 CDS YP_002391961.1 218559048 7133007 complement(2253526..2254452) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter subunit: ATP-binding component of ABC superfamily transporter 2254452 yehX 7133007 yehX Escherichia coli S88 putative transporter subunit: ATP-binding component of ABC superfamily transporter YP_002391961.1 2253526 R 585035 CDS YP_002391962.1 218559049 7133008 complement(2254445..2255602) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter subunit: permease component of ABC superfamily 2255602 yehY 7133008 yehY Escherichia coli S88 putative transporter subunit: permease component of ABC superfamily YP_002391962.1 2254445 R 585035 CDS YP_002391963.1 218559050 7133009 complement(2255609..2256526) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15251200; Product type pt : putative transporter; putative transporter subunit: periplasmic-binding component of ABC superfamily 2256526 yehZ 7133009 yehZ Escherichia coli S88 putative transporter subunit: periplasmic-binding component of ABC superfamily YP_002391963.1 2255609 R 585035 CDS YP_002391964.1 218559051 7133010 complement(2256716..2259013) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96303506; Product type e : enzyme; beta-D-glucoside glucohydrolase, periplasmic 2259013 bglX 7133010 bglX Escherichia coli S88 beta-D-glucoside glucohydrolase, periplasmic YP_002391964.1 2256716 R 585035 CDS YP_002391965.1 218559052 7129119 2259209..2260924 1 NC_011742.1 component of the membrane-bound D-lactate oxidase, FAD-binding, NADH independent; D-lactate dehydrogenase 2260924 dld 7129119 dld Escherichia coli S88 D-lactate dehydrogenase YP_002391965.1 2259209 D 585035 CDS YP_002391966.1 218559053 7130215 complement(2260963..2261895) 1 NC_011742.1 specifically hydrolyze the DD-diaminopimelate-alanine bonds in high-molecular-mass murein sacculi; Penicillin-binding protein 7; D-alanyl-D-alanine endopeptidase 2261895 pbpG 7130215 pbpG Escherichia coli S88 D-alanyl-D-alanine endopeptidase YP_002391966.1 2260963 R 585035 CDS YP_002391967.1 218559054 7133176 complement(2262069..2262656) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2262656 yohC 7133176 yohC Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391967.1 2262069 R 585035 CDS YP_002391968.1 218559055 7133645 2262826..2263404 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2263404 yohD 7133645 yohD Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391968.1 2262826 D 585035 CDS YP_002391969.1 218559056 7133646 complement(2263524..2264285) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; acetoin dehydrogenase 2264285 yohF 7133646 yohF Escherichia coli S88 acetoin dehydrogenase YP_002391969.1 2263524 R 585035 CDS YP_002391970.1 218559057 7133647 complement(2264338..2265426) 1 NC_011742.1 may be involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride; multidrug resistance outer membrane protein MdtQ 2265426 yohG 7133647 yohG Escherichia coli S88 multidrug resistance outer membrane protein MdtQ YP_002391970.1 2264338 R 585035 CDS YP_002391971.1 218559058 7133648 complement(2266468..2267418) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 22095566; Product type e : enzyme; tRNA-dihydrouridine synthase C 2267418 dusC 7133648 dusC Escherichia coli S88 tRNA-dihydrouridine synthase C YP_002391971.1 2266468 R 585035 CDS YP_002391972.1 218559059 7132367 2267657..2268055 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2268055 yohJ 7132367 yohJ Escherichia coli S88 hypothetical protein YP_002391972.1 2267657 D 585035 CDS YP_002391973.1 218559060 7133649 2268052..2268747 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2268747 yohK 7133649 yohK Escherichia coli S88 hypothetical protein YP_002391973.1 2268052 D 585035 CDS YP_002391974.1 218559061 7133650 2268877..2269761 1 NC_011742.1 Reclaims exogenous and endogenous cytidine and 2'-deoxycytidine molecules for UMP synthesis; cytidine deaminase 2269761 cdd 7133650 cdd Escherichia coli S88 cytidine deaminase YP_002391974.1 2268877 D 585035 CDS YP_002391975.1 218559062 7129176 2269911..2270630 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 96125233, 1567863, 8550448; hypothetical protein 2270630 sanA 7129176 sanA Escherichia coli S88 hypothetical protein YP_002391975.1 2269911 D 585035 CDS YP_002391976.1 218559063 7131357 2270633..2270872 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2270872 yeiS 7131357 yeiS Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391976.1 2270633 D 585035 CDS YP_002391977.1 218559064 7129764 2271066..2272304 1 NC_011742.1 function undetermined; similar to glutamate synthase beta subunit and related oxidoreductases which transfer electrons from NADPH to an acceptor protein or protein domain; putative oxidoreductase 2272304 yeiT 7129764 yeiT Escherichia coli S88 putative oxidoreductase YP_002391977.1 2271066 D 585035 CDS YP_002391978.1 218559065 7129765 2272298..2273533 1 NC_011742.1 catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines; dihydropyrimidine dehydrogenase 2273533 yeiA 7129765 yeiA Escherichia coli S88 dihydropyrimidine dehydrogenase YP_002391978.1 2272298 D 585035 CDS YP_002391979.1 218559066 7133011 complement(2273776..2274786) 1 NC_011742.1 ABC transporter; functions in galactose transport; part of MglA2C2B transporter complex; beta-methylgalactoside transporter inner membrane component 2274786 mglC 7133011 mglC Escherichia coli S88 beta-methylgalactoside transporter inner membrane component YP_002391979.1 2273776 R 585035 CDS YP_002391980.1 218559067 7128828 complement(2274802..2276322) 1 NC_011742.1 with MglBC transports galactose or methyl galactoside into the cell; contains 2 ATP binding domains; galactose/methyl galaxtoside transporter ATP-binding protein 2276322 mglA 7128828 mglA Escherichia coli S88 galactose/methyl galaxtoside transporter ATP-binding protein YP_002391980.1 2274802 R 585035 CDS YP_002391981.1 218559068 7128826 complement(2276383..2277381) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87286407, 92049246, 1719366, 3057628, 3302609, 3600760, 6340108, 6885805, 7012152, 9298646; Product type t : transporter; methyl-galactoside transporter subunit ; periplasmic-binding component of ABC superfamily 2277381 mglB 7128826 mglB Escherichia coli S88 methyl-galactoside transporter subunit ; periplasmic-binding component of ABC superfamily YP_002391981.1 2276383 R 585035 CDS YP_002391982.1 218559069 7128827 complement(2277661..2278701) 1 NC_011742.1 negative regulator of the mglBAC operon for galactose utilization; DNA-binding transcriptional regulator GalS 2278701 galS 7128827 galS Escherichia coli S88 DNA-binding transcriptional regulator GalS YP_002391982.1 2277661 R 585035 CDS YP_002391983.1 218559070 7132176 2278691..2278894 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2278894 7132176 ECS88_2298 Escherichia coli S88 hypothetical protein YP_002391983.1 2278691 D 585035 CDS YP_002391984.1 218559071 7133409 complement(2278843..2280000) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2280000 yeiB 7133409 yeiB Escherichia coli S88 hypothetical protein YP_002391984.1 2278843 R 585035 CDS YP_002391985.1 218559072 7133012 complement(2280017..2280685) 1 NC_011742.1 involved in the first step of tetrahydrofolate biosynthesis; catalyzes the formation of formate and 2-amino-4-hydroxy-6-(erythro-1,2, 3-trihydroxypropyl)dihydropteridine triphosphate from GTP and water; forms a homopolymer; GTP cyclohydrolase I 2280685 folE 7133012 folE Escherichia coli S88 GTP cyclohydrolase I YP_002391985.1 2280017 R 585035 CDS YP_002391986.1 218559073 7132817 2280839..2281015 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2281015 7132817 ECS88_2301 Escherichia coli S88 hypothetical protein YP_002391986.1 2280839 D 585035 CDS YP_002391987.1 218559074 7133410 2280943..2281779 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16567800; Product type e : enzyme; S-formylglutathione hydrolase 2281779 frmC 7133410 frmC Escherichia coli S88 S-formylglutathione hydrolase YP_002391987.1 2280943 D 585035 CDS YP_002391988.1 218559075 7132831 complement(2281811..2283802) 1 NC_011742.1 Cir; FeuA; CirA; receptor protein for siderophores (colicin IA, IB and V) and microcins (E492, H47, and M); TonB-dependent; able to transport monomers, dimer, and linear trimers of 2,3-dihydorxybenzoylserine; outer membrane protein; colicin I receptor 2283802 cirA 7132831 cirA Escherichia coli S88 colicin I receptor YP_002391988.1 2281811 R 585035 CDS YP_002391989.1 218559076 7131915 complement(2284094..2285563) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92250419, 94252996, 1315732, 7551055; Product type t : transporter; lysine transporter 2285563 lysP 7131915 lysP Escherichia coli S88 lysine transporter YP_002391989.1 2284094 R 585035 CDS YP_002391990.1 218559077 7129395 complement(2285547..2285855) 1 NC_011742.1 hypothetical protein 2285855 7129395 ECS88_2305 Escherichia coli S88 hypothetical protein YP_002391990.1 2285547 R 585035 CDS YP_002391991.1 218559078 7133411 complement(2285768..2286649) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12400704, 1315732; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2286649 yeiE 7133411 yeiE Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002391991.1 2285768 R 585035 CDS YP_002391992.1 218559079 7133014 2286748..2287797 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2287797 yeiH 7133014 yeiH Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002391992.1 2286748 D 585035 CDS YP_002391993.1 218559080 7133015 2287871..2288728 1 NC_011742.1 Assists in DNA repair by cleaving phosphodiester bonds at apurinic or apyrimidinic sties to produce new 5' ends that are base-free deoxyribose 5-phosphate residues; endonuclease IV 2288728 nfo 7133015 nfo Escherichia coli S88 endonuclease IV YP_002391993.1 2287871 D 585035 CDS YP_002391994.1 218559081 7129702 2288732..2289820 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 2289820 yeiI 7129702 yeiI Escherichia coli S88 hypothetical protein YP_002391994.1 2288732 D 585035 CDS YP_002391995.1 218559082 7133016 complement(2290088..2291029) 1 NC_011742.1 Hydrolyzes cytidine or uridine to ribose and cytosine or uracil, respectively; ribonucleoside hydrolase 2 2291029 rihB 7133016 rihB Escherichia coli S88 ribonucleoside hydrolase 2 YP_002391995.1 2290088 R 585035 CDS YP_002391996.1 218559083 7132721 2291198..2291857 1 NC_011742.1 activator of nucleoside metabolism; DNA-binding transcriptional activator YeiL 2291857 yeiL 7132721 yeiL Escherichia coli S88 DNA-binding transcriptional activator YeiL YP_002391996.1 2291198 D 585035 CDS YP_002391997.1 218559084 7133017 complement(2291924..2293174) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sodium/proton nucleoside transporter 2293174 yeiM 7133017 yeiM Escherichia coli S88 putative sodium/proton nucleoside transporter YP_002391997.1 2291924 R 585035 CDS YP_002391998.1 218559085 7133018 complement(2293268..2294206) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2294206 yeiN 7133018 yeiN Escherichia coli S88 hypothetical protein YP_002391998.1 2293268 R 585035 CDS YP_002391999.1 218559086 7133019 complement(2294194..2295249) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 2295249 yeiC 7133019 yeiC Escherichia coli S88 hypothetical protein YP_002391999.1 2294194 R 585035 CDS YP_002392000.1 218559087 7133013 complement(2295591..2297282) 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system fructose-specific transporter subunits IIBC 2297282 fruA 7133013 fruA Escherichia coli S88 PTS system fructose-specific transporter subunits IIBC YP_002392000.1 2295591 R 585035 CDS YP_002392001.1 218559088 7132835 complement(2297299..2298237) 1 NC_011742.1 converts fructose-1-phosphate and ATP to fructose-1,6-bisphosphate and ADP; highly specific for fructose-1-phopshate; similar to PfkB; forms homodimers; 1-phosphofructokinase 2298237 fruK 7132835 fruK Escherichia coli S88 1-phosphofructokinase YP_002392001.1 2297299 R 585035 CDS YP_002392002.1 218559089 7132837 complement(2298237..2299367) 1 NC_011742.1 phosphoenolpyruvate (PEP)-dependent, sugar transporting phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIA is phosphorylated by phospho-HP which then transfers the phosphoryl group to the IIB componentr; bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein 2299367 fruB 7132837 fruB Escherichia coli S88 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein YP_002392002.1 2298237 R 585035 CDS YP_002392003.1 218559090 7132836 2299734..2300915 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10438463, 10209755; Product type t : transporter; lactose/glucose efflux system 2300915 setB 7132836 setB Escherichia coli S88 lactose/glucose efflux system YP_002392003.1 2299734 D 585035 CDS YP_002392004.1 218559091 7130583 complement(2300912..2301298) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2301298 7130583 ECS88_2319 Escherichia coli S88 hypothetical protein YP_002392004.1 2300912 R 585035 CDS YP_002392005.1 218559092 7133412 2301066..2301893 1 NC_011742.1 Stimulates the peptidyltransferase activity of the 70S ribosome and enhances dipeptide synthesis with N-formylmethionyl-tRNA and puromycin in vitro, suggesting its involvement in the formation of the first peptide bond of a protein; elongation factor P 2301893 7133412 ECS88_2320 Escherichia coli S88 elongation factor P YP_002392005.1 2301066 D 585035 CDS YP_002392006.1 218559093 7133413 2302116..2303582 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative sugar dehydrogenase, NAD-dependent 2303582 yeiQ 7133413 yeiQ Escherichia coli S88 putative sugar dehydrogenase, NAD-dependent YP_002392006.1 2302116 D 585035 CDS YP_002392007.1 218559094 7133020 2303700..2304686 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative enzyme 2304686 yeiR 7133020 yeiR Escherichia coli S88 putative enzyme YP_002392007.1 2303700 D 585035 CDS YP_002392008.1 218559095 7130493 2304725..2305438 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15778224; Product type e : enzyme; undecaprenyl pyrophosphate phosphatase 2305438 yeiU 7130493 yeiU Escherichia coli S88 undecaprenyl pyrophosphate phosphatase YP_002392008.1 2304725 D 585035 CDS YP_002392009.1 218559096 7129766 2305850..2306416 1 NC_011742.1 by similarity, Spr seems to have peptidase activity; involved in thermoresistance; putative outer membrane lipoprotein 2306416 spr 7129766 spr Escherichia coli S88 putative outer membrane lipoprotein YP_002392009.1 2305850 D 585035 CDS YP_002392010.1 218559097 7130634 2306597..2308153 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2308153 rtn 7130634 rtn Escherichia coli S88 hypothetical protein YP_002392010.1 2306597 D 585035 CDS YP_002392011.1 218559098 7133021 2308235..2310049 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative oligopeptide transporter subunit ; periplasmic-binding component of ABC superfamily transporter 2310049 yejA 7133021 yejA Escherichia coli S88 putative oligopeptide transporter subunit ; periplasmic-binding component of ABC superfamily transporter YP_002392011.1 2308235 D 585035 CDS YP_002392012.1 218559099 7129767 2310050..2311144 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative oligopeptide transporter subunit; permease component of ABC superfamily 2311144 yejB 7129767 yejB Escherichia coli S88 putative oligopeptide transporter subunit; permease component of ABC superfamily YP_002392012.1 2310050 D 585035 CDS YP_002392013.1 218559100 7129768 2311144..2312169 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative oligopeptide transporter subunit ; permease component of ABC superfamily transporter 2312169 yejE 7129768 yejE Escherichia coli S88 putative oligopeptide transporter subunit ; permease component of ABC superfamily transporter YP_002392013.1 2311144 D 585035 CDS YP_002392014.1 218559101 7129769 2312171..2313760 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative fused oligopeptide transporter subunits of ABC superfamily: ATP-binding components 2313760 yejF 7129769 yejF Escherichia coli S88 putative fused oligopeptide transporter subunits of ABC superfamily: ATP-binding components YP_002392014.1 2312171 D 585035 CDS YP_002392015.1 218559102 7129770 complement(2313764..2314108) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2314108 yejG 7129770 yejG Escherichia coli S88 hypothetical protein YP_002392015.1 2313764 R 585035 CDS YP_002392016.1 218559103 7129771 complement(2314442..2315632) 1 NC_011742.1 Involved in sulfonamide (sulfathiazole) and bicyclomycin resistance; bicyclomycin/multidrug efflux system 2315632 bcr 7129771 bcr Escherichia coli S88 bicyclomycin/multidrug efflux system YP_002392016.1 2314442 R 585035 CDS YP_002392017.1 218559104 7129992 complement(2315660..2316355) 1 NC_011742.1 catalyzes the synthesis pseudouridine from uracil-516 in 16S ribosomal RNA; 16S rRNA pseudouridylate synthase A 2316355 rsuA 7129992 rsuA Escherichia coli S88 16S rRNA pseudouridylate synthase A YP_002392017.1 2315660 R 585035 CDS YP_002392018.1 218559105 7133823 2316505..2318265 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative nucleic acid ATP-dependent helicase 2318265 yejH 7133823 yejH Escherichia coli S88 putative nucleic acid ATP-dependent helicase YP_002392018.1 2316505 D 585035 CDS YP_002392019.1 218559106 7129772 2318390..2318674 1 NC_011742.1 the Ctc family of proteins consists of two types, one that contains the N-terminal ribosomal protein L25 domain only which in Escherichia coli binds the 5S rRNA while a subset of proteins contain a C-terminal extension that is involved in the stress response; 50S ribosomal protein L25 2318674 rplY 7129772 rplY Escherichia coli S88 50S ribosomal protein L25 YP_002392019.1 2318390 D 585035 CDS YP_002392020.1 218559107 7133764 complement(2318813..2319820) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 99296598, 10368163; Product type f : factor; nucleoid-associated protein NdpA 2319820 yejK 7133764 yejK Escherichia coli S88 nucleoid-associated protein NdpA YP_002392020.1 2318813 R 585035 CDS YP_002392021.1 218559108 7129773 2320002..2320229 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2320229 yejL 7129773 yejL Escherichia coli S88 hypothetical protein YP_002392021.1 2320002 D 585035 CDS YP_002392022.1 218559109 7129774 2320249..2322009 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase, inner membrane-associated 2322009 yejM 7129774 yejM Escherichia coli S88 putative hydrolase, inner membrane-associated YP_002392022.1 2320249 D 585035 CDS YP_002392023.1 218559110 7133414 2323379..2324026 1 NC_011742.1 nitrate/nitrite response regulator NarP; NarP is phosphorylated by NarX and NarQ and can activate fdnG and nitrite or nitrate reductase systems; represses expression of other anaerobic genes; transcriptional regulator NarP 2324026 narP 7133414 narP Escherichia coli S88 transcriptional regulator NarP YP_002392023.1 2323379 D 585035 CDS YP_002392024.1 218559111 7129682 complement(2324061..2325113) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10339610, 11756453, 12196152, 87260957, 91194558, 95362656, 9914305, 7635817; Product type pe : putative enzyme; heme lyase, CcmH subunit 2325113 ccmH 7129682 ccmH Escherichia coli S88 heme lyase, CcmH subunit YP_002392024.1 2324061 R 585035 CDS YP_002392025.1 218559112 7129174 complement(2325110..2325667) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10339610, 12196152, 9716493, 9770295, 11256948, 11350062, 11843181, 7635817, 9537397; Product type e : enzyme; periplasmic thioredoxin of cytochrome c-type biogenesis 2325667 ccmG 7129174 ccmG Escherichia coli S88 periplasmic thioredoxin of cytochrome c-type biogenesis YP_002392025.1 2325110 R 585035 CDS YP_002392026.1 218559113 7129173 complement(2325664..2327607) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10339610, 11756453, 12196152, 87260957, 8842153, 91194558, 95362656, 9716493, 7635817; Product type e : enzyme; heme lyase, CcmF subunit 2327607 ccmF 7129173 ccmF Escherichia coli S88 heme lyase, CcmF subunit YP_002392026.1 2325664 R 585035 CDS YP_002392027.1 218559114 7129172 complement(2327604..2328083) 1 NC_011742.1 CycJ; periplasmic heme chaperone that binds heme transiently via a histidine residue and delivers it to newly synthesized and exported c-type cytochromes; requires the ATP hydrolysis activity of the CcmA protein in order to transfer the heme to the apocytochrome; part of the cytochrome c maturation system; periplasmic protein anchored to the inner membrane; cytochrome c-type biogenesis protein CcmE 2328083 ccmE 7129172 ccmE Escherichia coli S88 cytochrome c-type biogenesis protein CcmE YP_002392027.1 2327604 R 585035 CDS YP_002392028.1 218559115 7129171 complement(2328080..2328289) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10339610, 12196152, 95362656, 9716493, 7635817; Product type f : factor; cytochrome c biogenesis protein 2328289 ccmD 7129171 ccmD Escherichia coli S88 cytochrome c biogenesis protein YP_002392028.1 2328080 R 585035 CDS YP_002392029.1 218559116 7129170 complement(2328286..2329023) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10339610, 12196152, 14532274, 21413853, 95362656, 7635817; Product type t : transporter; heme exporter subunit ; membrane component of ABC superfamily 2329023 ccmC 7129170 ccmC Escherichia coli S88 heme exporter subunit ; membrane component of ABC superfamily YP_002392029.1 2328286 R 585035 CDS YP_002392030.1 218559117 7129169 complement(2329065..2329727) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10339610, 12196152, 95362656, 9716493, 7635817; Product type t : transporter; heme exporter subunit ; membrane component of ABC superfamily 2329727 ccmB 7129169 ccmB Escherichia coli S88 heme exporter subunit ; membrane component of ABC superfamily YP_002392030.1 2329065 R 585035 CDS YP_002392031.1 218559118 7129168 complement(2329724..2330347) 1 NC_011742.1 ATP-binding protein; required for proper cytochrome c maturation; cytochrome c biogenesis protein CcmA 2330347 ccmA 7129168 ccmA Escherichia coli S88 cytochrome c biogenesis protein CcmA YP_002392031.1 2329724 R 585035 CDS YP_002392032.1 218559119 7129167 complement(2330360..2330962) 1 NC_011742.1 with NapABDFGH functions as a nitrate reductase; NapC functions as an electron shuttle between NapAB and NapGH or quinone; cytochrome c-type protein NapC 2330962 napC 7129167 napC Escherichia coli S88 cytochrome c-type protein NapC YP_002392032.1 2330360 R 585035 CDS YP_002392033.1 218559120 7129669 complement(2330972..2331421) 1 NC_011742.1 small subunit of periplasmic nitrate reductase; receives electrons from the membrane-bound NapC and passes them to NapA; citrate reductase cytochrome c-type subunit 2331421 napB 7129669 napB Escherichia coli S88 citrate reductase cytochrome c-type subunit YP_002392033.1 2330972 R 585035 CDS YP_002392034.1 218559121 7129668 complement(2331418..2332281) 1 NC_011742.1 part of NapHG quinol dehydrogenase; couples electron transfer from ubiquinone-ubiquinol couple via NapC/B to NapA; quinol dehydrogenase membrane component 2332281 napH 7129668 napH Escherichia coli S88 quinol dehydrogenase membrane component YP_002392034.1 2331418 R 585035 CDS YP_002392035.1 218559122 7129673 complement(2332268..2332963) 1 NC_011742.1 part of NapHG quinol dehydrogenase; couples electron transfer from ubiquinone-ubiquinol couple via NapC/B to NapA; secreted by twin arginine translocation pathway; quinol dehydrogenase periplasmic component 2332963 napG 7129673 napG Escherichia coli S88 quinol dehydrogenase periplasmic component YP_002392035.1 2332268 R 585035 CDS YP_002392036.1 218559123 7129672 complement(2332970..2335456) 1 NC_011742.1 periplasmic; catalytic subunit; with NapBC catalyzes the reduction of nitrate to nitrite; NapAB receives electrons from NapC; nitrate reductase catalytic subunit 2335456 napA 7129672 napA Escherichia coli S88 nitrate reductase catalytic subunit YP_002392036.1 2332970 R 585035 CDS YP_002392037.1 218559124 7129667 complement(2335453..2335716) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96228696, 99395037; Product type f : factor; assembly protein for periplasmic nitrate reductase 2335716 napD 7129667 napD Escherichia coli S88 assembly protein for periplasmic nitrate reductase YP_002392037.1 2335453 R 585035 CDS YP_002392038.1 218559125 7129670 complement(2335706..2336200) 1 NC_011742.1 Predicted role in electron transfer to the periplasmic nitrate reductase protein NapA.; ferredoxin-type protein 2336200 napF 7129670 napF Escherichia coli S88 ferredoxin-type protein YP_002392038.1 2335706 R 585035 CDS YP_002392039.1 218559126 7129671 2336300..2336473 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2336473 7129671 ECS88_2356 Escherichia coli S88 hypothetical protein YP_002392039.1 2336300 D 585035 CDS YP_002392040.1 218559127 7133415 2336608..2337096 1 NC_011742.1 serine protease inhibitor, inhibits trypsin and other proteases; ecotin 2337096 eco 7133415 eco Escherichia coli S88 ecotin YP_002392040.1 2336608 D 585035 CDS YP_002392041.1 218559128 7132378 complement(2337246..2338892) 1 NC_011742.1 malate dehydrogenase; catalyzes the oxidation of malate to oxaloacetate; malate:quinone oxidoreductase 2338892 mqo 7132378 mqo Escherichia coli S88 malate:quinone oxidoreductase YP_002392041.1 2337246 R 585035 CDS YP_002392042.1 218559129 7129601 complement(2339110..2340753) 1 NC_011742.1 efflux pump for the antibacterial peptide microcin J25; multidrug transporter membrane component/ATP-binding component 2340753 yojI 7129601 yojI Escherichia coli S88 multidrug transporter membrane component/ATP-binding component YP_002392042.1 2339110 R 585035 CDS YP_002392043.1 218559130 7133654 complement(2340829..2341479) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12226668, 12517444, 12862460, 14527653, 87057220, 88151899, 92017669, 3536913, 3887409, 7928996; Product type e : enzyme; oxidative demethylase of N1-methyladenine or N3-methylcytosine DNA lesions 2341479 alkB 7133654 alkB Escherichia coli S88 oxidative demethylase of N1-methyladenine or N3-methylcytosine DNA lesions YP_002392043.1 2340829 R 585035 CDS YP_002392044.1 218559131 7133043 complement(2341479..2342543) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91073391, 93272965, 94252990; Product type r : regulator; fused DNA-binding transcriptional dual regulator ; O6-methylguanine-DNA methyltransferase 2342543 ada 7133043 ada Escherichia coli S88 fused DNA-binding transcriptional dual regulator ; O6-methylguanine-DNA methyltransferase YP_002392044.1 2341479 R 585035 CDS YP_002392045.1 218559132 7132050 complement(2342617..2343672) 1 NC_011742.1 catalyzes the conversion of aminoimidazole ribotide to the 4-amino-5-hydroxymethyl-2-methyl pyrimidine moiety of thiamine; involved in the maintenance and/or assembly of sulfur clusters; periplasmic lipoporotein anchored to the inner membrane; part of the thiamine pyrophosphate biosynthesis pathway; thiamine biosynthesis lipoprotein ApbE 2343672 yojL 7132050 yojL Escherichia coli S88 thiamine biosynthesis lipoprotein ApbE YP_002392045.1 2342617 R 585035 CDS YP_002392046.1 218559133 7133655 complement(2343784..2344875) 1 NC_011742.1 allows for ions and hydrophilic solutes to cross the outer membrane; outer membrane porin protein C 2344875 ompC 7133655 ompC Escherichia coli S88 outer membrane porin protein C YP_002392046.1 2343784 R 585035 CDS YP_002392047.1 218559134 7128835 2345614..2348286 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11758943, 12864862, 21206231, 2404948, 7984428; Product type r : regulator; phosphotransfer intermediate protein in two-component regulatory system with RcsBC 2348286 rcsD 7128835 rcsD Escherichia coli S88 phosphotransfer intermediate protein in two-component regulatory system with RcsBC YP_002392047.1 2345614 D 585035 CDS YP_002392048.1 218559135 7131797 2348303..2348953 1 NC_011742.1 two-component response regulator RscB regulates the genes involved in capsule biosynthesis and cell division; probably phosphorylated by RcsC or RcsF; transcriptional regulator RcsB 2348953 rcsB 7131797 rcsB Escherichia coli S88 transcriptional regulator RcsB YP_002392048.1 2348303 D 585035 CDS YP_002392049.1 218559136 7131795 complement(2349153..2351954) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11758943, 12864862, 14651646, 20032358, 21450811, 88227838, 90130299, 92048476, 9209051, 2404948, 8366025; Product type r : regulator; hybrid sensory kinase in two-component regulatory system with RcsB and YojN 2351954 rcsC 7131795 rcsC Escherichia coli S88 hybrid sensory kinase in two-component regulatory system with RcsB and YojN YP_002392049.1 2349153 R 585035 CDS YP_002392050.1 218559137 7131796 2352169..2353995 1 NC_011742.1 with AtoC is a member of a two-component regulatory system involved in the transcriptional regulation of the ato genes for acetoacetate metabolism; sensory histidine kinase AtoS 2353995 atoS 7131796 atoS Escherichia coli S88 sensory histidine kinase AtoS YP_002392050.1 2352169 D 585035 CDS YP_002392051.1 218559138 7129965 2353992..2355377 1 NC_011742.1 with AtoS is a two-component regulatory system involved in the transcriptional regulation of the ato genes for acetoacetate metabolism; acetoacetate metabolism regulatory protein AtoC 2355377 atoC 7129965 atoC Escherichia coli S88 acetoacetate metabolism regulatory protein AtoC YP_002392051.1 2353992 D 585035 CDS YP_002392052.1 218559139 7129962 2355573..2356235 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 73032600, 87083402; Product type c : carrier; acetyl-CoA:acetoacetyl-CoA transferase subunit alpha 2356235 atoD 7129962 atoD Escherichia coli S88 acetyl-CoA:acetoacetyl-CoA transferase subunit alpha YP_002392052.1 2355573 D 585035 CDS YP_002392053.1 218559140 7129963 2356235..2356885 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 73032600, 87083402; Product type c : carrier; acetyl-CoA:acetoacetyl-CoA transferase, beta subunit 2356885 atoA 7129963 atoA Escherichia coli S88 acetyl-CoA:acetoacetyl-CoA transferase, beta subunit YP_002392053.1 2356235 D 585035 CDS YP_002392054.1 218559141 7129960 2356882..2358204 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 73032600, 87083402; Product type t : transporter; short chain fatty acid transporter 2358204 atoE 7129960 atoE Escherichia coli S88 short chain fatty acid transporter YP_002392054.1 2356882 D 585035 CDS YP_002392055.1 218559142 7129964 2358235..2359419 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 73032600, 87083402; Product type c : carrier; acetyl-CoA acetyltransferase 2359419 atoB 7129964 atoB Escherichia coli S88 acetyl-CoA acetyltransferase YP_002392055.1 2358235 D 585035 CDS YP_002392056.1 218559143 7129961 complement(2359493..2360269) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2360269 yfaP 7129961 yfaP Escherichia coli S88 hypothetical protein YP_002392056.1 2359493 R 585035 CDS YP_002392057.1 218559144 7129781 complement(2360274..2361923) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2361923 yfaQ 7129781 yfaQ Escherichia coli S88 hypothetical protein YP_002392057.1 2360274 R 585035 CDS YP_002392058.1 218559145 7129782 complement(2361924..2366543) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative large extracellular alpha-helical protein 2366543 7129782 ECS88_2376 Escherichia coli S88 putative large extracellular alpha-helical protein YP_002392058.1 2361924 R 585035 CDS YP_002392059.1 218559146 7133416 complement(2366462..2367085) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2367085 yfaT 7133416 yfaT Escherichia coli S88 hypothetical protein YP_002392059.1 2366462 R 585035 CDS YP_002392060.1 218559147 7129783 complement(2367082..2368770) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2368770 yfaA 7129783 yfaA Escherichia coli S88 hypothetical protein YP_002392060.1 2367082 R 585035 CDS YP_002392061.1 218559148 7129776 complement(2368919..2371546) 1 NC_011742.1 negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit A 2371546 gyrA 7129776 gyrA Escherichia coli S88 DNA gyrase subunit A YP_002392061.1 2368919 R 585035 CDS YP_002392062.1 218559149 7128883 2371693..2372415 1 NC_011742.1 Involved in ubiquinone biosynthesis; 3-demethylubiquinone-9 3-methyltransferase 2372415 ubiG 7128883 ubiG Escherichia coli S88 3-demethylubiquinone-9 3-methyltransferase YP_002392062.1 2371693 D 585035 CDS YP_002392063.1 218559150 7130386 complement(2372555..2376319) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15659678; Product type f : factor; adhesin 2376319 yfaL 7130386 yfaL Escherichia coli S88 adhesin YP_002392063.1 2372555 R 585035 CDS YP_002392064.1 218559151 7129779 2376995..2379280 1 NC_011742.1 Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit alpha 2379280 nrdA 7129779 nrdA Escherichia coli S88 ribonucleotide-diphosphate reductase subunit alpha YP_002392064.1 2376995 D 585035 CDS YP_002392065.1 218559152 7129732 2379427..2380557 1 NC_011742.1 B2 or R2 protein; type 1a enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdA; ribonucleotide-diphosphate reductase subunit beta 2380557 nrdB 7129732 nrdB Escherichia coli S88 ribonucleotide-diphosphate reductase subunit beta YP_002392065.1 2379427 D 585035 CDS YP_002392066.1 218559153 7129733 2380557..2380811 1 NC_011742.1 plays a role in maintenance and possibly the biosynthesis of diferric-tyrosyl radical cofactor, essential for nucleotide reduction catalyzed by ribonucleotide reductases; 2Fe-2S ferredoxin YfaE 2380811 yfaE 7129733 yfaE Escherichia coli S88 2Fe-2S ferredoxin YfaE YP_002392066.1 2380557 D 585035 CDS YP_002392067.1 218559154 7129778 complement(2380865..2381515) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 92165728, 1537798, 6087316; hypothetical protein 2381515 inaA 7129778 inaA Escherichia coli S88 hypothetical protein YP_002392067.1 2380865 R 585035 CDS YP_002392068.1 218559155 7131632 complement(2381718..2382794) 1 NC_011742.1 hydrolyzes deacylated phospholipids to glycerol 3-phosphate and the corresponding alcohols; periplasmic; glycerophosphodiester phosphodiesterase 2382794 glpQ 7131632 glpQ Escherichia coli S88 glycerophosphodiester phosphodiesterase YP_002392068.1 2381718 R 585035 CDS YP_002392069.1 218559156 7130025 complement(2382799..2384157) 1 NC_011742.1 catalyzes the uptake of glycerol-3-phosphate into the cell with the simultaneous export of inorganic phosphate from the cell; sn-glycerol-3-phosphate transporter 2384157 glpT 7130025 glpT Escherichia coli S88 sn-glycerol-3-phosphate transporter YP_002392069.1 2382799 R 585035 CDS YP_002392070.1 218559157 7130027 2384430..2386058 1 NC_011742.1 anaerobic, catalyzes the conversion of glycerol 3-phosphate to dihydroxyacetone using fumarate or nitrate as electron acceptor; sn-glycerol-3-phosphate dehydrogenase subunit A 2386058 glpA 7130027 glpA Escherichia coli S88 sn-glycerol-3-phosphate dehydrogenase subunit A YP_002392070.1 2384430 D 585035 CDS YP_002392071.1 218559158 7130017 2386048..2387307 1 NC_011742.1 sn-glycerol-3-phosphate dehydrogenase (anaerobic); catalyzes the formation of dihydroxyacetone from glycerol 3-phosphate; part of GlpABC complex; presumably this subunit is responsible for membrane interactions and contains iron-sulfur clusters; anaerobic glycerol-3-phosphate dehydrogenase subunit B 2387307 glpB 7130017 glpB Escherichia coli S88 anaerobic glycerol-3-phosphate dehydrogenase subunit B YP_002392071.1 2386048 D 585035 CDS YP_002392072.1 218559159 7130018 2387304..2388494 1 NC_011742.1 anaerobic; with GlpAB catalyzes the conversion of glycerol-3-phosphate to dihydroxyacetone phosphate; sn-glycerol-3-phosphate dehydrogenase subunit C 2388494 glpC 7130018 glpC Escherichia coli S88 sn-glycerol-3-phosphate dehydrogenase subunit C YP_002392072.1 2387304 D 585035 CDS YP_002392073.1 218559160 7130019 2388687..2389646 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2389646 yfaD 7130019 yfaD Escherichia coli S88 hypothetical protein YP_002392073.1 2388687 D 585035 CDS YP_002392074.1 218559161 7129777 2389659..2389844 1 NC_011742.1 Evidence 7 : Gene remnant; Conserved hypothetical protein, putative transposase (fragment) 2389844 ypaA 7129777 ypaA Escherichia coli S88 Conserved hypothetical protein, putative transposase (fragment) YP_002392074.1 2389659 D 585035 CDS YP_002392075.1 218559162 7133656 complement(2389885..2390688) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12454498, 16511168, 8550403; Product type pe : putative enzyme; putative aldolase 2390688 yfaU 7133656 yfaU Escherichia coli S88 putative aldolase YP_002392075.1 2389885 R 585035 CDS YP_002392076.1 218559163 7129786 complement(2392052..2393269) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative epimerase/enolase/dehydratase 2393269 yfaW 7129786 yfaW Escherichia coli S88 putative epimerase/enolase/dehydratase YP_002392076.1 2392052 R 585035 CDS YP_002392077.1 218559164 7129787 complement(2393272..2394054) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2394054 yfaX 7129787 yfaX Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392077.1 2393272 R 585035 CDS YP_002392078.1 218559165 7129788 complement(2394274..2395476) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; competence damage-inducible protein A 2395476 yfaY 7129788 yfaY Escherichia coli S88 competence damage-inducible protein A YP_002392078.1 2394274 R 585035 CDS YP_002392079.1 218559166 7129789 complement(2395576..2396118) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative outer membrane porin protein 2396118 yfaZ 7129789 yfaZ Escherichia coli S88 putative outer membrane porin protein YP_002392079.1 2395576 R 585035 CDS YP_002392080.1 218559167 7129790 2396397..2396822 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16430214; Product type pe : putative enzyme; putative NUDIX hydrolase 2396822 yfaO 7129790 yfaO Escherichia coli S88 putative NUDIX hydrolase YP_002392080.1 2396397 D 585035 CDS YP_002392081.1 218559168 7129780 complement(2396861..2397463) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2397463 ais 7129780 ais Escherichia coli S88 hypothetical protein YP_002392081.1 2396861 R 585035 CDS YP_002392082.1 218559169 7133038 2397753..2398910 1 NC_011742.1 catalyzes the conversion of UDP-4-keto-arabinose to UDP-4-amino-4-deoxy-L-arabinose; UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate aminotransferase 2398910 yfbE 7133038 yfbE Escherichia coli S88 UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate aminotransferase YP_002392082.1 2397753 D 585035 CDS YP_002392083.1 218559170 7129792 2398914..2399882 1 NC_011742.1 catalyzes the transfer of 4-deoxy-4-formamido-L-arabinose from UDP to undecaprenyl phosphate; undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase 2399882 yfbF 7129792 yfbF Escherichia coli S88 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase YP_002392083.1 2398914 D 585035 CDS YP_002392084.1 218559171 7129793 2399882..2401864 1 NC_011742.1 Bifunctional polymyxin resistance arnA protein; catalyzes the decarboxylation of UDP-glucuronic acid to UDP-4-keto-arabinose and the addition of a formyl group to UDP-4-amino-4-deoxy-L-arabinose to form UDP-L-4-formamido-arabinose; active in certain mutant strains; bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase 2401864 yfbG 7129793 yfbG Escherichia coli S88 bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-L-arabinose formyltransferase YP_002392084.1 2399882 D 585035 CDS YP_002392085.1 218559172 7129794 2401861..2402751 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2402751 yfbH 7129794 yfbH Escherichia coli S88 hypothetical protein YP_002392085.1 2401861 D 585035 CDS YP_002392086.1 218559173 7129795 2402751..2404403 1 NC_011742.1 catalyzes the addition of 4-amino-4-deoxy-L-arabinose to lipid A; 4-amino-4-deoxy-L-arabinose transferase 2404403 arnT 7129795 arnT Escherichia coli S88 4-amino-4-deoxy-L-arabinose transferase YP_002392086.1 2402751 D 585035 CDS YP_002392087.1 218559174 7133104 2404400..2404735 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; inner membrane protein 2404735 yfbW 7133104 yfbW Escherichia coli S88 conserved hypothetical protein; inner membrane protein YP_002392087.1 2404400 D 585035 CDS YP_002392088.1 218559175 7129806 2404453..2405121 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2405121 yfbJ 7129806 yfbJ Escherichia coli S88 hypothetical protein YP_002392088.1 2404453 D 585035 CDS YP_002392089.1 218559176 7129796 complement(2405115..2405381) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96015440, 15569938; Product type pt : putative transporter; polymyxin resistance protein B 2405381 pmrD 7129796 pmrD Escherichia coli S88 polymyxin resistance protein B YP_002392089.1 2405115 R 585035 CDS YP_002392090.1 218559177 7133745 complement(2405491..2406846) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96186953, 8626063; Product type e : enzyme; O-succinylbenzoic acid--CoA ligase 2406846 menE 7133745 menE Escherichia coli S88 O-succinylbenzoic acid--CoA ligase YP_002392090.1 2405491 R 585035 CDS YP_002392091.1 218559178 7128807 complement(2406843..2407805) 1 NC_011742.1 catalyzes the dehydration of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylic acid to form O-succinylbenzoate; O-succinylbenzoate synthase 2407805 menC 7128807 menC Escherichia coli S88 O-succinylbenzoate synthase YP_002392091.1 2406843 R 585035 CDS YP_002392092.1 218559179 7128805 complement(2407805..2408662) 1 NC_011742.1 catalyzes the formation of 1,4-dihydroxy-2-naphthoate from O-succinylbenzoyl-CoA; naphthoate synthase 2408662 menB 7128805 menB Escherichia coli S88 naphthoate synthase YP_002392092.1 2407805 R 585035 CDS YP_002392093.1 218559180 7128804 complement(2408677..2409435) 1 NC_011742.1 catalyzes the hydrolysis of the thioester bond in palmitoyl-CoA; acyl-CoA thioester hydrolase YfbB 2409435 yfbB 7128804 yfbB Escherichia coli S88 acyl-CoA thioester hydrolase YfbB YP_002392093.1 2408677 R 585035 CDS YP_002392094.1 218559181 7129791 complement(2409432..2411102) 1 NC_011742.1 SEPHCHC synthase; forms 5-enolpyruvoyl-6-hydroxy-2-succinyl-cyclohex-3-ene-1- carboxylate from 2-oxoglutarate and isochorismate in menaquinone biosynthesis; 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate synthase 2411102 menD 7129791 menD Escherichia coli S88 2-succinyl-5-enolpyruvyl-6-hydroxy-3- cyclohexene-1-carboxylate synthase YP_002392094.1 2409432 R 585035 CDS YP_002392095.1 218559182 7128806 complement(2411191..2412486) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9150206, 96140724, 2666397, 7984428, 8549818, 8764478; Product type e : enzyme; isochorismate synthase 2 2412486 menF 7128806 menF Escherichia coli S88 isochorismate synthase 2 YP_002392095.1 2411191 R 585035 CDS YP_002392096.1 218559183 7128808 complement(2412565..2412870) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2412870 elaB 7128808 elaB Escherichia coli S88 hypothetical protein YP_002392096.1 2412565 R 585035 CDS YP_002392097.1 218559184 7132388 complement(2412925..2413386) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 2413386 elaA 7132388 elaA Escherichia coli S88 hypothetical protein YP_002392097.1 2412925 R 585035 CDS YP_002392098.1 218559185 7132387 2413451..2414368 1 NC_011742.1 member of metallo-beta-lactamase family; the purified enzyme from Escherichia coli forms dimeric zinc phosphodiesterase; in Bacillus subtilis this protein is a 3'-tRNA processing endoribonuclease and is essential while in Escherichia coli it is not; associates with two zinc ions; ribonuclease Z 2414368 elaC 7132387 elaC Escherichia coli S88 ribonuclease Z YP_002392098.1 2413451 D 585035 CDS YP_002392099.1 218559186 7132389 complement(2414489..2416231) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2416231 yfbK 7132389 yfbK Escherichia coli S88 hypothetical protein YP_002392099.1 2414489 R 585035 CDS YP_002392100.1 218559187 7129797 2416369..2417340 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane-associated peptidase 2417340 yfbL 7129797 yfbL Escherichia coli S88 putative membrane-associated peptidase YP_002392100.1 2416369 D 585035 CDS YP_002392101.1 218559188 7129798 2417443..2417946 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2417946 yfbM 7129798 yfbM Escherichia coli S88 hypothetical protein YP_002392101.1 2417443 D 585035 CDS YP_002392102.1 218559189 7129799 complement(2418013..2419290) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit N 2419290 nuoN 7129799 nuoN Escherichia coli S88 NADH dehydrogenase subunit N YP_002392102.1 2418013 R 585035 CDS YP_002392103.1 218559190 7133113 complement(2419477..2421006) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit M 2421006 nuoM 7133113 nuoM Escherichia coli S88 NADH dehydrogenase subunit M YP_002392103.1 2419477 R 585035 CDS YP_002392104.1 218559191 7133112 complement(2421170..2423011) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to ubiquinone; NADH dehydrogenase subunit L 2423011 nuoL 7133112 nuoL Escherichia coli S88 NADH dehydrogenase subunit L YP_002392104.1 2421170 R 585035 CDS YP_002392105.1 218559192 7133111 complement(2423008..2423310) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit K 2423310 nuoK 7133111 nuoK Escherichia coli S88 NADH dehydrogenase subunit K YP_002392105.1 2423008 R 585035 CDS YP_002392106.1 218559193 7133110 complement(2423307..2423861) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit J 2423861 nuoJ 7133110 nuoJ Escherichia coli S88 NADH dehydrogenase subunit J YP_002392106.1 2423307 R 585035 CDS YP_002392107.1 218559194 7133109 complement(2423873..2424415) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit I 2424415 nuoI 7133109 nuoI Escherichia coli S88 NADH dehydrogenase subunit I YP_002392107.1 2423873 R 585035 CDS YP_002392108.1 218559195 7133108 complement(2424430..2425407) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit H 2425407 nuoH 7133108 nuoH Escherichia coli S88 NADH dehydrogenase subunit H YP_002392108.1 2424430 R 585035 CDS YP_002392109.1 218559196 7133107 complement(2425404..2428136) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit G 2428136 nuoG 7133107 nuoG Escherichia coli S88 NADH dehydrogenase subunit G YP_002392109.1 2425404 R 585035 CDS YP_002392110.1 218559197 7129109 complement(2428183..2429520) 1 NC_011742.1 shuttles electrons from NADH, via FMN and iron-sulfur (Fe-S) centers, to quinones in the respiratory chain; NuoF is part of the soluble NADH dehydrogenase fragment, which represents the electron input part of NADH dehydrogenase; NADH dehydrogenase I subunit F 2429520 nuoF 7129109 nuoF Escherichia coli S88 NADH dehydrogenase I subunit F YP_002392110.1 2428183 R 585035 CDS YP_002392111.1 218559198 7129761 complement(2429517..2430017) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit E 2430017 nuoE 7129761 nuoE Escherichia coli S88 NADH dehydrogenase subunit E YP_002392111.1 2429517 R 585035 CDS YP_002392112.1 218559199 7129760 complement(2430020..2431822) 1 NC_011742.1 NuoCD; NDH-1 shuttles electrons from NADH, via FMN and iron-sulfur (Fe-S) centers, to quinones in the respiratory chain; subunits NuoCD, E, F, and G constitute the peripheral sector of the complex; in Escherichia coli this gene encodes a fusion protein of NuoC and NuoD that are found separate in other organisms; bifunctional NADH:ubiquinone oxidoreductase subunit C/D 2431822 nuoC 7129760 nuoC Escherichia coli S88 bifunctional NADH:ubiquinone oxidoreductase subunit C/D YP_002392112.1 2430020 R 585035 CDS YP_002392113.1 218559200 7129759 complement(2431916..2432578) 1 NC_011742.1 The point of entry for the majority of electrons that traverse the respiratory chain eventually resulting in the reduction of oxygen; NADH dehydrogenase subunit B 2432578 nuoB 7129759 nuoB Escherichia coli S88 NADH dehydrogenase subunit B YP_002392113.1 2431916 R 585035 CDS YP_002392114.1 218559201 7129758 complement(2432594..2433037) 1 NC_011742.1 Catalyzes the transfer of electrons from NADH to quinone; NADH dehydrogenase subunit A 2433037 nuoA 7129758 nuoA Escherichia coli S88 NADH dehydrogenase subunit A YP_002392114.1 2432594 R 585035 CDS YP_002392115.1 218559202 7129757 complement(2433666..2434604) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12123461, 9882671, 7565112; Product type r : regulator; DNA-binding transcriptional repressor of flagellar, motility and chemotaxis genes 2434604 lrhA 7129757 lrhA Escherichia coli S88 DNA-binding transcriptional repressor of flagellar, motility and chemotaxis genes YP_002392115.1 2433666 R 585035 CDS YP_002392116.1 218559203 7129388 2435524..2436741 1 NC_011742.1 broad specificity; family IV; in Corynebacterium glutamicum this protein can use glutamate, 2-aminobutyrate, and aspartate as amino donors and pyruvate as the acceptor; aminotransferase AlaT 2436741 yfbQ 7129388 yfbQ Escherichia coli S88 aminotransferase AlaT YP_002392116.1 2435524 D 585035 CDS YP_002392117.1 218559204 7129800 2436825..2437424 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15489502; Product type e : enzyme; hypothetical protein 2437424 yfbR 7129800 yfbR Escherichia coli S88 hypothetical protein YP_002392117.1 2436825 D 585035 CDS YP_002392118.1 218559205 7129801 complement(2437483..2439315) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 2439315 yfbS 7129801 yfbS Escherichia coli S88 putative transporter YP_002392118.1 2437483 R 585035 CDS YP_002392119.1 218559206 7129802 complement(2439402..2440052) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphatase 2440052 yfbT 7129802 yfbT Escherichia coli S88 putative phosphatase YP_002392119.1 2439402 R 585035 CDS YP_002392120.1 218559207 7129803 complement(2440063..2440557) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2440557 yfbU 7129803 yfbU Escherichia coli S88 hypothetical protein YP_002392120.1 2440063 R 585035 CDS YP_002392121.1 218559208 7129804 complement(2440640..2441095) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2441095 yfbV 7129804 yfbV Escherichia coli S88 hypothetical protein YP_002392121.1 2440640 R 585035 CDS YP_002392122.1 218559209 7129805 2441433..2442635 1 NC_011742.1 AckA utilizes acetate and can acetylate CheY which increases signal strength during flagellar rotation; utilizes magnesium and ATP; also involved in conversion of acetate to aceyl-CoA; acetate kinase 2442635 ackA 7129805 ackA Escherichia coli S88 acetate kinase YP_002392122.1 2441433 D 585035 CDS YP_002392123.1 218559210 7132035 2442710..2444854 1 NC_011742.1 catalyzes the synthesis of acetylphosphate or propionylphosphate from acetyl-CoA or propionyl-CoA and inorganic phosphate; when using propionyl-CoA the enzyme is functioning in the anaerobic pathway catabolizing threonine to propionate; phosphate acetyltransferase 2444854 pta 7132035 pta Escherichia coli S88 phosphate acetyltransferase YP_002392123.1 2442710 D 585035 CDS YP_002392124.1 218559211 7130814 2445044..2446564 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pc : putative carrier; hypothetical protein 2446564 yfcC 7130814 yfcC Escherichia coli S88 hypothetical protein YP_002392124.1 2445044 D 585035 CDS YP_002392125.1 218559212 7129808 complement(2446597..2447139) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16430214; Product type pe : putative enzyme; putative NUDIX hydrolase 2447139 yfcD 7129808 yfcD Escherichia coli S88 putative NUDIX hydrolase YP_002392125.1 2446597 R 585035 CDS YP_002392126.1 218559213 7129809 complement(2447197..2447751) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; phosphodiesterase 2447751 yfcE 7129809 yfcE Escherichia coli S88 phosphodiesterase YP_002392126.1 2447197 R 585035 CDS YP_002392127.1 218559214 7129810 complement(2447804..2448448) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative enzyme 2448448 yfcF 7129810 yfcF Escherichia coli S88 putative enzyme YP_002392127.1 2447804 R 585035 CDS YP_002392128.1 218559215 7129811 2448584..2449231 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; glutathione S-transferase 2449231 yfcG 7129811 yfcG Escherichia coli S88 glutathione S-transferase YP_002392128.1 2448584 D 585035 CDS YP_002392129.1 218559216 7129812 2449288..2449650 1 NC_011742.1 catalyzes the formation of dihydromonapterin triphosphate from dihydroneopterin triphosphate; D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase 2449650 folX 7129812 folX Escherichia coli S88 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase YP_002392129.1 2449288 D 585035 CDS YP_002392130.1 218559217 7132821 2449671..2450564 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pe : putative enzyme; conserved hypothetical protein; putative NAD(P)-binding Rossmann-fold domain 2450564 yfcH 7132821 yfcH Escherichia coli S88 conserved hypothetical protein; putative NAD(P)-binding Rossmann-fold domain YP_002392130.1 2449671 D 585035 CDS YP_002392131.1 218559218 7129813 complement(2450612..2451502) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative transposase 2451502 yfcI 7129813 yfcI Escherichia coli S88 putative transposase YP_002392131.1 2450612 R 585035 CDS YP_002392132.1 218559219 7129814 complement(2451698..2452471) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10373434, 3313284, 91060556; Product type t : transporter; histidine/lysine/arginine/ornithine transporter subunit 2452471 hisP 7129814 hisP Escherichia coli S88 histidine/lysine/arginine/ornithine transporter subunit YP_002392132.1 2451698 R 585035 CDS YP_002392133.1 218559220 7128930 complement(2452479..2453195) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10373434, 3313284; Product type t : transporter; histidine/lysine/arginine/ornithine transporter subunit ; membrane component of ABC superfamily 2453195 hisM 7128930 hisM Escherichia coli S88 histidine/lysine/arginine/ornithine transporter subunit ; membrane component of ABC superfamily YP_002392133.1 2452479 R 585035 CDS YP_002392134.1 218559221 7128929 complement(2453192..2453878) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10373434; Product type t : transporter; histidine/lysine/arginine/ornithine transporter subunit ; membrane component of ABC superfamily 2453878 hisQ 7128929 hisQ Escherichia coli S88 histidine/lysine/arginine/ornithine transporter subunit ; membrane component of ABC superfamily YP_002392134.1 2453192 R 585035 CDS YP_002392135.1 218559222 7128931 complement(2453968..2454750) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10373434, 6449635, 8161536, 9298646, 9600841, 9740056; Product type t : transporter; histidine/lysine/arginine/ornithine transporter subunit ; periplasmic-binding component of ABC superfamily 2454750 hisJ 7128931 hisJ Escherichia coli S88 histidine/lysine/arginine/ornithine transporter subunit ; periplasmic-binding component of ABC superfamily YP_002392135.1 2453968 R 585035 CDS YP_002392136.1 218559223 7128927 complement(2454971..2455753) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 4583243, 87308226, 3040734, 9298646; Product type t : transporter; lysine/arginine/ornithine transporter subunit ; periplasmic-binding component of ABC superfamily 2455753 argT 7128927 argT Escherichia coli S88 lysine/arginine/ornithine transporter subunit ; periplasmic-binding component of ABC superfamily YP_002392136.1 2454971 R 585035 CDS YP_002392137.1 218559224 7133103 complement(2456019..2456588) 1 NC_011742.1 catalyzes the formation of 2-octaprenylphenol from 3-octaprenyl-4-hydroxybenzoate; 3-octaprenyl-4-hydroxybenzoate carboxy-lyase 2456588 ubiX 7133103 ubiX Escherichia coli S88 3-octaprenyl-4-hydroxybenzoate carboxy-lyase YP_002392137.1 2456019 R 585035 CDS YP_002392138.1 218559225 7130388 complement(2456683..2458200) 1 NC_011742.1 Catalyzes first step of the de novo purine nucleotide biosynthetic pathway; amidophosphoribosyltransferase 2458200 purF 7130388 purF Escherichia coli S88 amidophosphoribosyltransferase YP_002392138.1 2456683 R 585035 CDS YP_002392139.1 218559226 7131749 complement(2458237..2458725) 1 NC_011742.1 membrane protein required for colicin V production; colicin V production protein 2458725 cvpA 7131749 cvpA Escherichia coli S88 colicin V production protein YP_002392139.1 2458237 R 585035 CDS YP_002392140.1 218559227 7130517 complement(2459257..2459919) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 3040734; hypothetical protein 2459919 dedD 7130517 dedD Escherichia coli S88 hypothetical protein YP_002392140.1 2459257 R 585035 CDS YP_002392141.1 218559228 7130179 complement(2459909..2461177) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3040739, 91112811, 92041808, 1989505, 3040734; Product type e : enzyme; bifunctional folylpolyglutamate synthase/ dihydrofolate synthase 2461177 folC 7130179 folC Escherichia coli S88 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase YP_002392141.1 2459909 R 585035 CDS YP_002392142.1 218559229 7132815 complement(2461247..2462161) 1 NC_011742.1 catalyzes the carboxylation of acetyl-CoA to malonyl-CoA; forms a tetramer of AccA2D2 subunits; acetyl-CoA carboxylase subunit beta 2462161 accD 7132815 accD Escherichia coli S88 acetyl-CoA carboxylase subunit beta YP_002392142.1 2461247 R 585035 CDS YP_002392143.1 218559230 7132029 complement(2462317..2462976) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 3029016, 3040734, 7678242; Product type pm : putative membrane component; hypothetical protein 2462976 dedA 7132029 dedA Escherichia coli S88 hypothetical protein YP_002392143.1 2462317 R 585035 CDS YP_002392144.1 218559231 7130178 complement(2463059..2463871) 1 NC_011742.1 mediates pseudouridylation (positions 38, 39, 40) at the tRNA anticodon region which contributes to the structural stability; tRNA pseudouridine synthase A 2463871 truA 7130178 truA Escherichia coli S88 tRNA pseudouridine synthase A YP_002392144.1 2463059 R 585035 CDS YP_002392145.1 218559232 7130351 complement(2463871..2464884) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 92380957, 92380982, 93123150, 2681152, 2991861, 3029016; Product type pe : putative enzyme; putative semialdehyde dehydrogenase 2464884 usg 7130351 usg Escherichia coli S88 putative semialdehyde dehydrogenase YP_002392145.1 2463871 R 585035 CDS YP_002392146.1 218559233 7132451 complement(2464950..2466086) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90036695, 91035267, 2681152, 2991861, 3029016; Product type e : enzyme; erythronate-4-phosphate dehydrogenase 2466086 pdxB 7132451 pdxB Escherichia coli S88 erythronate-4-phosphate dehydrogenase YP_002392146.1 2464950 R 585035 CDS YP_002392147.1 218559234 7133182 2466185..2467180 1 NC_011742.1 in Salmonella typhimurium Flk regulates flagellar biosynthesis by inhibition of the flagellar-associated type III secretion system; lowers secretion levels of the anti-sigma28 factor FlgM to the periplasm; inner membrane-anchored protein; flagella biosynthesis regulator 2467180 flk 7133182 flk Escherichia coli S88 flagella biosynthesis regulator YP_002392147.1 2466185 D 585035 CDS YP_002392148.1 218559235 7132809 complement(2467177..2468355) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; hypothetical protein 2468355 yfcJ 7132809 yfcJ Escherichia coli S88 hypothetical protein YP_002392148.1 2467177 R 585035 CDS YP_002392149.1 218559236 7129815 complement(2468620..2469840) 1 NC_011742.1 FabB, beta-Ketoacyl-ACP synthase I, KASI; catalyzes a condensation reaction in fatty acid biosynthesis: addition of an acyl acceptor of two carbons from malonyl-ACP; required for the elongation of short-chain unsaturated acyl-ACP; 3-oxoacyl-(acyl carrier protein) synthase I 2469840 fabB 7129815 fabB Escherichia coli S88 3-oxoacyl-(acyl carrier protein) synthase I YP_002392149.1 2468620 R 585035 CDS YP_002392150.1 218559237 7132443 2469999..2472005 1 NC_011742.1 catalyzes the formation of 5-methylaminomethyl-2-thiouridine in position 34 of the anticodon of tRNA molecules; 5-methylaminomethyl-2-thiouridine methyltransferase 2472005 mnmC 7132443 mnmC Escherichia coli S88 5-methylaminomethyl-2-thiouridine methyltransferase YP_002392150.1 2469999 D 585035 CDS YP_002392151.1 218559238 7130338 complement(2472126..2472404) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2472404 yfcL 7130338 yfcL Escherichia coli S88 hypothetical protein YP_002392151.1 2472126 R 585035 CDS YP_002392152.1 218559239 7129816 complement(2472438..2472986) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2472986 yfcM 7129816 yfcM Escherichia coli S88 hypothetical protein YP_002392152.1 2472438 R 585035 CDS YP_002392153.1 218559240 7129817 complement(2472986..2473795) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2473795 yfcA 7129817 yfcA Escherichia coli S88 hypothetical protein YP_002392153.1 2472986 R 585035 CDS YP_002392154.1 218559241 7129807 complement(2473795..2474619) 1 NC_011742.1 D-alanyl-D-alanine endopeptidase; functions in hydrolyzing cell wall peptidoglycan; similar to LAS metallopeptidases; forms a dimer in periplasm; penicillin-insensitive murein endopeptidase 2474619 mepA 7129807 mepA Escherichia coli S88 penicillin-insensitive murein endopeptidase YP_002392154.1 2473795 R 585035 CDS YP_002392155.1 218559242 7128809 complement(2474623..2475708) 1 NC_011742.1 catalyzes the formation of chorismate from 5-O-(1-carboxyvinyl)-3-phosphoshikimate in aromatic amino acid biosynthesis; chorismate synthase 2475708 aroC 7128809 aroC Escherichia coli S88 chorismate synthase YP_002392155.1 2474623 R 585035 CDS YP_002392156.1 218559243 7129923 complement(2475743..2476675) 1 NC_011742.1 involved in methylation of ribosomal protein L3; N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase 2476675 prmB 7129923 prmB Escherichia coli S88 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase YP_002392156.1 2475743 R 585035 CDS YP_002392157.1 218559244 7130782 2476841..2477392 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2477392 yfcN 7130782 yfcN Escherichia coli S88 hypothetical protein YP_002392157.1 2476841 D 585035 CDS YP_002392158.1 218559245 7129818 complement(2477712..2478569) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 2478569 7129818 ECS88_2480 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002392158.1 2477712 R 585035 CDS YP_002392159.1 218559246 7133424 complement(2478556..2479083) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative exported fimbrial-like adhesin protein 2479083 yfcP 7133424 yfcP Escherichia coli S88 putative exported fimbrial-like adhesin protein YP_002392159.1 2478556 R 585035 CDS YP_002392160.1 218559247 7129819 complement(2479080..2479559) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial-like adhesin exported protein 2479559 yfcQ 7129819 yfcQ Escherichia coli S88 putative fimbrial-like adhesin exported protein YP_002392160.1 2479080 R 585035 CDS YP_002392161.1 218559248 7129820 complement(2479556..2480125) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial-like adhesin exported protein 2480125 yfcR 7129820 yfcR Escherichia coli S88 putative fimbrial-like adhesin exported protein YP_002392161.1 2479556 R 585035 CDS YP_002392162.1 218559249 7129821 complement(2480076..2480969) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative periplasmic pilus exported chaperone 2480969 yfcS 7129821 yfcS Escherichia coli S88 putative periplasmic pilus exported chaperone YP_002392162.1 2480076 R 585035 CDS YP_002392163.1 218559250 7129822 complement(2480848..2483502) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative export usher protein 2483502 yfcU 7129822 yfcU Escherichia coli S88 putative export usher protein YP_002392163.1 2480848 R 585035 CDS YP_002392164.1 218559251 7129823 complement(2483370..2484119) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial-like adhesin protein 2484119 7129823 ECS88_2486 Escherichia coli S88 putative fimbrial-like adhesin protein YP_002392164.1 2483370 R 585035 CDS YP_002392165.1 218559252 7133425 complement(2484685..2485170) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10089421, 20200300, 9489669; Product type e : enzyme; phosphohistidine phosphatase 2485170 sixA 7133425 sixA Escherichia coli S88 phosphohistidine phosphatase YP_002392165.1 2484685 R 585035 CDS YP_002392166.1 218559253 7130604 complement(2485373..2487517) 1 NC_011742.1 multifunctional enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase/3-hydroxybutyryl-CoA epimerase; catalyzes the formation of an hydroxyacyl-CoA by addition of water on enoyl-CoA; exhibits 3-hydroxyacyl-CoA epimerase and 3-hydroxyacyl-CoA dehydrogenase activities: forms a heterotetramer with FadI; similar to FadA2B2 complex; involved in the anaerobic degradation of long and medium-chain fatty acids in the presence of nitrate; multifunctional fatty acid oxidation complex subunit alpha 2487517 fadJ 7130604 fadJ Escherichia coli S88 multifunctional fatty acid oxidation complex subunit alpha YP_002392166.1 2485373 R 585035 CDS YP_002392167.1 218559254 7129824 complement(2487517..2488827) 1 NC_011742.1 FadI; fatty acid oxidation complex component beta; functions in a heterotetramer with FadJ; similar to FadA2B2 complex; functions in beta-oxidation of fatty acids during anaerobic growth; 3-ketoacyl-CoA thiolase 2488827 fadI 7129824 fadI Escherichia coli S88 3-ketoacyl-CoA thiolase YP_002392167.1 2487517 R 585035 CDS YP_002392168.1 218559255 7129825 complement(2489008..2489292) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2489292 yfcZ 7129825 yfcZ Escherichia coli S88 hypothetical protein YP_002392168.1 2489008 R 585035 CDS YP_002392169.1 218559256 7129826 2489658..2491004 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15178802, 2840553, 3286621, 91100327, 1987139, 9119048; Product type t : transporter; long-chain fatty acid outer membrane transporter 2491004 fadL 7129826 fadL Escherichia coli S88 long-chain fatty acid outer membrane transporter YP_002392169.1 2489658 D 585035 CDS YP_002392170.1 218559257 7129445 complement(2491062..2491817) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8145644, 15352239; Product type lp : lipoprotein; putative lipoprotein 2491817 vacJ 7129445 vacJ Escherichia coli S88 putative lipoprotein YP_002392170.1 2491062 R 585035 CDS YP_002392171.1 218559258 7132470 complement(2491843..2492013) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2492013 7132470 ECS88_2493 Escherichia coli S88 hypothetical protein YP_002392171.1 2491843 R 585035 CDS YP_002392172.1 218559259 7133426 2492111..2493043 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2493043 yfdC 7133426 yfdC Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392172.1 2492111 D 585035 CDS YP_002392173.1 218559260 7129884 2493355..2494512 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative prophage CPS-53 integrase; CPS-53 (KpLE1) prophage 2494512 intS 7129884 intS Escherichia coli S88 putative prophage CPS-53 integrase; CPS-53 (KpLE1) prophage YP_002392173.1 2493355 D 585035 CDS YP_002392174.1 218559261 7129699 complement(2495794..2498739) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 16689790; Product type e : enzyme; Endo-alpha-sialidase, phage head protein 2498739 7129699 ECS88_2497 Escherichia coli S88 Endo-alpha-sialidase, phage head protein YP_002392174.1 2495794 R 585035 CDS YP_002392175.1 218559262 7133427 complement(2498840..2499808) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12562822; Product type h : extrachromosomal origin; Antirepressor protein ant 2499808 7133427 ECS88_2498 Escherichia coli S88 Antirepressor protein ant YP_002392175.1 2498840 R 585035 CDS YP_002392176.1 218559263 7131363 2500200..2500490 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage regulatory protein 2500490 7131363 ECS88_2500 Escherichia coli S88 putative phage regulatory protein YP_002392176.1 2500200 D 585035 CDS YP_002392177.1 218559264 7133429 2500490..2501026 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative Clp protease 2501026 7133429 ECS88_2501 Escherichia coli S88 putative Clp protease YP_002392177.1 2500490 D 585035 CDS YP_002392178.1 218559265 7133430 complement(2501075..2501524) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2501524 7133430 ECS88_2503 Escherichia coli S88 hypothetical protein YP_002392178.1 2501075 R 585035 CDS YP_002392179.1 218559266 7133431 complement(2501533..2502129) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2502129 7133431 ECS88_2504 Escherichia coli S88 hypothetical protein YP_002392179.1 2501533 R 585035 CDS YP_002392180.1 218559267 7133432 2502275..2502625 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein; putative membrane protein 2502625 7133432 ECS88_2505 Escherichia coli S88 hypothetical protein; putative membrane protein YP_002392180.1 2502275 D 585035 CDS YP_002392181.1 218559268 7133433 complement(2502643..2504658) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DNA transfer protein from bacteriophage 2504658 7133433 ECS88_2506 Escherichia coli S88 putative DNA transfer protein from bacteriophage YP_002392181.1 2502643 R 585035 CDS YP_002392182.1 218559269 7133434 complement(2504655..2506106) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; DNA transfer protein 2506106 7133434 ECS88_2507 Escherichia coli S88 DNA transfer protein YP_002392182.1 2504655 R 585035 CDS YP_002392183.1 218559270 7133435 complement(2506117..2506809) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; DNA transfer protein 2506809 7133435 ECS88_2508 Escherichia coli S88 DNA transfer protein YP_002392183.1 2506117 R 585035 CDS YP_002392184.1 218559271 7133436 complement(2506812..2507267) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head assembly protein 2507267 7133436 ECS88_2509 Escherichia coli S88 Head assembly protein YP_002392184.1 2506812 R 585035 CDS YP_002392185.1 218559272 7133437 complement(2507267..2508070) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Packaged DNA stabilization protein from phage 2508070 7133437 ECS88_2510 Escherichia coli S88 Packaged DNA stabilization protein from phage YP_002392185.1 2507267 R 585035 CDS YP_002392186.1 218559273 7133438 complement(2507968..2509386) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Packaged DNA stabilization protein from phage 2509386 7133438 ECS88_2511 Escherichia coli S88 Packaged DNA stabilization protein from phage YP_002392186.1 2507968 R 585035 CDS YP_002392187.1 218559274 7133439 complement(2509396..2509857) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; Putative DNA stabilization protein from phage 2509857 7133439 ECS88_2512 Escherichia coli S88 Putative DNA stabilization protein from phage YP_002392187.1 2509396 R 585035 CDS YP_002392188.1 218559275 7133440 complement(2509838..2510065) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2510065 7133440 ECS88_2513 Escherichia coli S88 hypothetical protein YP_002392188.1 2509838 R 585035 CDS YP_002392189.1 218559276 7133441 complement(2510068..2511321) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; Putative Coat protein from phage 2511321 7133441 ECS88_2514 Escherichia coli S88 Putative Coat protein from phage YP_002392189.1 2510068 R 585035 CDS YP_002392190.1 218559277 7133442 complement(2511340..2512233) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative bacteriophage protein 2512233 7133442 ECS88_2515 Escherichia coli S88 putative bacteriophage protein YP_002392190.1 2511340 R 585035 CDS YP_002392191.1 218559278 7133443 complement(2512324..2514522) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative Bacteriophage portal protein 2514522 7133443 ECS88_2517 Escherichia coli S88 putative Bacteriophage portal protein YP_002392191.1 2512324 R 585035 CDS YP_002392192.1 218559279 7133444 complement(2514524..2515939) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Terminase large subunit 2515939 7133444 ECS88_2518 Escherichia coli S88 Terminase large subunit YP_002392192.1 2514524 R 585035 CDS YP_002392193.1 218559280 7133445 complement(2515936..2516376) 1 NC_011742.1 hypothetical protein 2516376 7133445 ECS88_2519 Escherichia coli S88 hypothetical protein YP_002392193.1 2515936 R 585035 CDS YP_002392194.1 218559281 7133446 complement(2516379..2516621) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2516621 7133446 ECS88_2520 Escherichia coli S88 hypothetical protein YP_002392194.1 2516379 R 585035 CDS YP_002392195.1 218559282 7133447 complement(2516849..2517460) 1 NC_011742.1 hypothetical protein 2517460 7133447 ECS88_2521 Escherichia coli S88 hypothetical protein YP_002392195.1 2516849 R 585035 CDS YP_002392196.1 218559283 7133448 complement(2517597..2517749) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative bacteriophage protein (Gene 65) 2517749 7133448 ECS88_2522 Escherichia coli S88 putative bacteriophage protein (Gene 65) YP_002392196.1 2517597 R 585035 CDS YP_002392197.1 218559284 7133449 complement(2517737..2518174) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme; bacteriophage lysis protein 2518174 7133449 ECS88_2523 Escherichia coli S88 bacteriophage lysis protein YP_002392197.1 2517737 R 585035 CDS YP_002392198.1 218559285 7133450 complement(2518171..2518647) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Lysozyme (Muramidase) (Endolysin) 2518647 r 7133450 r Escherichia coli S88 Lysozyme (Muramidase) (Endolysin) YP_002392198.1 2518171 R 585035 CDS YP_002392199.1 218559286 7131778 complement(2518631..2518954) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; lysis protein S and lysis inhibitor (holin protein) 2518954 7131778 ECS88_2525 Escherichia coli S88 lysis protein S and lysis inhibitor (holin protein) YP_002392199.1 2518631 R 585035 CDS YP_002392200.1 218559287 7133451 complement(2519551..2520069) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage antitermination protein Q 2520069 7133451 ECS88_2526 Escherichia coli S88 putative phage antitermination protein Q YP_002392200.1 2519551 R 585035 CDS YP_002392201.1 218559288 7133452 complement(2520066..2520254) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein ninH 2520254 7133452 ECS88_2527 Escherichia coli S88 conserved hypothetical protein ninH YP_002392201.1 2520066 R 585035 CDS YP_002392202.1 218559289 7133453 complement(2520251..2520613) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme; crossover junction endodeoxyribonuclease 2520613 rusA 7133453 rusA Escherichia coli S88 crossover junction endodeoxyribonuclease YP_002392202.1 2520251 R 585035 CDS YP_002392203.1 218559290 7131313 complement(2520610..2520900) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2520900 7131313 ECS88_2529 Escherichia coli S88 hypothetical protein YP_002392203.1 2520610 R 585035 CDS YP_002392204.1 218559291 7133454 complement(2520900..2521622) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; DNA-binding protein from phage origin 2521622 roi 7133454 roi Escherichia coli S88 DNA-binding protein from phage origin YP_002392204.1 2520900 R 585035 CDS YP_002392205.1 218559292 7132757 complement(2521615..2521791) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein from phage origin 2521791 ninF 7132757 ninF Escherichia coli S88 conserved hypothetical protein from phage origin YP_002392205.1 2521615 R 585035 CDS YP_002392206.1 218559293 7129716 complement(2521784..2522245) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein ninX 2522245 7129716 ECS88_2532 Escherichia coli S88 conserved hypothetical protein ninX YP_002392206.1 2521784 R 585035 CDS YP_002392207.1 218559294 7133455 complement(2522379..2522789) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative ninB protein 2522789 7133455 ECS88_2533 Escherichia coli S88 putative ninB protein YP_002392207.1 2522379 R 585035 CDS YP_002392208.1 218559295 7133456 complement(2522989..2523303) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2523303 7133456 ECS88_2534 Escherichia coli S88 hypothetical protein YP_002392208.1 2522989 R 585035 CDS YP_002392209.1 218559296 7133457 complement(2523419..2523625) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 2523625 7133457 ECS88_2535 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002392209.1 2523419 R 585035 CDS YP_002392210.1 218559297 7133458 complement(2523682..2523840) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2523840 7133458 ECS88_2536 Escherichia coli S88 hypothetical protein YP_002392210.1 2523682 R 585035 CDS YP_002392211.1 218559298 7133459 complement(2523698..2525074) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Replicative DNA helicase 2525074 7133459 ECS88_2537 Escherichia coli S88 Replicative DNA helicase YP_002392211.1 2523698 R 585035 CDS YP_002392212.1 218559299 7133460 complement(2525071..2526018) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2526018 7133460 ECS88_2538 Escherichia coli S88 hypothetical protein YP_002392212.1 2525071 R 585035 CDS YP_002392213.1 218559300 7133461 complement(2525810..2526052) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2526052 7133461 ECS88_2539 Escherichia coli S88 hypothetical protein YP_002392213.1 2525810 R 585035 CDS YP_002392214.1 218559301 7133462 complement(2526021..2526566) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2526566 7133462 ECS88_2540 Escherichia coli S88 hypothetical protein YP_002392214.1 2526021 R 585035 CDS YP_002392215.1 218559302 7133136 complement(2526316..2526696) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Regulatory protein CII 2526696 cII 7133136 cII Escherichia coli S88 Regulatory protein CII YP_002392215.1 2526316 R 585035 CDS YP_002392216.1 218559303 7131912 complement(2526718..2526903) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Regulatory protein cro (Antirepressor) 2526903 cro 7131912 cro Escherichia coli S88 Regulatory protein cro (Antirepressor) YP_002392216.1 2526718 R 585035 CDS YP_002392217.1 218559304 7131965 2526984..2527634 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Repressor protein CII 2527634 cII 7131965 cII Escherichia coli S88 Repressor protein CII YP_002392217.1 2526984 D 585035 CDS YP_002392218.1 218559305 7131913 2528063..2528455 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; regulatory protein N 2528455 N 7131913 N Escherichia coli S88 regulatory protein N YP_002392218.1 2528063 D 585035 CDS YP_002392219.1 218559306 7129647 2528464..2528934 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2528934 7129647 ECS88_2545 Escherichia coli S88 hypothetical protein YP_002392219.1 2528464 D 585035 CDS YP_002392220.1 218559307 7133464 2529266..2529454 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2529454 7133464 ECS88_2546 Escherichia coli S88 hypothetical protein YP_002392220.1 2529266 D 585035 CDS YP_002392221.1 218559308 7133465 2529375..2529545 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2529545 7133465 ECS88_2547 Escherichia coli S88 hypothetical protein YP_002392221.1 2529375 D 585035 CDS YP_002392222.1 218559309 7133466 2529526..2530161 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; DNA single-strand annealing protein; essential recombination function protein Erf 2530161 erf 7133466 erf Escherichia coli S88 DNA single-strand annealing protein; essential recombination function protein Erf YP_002392222.1 2529526 D 585035 CDS YP_002392223.1 218559310 7132416 2530071..2530544 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2530544 7132416 ECS88_2549 Escherichia coli S88 hypothetical protein YP_002392223.1 2530071 D 585035 CDS YP_002392224.1 218559311 7133467 2530568..2530864 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Anti-RecBCD protein 2 2530864 abc 7133467 abc Escherichia coli S88 Anti-RecBCD protein 2 YP_002392224.1 2530568 D 585035 CDS YP_002392225.1 218559312 7132024 2530941..2531408 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2531408 7132024 ECS88_2551 Escherichia coli S88 hypothetical protein YP_002392225.1 2530941 D 585035 CDS YP_002392226.1 218559313 7133468 2531473..2531772 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2531772 7133468 ECS88_2552 Escherichia coli S88 hypothetical protein YP_002392226.1 2531473 D 585035 CDS YP_002392227.1 218559314 7133469 2531774..2532346 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2532346 7133469 ECS88_2553 Escherichia coli S88 hypothetical protein YP_002392227.1 2531774 D 585035 CDS YP_002392228.1 218559315 7131979 2532464..2532631 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2532631 7131979 ECS88_2554 Escherichia coli S88 hypothetical protein YP_002392228.1 2532464 D 585035 CDS YP_002392229.1 218559316 7130903 2532624..2532908 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2532908 7130903 ECS88_2555 Escherichia coli S88 hypothetical protein YP_002392229.1 2532624 D 585035 CDS YP_002392230.1 218559317 7130904 2532981..2533148 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2533148 7130904 ECS88_2556 Escherichia coli S88 hypothetical protein YP_002392230.1 2532981 D 585035 CDS YP_002392231.1 218559318 7130905 2533206..2533406 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15197250; Product type r : regulator; response regulator inhibitor for tor operon 2533406 torI 7130905 torI Escherichia coli S88 response regulator inhibitor for tor operon YP_002392231.1 2533206 D 585035 CDS YP_002392232.1 218559319 7133495 complement(2533594..2534529) 1 NC_011742.1 regulates the synthesis and expression of the dsdXA operon and dadA gene; DNA-binding transcriptional regulator DsdC 2534529 dsdC 7133495 dsdC Escherichia coli S88 DNA-binding transcriptional regulator DsdC YP_002392232.1 2533594 R 585035 CDS YP_002392233.1 218559320 7130244 2534747..2536084 1 NC_011742.1 member of the Gnt family of gluconate transporters; not involved in gluconate transport; unknown function; permease DsdX 2536084 dsdX 7130244 dsdX Escherichia coli S88 permease DsdX YP_002392233.1 2534747 D 585035 CDS YP_002392234.1 218559321 7130245 2536102..2537430 1 NC_011742.1 catalyzes the formation of pyruvate from serine; D-serine dehydratase 2537430 dsdA 7130245 dsdA Escherichia coli S88 D-serine dehydratase YP_002392234.1 2536102 D 585035 CDS YP_002392235.1 218559322 7130243 complement(2537538..2539076) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 20378313; Product type pt : putative transporter; putative multidrug efflux system 2539076 emrY 7130243 emrY Escherichia coli S88 putative multidrug efflux system YP_002392235.1 2537538 R 585035 CDS YP_002392236.1 218559323 7132396 complement(2539076..2540239) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20378313; Product type t : transporter; EmrKY-TolC multidrug resistance efflux pump, membrane fusion protein component 2540239 emrK 7132396 emrK Escherichia coli S88 EmrKY-TolC multidrug resistance efflux pump, membrane fusion protein component YP_002392236.1 2539076 R 585035 CDS YP_002392237.1 218559324 7132395 2540655..2541269 1 NC_011742.1 response regulator in two-component regulatory system with EvgS; phosphorylated EvgA activates ompC, emrKY, gadABC, hdeAB and others genes; involved in acid resistance, osmotic adaption, and drug resistance; DNA-binding transcriptional activator EvgA 2541269 evgA 7132395 evgA Escherichia coli S88 DNA-binding transcriptional activator EvgA YP_002392237.1 2540655 D 585035 CDS YP_002392238.1 218559325 7132434 2541274..2544867 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14523115, 93173621, 9501520, 10923791, 1289796, 8125343, 9535079; Product type r : regulator; hybrid sensory histidine kinase in two-component regulatory system with EvgA 2544867 evgS 7132434 evgS Escherichia coli S88 hybrid sensory histidine kinase in two-component regulatory system with EvgA YP_002392238.1 2541274 D 585035 CDS YP_002392239.1 218559326 7132435 complement(2544923..2546068) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 2546068 yfdE 7132435 yfdE Escherichia coli S88 hypothetical protein YP_002392239.1 2544923 R 585035 CDS YP_002392240.1 218559327 7129828 complement(2546142..2547086) 1 NC_011742.1 member of the AEC family of auxin efflux transporters; unknown function; putative transporter YfdV 2547086 yfdV 7129828 yfdV Escherichia coli S88 putative transporter YfdV YP_002392240.1 2546142 R 585035 CDS YP_002392241.1 218559328 7129841 complement(2547156..2548850) 1 NC_011742.1 catalyzes the formation of formyl-CoA from oxalyl-CoA; putative oxalyl-CoA decarboxylase 2548850 oxc 7129841 oxc Escherichia coli S88 putative oxalyl-CoA decarboxylase YP_002392241.1 2547156 R 585035 CDS YP_002392242.1 218559329 7133149 complement(2548904..2550154) 1 NC_011742.1 catalyzes the formation of oxalyl-CoA from oxalate and Formyl-CoA; formyl-coenzyme A transferase 2550154 frc 7133149 frc Escherichia coli S88 formyl-coenzyme A transferase YP_002392242.1 2548904 R 585035 CDS YP_002392243.1 218559330 7132823 complement(2550666..2551301) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11157960; hypothetical protein 2551301 yfdX 7132823 yfdX Escherichia coli S88 hypothetical protein YP_002392243.1 2550666 R 585035 CDS YP_002392244.1 218559331 7129842 complement(2551848..2551994) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2551994 7129842 ECS88_2571 Escherichia coli S88 hypothetical protein YP_002392244.1 2551848 R 585035 CDS YP_002392245.1 218559332 7130906 complement(2551949..2552191) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 14727089; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2552191 yfdY 7130906 yfdY Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392245.1 2551949 R 585035 CDS YP_002392246.1 218559333 7133470 2552544..2553464 1 NC_011742.1 Acylates the intermediate (KDO)2-lipid IVA to form (KDO)2-(palmitoleoyl)-lipid IVA in cells subjected to cold shock; lipid A biosynthesis palmitoleoyl acyltransferase 2553464 ddg 7133470 ddg Escherichia coli S88 lipid A biosynthesis palmitoleoyl acyltransferase YP_002392246.1 2552544 D 585035 CDS YP_002392247.1 218559334 7133504 complement(2553956..2555194) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; aminotransferase 2555194 yfdZ 7133504 yfdZ Escherichia coli S88 aminotransferase YP_002392247.1 2553956 R 585035 CDS YP_002392248.1 218559335 7133509 2555571..2557268 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15522865; Product type prc : putative receptor; putative sensory kinase in two-component system with YpdB 2557268 ypdA 7133509 ypdA Escherichia coli S88 putative sensory kinase in two-component system with YpdB YP_002392248.1 2555571 D 585035 CDS YP_002392249.1 218559336 7133657 2557283..2558020 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15522865; Product type pr : putative regulator; putative response regulator in two-component system with YpdA 2558020 ypdB 7133657 ypdB Escherichia coli S88 putative response regulator in two-component system with YpdA YP_002392249.1 2557283 D 585035 CDS YP_002392250.1 218559337 7133658 2558033..2558890 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding protein 2558890 ypdC 7133658 ypdC Escherichia coli S88 putative DNA-binding protein YP_002392250.1 2558033 D 585035 CDS YP_002392251.1 218559338 7133659 complement(2558893..2561388) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative fused PTS enzymes (multiphosphoryl transfer protein): Hpr component ; enzyme I component ; enzyme IIA component 2561388 ypdD 7133659 ypdD Escherichia coli S88 putative fused PTS enzymes (multiphosphoryl transfer protein): Hpr component ; enzyme I component ; enzyme IIA component YP_002392251.1 2558893 R 585035 CDS YP_002392252.1 218559339 7133660 complement(2561413..2562450) 1 NC_011742.1 metalloprotein; exoaminopeptidase 2562450 ypdE 7133660 ypdE Escherichia coli S88 exoaminopeptidase YP_002392252.1 2561413 R 585035 CDS YP_002392253.1 218559340 7133661 complement(2562450..2563535) 1 NC_011742.1 Xaa-Pro aminopeptidase; limited methionine aminopeptidase; aminopeptidase 2563535 ypdF 7133661 ypdF Escherichia coli S88 aminopeptidase YP_002392253.1 2562450 R 585035 CDS YP_002392254.1 218559341 7133662 complement(2563551..2564798) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative enzyme IIC component of PTS 2564798 ypdG 7133662 ypdG Escherichia coli S88 putative enzyme IIC component of PTS YP_002392254.1 2563551 R 585035 CDS YP_002392255.1 218559342 7133663 complement(2564820..2565146) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative enzyme IIB component of PTS 2565146 ypdH 7133663 ypdH Escherichia coli S88 putative enzyme IIB component of PTS YP_002392255.1 2564820 R 585035 CDS YP_002392256.1 218559343 7133664 complement(2565365..2566330) 1 NC_011742.1 catalyzes the conversion of ATP and D-glucose to ADP and D-glucose 6-phosphate; glucokinase 2566330 glk 7133664 glk Escherichia coli S88 glucokinase YP_002392256.1 2565365 R 585035 CDS YP_002392257.1 218559344 7132219 2566534..2567790 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; hypothetical protein 2567790 yfeO 7132219 yfeO Escherichia coli S88 hypothetical protein YP_002392257.1 2566534 D 585035 CDS YP_002392258.1 218559345 7133517 2567905..2568231 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2568231 ypeC 7133517 ypeC Escherichia coli S88 hypothetical protein YP_002392258.1 2567905 D 585035 CDS YP_002392259.1 218559346 7133666 complement(2568372..2569610) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20177822, 20305051, 10712688, 10844693; Product type t : transporter; manganese transport protein MntH 2569610 mntH 7133666 mntH Escherichia coli S88 manganese transport protein MntH YP_002392259.1 2568372 R 585035 CDS YP_002392260.1 218559347 7128846 2569946..2571148 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 374403, 8022285, 7007808, 827549, 4563236, 1512211; Product type t : transporter; nucleoside (except guanosine) transporter 2571148 nupC 7128846 nupC Escherichia coli S88 nucleoside (except guanosine) transporter YP_002392260.1 2569946 D 585035 CDS YP_002392261.1 218559348 7133114 complement(2571198..2573387) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative diguanylate cyclase 2573387 yfeA 7133114 yfeA Escherichia coli S88 putative diguanylate cyclase YP_002392261.1 2571198 R 585035 CDS YP_002392262.1 218559349 7131993 2574020..2574364 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative nucleic acid-binding transcriptional regulator 2574364 yfeC 7131993 yfeC Escherichia coli S88 putative nucleic acid-binding transcriptional regulator YP_002392262.1 2574020 D 585035 CDS YP_002392263.1 218559350 7133511 2574366..2574758 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative nucleic acid-binding transcriptional regulator 2574758 yfeD 7133511 yfeD Escherichia coli S88 putative nucleic acid-binding transcriptional regulator YP_002392263.1 2574366 D 585035 CDS YP_002392264.1 218559351 7133512 complement(2574809..2576224) 1 NC_011742.1 Charges one glutamine molecule and pairs it to its corresponding RNA trinucleotide during protein translation; glutamyl-tRNA synthetase 2576224 gltX 7133512 gltX Escherichia coli S88 glutamyl-tRNA synthetase YP_002392264.1 2574809 R 585035 CDS YP_002392265.1 218559352 7129889 complement(2576991..2577875) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10400599, 7007808, 2201776, 7559336; Product type r : regulator; DNA-binding transcriptional activator XapR 2577875 xapR 7129889 xapR Escherichia coli S88 DNA-binding transcriptional activator XapR YP_002392265.1 2576991 R 585035 CDS YP_002392266.1 218559353 7132515 complement(2578127..2579383) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96032385, 7559336; Product type t : transporter; xanthosine transporter 2579383 xapB 7132515 xapB Escherichia coli S88 xanthosine transporter YP_002392266.1 2578127 R 585035 CDS YP_002392267.1 218559354 7132514 complement(2579444..2580277) 1 NC_011742.1 catalyzes the formation of a purine and ribose phosphate from a purine nucleoside; in E. coli this enzyme functions in xanthosine degradation; purine nucleoside phosphorylase 2580277 xapA 7132514 xapA Escherichia coli S88 purine nucleoside phosphorylase YP_002392267.1 2579444 R 585035 CDS YP_002392268.1 218559355 7132513 2580526..2581290 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; hypothetical protein 2581290 yfeN 7132513 yfeN Escherichia coli S88 hypothetical protein YP_002392268.1 2580526 D 585035 CDS YP_002392269.1 218559356 7133516 complement(2581329..2582255) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2582255 yfeR 7133516 yfeR Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392269.1 2581329 R 585035 CDS YP_002392270.1 218559357 7133518 2582345..2583343 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative sodium/bile acid symporter family (mazG-like) 2583343 yfeH 7133518 yfeH Escherichia coli S88 putative sodium/bile acid symporter family (mazG-like) YP_002392270.1 2582345 D 585035 CDS YP_002392271.1 218559358 7133514 complement(2583340..2583651) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2583651 7133514 ECS88_2600 Escherichia coli S88 hypothetical protein YP_002392271.1 2583340 R 585035 CDS YP_002392272.1 218559359 7130907 complement(2583560..2585575) 1 NC_011742.1 this protein catalyzes the formation of phosphodiester linkages between 5'-phosphoryl and 3'-hydroxyl groups in double-stranded DNA using NAD as a coenzyme and as the energy source for the reaction; essential for DNA replication and repair of damaged DNA; similar to ligase LigB; NAD-dependent DNA ligase LigA 2585575 ligA 7130907 ligA Escherichia coli S88 NAD-dependent DNA ligase LigA YP_002392272.1 2583560 R 585035 CDS YP_002392273.1 218559360 7133023 complement(2585646..2586644) 1 NC_011742.1 interacts with cell division protein FitsZ and may be required to anchor septal ring structure; cell division protein ZipA 2586644 zipA 7133023 zipA Escherichia coli S88 cell division protein ZipA YP_002392273.1 2585646 R 585035 CDS YP_002392274.1 218559361 7131884 2586874..2587635 1 NC_011742.1 putative role in sulfur assimilation; putative sulfate transport protein CysZ 2587635 cysZ 7131884 cysZ Escherichia coli S88 putative sulfate transport protein CysZ YP_002392274.1 2586874 D 585035 CDS YP_002392275.1 218559362 7130550 2587820..2588791 1 NC_011742.1 CysK; forms a complex with serine acetyltransferase CysE; functions in cysteine biosynthesis; cysteine synthase A 2588791 cysK 7130550 cysK Escherichia coli S88 cysteine synthase A YP_002392275.1 2587820 D 585035 CDS YP_002392276.1 218559363 7130542 2589175..2589432 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type t : transporter; PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr 2589432 ptsH 7130542 ptsH Escherichia coli S88 PTS system phosphohistidinoprotein-hexose phosphotransferase subunit Hpr YP_002392276.1 2589175 D 585035 CDS YP_002392277.1 218559364 7131740 2589477..2591204 1 NC_011742.1 Phosphotransferase system, enzyme I; transfers the phosphoryl group from phosphoenolpyruvate (PEP) to the phosphoryl carrier protein; part of the phosphoenolpyruvate-dependent sugar phosphotransferase system (PTS), a major carbohydrate active-transport system; phosphoenolpyruvate-protein phosphotransferase 2591204 ptsI 7131740 ptsI Escherichia coli S88 phosphoenolpyruvate-protein phosphotransferase YP_002392277.1 2589477 D 585035 CDS YP_002392278.1 218559365 7131741 2591245..2591754 1 NC_011742.1 functions in phosphoenolpyruvate-(PEP)-dependent phosphotransferase (PTS) system; functions in the transport and phosphorylation of glucose; PTS system glucose-specific transporter subunit 2591754 crr 7131741 crr Escherichia coli S88 PTS system glucose-specific transporter subunit YP_002392278.1 2591245 D 585035 CDS YP_002392279.1 218559366 7131968 complement(2591797..2592648) 1 NC_011742.1 catalyzes the formation of pyridoxal 5'-phosphate from pyridoxal; pyridoxal kinase 2592648 pdxK 7131968 pdxK Escherichia coli S88 pyridoxal kinase YP_002392279.1 2591797 R 585035 CDS YP_002392280.1 218559367 7133185 2592753..2593121 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2593121 yfeK 7133185 yfeK Escherichia coli S88 hypothetical protein YP_002392280.1 2592753 D 585035 CDS YP_002392281.1 218559368 7133515 complement(2593124..2594035) 1 NC_011742.1 catalyzes the formation of cysteine from 3-O-acetyl-L-serine and hydrogen sulfide; cysteine synthase B 2594035 cysM 7133515 cysM Escherichia coli S88 cysteine synthase B YP_002392281.1 2593124 R 585035 CDS YP_002392282.1 218559369 7130543 complement(2594170..2595267) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90202710, 90264334, 2188958, 7665461; Product type t : transporter; sulfate/thiosulfate transporter subunit 2595267 cysA 7130543 cysA Escherichia coli S88 sulfate/thiosulfate transporter subunit YP_002392282.1 2594170 R 585035 CDS YP_002392283.1 218559370 7130533 complement(2595257..2596132) 1 NC_011742.1 Part of the ABC transporter complex cysAWTP involved in sulfate/thiosulfate import; sulfate/thiosulfate transporter permease subunit 2596132 cysW 7130533 cysW Escherichia coli S88 sulfate/thiosulfate transporter permease subunit YP_002392283.1 2595257 R 585035 CDS YP_002392284.1 218559371 7130549 complement(2596132..2596965) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90264334, 2188958; Product type t : transporter; sulfate/thiosulfate transporter subunit 2596965 cysU 7130549 cysU Escherichia coli S88 sulfate/thiosulfate transporter subunit YP_002392284.1 2596132 R 585035 CDS YP_002392285.1 218559372 7130548 complement(2596965..2597981) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90264335, 2188959, 9298646; Product type t : transporter; thiosulfate transporter subunit 2597981 cysP 7130548 cysP Escherichia coli S88 thiosulfate transporter subunit YP_002392285.1 2596965 R 585035 CDS YP_002392286.1 218559373 7130545 complement(2598139..2598930) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 97385354, 2188959, 7984428, 9241368; Product type pe : putative enzyme; short chain dehydrogenase 2598930 ucpA 7130545 ucpA Escherichia coli S88 short chain dehydrogenase YP_002392286.1 2598139 R 585035 CDS YP_002392287.1 218559374 7130389 2599210..2600106 1 NC_011742.1 catalyzes the cleavage of the lactyl ether moiety of N-acetylmuramic acid-6-phosphate (MurNAc-6-P) to form N-acetylglucosamine-6-phosphate (GlcNAc-6-P) and lactate; involved in MurNAc dissimilation pathway; N-acetylmuramic acid-6-phosphate etherase 2600106 murQ 7130389 murQ Escherichia coli S88 N-acetylmuramic acid-6-phosphate etherase YP_002392287.1 2599210 D 585035 CDS YP_002392288.1 218559375 7133519 2600110..2601534 1 NC_011742.1 belongs to PEP-dependent PTS system; contains the PTS EIIBC domains; involved in uptake of exogenous N-acetylmuramic acid (MurNAc); requires crr-encoded enzyme IIA-glucose component; PTS system N-acetylmuramic acid transporter subunits EIIBC 2601534 murP 7133519 murP Escherichia coli S88 PTS system N-acetylmuramic acid transporter subunits EIIBC YP_002392288.1 2600110 D 585035 CDS YP_002392289.1 218559376 7129638 complement(2601712..2602611) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2602611 yfeX 7129638 yfeX Escherichia coli S88 hypothetical protein YP_002392289.1 2601712 R 585035 CDS YP_002392290.1 218559377 7133520 complement(2602707..2603282) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 12900013, 7764507; hypothetical protein 2603282 yfeY 7133520 yfeY Escherichia coli S88 hypothetical protein YP_002392290.1 2602707 R 585035 CDS YP_002392291.1 218559378 7133521 complement(2603343..2603792) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2603792 yfeZ 7133521 yfeZ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392291.1 2603343 R 585035 CDS YP_002392292.1 218559379 7133522 complement(2603779..2604204) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acetyltransferase 2604204 ypeA 7133522 ypeA Escherichia coli S88 putative acetyltransferase YP_002392292.1 2603779 R 585035 CDS YP_002392293.1 218559380 7133665 2604418..2605287 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21348478, 6137479, 87242501, 1903834, 8300522; Product type e : enzyme; N-acetylmuramoyl-l-alanine amidase I 2605287 amiA 7133665 amiA Escherichia coli S88 N-acetylmuramoyl-l-alanine amidase I YP_002392293.1 2604418 D 585035 CDS YP_002392294.1 218559381 7133057 2605291..2606190 1 NC_011742.1 catalyzes the conversion of the propionic acid groups of rings I and III to vinyl groups during heme synthesis; coproporphyrinogen III oxidase 2606190 hemF 7133057 hemF Escherichia coli S88 coproporphyrinogen III oxidase YP_002392294.1 2605291 D 585035 CDS YP_002392295.1 218559382 7128901 complement(2606196..2607248) 1 NC_011742.1 activates the transcription of the ethanolamine utilization operon; transcriptional regulator EutR 2607248 yfeG 7128901 yfeG Escherichia coli S88 transcriptional regulator EutR YP_002392295.1 2606196 R 585035 CDS YP_002392296.1 218559383 7133513 complement(2607294..2607794) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10464203; Product type ps : putative structure; putative ethanolaminosome structural protein with putative role in ethanolamine utilization 2607794 yffI 7133513 yffI Escherichia coli S88 putative ethanolaminosome structural protein with putative role in ethanolamine utilization YP_002392296.1 2607294 R 585035 CDS YP_002392297.1 218559384 7133525 complement(2607807..2608466) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16291677, 10464203; Product type ps : putative structure; putative carboxysome-related structural protein with putative role in ethanolamine utilization 2608466 eutL 7133525 eutL Escherichia coli S88 putative carboxysome-related structural protein with putative role in ethanolamine utilization YP_002392297.1 2607807 R 585035 CDS YP_002392298.1 218559385 7132429 complement(2608476..2609363) 1 NC_011742.1 catalyzes the formation of acetaldehyde from ethanolamine; ethanolamine ammonia-lyase small subunit 2609363 eutC 7132429 eutC Escherichia coli S88 ethanolamine ammonia-lyase small subunit YP_002392298.1 2608476 R 585035 CDS YP_002392299.1 218559386 7132423 complement(2609384..2610745) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3905806, 10464203; Product type e : enzyme; ethanolamine ammonia-lyase, large subunit, heavy chain 2610745 eutB 7132423 eutB Escherichia coli S88 ethanolamine ammonia-lyase, large subunit, heavy chain YP_002392299.1 2609384 R 585035 CDS YP_002392300.1 218559387 7132422 complement(2610757..2612160) 1 NC_011742.1 ethanolamine utilization protein EutA; reactivating factor for ethanolamine ammonia lyase 2612160 eutA 7132422 eutA Escherichia coli S88 reactivating factor for ethanolamine ammonia lyase YP_002392300.1 2610757 R 585035 CDS YP_002392301.1 218559388 7132421 complement(2612157..2613383) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7868611, 10464203; Product type pt : putative transporter; putative ethanolamine transporter 2613383 eutH 7132421 eutH Escherichia coli S88 putative ethanolamine transporter YP_002392301.1 2612157 R 585035 CDS YP_002392302.1 218559389 7132426 complement(2613600..2614787) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16291677, 10464203; Product type pe : putative enzyme; putative alcohol dehydrogenase in ethanolamine utilization; ethanolaminosome 2614787 eutG 7132426 eutG Escherichia coli S88 putative alcohol dehydrogenase in ethanolamine utilization; ethanolaminosome YP_002392302.1 2613600 R 585035 CDS YP_002392303.1 218559390 7132425 complement(2614777..2615613) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16291677, 10464203; Product type pf : putative factor; putative chaperonin, ethanolamine utilization protein 2615613 eutJ 7132425 eutJ Escherichia coli S88 putative chaperonin, ethanolamine utilization protein YP_002392303.1 2614777 R 585035 CDS YP_002392304.1 218559391 7132428 complement(2615624..2617027) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16291677, 10464203; Product type pe : putative enzyme; putative aldehyde dehydrogenase, ethanolamine utilization protein 2617027 eutE 7132428 eutE Escherichia coli S88 putative aldehyde dehydrogenase, ethanolamine utilization protein YP_002392304.1 2615624 R 585035 CDS YP_002392305.1 218559392 7132424 complement(2617039..2617326) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16291677, 10464203; Product type ps : putative structure; putative carboxysome-like ethanolaminosome structural protein, ethanolamine utilization protein 2617326 cchB 7132424 cchB Escherichia coli S88 putative carboxysome-like ethanolaminosome structural protein, ethanolamine utilization protein YP_002392305.1 2617039 R 585035 CDS YP_002392306.1 218559393 7132430 complement(2617764..2618780) 1 NC_011742.1 in Salmonella this enzyme is required for ethanolamine catabolism; has higher affinity for CoA than Pta; phosphotransacetylase 2618780 eutD 7132430 eutD Escherichia coli S88 phosphotransacetylase YP_002392306.1 2617764 R 585035 CDS YP_002392307.1 218559394 7132427 complement(2618777..2619580) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16291677, 10464203; Product type pe : putative enzyme; putative cobalamin adenosyltransferase in ethanolamine utilization 2619580 eutT 7132427 eutT Escherichia coli S88 putative cobalamin adenosyltransferase in ethanolamine utilization YP_002392307.1 2618777 R 585035 CDS YP_002392308.1 218559395 7132433 complement(2619577..2620278) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 10464203; hypothetical protein 2620278 eutQ 7132433 eutQ Escherichia coli S88 hypothetical protein YP_002392308.1 2619577 R 585035 CDS YP_002392309.1 218559396 7132432 complement(2620253..2620732) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16291677, 10464203; Product type pe : putative enzyme; putative nucleoside triphosphate hydrolase domain protein 2620732 eutP 7132432 eutP Escherichia coli S88 putative nucleoside triphosphate hydrolase domain protein YP_002392309.1 2620253 R 585035 CDS YP_002392310.1 218559397 7132431 complement(2620745..2621080) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16291677, 10464203; Product type ps : putative structure; putative carboxysome-like ethanolaminosome structural protein with putative role in ethanol utilization 2621080 ypfE 7132431 ypfE Escherichia coli S88 putative carboxysome-like ethanolaminosome structural protein with putative role in ethanol utilization YP_002392310.1 2620745 R 585035 CDS YP_002392311.1 218559398 7133667 complement(2621373..2623652) 1 NC_011742.1 NADP-dependent; catalyzes the oxidative decarboxylation of malate to form pyruvate; decarboxylates oxaloacetate; malic enzyme 2623652 maeB 7133667 maeB Escherichia coli S88 malic enzyme YP_002392311.1 2621373 R 585035 CDS YP_002392312.1 218559399 7129404 2623941..2624891 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90230300; Product type e : enzyme; transaldolase A 2624891 talA 7129404 talA Escherichia coli S88 transaldolase A YP_002392312.1 2623941 D 585035 CDS YP_002392313.1 218559400 7131257 2624911..2626914 1 NC_011742.1 catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase; transketolase 2626914 tktB 7131257 tktB Escherichia coli S88 transketolase YP_002392313.1 2624911 D 585035 CDS YP_002392314.1 218559401 7133477 complement(2626991..2628034) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2628034 ypfG 7133477 ypfG Escherichia coli S88 hypothetical protein YP_002392314.1 2626991 R 585035 CDS YP_002392315.1 218559402 7133668 complement(2628160..2628735) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative NUDIX hydrolase 2628735 yffH 7133668 yffH Escherichia coli S88 putative NUDIX hydrolase YP_002392315.1 2628160 R 585035 CDS YP_002392316.1 218559403 7133524 complement(2628803..2630782) 1 NC_011742.1 unknown function; in E. coli the aegA gene is regulated by Fnr, NarXL, and NarQ (but not ArcA), induced under anaerobic conditions and repressed in the presence of nitrate (anaerobic); putative oxidoreductase Fe-S binding subunit 2630782 aegA 7133524 aegA Escherichia coli S88 putative oxidoreductase Fe-S binding subunit YP_002392316.1 2628803 R 585035 CDS YP_002392317.1 218559404 7132060 2630988..2632688 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92374842, 1508040, 1528845; Product type r : regulator; nitrate/nitrite sensor protein NarQ 2632688 narQ 7132060 narQ Escherichia coli S88 nitrate/nitrite sensor protein NarQ YP_002392317.1 2630988 D 585035 CDS YP_002392318.1 218559405 7129683 2632852..2635965 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12426336, 20158894, 21450803, 79216220, 10692383, 1644752; Product type t : transporter; aminoglycoside/multidrug efflux system 2635965 acrD 7129683 acrD Escherichia coli S88 aminoglycoside/multidrug efflux system YP_002392318.1 2632852 D 585035 CDS YP_002392319.1 218559406 7132044 2636504..2636860 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2636860 yffB 7132044 yffB Escherichia coli S88 hypothetical protein YP_002392319.1 2636504 D 585035 CDS YP_002392320.1 218559407 7133523 2636864..2637991 1 NC_011742.1 dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE), catalyzes the hydrolysis of N-succinyl-L,Ldiaminopimelate L,L-SDAP to L,L-diaminopimelate and succinate. It is a metalloprotease containing dinuclear active sites. Its structure is similar to the carboxypeptidase G2 from Pseudomonas sp. strain RS-16 and the aminopeptidase from Aeromonas proteolytica.; succinyl-diaminopimelate desuccinylase 2637991 dapE 7133523 dapE Escherichia coli S88 succinyl-diaminopimelate desuccinylase YP_002392320.1 2636864 D 585035 CDS YP_002392321.1 218559408 7130567 2638019..2638219 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2638219 ypfN 7130567 ypfN Escherichia coli S88 hypothetical protein YP_002392321.1 2638019 D 585035 CDS YP_002392322.1 218559409 7132065 complement(2638300..2638998) 1 NC_011742.1 Displays esterase activity toward palmitoyl-CoA and pNP-butyrate; esterase YpfH 2638998 ypfH 7132065 ypfH Escherichia coli S88 esterase YpfH YP_002392322.1 2638300 R 585035 CDS YP_002392323.1 218559410 7131980 complement(2639072..2641087) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase 2641087 ypfI 7131980 ypfI Escherichia coli S88 putative hydrolase YP_002392323.1 2639072 R 585035 CDS YP_002392324.1 218559411 7132063 complement(2641102..2641965) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2641965 ypfJ 7132063 ypfJ Escherichia coli S88 hypothetical protein YP_002392324.1 2641102 R 585035 CDS YP_002392325.1 218559412 7132064 complement(2642133..2642846) 1 NC_011742.1 catalyzes the formation of (S)-2-(5-amino-1-(5-phospho-D-ribosyl)imidazole-4- carboxamido)succinate from 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate and L-aspartate in purine biosynthesis; SAICAR synthase; phosphoribosylaminoimidazole-succinocarboxamide synthase 2642846 purC 7132064 purC Escherichia coli S88 phosphoribosylaminoimidazole-succinocarboxamide synthase YP_002392325.1 2642133 R 585035 CDS YP_002392326.1 218559413 7131746 complement(2643059..2644093) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91358331, 1885529, 2120198; Product type lp : lipoprotein; lipoprotein 2644093 nlpB 7131746 nlpB Escherichia coli S88 lipoprotein YP_002392326.1 2643059 R 585035 CDS YP_002392327.1 218559414 7129721 complement(2644110..2644988) 1 NC_011742.1 catalyzes the formation of dihydrodipicolinate from L-aspartate 4-semialdehyde and pyruvate in lysine and diaminopimelate biosynthesis; dihydrodipicolinate synthase 2644988 dapA 7129721 dapA Escherichia coli S88 dihydrodipicolinate synthase YP_002392327.1 2644110 R 585035 CDS YP_002392328.1 218559415 7130564 2645134..2645706 1 NC_011742.1 negative transcriptional regulator of the gcvTHP operon; glycine cleavage system transcriptional repressor 2645706 gcvR 7130564 gcvR Escherichia coli S88 glycine cleavage system transcriptional repressor YP_002392328.1 2645134 D 585035 CDS YP_002392329.1 218559416 7132200 2645706..2646176 1 NC_011742.1 bacterioferritin comigratory protein; thiol peroxidase; thioredoxin-dependent; hydroperoxide peroxidase; in Escherichia coli this enzyme preferentially reduces linoleic acid hydroperoxide; contains an active site cysteine; thioredoxin-dependent thiol peroxidase 2646176 bcp 7132200 bcp Escherichia coli S88 thioredoxin-dependent thiol peroxidase YP_002392329.1 2645706 D 585035 CDS YP_002392330.1 218559417 7129991 complement(2646275..2647336) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative permease 2647336 perM 7129991 perM Escherichia coli S88 putative permease YP_002392330.1 2646275 R 585035 CDS YP_002392331.1 218559418 7133677 2647549..2649012 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative peptidase 2649012 yfgC 7133677 yfgC Escherichia coli S88 putative peptidase YP_002392331.1 2647549 D 585035 CDS YP_002392332.1 218559419 7133528 2649033..2649392 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase 2649392 yfgD 7133528 yfgD Escherichia coli S88 putative oxidoreductase YP_002392332.1 2649033 D 585035 CDS YP_002392333.1 218559420 7133529 complement(2649530..2650276) 1 NC_011742.1 controls initiation of DNA replication by inhibiting re-initiation of replication, promotes hydrolysis of DnaA-bound ATP; DNA replication initiation factor 2650276 hda 7133529 hda Escherichia coli S88 DNA replication initiation factor YP_002392333.1 2649530 R 585035 CDS YP_002392334.1 218559421 7128889 complement(2650326..2651615) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8332529, 7721693; Product type t : transporter; uracil transporter 2651615 uraA 7128889 uraA Escherichia coli S88 uracil transporter YP_002392334.1 2650326 R 585035 CDS YP_002392335.1 218559422 7132450 complement(2651701..2652327) 1 NC_011742.1 Catalyzes the formation of uracil and 5-phospho-alpha-D-ribosy 1-diphosphate from UMP and diphosphate; uracil phosphoribosyltransferase 2652327 upp 7132450 upp Escherichia coli S88 uracil phosphoribosyltransferase YP_002392335.1 2651701 R 585035 CDS YP_002392336.1 218559423 7132449 2652651..2653688 1 NC_011742.1 catalyzes the formation of 1-(5-phosphoribosyl)-5-aminoimidazole from 2-(formamido)-N1-(5-phosphoribosyl)acetamidine and ATP in purine biosynthesis; phosphoribosylaminoimidazole synthetase 2653688 purM 7132449 purM Escherichia coli S88 phosphoribosylaminoimidazole synthetase YP_002392336.1 2652651 D 585035 CDS YP_002392337.1 218559424 7131753 2653688..2654326 1 NC_011742.1 glycinamide ribonucleotide transformylase; GAR Tfase; catalyzes the synthesis of 5'-phosphoribosylformylglycinamide from 5'-phosphoribosylglycinamide and 10-formyltetrahydrofolate; PurN requires formyl folate for the reaction unlike PurT which uses formate; phosphoribosylglycinamide formyltransferase 2654326 purN 7131753 purN Escherichia coli S88 phosphoribosylglycinamide formyltransferase YP_002392337.1 2653688 D 585035 CDS YP_002392338.1 218559425 7131754 2654498..2656564 1 NC_011742.1 catalyzes the reversible transfer of the terminal phosphate of ATP to form a long chain polyphosphate; polyphosphate kinase 2656564 ppk 7131754 ppk Escherichia coli S88 polyphosphate kinase YP_002392338.1 2654498 D 585035 CDS YP_002392339.1 218559426 7130764 2656569..2658110 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93107072, 94025037, 94165003, 8212131, 8380170; Product type e : enzyme; exopolyphosphatase 2658110 ppx 7130764 ppx Escherichia coli S88 exopolyphosphatase YP_002392339.1 2656569 D 585035 CDS YP_002392340.1 218559427 7130767 complement(2658149..2660392) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2660392 yfgF 7130767 yfgF Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392340.1 2658149 R 585035 CDS YP_002392341.1 218559428 7133530 complement(2660609..2660899) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2660899 7133530 ECS88_2676 Escherichia coli S88 hypothetical protein YP_002392341.1 2660609 R 585035 CDS YP_002392342.1 218559429 7130908 2661246..2661764 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative outer membrane lipoprotein 2661764 yfgH 7130908 yfgH Escherichia coli S88 putative outer membrane lipoprotein YP_002392342.1 2661246 D 585035 CDS YP_002392343.1 218559430 7133531 2661780..2662319 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2662319 yfgI 7133531 yfgI Escherichia coli S88 hypothetical protein YP_002392343.1 2661780 D 585035 CDS YP_002392344.1 218559431 7133532 complement(2662413..2663990) 1 NC_011742.1 contains glutamine-hydrolyzing domain and glutamine amidotransferase; GMP-binding domain; functions to produce GMP from XMP in the IMP pathway; GMP synthase 2663990 guaA 7133532 guaA Escherichia coli S88 GMP synthase YP_002392344.1 2662413 R 585035 CDS YP_002392345.1 218559432 7128874 complement(2664059..2665525) 1 NC_011742.1 catalyzes the synthesis of xanthosine monophosphate by the NAD+ dependent oxidation of inosine monophosphate; inosine 5'-monophosphate dehydrogenase 2665525 guaB 7128874 guaB Escherichia coli S88 inosine 5'-monophosphate dehydrogenase YP_002392345.1 2664059 R 585035 CDS YP_002392346.1 218559433 7128875 2665687..2667063 1 NC_011742.1 bidirectionally degrades single-stranded DNA into large acid-insoluble oligonucleotides; exodeoxyribonuclease VII large subunit 2667063 xseA 7128875 xseA Escherichia coli S88 exodeoxyribonuclease VII large subunit YP_002392346.1 2665687 D 585035 CDS YP_002392347.1 218559434 7132522 complement(2667132..2675183) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15347755, 12540539; Product type pm : putative membrane component; putative outer membrane protein; RatA precursor homolog 2675183 7132522 ECS88_2682 Escherichia coli S88 putative outer membrane protein; RatA precursor homolog YP_002392347.1 2667132 R 585035 CDS YP_002392348.1 218559435 7130911 complement(2676337..2678598) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8500884, 3304658, 12540539; Product type pf : putative factor; putative intimin ((attaching and effacing protein) or invasin protein (sivH-like) 2678598 7130911 ECS88_2685 Escherichia coli S88 putative intimin ((attaching and effacing protein) or invasin protein (sivH-like) YP_002392348.1 2676337 R 585035 CDS YP_002392349.1 218559436 7130912 complement(2678777..2678992) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2678992 7130912 ECS88_2686 Escherichia coli S88 hypothetical protein YP_002392349.1 2678777 R 585035 CDS YP_002392350.1 218559437 7130913 complement(2679055..2680527) 1 NC_011742.1 EngA; essential Neisserial GTPase; synchronizes cellular events by interacting with multiple targets with tandem G-domains; overexpression in Escherichia coli suppresses rrmJ mutation; structural analysis of the Thermotoga maritima ortholog shows different nucleotide binding affinities in the two binding domains; GTP-binding protein EngA 2680527 engA 7130913 engA Escherichia coli S88 GTP-binding protein EngA YP_002392350.1 2679055 R 585035 CDS YP_002392351.1 218559438 7130190 complement(2680645..2681823) 1 NC_011742.1 with YaeT, YfiO, and NlpB forms a complex involved in outer membrane protein biogenesis; outer membrane protein assembly complex subunit YfgL 2681823 yfgL 7130190 yfgL Escherichia coli S88 outer membrane protein assembly complex subunit YfgL YP_002392351.1 2680645 R 585035 CDS YP_002392352.1 218559439 7133533 complement(2681834..2682454) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2682454 yfgM 7133533 yfgM Escherichia coli S88 hypothetical protein YP_002392352.1 2681834 R 585035 CDS YP_002392353.1 218559440 7133534 complement(2682472..2683746) 1 NC_011742.1 catalyzes a two-step reaction, first charging a histidine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; class II aminoacyl-tRNA synthetase; forms homodimers; some organisms have a paralogous gene, hisZ, that is similar to hisS and produces a protein that performs the first step in histidine biosynthesis along with HisG; histidyl-tRNA synthetase 2683746 hisS 7133534 hisS Escherichia coli S88 histidyl-tRNA synthetase YP_002392353.1 2682472 R 585035 CDS YP_002392354.1 218559441 7129860 complement(2683857..2684975) 1 NC_011742.1 catalyzes the conversion of 2C-methyl-D-erythritol 2,4-cyclodiphosphate into 4-hydroxy-3-methyl-2-en-1-yl diphosphate; involved in isoprenoid synthesis; 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase 2684975 ispG 7129860 ispG Escherichia coli S88 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase YP_002392354.1 2683857 R 585035 CDS YP_002392355.1 218559442 7130423 complement(2685002..2686009) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; cytoskeletal protein RodZ 2686009 yfgA 7130423 yfgA Escherichia coli S88 cytoskeletal protein RodZ YP_002392355.1 2685002 R 585035 CDS YP_002392356.1 218559443 7133526 complement(2686294..2687448) 1 NC_011742.1 23S rRNA m2A2503 methyltransferase; methylates the C2 position of the A2530 nucleotide in 23S rRNA; may be involved in antibiotic resistance; ribosomal RNA large subunit methyltransferase N 2687448 yfgB 7133526 yfgB Escherichia coli S88 ribosomal RNA large subunit methyltransferase N YP_002392356.1 2686294 R 585035 CDS YP_002392357.1 218559444 7133527 complement(2687598..2688029) 1 NC_011742.1 catalyzes the formation of nucleoside triphosphate from ATP and nucleoside diphosphate; nucleoside diphosphate kinase 2688029 ndk 7133527 ndk Escherichia coli S88 nucleoside diphosphate kinase YP_002392357.1 2687598 R 585035 CDS YP_002392358.1 218559445 7129691 complement(2688178..2690490) 1 NC_011742.1 penicillin-insensitive transglycosylase/transpeptidase; penicillin-binding protein 1C 2690490 pbpC 7129691 pbpC Escherichia coli S88 penicillin-binding protein 1C YP_002392358.1 2688178 R 585035 CDS YP_002392359.1 218559446 7133175 complement(2690491..2695452) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2695452 yfhM 7133175 yfhM Escherichia coli S88 hypothetical protein YP_002392359.1 2690491 R 585035 CDS YP_002392360.1 218559447 7133543 2695659..2696504 1 NC_011742.1 catalyzes the transfer of a sulfur ion to cyanide or to other thiol compounds; 3-mercaptopyruvate sulfurtransferase 2696504 sseA 7133543 sseA Escherichia coli S88 3-mercaptopyruvate sulfurtransferase YP_002392360.1 2695659 D 585035 CDS YP_002392361.1 218559448 7131338 complement(2696997..2697773) 1 NC_011742.1 enhances serine sensitivity caused by inhibition of homoserine dehydrogenase I; enhanced serine sensitivity protein SseB 2697773 sseB 7131338 sseB Escherichia coli S88 enhanced serine sensitivity protein SseB YP_002392361.1 2696997 R 585035 CDS YP_002392362.1 218559449 7130650 complement(2697915..2699198) 1 NC_011742.1 catalyzes the removal of an N-terminal amino acid from a peptide or arylamide; aminopeptidase B 2699198 pepB 7130650 pepB Escherichia coli S88 aminopeptidase B YP_002392362.1 2697915 R 585035 CDS YP_002392363.1 218559450 7133670 complement(2699257..2699457) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 10393315; Product type pf : putative factor; hypothetical protein 2699457 yfhJ 7133670 yfhJ Escherichia coli S88 hypothetical protein YP_002392363.1 2699257 R 585035 CDS YP_002392364.1 218559451 7133540 complement(2699469..2699804) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10393315, 20013001, 92283811, 94181532, 11551196, 1317854, 4375562, 8300516; Product type c : carrier; [2Fe-2S] ferredoxin 2699804 fdx 7133540 fdx Escherichia coli S88 [2Fe-2S] ferredoxin YP_002392364.1 2699469 R 585035 CDS YP_002392365.1 218559452 7129461 complement(2699806..2701656) 1 NC_011742.1 involved in the maturation of iron-sulfur cluster-containing proteins; chaperone protein HscA 2701656 hscA 7129461 hscA Escherichia coli S88 chaperone protein HscA YP_002392365.1 2699806 R 585035 CDS YP_002392366.1 218559453 7131391 complement(2701673..2702188) 1 NC_011742.1 J-type co-chaperone that regulates the ATPase and peptide-binding activity of Hsc66 chaperone; may function in biogenesis of iron-sulfur proteins; co-chaperone HscB 2702188 hscB 7131391 hscB Escherichia coli S88 co-chaperone HscB YP_002392366.1 2701673 R 585035 CDS YP_002392367.1 218559454 7131392 complement(2702284..2702607) 1 NC_011742.1 forms iron-sulfur clusters of ferredoxin [2FE-2S]; binds iron in the presence of the thioredoxin reductase system; forms homodimers and tetramers; similar to SufA protein; iron-sulfur cluster assembly protein 2702607 iscA 7131392 iscA Escherichia coli S88 iron-sulfur cluster assembly protein YP_002392367.1 2702284 R 585035 CDS YP_002392368.1 218559455 7130413 complement(2702624..2703010) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10393315, 11994302, 15153099; Product type f : factor; scaffold protein 2703010 iscU 7130413 iscU Escherichia coli S88 scaffold protein YP_002392368.1 2702624 R 585035 CDS YP_002392369.1 218559456 7130416 complement(2703038..2704252) 1 NC_011742.1 catalyzes the removal of elemental sulfur from cysteine to produce alanine; involved in NAD biosynthesis; cysteine desulfurase 2704252 iscS 7130416 iscS Escherichia coli S88 cysteine desulfurase YP_002392369.1 2703038 R 585035 CDS YP_002392370.1 218559457 7130415 complement(2704364..2704852) 1 NC_011742.1 regulates the expression of the iscRSUA operon; DNA-binding transcriptional regulator IscR 2704852 iscR 7130415 iscR Escherichia coli S88 DNA-binding transcriptional regulator IscR YP_002392370.1 2704364 R 585035 CDS YP_002392371.1 218559458 7130414 complement(2705122..2705862) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10393315; Product type pe : putative enzyme; putative methyltransferase 2705862 yfhQ 7130414 yfhQ Escherichia coli S88 putative methyltransferase YP_002392371.1 2705122 R 585035 CDS YP_002392372.1 218559459 7133544 2705981..2706784 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6389495, 90202735, 95095968, 10747806, 2138605, 8002619; Product type e : enzyme; inositol monophosphatase 2706784 suhB 7133544 suhB Escherichia coli S88 inositol monophosphatase YP_002392372.1 2705981 D 585035 CDS YP_002392373.1 218559460 7131249 2706902..2707783 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative peptidase 2707783 yfhR 7131249 yfhR Escherichia coli S88 putative peptidase YP_002392373.1 2706902 D 585035 CDS YP_002392374.1 218559461 7133545 2707974..2709254 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95020540, 96154950; Product type cp : cell process; stationary phase inducible protein CsiE 2709254 csiE 7133545 csiE Escherichia coli S88 stationary phase inducible protein CsiE YP_002392374.1 2707974 D 585035 CDS YP_002392375.1 218559462 7131977 complement(2709246..2710385) 1 NC_011742.1 putative transporter of 3-phenylpropionate across the inner membrane; member of the major facilitator superfamily of transporters; putative 3-phenylpropionic acid transporter 2710385 hcaT 7131977 hcaT Escherichia coli S88 putative 3-phenylpropionic acid transporter YP_002392375.1 2709246 R 585035 CDS YP_002392376.1 218559463 7128885 2710709..2711176 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2711176 yphA 7128885 yphA Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392376.1 2710709 D 585035 CDS YP_002392377.1 218559464 7132066 complement(2711336..2712208) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2712208 yphB 7132066 yphB Escherichia coli S88 hypothetical protein YP_002392377.1 2711336 R 585035 CDS YP_002392378.1 218559465 7132067 complement(2712220..2713281) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase, Zn-dependent and NAD(P)-binding 2713281 yphC 7132067 yphC Escherichia coli S88 putative oxidoreductase, Zn-dependent and NAD(P)-binding YP_002392378.1 2712220 R 585035 CDS YP_002392379.1 218559466 7132068 complement(2713347..2714345) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: membrane component of ABC superfamily 2714345 yphD 7132068 yphD Escherichia coli S88 putative sugar transporter subunit: membrane component of ABC superfamily YP_002392379.1 2713347 R 585035 CDS YP_002392380.1 218559467 7132069 complement(2714370..2715881) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; fused putative sugar transporter subunits of ABC superfamily: ATP-binding components 2715881 yphE 7132069 yphE Escherichia coli S88 fused putative sugar transporter subunits of ABC superfamily: ATP-binding components YP_002392380.1 2714370 R 585035 CDS YP_002392381.1 218559468 7132070 complement(2715904..2716887) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9298646; Product type pt : putative transporter; putative sugar transporter subunit: periplasmic-binding component of ABC superfamily 2716887 yphF 7132070 yphF Escherichia coli S88 putative sugar transporter subunit: periplasmic-binding component of ABC superfamily YP_002392381.1 2715904 R 585035 CDS YP_002392382.1 218559469 7132071 complement(2716984..2720265) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2720265 yphG 7132071 yphG Escherichia coli S88 hypothetical protein YP_002392382.1 2716984 R 585035 CDS YP_002392383.1 218559470 7132072 2720383..2721576 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2721576 yphH 7132072 yphH Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392383.1 2720383 D 585035 CDS YP_002392384.1 218559471 7132073 complement(2721640..2722893) 1 NC_011742.1 catalyzes the reaction of glycine with 5,10-methylenetetrahydrofolate to form L-serine and tetrahydrofolate; serine hydroxymethyltransferase 2722893 glyA 7132073 glyA Escherichia coli S88 serine hydroxymethyltransferase YP_002392384.1 2721640 R 585035 CDS YP_002392385.1 218559472 7130041 2723222..2724412 1 NC_011742.1 flavohemoprotein; catalyzes the formation of nitrate from nitric oxide; can also catalyze the reduction of dihydropteridine; nitric oxide dioxygenase 2724412 hmp 7130041 hmp Escherichia coli S88 nitric oxide dioxygenase YP_002392385.1 2723222 D 585035 CDS YP_002392386.1 218559473 7128935 complement(2724457..2724795) 1 NC_011742.1 indirectly regulates nitrogen metabolism; at high nitrogen levels P-II prevents the phosphorylation of NR-I, the transcriptional activator of the glutamine synthetase gene (glnA); at low nitrogen levels P-II is uridylylated to form PII-UMP and interacts with an adenylyltransferase (GlnE) that activates GlnA; nitrogen regulatory protein P-II 1 2724795 glnB 7128935 glnB Escherichia coli S88 nitrogen regulatory protein P-II 1 YP_002392386.1 2724457 R 585035 CDS YP_002392387.1 218559474 7130005 complement(2724856..2726190) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8226691, 8412694; Product type pr : putative regulator; putative DNA-binding response regulator in two-component system 2726190 yfhA 7130005 yfhA Escherichia coli S88 putative DNA-binding response regulator in two-component system YP_002392387.1 2724856 R 585035 CDS YP_002392388.1 218559475 7133535 complement(2726180..2726893) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2726893 yfhG 7133535 yfhG Escherichia coli S88 hypothetical protein YP_002392388.1 2726180 R 585035 CDS YP_002392389.1 218559476 7133538 complement(2727058..2728485) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative sensory kinase in two-component system 2728485 yfhK 7133538 yfhK Escherichia coli S88 putative sensory kinase in two-component system YP_002392389.1 2727058 R 585035 CDS YP_002392390.1 218559477 7133475 complement(2729061..2732948) 1 NC_011742.1 catalyzes the formation of 2-(formamido)-N1-(5-phospho-D-ribosyl)acetamidine from N2-formyl-N1-(5-phospho-D-ribosyl)glycinamide and L-glutamine in purine biosynthesis; phosphoribosylformylglycinamidine synthase 2732948 purL 7133475 purL Escherichia coli S88 phosphoribosylformylglycinamidine synthase YP_002392390.1 2729061 R 585035 CDS YP_002392391.1 218559478 7131752 2733346..2734764 1 NC_011742.1 YfhD; uncharacterized member of the transglycosylase slt family; part of the rob operon, which plays a role in cellular resistance to antibiotics, bactericidal agents, and organic solvents; unknown function; putative transglycosylase 2734764 yfhD 7131752 yfhD Escherichia coli S88 putative transglycosylase YP_002392391.1 2733346 D 585035 CDS YP_002392392.1 218559479 7133537 complement(2734761..2735297) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12110595; Product type e : enzyme; tRNA-specific adenosine deaminase 2735297 tadA 7133537 tadA Escherichia coli S88 tRNA-specific adenosine deaminase YP_002392392.1 2734761 R 585035 CDS YP_002392393.1 218559480 7131255 complement(2735322..2735957) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2735957 yfhB 7131255 yfhB Escherichia coli S88 hypothetical protein YP_002392393.1 2735322 R 585035 CDS YP_002392394.1 218559481 7133536 2736166..2737014 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2737014 yfhH 7133536 yfhH Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392394.1 2736166 D 585035 CDS YP_002392395.1 218559482 7133539 2737070..2737330 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8765743, 8880900; Product type c : carrier; ferredoxin (4Fe-4S cluster-containing protein) (fdx-like) 2737330 yfhL 7133539 yfhL Escherichia coli S88 ferredoxin (4Fe-4S cluster-containing protein) (fdx-like) YP_002392395.1 2737070 D 585035 CDS YP_002392396.1 218559483 7131339 complement(2737601..2737765) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2737765 7131339 ECS88_2735 Escherichia coli S88 hypothetical protein YP_002392396.1 2737601 R 585035 CDS YP_002392397.1 218559484 7131340 complement(2738025..2738405) 1 NC_011742.1 Catalyzes the formation of holo-ACP, which mediates the essential transfer of acyl fatty acid intermediates during the biosynthesis of fatty acids and lipids; 4'-phosphopantetheinyl transferase 2738405 acpS 7131340 acpS Escherichia coli S88 4'-phosphopantetheinyl transferase YP_002392397.1 2738025 R 585035 CDS YP_002392398.1 218559485 7132040 complement(2738405..2739136) 1 NC_011742.1 involved in the de novo synthesis of pyridoxine (Vitamin B6); pyridoxine 5'-phosphate synthase 2739136 pdxJ 7132040 pdxJ Escherichia coli S88 pyridoxine 5'-phosphate synthase YP_002392398.1 2738405 R 585035 CDS YP_002392399.1 218559486 7133184 complement(2739148..2739876) 1 NC_011742.1 involved in DNA repair and RecFOR pathway recombination; RecFOR proteins displace ssDNA-binding protein and facilitate the production of RecA-coated ssDNA; DNA repair protein RecO 2739876 recO 7133184 recO Escherichia coli S88 DNA repair protein RecO YP_002392399.1 2739148 R 585035 CDS YP_002392400.1 218559487 7131811 complement(2739888..2740793) 1 NC_011742.1 Era; Escherichia coli Ras-like protein; Bex; Bacillus Era-complementing segment; essential protein in Escherichia coli that is involved in many cellular processes; GTPase; binds the cell membrane through apparent C-terminal domain; mutants are arrested during the cell cycle; Streptococcus pneumoniae Era binds to RNA and Escherichia coli Era binds 16S rRNA and 30S ribosome; GTP-binding protein Era 2740793 era 7131811 era Escherichia coli S88 GTP-binding protein Era YP_002392400.1 2739888 R 585035 CDS YP_002392401.1 218559488 7132415 complement(2740790..2741470) 1 NC_011742.1 cytoplasmic enzyme involved in processing rRNA and some mRNAs; substrates typically have dsRNA regions; forms a homodimer; have N-terminal nuclease and C-terminal RNA-binding domains; requires magnesium as preferred ion for activity; ribonuclease III 2741470 rnc 7132415 rnc Escherichia coli S88 ribonuclease III YP_002392401.1 2740790 R 585035 CDS YP_002392402.1 218559489 7132743 complement(2741737..2742711) 1 NC_011742.1 catalyzes the cleavage of the amino-terminal leader peptide from secretory proteins; signal peptidase I 2742711 lepB 7132743 lepB Escherichia coli S88 signal peptidase I YP_002392402.1 2741737 R 585035 CDS YP_002392403.1 218559490 7130483 complement(2742727..2744526) 1 NC_011742.1 binds to the ribosome on the universally-conserved alpha-sarcin loop; GTP-binding protein LepA 2744526 lepA 7130483 lepA Escherichia coli S88 GTP-binding protein LepA YP_002392403.1 2742727 R 585035 CDS YP_002392404.1 218559491 7130482 complement(2744724..2745203) 1 NC_011742.1 involved in the reduction of the SoxR iron-sulfur cluster; SoxR reducing system protein RseC 2745203 rseC 7130482 rseC Escherichia coli S88 SoxR reducing system protein RseC YP_002392404.1 2744724 R 585035 CDS YP_002392405.1 218559492 7133811 complement(2745200..2746156) 1 NC_011742.1 periplasmic protein; interacts with the C-terminal domain of RseA and stimulates RseA binding to sigmaE via the cytoplasmic RseA N-terminal domain which then sequesters sigmaE in the membrane thereby preventing sigmaE associated with core RNAP; periplasmic negative regulator of sigmaE 2746156 rseB 7133811 rseB Escherichia coli S88 periplasmic negative regulator of sigmaE YP_002392405.1 2745200 R 585035 CDS YP_002392406.1 218559493 7133810 complement(2746156..2746806) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9159522, 97303092, 99431977, 7768826; Product type f : factor; anti-RNA polymerase sigma factor SigE 2746806 rseA 7133810 rseA Escherichia coli S88 anti-RNA polymerase sigma factor SigE YP_002392406.1 2746156 R 585035 CDS YP_002392407.1 218559494 7133809 complement(2746839..2747414) 1 NC_011742.1 Member of the extracytoplasmic function sigma factors which are active under specific conditions; binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; this sigma factor is involved in heat shock and oxidative stress response; RNA polymerase sigma factor RpoE 2747414 rpoE 7133809 rpoE Escherichia coli S88 RNA polymerase sigma factor RpoE YP_002392407.1 2746839 R 585035 CDS YP_002392408.1 218559495 7133778 2747822..2749444 1 NC_011742.1 catalyzes the formation of oxaloacetate from L-aspartate; L-aspartate oxidase 2749444 nadB 7133778 nadB Escherichia coli S88 L-aspartate oxidase YP_002392408.1 2747822 D 585035 CDS YP_002392409.1 218559496 7129651 complement(2749429..2750166) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative S-adenosyl-L-methionine-dependent methyltransferase 2750166 yfiC 7129651 yfiC Escherichia coli S88 putative S-adenosyl-L-methionine-dependent methyltransferase YP_002392409.1 2749429 R 585035 CDS YP_002392410.1 218559497 7133548 2750298..2751632 1 NC_011742.1 facilitates an early step in the assembly of the 50S subunit of the ribosome; ATP-dependent RNA helicase SrmB 2751632 srmB 7133548 srmB Escherichia coli S88 ATP-dependent RNA helicase SrmB YP_002392410.1 2750298 D 585035 CDS YP_002392411.1 218559498 7130646 complement(2751665..2752546) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2752546 yfiE 7130646 yfiE Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392411.1 2751665 R 585035 CDS YP_002392412.1 218559499 7133550 2752649..2753236 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12562784; Product type t : transporter; neutral amino-acid efflux protein 2753236 yfiK 7133550 yfiK Escherichia coli S88 neutral amino-acid efflux protein YP_002392412.1 2752649 D 585035 CDS YP_002392413.1 218559500 7133553 complement(2753292..2753675) 1 NC_011742.1 stress-induced glycyl radical protein that can replace an oxidatively damaged pyruvate formate-lyase subunit; autonomous glycyl radical cofactor GrcA 2753675 yfiD 7133553 yfiD Escherichia coli S88 autonomous glycyl radical cofactor GrcA YP_002392413.1 2753292 R 585035 CDS YP_002392414.1 218559501 7133549 2753980..2754669 1 NC_011742.1 Excises uracil residues from the DNA which can arise as a result of misincorporation of dUMP residues by DNA polymerase or due to deamination of cytosine; uracil-DNA glycosylase 2754669 ung 7133549 ung Escherichia coli S88 uracil-DNA glycosylase YP_002392414.1 2753980 D 585035 CDS YP_002392415.1 218559502 7132448 complement(2754717..2755754) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative methyltransferase 2755754 yfiF 7132448 yfiF Escherichia coli S88 putative methyltransferase YP_002392415.1 2754717 R 585035 CDS YP_002392416.1 218559503 7133551 complement(2755744..2755947) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative Z3866 protein 2755947 7133551 ECS88_2756 Escherichia coli S88 conserved hypothetical protein, putative Z3866 protein YP_002392416.1 2755744 R 585035 CDS YP_002392417.1 218559504 7130915 2755961..2756380 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12952960, 9388228, 99175138, 10644706; Product type c : carrier; thioredoxin 2 2756380 trxC 7130915 trxC Escherichia coli S88 thioredoxin 2 YP_002392417.1 2755961 D 585035 CDS YP_002392418.1 218559505 7130357 2756449..2757147 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2757147 yfiP 7130357 yfiP Escherichia coli S88 hypothetical protein YP_002392418.1 2756449 D 585035 CDS YP_002392419.1 218559506 7133558 2757179..2759839 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme; fused acyl-CoA synthetase: NAD(P)-binding subunit ; ATP-binding subunit 2759839 yfiQ 7133558 yfiQ Escherichia coli S88 fused acyl-CoA synthetase: NAD(P)-binding subunit ; ATP-binding subunit YP_002392419.1 2757179 D 585035 CDS YP_002392420.1 218559507 7133559 2759953..2761308 1 NC_011742.1 catalyzes de novo synthesis of phosphatidylserine from CDP-diacylglycerol and L-serine which leads eventually to the production of phosphatidylethanolamine; bounds to the ribosome; phosphatidylserine synthase 2761308 pssA 7133559 pssA Escherichia coli S88 phosphatidylserine synthase YP_002392420.1 2759953 D 585035 CDS YP_002392421.1 218559508 7130809 2761405..2761677 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2761677 yfiM 7130809 yfiM Escherichia coli S88 hypothetical protein YP_002392421.1 2761405 D 585035 CDS YP_002392422.1 218559509 7133555 complement(2761674..2762972) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91219460, 1709493, 2053984, 2118499, 2190187, 8419306; Product type t : transporter; alpha-ketoglutarate transporter 2762972 kgtP 7133555 kgtP Escherichia coli S88 alpha-ketoglutarate transporter YP_002392422.1 2761674 R 585035 CDS YP_002392423.1 218559510 7130458 2763366..2764907 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 7518087; Product type pe : putative enzyme; transposase for insertion sequence IS408 family (ORFA) 2764907 7130458 ECS88_2763 Escherichia coli S88 transposase for insertion sequence IS408 family (ORFA) YP_002392423.1 2763366 D 585035 CDS YP_002392424.1 218559511 7130916 2764919..2765668 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 7518087; Product type e : enzyme; transposase for insertion sequence IS408 family, putative ATP-binding protein (ORFB) 2765668 7130916 ECS88_2764 Escherichia coli S88 transposase for insertion sequence IS408 family, putative ATP-binding protein (ORFB) YP_002392424.1 2764919 D 585035 CDS YP_002392425.1 218559512 7130920 complement(2767111..2767833) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF B, IS3 family, IS150 group 2767833 7130920 ECS88_2768 Escherichia coli S88 transposase ORF B, IS3 family, IS150 group YP_002392425.1 2767111 R 585035 CDS YP_002392426.1 218559513 7129269 complement(2774042..2776615) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14550559, 14640692, 91294166, 93015925, 93388583, 99428468; Product type f : factor; protein disaggregation chaperone 2776615 clpB 7129269 clpB Escherichia coli S88 protein disaggregation chaperone YP_002392426.1 2774042 R 585035 CDS YP_002392427.1 218559514 7131341 complement(2776745..2777476) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 1906060, 2066329; hypothetical protein 2777476 yfiH 7131341 yfiH Escherichia coli S88 hypothetical protein YP_002392427.1 2776745 R 585035 CDS YP_002392428.1 218559515 7133552 complement(2777473..2778453) 1 NC_011742.1 responsible for synthesis of pseudouridine from uracil at positions 1911, 1915 and 1917 in 23S ribosomal RNA; 23S rRNA pseudouridine synthase D 2778453 rluD 7133552 rluD Escherichia coli S88 23S rRNA pseudouridine synthase D YP_002392428.1 2777473 R 585035 CDS YP_002392429.1 218559516 7132734 2778588..2779325 1 NC_011742.1 with YaeT, NlpB and YfgL forms a complex involved in the proper assembly and/or targeting of OMPs to the outer membrane; involved in resistance to ampicillin and tetracycline; outer membrane protein assembly complex subunit YfiO 2779325 yfiO 7132734 yfiO Escherichia coli S88 outer membrane protein assembly complex subunit YfiO YP_002392429.1 2778588 D 585035 CDS YP_002392430.1 218559517 7133557 2779595..2779936 1 NC_011742.1 associated with 30S ribosomal subunit; interferes with translation elongation; translation inhibitor protein RaiA 2779936 yfiA 7133557 yfiA Escherichia coli S88 translation inhibitor protein RaiA YP_002392430.1 2779595 D 585035 CDS YP_002392431.1 218559518 7133546 2780040..2780087 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type l : leader peptide; pheA gene leader peptide 2780087 pheL 7133546 pheL Escherichia coli S88 pheA gene leader peptide YP_002392431.1 2780040 D 585035 CDS YP_002392432.1 218559519 7133702 2780186..2781346 1 NC_011742.1 catalyzing the formation of prephenate from chorismate and the formation of phenylpyruvate from prephenate in phenylalanine biosynthesis; bifunctional chorismate mutase/prephenate dehydratase 2781346 pheA 7133702 pheA Escherichia coli S88 bifunctional chorismate mutase/prephenate dehydratase YP_002392432.1 2780186 D 585035 CDS YP_002392433.1 218559520 7133701 complement(2781389..2782510) 1 NC_011742.1 catalyzes the formation of prephenate from chorismate and the formation of 4-hydroxyphenylpyruvate from prephenate in tyrosine biosynthesis; bifunctional chorismate mutase/prephenate dehydrogenase 2782510 tyrA 7133701 tyrA Escherichia coli S88 bifunctional chorismate mutase/prephenate dehydrogenase YP_002392433.1 2781389 R 585035 CDS YP_002392434.1 218559521 7130374 complement(2782521..2783591) 1 NC_011742.1 catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, tyrosine sensitive; phospho-2-dehydro-3-deoxyheptonate aldolase 2783591 aroF 7130374 aroF Escherichia coli S88 phospho-2-dehydro-3-deoxyheptonate aldolase YP_002392434.1 2782521 R 585035 CDS YP_002392435.1 218559522 7129926 2783801..2784166 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 6396419; hypothetical protein 2784166 yfiL 7129926 yfiL Escherichia coli S88 hypothetical protein YP_002392435.1 2783801 D 585035 CDS YP_002392436.1 218559523 7133554 2784315..2784833 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2784833 yfiR 7133554 yfiR Escherichia coli S88 hypothetical protein YP_002392436.1 2784315 D 585035 CDS YP_002392437.1 218559524 7133560 2784823..2786049 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; hypothetical protein 2786049 yfiN 7133560 yfiN Escherichia coli S88 hypothetical protein YP_002392437.1 2784823 D 585035 CDS YP_002392438.1 218559525 7133556 2786065..2786547 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96032391; Product type pm : putative membrane component; putative outer membrane lipoprotein 2786547 yfiB 7133556 yfiB Escherichia coli S88 putative outer membrane lipoprotein YP_002392438.1 2786065 D 585035 CDS YP_002392439.1 218559526 7133547 complement(2786624..2786971) 1 NC_011742.1 this protein is located at the 30S-50S ribosomal subunit interface and may play a role in the structure and function of the aminoacyl-tRNA binding site; 50S ribosomal protein L19 2786971 rplS 7133547 rplS Escherichia coli S88 50S ribosomal protein L19 YP_002392439.1 2786624 R 585035 CDS YP_002392440.1 218559527 7133758 complement(2787013..2787780) 1 NC_011742.1 methylates guanosine-37 in various tRNAs; uses S-adenosyl-L-methionine to transfer methyl group to tRNA; tRNA (guanine-N(1)-)-methyltransferase 2787780 trmD 7133758 trmD Escherichia coli S88 tRNA (guanine-N(1)-)-methyltransferase YP_002392440.1 2787013 R 585035 CDS YP_002392441.1 218559528 7130339 complement(2787811..2788359) 1 NC_011742.1 Essential for efficient processing of 16S rRNA; 16S rRNA-processing protein RimM 2788359 rimM 7130339 rimM Escherichia coli S88 16S rRNA-processing protein RimM YP_002392441.1 2787811 R 585035 CDS YP_002392442.1 218559529 7132727 complement(2788378..2788626) 1 NC_011742.1 binds to lower part of 30S body where it stabilizes two domains; required for efficient assembly of 30S; in Escherichia coli this protein has nuclease activity; 30S ribosomal protein S16 2788626 rpsP 7132727 rpsP Escherichia coli S88 30S ribosomal protein S16 YP_002392442.1 2788378 R 585035 CDS YP_002392443.1 218559530 7133799 complement(2788763..2790124) 1 NC_011742.1 with 4.5S RNA forms a signal recognition particle involved in targeting and integration of inner membrane proteins; signal recognition particle protein 2790124 ffh 7133799 ffh Escherichia coli S88 signal recognition particle protein YP_002392443.1 2788763 R 585035 CDS YP_002392444.1 218559531 7129478 2790216..2791082 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2791082 ypjD 7129478 ypjD Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392444.1 2790216 D 585035 CDS YP_002392445.1 218559532 7132075 2791193..2792389 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2792389 yfjD 7132075 yfjD Escherichia coli S88 hypothetical protein YP_002392445.1 2791193 D 585035 CDS YP_002392446.1 218559533 7133562 complement(2792444..2793037) 1 NC_011742.1 with DnaK and DnaJ acts in response to hyperosmotic and heat shock by preventing the aggregation of stress-denatured proteins; may act as a thermosensor; heat shock protein GrpE 2793037 grpE 7133562 grpE Escherichia coli S88 heat shock protein GrpE YP_002392446.1 2792444 R 585035 CDS YP_002392447.1 218559534 7130072 2793160..2794038 1 NC_011742.1 catalyzes the phosphorylation of NAD to NADP; inorganic polyphosphate/ATP-NAD kinase 2794038 ppnK 7130072 ppnK Escherichia coli S88 inorganic polyphosphate/ATP-NAD kinase YP_002392447.1 2793160 D 585035 CDS YP_002392448.1 218559535 7133561 2794124..2795785 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87259985, 91355307, 95058623, 3037486; Product type cp : cell process; recombination and repair protein 2795785 recN 7133561 recN Escherichia coli S88 recombination and repair protein YP_002392448.1 2794124 D 585035 CDS YP_002392449.1 218559536 7131810 2795934..2796275 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 2045357; Product type lp : lipoprotein; hypothetical protein 2796275 smpA 7131810 smpA Escherichia coli S88 hypothetical protein YP_002392449.1 2795934 D 585035 CDS YP_002392450.1 218559537 7130613 complement(2796337..2796627) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2796627 yfjF 7130613 yfjF Escherichia coli S88 hypothetical protein YP_002392450.1 2796337 R 585035 CDS YP_002392451.1 218559538 7133563 complement(2796617..2797093) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2797093 yfjG 7133563 yfjG Escherichia coli S88 hypothetical protein YP_002392451.1 2796617 R 585035 CDS YP_002392452.1 218559539 7133564 2797225..2797707 1 NC_011742.1 binds to ssrA RNA (tmRNA) and is required for its successful binding to ribosomes; also appears to function in the trans-translation step by promoting accommodation of tmRNA into the ribosomal A site; SmpB protects the tmRNA from RNase R degradation in Caulobacter crescentus; both the tmRNA and SmpB are regulated in cell cycle-dependent manner; functions in release of stalled ribosomes from damaged mRNAs and targeting proteins for degradation; SsrA-binding protein 2797707 smpB 7133564 smpB Escherichia coli S88 SsrA-binding protein YP_002392452.1 2797225 D 585035 CDS YP_002392453.1 218559540 7130654 2798408..2798890 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2798890 7130654 ECS88_2808 Escherichia coli S88 hypothetical protein YP_002392453.1 2798408 D 585035 CDS YP_002392454.1 218559541 7130924 complement(2799204..2800304) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Late control gene D protein (GpD) 2800304 D 7130924 D Escherichia coli S88 Late control gene D protein (GpD) YP_002392454.1 2799204 R 585035 CDS YP_002392455.1 218559542 7130552 complement(2800301..2800786) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; bacteriophage tail protein GpU 2800786 U 7130552 U Escherichia coli S88 bacteriophage tail protein GpU YP_002392455.1 2800301 R 585035 CDS YP_002392456.1 218559543 7130379 complement(2800783..2803860) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage tail tape measure protein 2803860 7130379 ECS88_2811 Escherichia coli S88 putative phage tail tape measure protein YP_002392456.1 2800783 R 585035 CDS YP_002392457.1 218559544 7130925 complement(2803853..2803972) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage tail protein 2803972 7130925 ECS88_2812 Escherichia coli S88 putative phage tail protein YP_002392457.1 2803853 R 585035 CDS YP_002392458.1 218559545 7130926 complement(2803987..2804289) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage tail protein E 2804289 7130926 ECS88_2813 Escherichia coli S88 putative phage tail protein E YP_002392458.1 2803987 R 585035 CDS YP_002392459.1 218559546 7130927 complement(2804344..2804859) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major tail tube protein (Protein FII) 2804859 fII 7130927 fII Escherichia coli S88 Major tail tube protein (Protein FII) YP_002392459.1 2804344 R 585035 CDS YP_002392460.1 218559547 7129491 complement(2804869..2806041) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major tail sheath protein (Protein FI) 2806041 fI 7129491 fI Escherichia coli S88 Major tail sheath protein (Protein FI) YP_002392460.1 2804869 R 585035 CDS YP_002392461.1 218559548 7129488 complement(2806176..2806778) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Phage tail assembly chaperone 2806778 tfaE 7129488 tfaE Escherichia coli S88 Phage tail assembly chaperone YP_002392461.1 2806176 R 585035 CDS YP_002392462.1 218559549 7131285 complement(2806778..2808403) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative variable tail fiber protein 2808403 7131285 ECS88_2817 Escherichia coli S88 putative variable tail fiber protein YP_002392462.1 2806778 R 585035 CDS YP_002392463.1 218559550 7130928 complement(2808400..2809005) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail protein I (GpI) 2809005 I 7130928 I Escherichia coli S88 Tail protein I (GpI) YP_002392463.1 2808400 R 585035 CDS YP_002392464.1 218559551 7131600 complement(2808998..2809945) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Baseplate assembly protein J (GpJ) 2809945 J 7131600 J Escherichia coli S88 Baseplate assembly protein J (GpJ) YP_002392464.1 2808998 R 585035 CDS YP_002392465.1 218559552 7130430 complement(2809893..2810252) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Baseplate assembly protein W (GpW) 2810252 W 7130430 W Escherichia coli S88 Baseplate assembly protein W (GpW) YP_002392465.1 2809893 R 585035 CDS YP_002392466.1 218559553 7132475 complement(2810249..2810827) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Baseplate assembly protein V (GpV) 2810827 V 7132475 V Escherichia coli S88 Baseplate assembly protein V (GpV) YP_002392466.1 2810249 R 585035 CDS YP_002392467.1 218559554 7132469 2810966..2812666 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2812666 7132469 ECS88_2822 Escherichia coli S88 hypothetical protein YP_002392467.1 2810966 D 585035 CDS YP_002392468.1 218559555 7130929 complement(2812722..2813180) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage tail completion protein 2813180 7130929 ECS88_2823 Escherichia coli S88 putative phage tail completion protein YP_002392468.1 2812722 R 585035 CDS YP_002392469.1 218559556 7130930 complement(2813173..2813625) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail completion protein R (GpR) 2813625 R 7130930 R Escherichia coli S88 Tail completion protein R (GpR) YP_002392469.1 2813173 R 585035 CDS YP_002392470.1 218559557 7131779 complement(2813567..2813857) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2813857 7131779 ECS88_2825 Escherichia coli S88 hypothetical protein YP_002392470.1 2813567 R 585035 CDS YP_002392471.1 218559558 7130931 complement(2813700..2814128) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative Regulatory protein 2814128 7130931 ECS88_2826 Escherichia coli S88 putative Regulatory protein YP_002392471.1 2813700 R 585035 CDS YP_002392472.1 218559559 7130932 complement(2814125..2814574) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2814574 7130932 ECS88_2827 Escherichia coli S88 hypothetical protein YP_002392472.1 2814125 R 585035 CDS YP_002392473.1 218559560 7130933 complement(2814504..2815016) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; putative lysozyme protein R of prophage 2815016 R 7130933 R Escherichia coli S88 putative lysozyme protein R of prophage YP_002392473.1 2814504 R 585035 CDS YP_002392474.1 218559561 7131780 complement(2814997..2815212) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative secretory protein 2815212 7131780 ECS88_2829 Escherichia coli S88 putative secretory protein YP_002392474.1 2814997 R 585035 CDS YP_002392475.1 218559562 7130934 complement(2815216..2815419) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Phage tail protein X (GpX) 2815419 X 7130934 X Escherichia coli S88 Phage tail protein X (GpX) YP_002392475.1 2815216 R 585035 CDS YP_002392476.1 218559563 7132512 complement(2815419..2815946) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Head completion/stabilization protein (GpL) 2815946 L 7132512 L Escherichia coli S88 Head completion/stabilization protein (GpL) YP_002392476.1 2815419 R 585035 CDS YP_002392477.1 218559564 7130469 complement(2815979..2816629) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Terminase, endonuclease subunit (GpM) 2816629 M 7130469 M Escherichia coli S88 Terminase, endonuclease subunit (GpM) YP_002392477.1 2815979 R 585035 CDS YP_002392478.1 218559565 7129400 complement(2816633..2817691) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; minor capsid protein H1 and H2, major capsid protein N* 2817691 N 7129400 N Escherichia coli S88 minor capsid protein H1 and H2, major capsid protein N* YP_002392478.1 2816633 R 585035 CDS YP_002392479.1 218559566 7129648 complement(2817708..2818541) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Presumed capsid scaffolding protein (GpO) 2818541 O 7129648 O Escherichia coli S88 Presumed capsid scaffolding protein (GpO) YP_002392479.1 2817708 R 585035 CDS YP_002392480.1 218559567 7133119 2818684..2820450 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Terminase, ATPase subunit (GpP) 2820450 P 7133119 P Escherichia coli S88 Terminase, ATPase subunit (GpP) YP_002392480.1 2818684 D 585035 CDS YP_002392481.1 218559568 7133152 2820447..2821484 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage portal protein 2821484 7133152 ECS88_2836 Escherichia coli S88 putative phage portal protein YP_002392481.1 2820447 D 585035 CDS YP_002392482.1 218559569 7130935 complement(2821532..2822941) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2822941 7130935 ECS88_2837 Escherichia coli S88 hypothetical protein YP_002392482.1 2821532 R 585035 CDS YP_002392483.1 218559570 7130936 complement(2823263..2823568) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DinI-like damage-inducible protein 2823568 7130936 ECS88_2838 Escherichia coli S88 putative DinI-like damage-inducible protein YP_002392483.1 2823263 R 585035 CDS YP_002392484.1 218559571 7130937 complement(2823507..2823797) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2823797 7130937 ECS88_2839 Escherichia coli S88 hypothetical protein YP_002392484.1 2823507 R 585035 CDS YP_002392485.1 218559572 7130938 complement(2823849..2824205) 1 NC_011742.1 Evidence 7 : Gene remnant; conserved hypothetical protein of phage origin (partial) 2824205 7130938 ECS88_2840 Escherichia coli S88 conserved hypothetical protein of phage origin (partial) YP_002392485.1 2823849 R 585035 CDS YP_002392486.1 218559573 7130939 complement(2824202..2826289) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative bacteriophage replication gene A protein (endonuclease) 2826289 7130939 ECS88_2841 Escherichia coli S88 putative bacteriophage replication gene A protein (endonuclease) YP_002392486.1 2824202 R 585035 CDS YP_002392487.1 218559574 7130940 complement(2826286..2827203) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Site-specific DNA-methyltransferase (adenine-specific) 2827203 dam 7130940 dam Escherichia coli S88 Site-specific DNA-methyltransferase (adenine-specific) YP_002392487.1 2826286 R 585035 CDS YP_002392488.1 218559575 7130559 complement(2827140..2827367) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DksA/TraR protein family with a zinc finger 2827367 7130559 ECS88_2843 Escherichia coli S88 putative DksA/TraR protein family with a zinc finger YP_002392488.1 2827140 R 585035 CDS YP_002392489.1 218559576 7130941 complement(2827367..2827606) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2827606 7130941 ECS88_2844 Escherichia coli S88 hypothetical protein YP_002392489.1 2827367 R 585035 CDS YP_002392490.1 218559577 7130942 complement(2827668..2828009) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2828009 7130942 ECS88_2845 Escherichia coli S88 hypothetical protein YP_002392490.1 2827668 R 585035 CDS YP_002392491.1 218559578 7130943 complement(2828032..2828256) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 2828256 7130943 ECS88_2846 Escherichia coli S88 hypothetical protein YP_002392491.1 2828032 R 585035 CDS YP_002392492.1 218559579 7130944 complement(2828127..2828453) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein fil of phage origin 2828453 fil 7130944 fil Escherichia coli S88 conserved hypothetical protein fil of phage origin YP_002392492.1 2828127 R 585035 CDS YP_002392493.1 218559580 7129492 complement(2828431..2828940) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; regulatory protein cII 2828940 cII 7129492 cII Escherichia coli S88 regulatory protein cII YP_002392493.1 2828431 R 585035 CDS YP_002392494.1 218559581 7131914 complement(2828973..2829215) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage regulatory protein 2829215 7131914 ECS88_2849 Escherichia coli S88 putative phage regulatory protein YP_002392494.1 2828973 R 585035 CDS YP_002392495.1 218559582 7130945 2829337..2829969 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; phage regulatory protein cI 2829969 cI 7130945 cI Escherichia coli S88 phage regulatory protein cI YP_002392495.1 2829337 D 585035 CDS YP_002392496.1 218559583 7131911 2829972..2830991 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Integrase 2830991 int 7131911 int Escherichia coli S88 Integrase YP_002392496.1 2829972 D 585035 CDS YP_002392497.1 218559584 7131650 2830996..2832219 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2832219 7131650 ECS88_2852 Escherichia coli S88 hypothetical protein YP_002392497.1 2830996 D 585035 CDS YP_002392498.1 218559585 7130946 2832766..2832963 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2832963 7130946 ECS88_2853 Escherichia coli S88 hypothetical protein YP_002392498.1 2832766 D 585035 CDS YP_002392499.1 218559586 7130947 2832960..2833748 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2833748 7130947 ECS88_2854 Escherichia coli S88 hypothetical protein YP_002392499.1 2832960 D 585035 CDS YP_002392500.1 218559587 7130948 complement(2833836..2834129) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; Product type h : extrachromosomal origin; hypothetical protein 2834129 7130948 ECS88_2855 Escherichia coli S88 hypothetical protein YP_002392500.1 2833836 R 585035 CDS YP_002392501.1 218559588 7130949 complement(2834186..2834332) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2834332 7130949 ECS88_2856 Escherichia coli S88 hypothetical protein YP_002392501.1 2834186 R 585035 CDS YP_002392502.1 218559589 7130950 complement(2834340..2835146) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2835146 7130950 ECS88_2857 Escherichia coli S88 hypothetical protein YP_002392502.1 2834340 R 585035 CDS YP_002392503.1 218559590 7130951 2835603..2835740 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative protein from DinI-like family 2835740 7130951 ECS88_2859 Escherichia coli S88 putative protein from DinI-like family YP_002392503.1 2835603 D 585035 CDS YP_002392504.1 218559591 7130952 2836105..2838054 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2838054 7130952 ECS88_2860 Escherichia coli S88 hypothetical protein YP_002392504.1 2836105 D 585035 CDS YP_002392505.1 218559592 7133733 2838305..2838799 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2838799 7133733 ECS88_2862 Escherichia coli S88 hypothetical protein YP_002392505.1 2838305 D 585035 CDS YP_002392506.1 218559593 7130954 2838802..2839245 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tail fibre assembly protein 2839245 7130954 ECS88_2863 Escherichia coli S88 putative tail fibre assembly protein YP_002392506.1 2838802 D 585035 CDS YP_002392507.1 218559594 7130955 complement(2839217..2839819) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative tail fiber chaperone (assembly protein); e14 prophage 2839819 tfaE 7130955 tfaE Escherichia coli S88 putative tail fiber chaperone (assembly protein); e14 prophage YP_002392507.1 2839217 R 585035 CDS YP_002392508.1 218559595 7131286 complement(2839819..2840562) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage tail protein 2840562 7131286 ECS88_2865 Escherichia coli S88 putative phage tail protein YP_002392508.1 2839819 R 585035 CDS YP_002392509.1 218559596 7130956 complement(2840566..2841150) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; e14 prophage 2841150 ymfQ 7130956 ymfQ Escherichia coli S88 conserved hypothetical protein; e14 prophage YP_002392509.1 2840566 R 585035 CDS YP_002392510.1 218559597 7131131 complement(2841141..2842199) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative baseplate J-like phage protein 2842199 7131131 ECS88_2867 Escherichia coli S88 putative baseplate J-like phage protein YP_002392510.1 2841141 R 585035 CDS YP_002392511.1 218559598 7130957 complement(2842186..2842614) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tail protein 2842614 7130957 ECS88_2868 Escherichia coli S88 putative tail protein YP_002392511.1 2842186 R 585035 CDS YP_002392512.1 218559599 7130958 complement(2842611..2843159) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative baseplate assembly phage protein 2843159 7130958 ECS88_2869 Escherichia coli S88 putative baseplate assembly phage protein YP_002392512.1 2842611 R 585035 CDS YP_002392513.1 218559600 7130959 complement(2843159..2844238) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail protein 2844238 7130959 ECS88_2870 Escherichia coli S88 Tail protein YP_002392513.1 2843159 R 585035 CDS YP_002392514.1 218559601 7130960 complement(2844235..2845605) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail/DNA circulation protein 2845605 7130960 ECS88_2871 Escherichia coli S88 Tail/DNA circulation protein YP_002392514.1 2844235 R 585035 CDS YP_002392515.1 218559602 7130961 complement(2845624..2847459) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; phage tail tape measure protein 2847459 7130961 ECS88_2872 Escherichia coli S88 phage tail tape measure protein YP_002392515.1 2845624 R 585035 CDS YP_002392516.1 218559603 7130962 complement(2847601..2847870) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2847870 7130962 ECS88_2874 Escherichia coli S88 hypothetical protein YP_002392516.1 2847601 R 585035 CDS YP_002392517.1 218559604 7130963 complement(2847870..2848226) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage tail protein 2848226 7130963 ECS88_2875 Escherichia coli S88 putative phage tail protein YP_002392517.1 2847870 R 585035 CDS YP_002392518.1 218559605 7130964 complement(2848226..2849722) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail sheath protein 2849722 7130964 ECS88_2876 Escherichia coli S88 Tail sheath protein YP_002392518.1 2848226 R 585035 CDS YP_002392519.1 218559606 7130965 complement(2849706..2849876) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2849876 7130965 ECS88_2877 Escherichia coli S88 hypothetical protein YP_002392519.1 2849706 R 585035 CDS YP_002392520.1 218559607 7130966 complement(2849885..2850445) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2850445 7130966 ECS88_2878 Escherichia coli S88 hypothetical protein YP_002392520.1 2849885 R 585035 CDS YP_002392521.1 218559608 7130967 complement(2850442..2850948) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2850948 7130967 ECS88_2879 Escherichia coli S88 hypothetical protein YP_002392521.1 2850442 R 585035 CDS YP_002392522.1 218559609 7130968 complement(2850923..2851333) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage head-tail adaptor 2851333 7130968 ECS88_2880 Escherichia coli S88 putative phage head-tail adaptor YP_002392522.1 2850923 R 585035 CDS YP_002392523.1 218559610 7130969 complement(2851330..2851653) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2851653 7130969 ECS88_2881 Escherichia coli S88 hypothetical protein YP_002392523.1 2851330 R 585035 CDS YP_002392524.1 218559611 7130970 complement(2851656..2851856) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 2851856 7130970 ECS88_2882 Escherichia coli S88 hypothetical protein YP_002392524.1 2851656 R 585035 CDS YP_002392525.1 218559612 7130971 complement(2851906..2853111) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative major capsid protein 2853111 7130971 ECS88_2883 Escherichia coli S88 putative major capsid protein YP_002392525.1 2851906 R 585035 CDS YP_002392526.1 218559613 7130972 complement(2853126..2853812) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage pro-head protease 2853812 7130972 ECS88_2884 Escherichia coli S88 putative phage pro-head protease YP_002392526.1 2853126 R 585035 CDS YP_002392527.1 218559614 7130973 complement(2853754..2854995) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage portal protein 2854995 7130973 ECS88_2885 Escherichia coli S88 putative phage portal protein YP_002392527.1 2853754 R 585035 CDS YP_002392528.1 218559615 7130974 complement(2854995..2855177) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; e14 prophage 2855177 ymfR 7130974 ymfR Escherichia coli S88 conserved hypothetical protein; e14 prophage YP_002392528.1 2854995 R 585035 CDS YP_002392529.1 218559616 7131132 complement(2855189..2856922) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage terminase 2856922 7131132 ECS88_2887 Escherichia coli S88 putative phage terminase YP_002392529.1 2855189 R 585035 CDS YP_002392530.1 218559617 7130975 complement(2856919..2857422) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage terminase, small subunit 2857422 7130975 ECS88_2888 Escherichia coli S88 putative phage terminase, small subunit YP_002392530.1 2856919 R 585035 CDS YP_002392531.1 218559618 7130976 complement(2857539..2857889) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative endonuclease 2857889 7130976 ECS88_2889 Escherichia coli S88 putative endonuclease YP_002392531.1 2857539 R 585035 CDS YP_002392532.1 218559619 7130977 2857929..2858432 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2858432 7130977 ECS88_2890 Escherichia coli S88 hypothetical protein YP_002392532.1 2857929 D 585035 CDS YP_002392533.1 218559620 7130978 complement(2858539..2858790) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2858790 7130978 ECS88_2891 Escherichia coli S88 hypothetical protein YP_002392533.1 2858539 R 585035 CDS YP_002392534.1 218559621 7130979 complement(2858861..2859298) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; endopeptidase; bacteriophage lysis protein 2859298 rz 7130979 rz Escherichia coli S88 endopeptidase; bacteriophage lysis protein YP_002392534.1 2858861 R 585035 CDS YP_002392535.1 218559622 7131354 complement(2859295..2859771) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Lysozyme (Lysis protein) (Muramidase) (Endolysin) 2859771 r 7131354 r Escherichia coli S88 Lysozyme (Lysis protein) (Muramidase) (Endolysin) YP_002392535.1 2859295 R 585035 CDS YP_002392536.1 218559623 7131781 complement(2859758..2860162) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; Putative holin protein 2860162 7131781 ECS88_2894 Escherichia coli S88 Putative holin protein YP_002392536.1 2859758 R 585035 CDS YP_002392537.1 218559624 7130980 complement(2860215..2860550) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2860550 7130980 ECS88_2895 Escherichia coli S88 hypothetical protein YP_002392537.1 2860215 R 585035 CDS YP_002392538.1 218559625 7130981 complement(2860736..2861488) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative antitermination protein Q; Qin prophage 2861488 ydfT 7130981 ydfT Escherichia coli S88 putative antitermination protein Q; Qin prophage YP_002392538.1 2860736 R 585035 CDS YP_002392539.1 218559626 7129338 complement(2861502..2862497) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2862497 7129338 ECS88_2897 Escherichia coli S88 hypothetical protein YP_002392539.1 2861502 R 585035 CDS YP_002392540.1 218559627 7130982 complement(2862499..2863296) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative KilA protein; KilA-N domain 2863296 7130982 ECS88_2898 Escherichia coli S88 putative KilA protein; KilA-N domain YP_002392540.1 2862499 R 585035 CDS YP_002392541.1 218559628 7130983 complement(2863316..2863705) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Crossover junction endodeoxyribonuclease 2863705 rusA 7130983 rusA Escherichia coli S88 Crossover junction endodeoxyribonuclease YP_002392541.1 2863316 R 585035 CDS YP_002392542.1 218559629 7131314 complement(2863702..2864028) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative regulatory protein; lexA-binding domain 2864028 7131314 ECS88_2900 Escherichia coli S88 putative regulatory protein; lexA-binding domain YP_002392542.1 2863702 R 585035 CDS YP_002392543.1 218559630 7132773 complement(2864025..2864711) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative AdoMet-dependent methyltransferase 2864711 dam 7132773 dam Escherichia coli S88 putative AdoMet-dependent methyltransferase YP_002392543.1 2864025 R 585035 CDS YP_002392544.1 218559631 7130560 complement(2864678..2865172) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 2865172 yfdN 7130560 yfdN Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002392544.1 2864678 R 585035 CDS YP_002392545.1 218559632 7129830 complement(2865169..2866110) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative phage replication protein O 2866110 7129830 ECS88_2903 Escherichia coli S88 putative phage replication protein O YP_002392545.1 2865169 R 585035 CDS YP_002392546.1 218559633 7133276 complement(2866120..2866458) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; e14 prophage 2866458 ymfM 7133276 ymfM Escherichia coli S88 conserved hypothetical protein; e14 prophage YP_002392546.1 2866120 R 585035 CDS YP_002392547.1 218559634 7131130 complement(2866455..2867018) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative nucleic acid-binding protein; e14 prophage 2867018 ymfL 7131130 ymfL Escherichia coli S88 putative nucleic acid-binding protein; e14 prophage YP_002392547.1 2866455 R 585035 CDS YP_002392548.1 218559635 7131128 complement(2867050..2867553) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DNA-binding transcriptional regulator 2867553 7131128 ECS88_2907 Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392548.1 2867050 R 585035 CDS YP_002392549.1 218559636 7133277 2867341..2868015 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12878731, 13129938, 9689094; Product type h : extrachromosomal origin; repressor protein phage e14; e14 prophage 2868015 ymfK 7133277 ymfK Escherichia coli S88 repressor protein phage e14; e14 prophage YP_002392549.1 2867341 D 585035 CDS YP_002392550.1 218559637 7131126 complement(2868023..2868169) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 2868169 7131126 ECS88_2909 Escherichia coli S88 hypothetical protein YP_002392550.1 2868023 R 585035 CDS YP_002392551.1 218559638 7133278 complement(2868218..2868730) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 2868730 7133278 ECS88_2910 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002392551.1 2868218 R 585035 CDS YP_002392552.1 218559639 7133279 2868881..2869561 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2869561 7133279 ECS88_2911 Escherichia coli S88 hypothetical protein YP_002392552.1 2868881 D 585035 CDS YP_002392553.1 218559640 7133280 2869627..2870451 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 2870451 yfdQ 7133280 yfdQ Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002392553.1 2869627 D 585035 CDS YP_002392554.1 218559641 7129833 2870579..2871103 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 2871103 yfdR 7129833 yfdR Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002392554.1 2870579 D 585035 CDS YP_002392555.1 218559642 7129836 2871188..2872078 1 NC_011742.1 hypothetical protein 2872078 7129836 ECS88_2915 Escherichia coli S88 hypothetical protein YP_002392555.1 2871188 D 585035 CDS YP_002392556.1 218559643 7133281 2872081..2872326 1 NC_011742.1 hypothetical protein 2872326 7133281 ECS88_2916 Escherichia coli S88 hypothetical protein YP_002392556.1 2872081 D 585035 CDS YP_002392557.1 218559644 7133282 2872287..2873459 1 NC_011742.1 hypothetical protein 2873459 7133282 ECS88_2917 Escherichia coli S88 hypothetical protein YP_002392557.1 2872287 D 585035 CDS YP_002392558.1 218559645 7133283 complement(2873451..2874068) 1 NC_011742.1 hypothetical protein 2874068 7133283 ECS88_2918 Escherichia coli S88 hypothetical protein YP_002392558.1 2873451 R 585035 CDS YP_002392559.1 218559646 7133284 complement(2874079..2874405) 1 NC_011742.1 hypothetical protein 2874405 7133284 ECS88_2919 Escherichia coli S88 hypothetical protein YP_002392559.1 2874079 R 585035 CDS YP_002392560.1 218559647 7133285 complement(2874410..2875321) 1 NC_011742.1 hypothetical protein 2875321 7133285 ECS88_2920 Escherichia coli S88 hypothetical protein YP_002392560.1 2874410 R 585035 CDS YP_002392561.1 218559648 7133286 2875287..2875550 1 NC_011742.1 hypothetical protein 2875550 7133286 ECS88_2921 Escherichia coli S88 hypothetical protein YP_002392561.1 2875287 D 585035 CDS YP_002392562.1 218559649 7133287 2876182..2877159 1 NC_011742.1 in Escherichia coli this gene is induced by carbon starvation and depends on sigma S and cAMP-CRP; the structure of the Gab protein shows it is a member of non-heme iron (II)-dependent oxygenase superfamily which includes clavamini acid synthases; forms homotetramers in solution; hypothetical protein 2877159 ygaT 7133287 ygaT Escherichia coli S88 hypothetical protein YP_002392562.1 2876182 D 585035 CDS YP_002392563.1 218559650 7133572 2877179..2878447 1 NC_011742.1 catalyzed the formation of 2-ketoglutarate from 2-hydroxyglutarate; hydroxyglutarate oxidase 2878447 ygaF 7133572 ygaF Escherichia coli S88 hydroxyglutarate oxidase YP_002392563.1 2877179 D 585035 CDS YP_002392564.1 218559651 7133568 2878470..2879918 1 NC_011742.1 catalyzes the formation of succinate from succinate semialdehyde; NADP dependent; succinate-semialdehyde dehydrogenase I 2879918 gabD 7133568 gabD Escherichia coli S88 succinate-semialdehyde dehydrogenase I YP_002392564.1 2878470 D 585035 CDS YP_002392565.1 218559652 7132160 2879932..2881212 1 NC_011742.1 catalyzes the formation of succinate semialdehyde and glutamate from 4-aminobutanoate and 2-oxoglutarate; 4-aminobutyrate aminotransferase 2881212 gabT 7132160 gabT Escherichia coli S88 4-aminobutyrate aminotransferase YP_002392565.1 2879932 D 585035 CDS YP_002392566.1 218559653 7132162 2881450..2882850 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94127927, 9685361, 8297211; Product type t : transporter; gamma-aminobutyrate transporter 2882850 gabP 7132162 gabP Escherichia coli S88 gamma-aminobutyrate transporter YP_002392566.1 2881450 D 585035 CDS YP_002392567.1 218559654 7132161 2882871..2883533 1 NC_011742.1 regulator of gab gene expression; DNA-binding transcriptional regulator CsiR 2883533 csiR 7132161 csiR Escherichia coli S88 DNA-binding transcriptional regulator CsiR YP_002392567.1 2882871 D 585035 CDS YP_002392568.1 218559655 7131978 complement(2883534..2883983) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; LysM domain/BON superfamily protein 2883983 ygaU 7131978 ygaU Escherichia coli S88 LysM domain/BON superfamily protein YP_002392568.1 2883534 R 585035 CDS YP_002392569.1 218559656 7133573 complement(2884067..2884225) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2884225 yqaE 7133573 yqaE Escherichia coli S88 hypothetical protein YP_002392569.1 2884067 R 585035 CDS YP_002392570.1 218559657 7132078 2884408..2884707 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2884707 ygaV 7132078 ygaV Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392570.1 2884408 D 585035 CDS YP_002392571.1 218559658 7133574 2884717..2885241 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pe : putative enzyme; conserved hypothetical protein; putative inner membrane protein with hydrolase activity 2885241 ygaP 7133574 ygaP Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein with hydrolase activity YP_002392571.1 2884717 D 585035 CDS YP_002392572.1 218559659 7133571 complement(2885288..2885692) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20485613, 93126121, 9643551, 98132400, 99415935, 1480493, 7961433; Product type r : regulator; DNA binding protein, nucleoid-associated 2885692 stpA 7133571 stpA Escherichia coli S88 DNA binding protein, nucleoid-associated YP_002392572.1 2885288 R 585035 CDS YP_002392573.1 218559660 7131232 2886360..2886809 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2886809 ygaW 7131232 ygaW Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392573.1 2886360 D 585035 CDS YP_002392574.1 218559661 7133575 complement(2886846..2887190) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 7961433; hypothetical protein 2887190 ygaC 7133575 ygaC Escherichia coli S88 hypothetical protein YP_002392574.1 2886846 R 585035 CDS YP_002392575.1 218559662 7133566 2887330..2887671 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2887671 ygaM 7133566 ygaM Escherichia coli S88 hypothetical protein YP_002392575.1 2887330 D 585035 CDS YP_002392576.1 218559663 7133570 complement(2887728..2889062) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative fused protein: aminotransaminase/transcriptional regulator, GntR family 2889062 7133570 ECS88_2937 Escherichia coli S88 putative fused protein: aminotransaminase/transcriptional regulator, GntR family YP_002392576.1 2887728 R 585035 CDS YP_002392577.1 218559664 7133288 2889150..2889581 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2889581 7133288 ECS88_2938 Escherichia coli S88 hypothetical protein YP_002392577.1 2889150 D 585035 CDS YP_002392578.1 218559665 7133289 2889790..2890035 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9218434, 11441020, 8820648; Product type pc : putative carrier; glutaredoxin-like protein 2890035 nrdH 7133289 nrdH Escherichia coli S88 glutaredoxin-like protein YP_002392578.1 2889790 D 585035 CDS YP_002392579.1 218559666 7129738 2890032..2890442 1 NC_011742.1 in Salmonella NrdI has a stimulatory effect on the ribonucleotide reductase activity of NrdH with NrdEF; ribonucleotide reductase stimulatory protein 2890442 nrdI 7129738 nrdI Escherichia coli S88 ribonucleotide reductase stimulatory protein YP_002392579.1 2890032 D 585035 CDS YP_002392580.1 218559667 7129739 2890415..2892559 1 NC_011742.1 Catalyzes the rate-limiting step in dNTP synthesis; ribonucleotide-diphosphate reductase subunit alpha 2892559 nrdE 7129739 nrdE Escherichia coli S88 ribonucleotide-diphosphate reductase subunit alpha YP_002392580.1 2890415 D 585035 CDS YP_002392581.1 218559668 7129735 2892569..2893528 1 NC_011742.1 B2 or R2 protein; type 1b enzyme; catalyzes the rate-limiting step in dNTP synthesis; converts nucleotides to deoxynucleotides; forms a homodimer and then a multimeric complex with NrdE; ribonucleotide-diphosphate reductase subunit beta 2893528 nrdF 7129735 nrdF Escherichia coli S88 ribonucleotide-diphosphate reductase subunit beta YP_002392581.1 2892569 D 585035 CDS YP_002392582.1 218559669 7129736 2893884..2895086 1 NC_011742.1 with ProWX is involved in the high-affinity uptake of glycine betaine; glycine betaine transporter ATP-binding subunit 2895086 proV 7129736 proV Escherichia coli S88 glycine betaine transporter ATP-binding subunit YP_002392582.1 2893884 D 585035 CDS YP_002392583.1 218559670 7130790 2895079..2896143 1 NC_011742.1 with ProVX is involved in the high-affinity uptake of glycine betaine; glycine betaine transporter membrane protein 2896143 proW 7130790 proW Escherichia coli S88 glycine betaine transporter membrane protein YP_002392583.1 2895079 D 585035 CDS YP_002392584.1 218559671 7130791 2896201..2897193 1 NC_011742.1 with ProVW, part of the high-affinity transport system for the osmoprotectant glycine betaine; glycine betaine transporter periplasmic subunit 2897193 proX 7130791 proX Escherichia coli S88 glycine betaine transporter periplasmic subunit YP_002392584.1 2896201 D 585035 CDS YP_002392585.1 218559672 7130792 2897385..2898569 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16000740; Product type pt : putative transporter; putative transport protein (ousB-like) 2898569 7130792 ECS88_2946 Escherichia coli S88 putative transport protein (ousB-like) YP_002392585.1 2897385 D 585035 CDS YP_002392586.1 218559673 7133290 2898693..2899430 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 2899430 ygaZ 7133290 ygaZ Escherichia coli S88 putative transporter YP_002392586.1 2898693 D 585035 CDS YP_002392587.1 218559674 7133576 2899420..2899755 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2899755 ygaH 7133576 ygaH Escherichia coli S88 hypothetical protein YP_002392587.1 2899420 D 585035 CDS YP_002392588.1 218559675 7133569 2899846..2900376 1 NC_011742.1 DNA-binding transcriptional repressor of microcin B17 synthesis and multidrug efflux; negative regulator of the multidrug operon emrAB; transcriptional repressor MprA 2900376 mprA 7133569 mprA Escherichia coli S88 transcriptional repressor MprA YP_002392588.1 2899846 D 585035 CDS YP_002392589.1 218559676 7129600 2900503..2901675 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21450803, 93285984, 94262163, 1409590, 8203018; Product type t : transporter; multidrug efflux system 2901675 emrA 7129600 emrA Escherichia coli S88 multidrug efflux system YP_002392589.1 2900503 D 585035 CDS YP_002392590.1 218559677 7132391 2901692..2903230 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21450803, 93285984, 94262163, 1409590; Product type t : transporter; multidrug efflux system protein 2903230 emrB 7132391 emrB Escherichia coli S88 multidrug efflux system protein YP_002392590.1 2901692 D 585035 CDS YP_002392591.1 218559678 7132392 2903488..2904195 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2904195 7132392 ECS88_2952 Escherichia coli S88 hypothetical protein YP_002392591.1 2903488 D 585035 CDS YP_002392592.1 218559679 7133291 2904192..2905304 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative RNA related enzyme 2905304 7133291 ECS88_2953 Escherichia coli S88 putative RNA related enzyme YP_002392592.1 2904192 D 585035 CDS YP_002392593.1 218559680 7133292 complement(2905355..2905870) 1 NC_011742.1 catalyzes the hydrolysis of S-ribosylhomocysteine to homocysteine and autoinducer-2; S-ribosylhomocysteinase 2905870 luxS 7133292 luxS Escherichia coli S88 S-ribosylhomocysteinase YP_002392593.1 2905355 R 585035 CDS YP_002392594.1 218559681 7128833 complement(2906021..2907577) 1 NC_011742.1 involved in the first step of glutathione biosynthesis; glutamate--cysteine ligase 2907577 gshA 7128833 gshA Escherichia coli S88 glutamate--cysteine ligase YP_002392594.1 2906021 R 585035 CDS YP_002392595.1 218559682 7130076 complement(2907650..2908078) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 2908078 yqaA 7130076 yqaA Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392595.1 2907650 R 585035 CDS YP_002392596.1 218559683 7132076 complement(2908075..2908641) 1 NC_011742.1 YqaB; catalyzes the dephosphorylation of fructose 1-phosphate, 6-phosphogluconate and p-nitrophenyl phosphate (pNPP); presents beta-phosphoglucomutase activity at a lower extent; fructose-1-phosphatase 2908641 yqaB 7132076 yqaB Escherichia coli S88 fructose-1-phosphatase YP_002392596.1 2908075 R 585035 CDS YP_002392597.1 218559684 7131986 complement(2909831..2910016) 1 NC_011742.1 affects carbohydrate metabolism; has regulatory role in many processes; carbon storage regulator 2910016 csrA 7131986 csrA Escherichia coli S88 carbon storage regulator YP_002392597.1 2909831 R 585035 CDS YP_002392598.1 218559685 7130502 complement(2910251..2912881) 1 NC_011742.1 Catalyzes a two-step reaction, first charging an alanyl molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; alanyl-tRNA synthetase 2912881 alaS 7130502 alaS Escherichia coli S88 alanyl-tRNA synthetase YP_002392598.1 2910251 R 585035 CDS YP_002392599.1 218559686 7133039 complement(2913009..2913509) 1 NC_011742.1 binds RecA and inhibits RecA-mediated DNA strand exchange and ATP hydrolysis and coprotease activities; recombination regulator RecX 2913509 recX 7133039 recX Escherichia coli S88 recombination regulator RecX YP_002392599.1 2913009 R 585035 CDS YP_002392600.1 218559687 7131815 complement(2913578..2914639) 1 NC_011742.1 catalyzes the hydrolysis of ATP in the presence of single-stranded DNA, the ATP-dependent uptake of single-stranded DNA by duplex DNA, and the ATP-dependent hybridization of homologous single-stranded DNAs; recombinase A 2914639 recA 7131815 recA Escherichia coli S88 recombinase A YP_002392600.1 2913578 R 585035 CDS YP_002392601.1 218559688 7131803 complement(2914719..2915216) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; competence damage-inducible protein A 2915216 ygaD 7131803 ygaD Escherichia coli S88 competence damage-inducible protein A YP_002392601.1 2914719 R 585035 CDS YP_002392602.1 218559689 7133567 complement(2915361..2916446) 1 NC_011742.1 membrane-bound lytic murein transglycosylase B; catalyzes the cleavage of the glycosidic bonds between N-acetylmuramic acid and N-acetylglucosamine in peptidoglycan; murein hydrolase B 2916446 mltB 7133567 mltB Escherichia coli S88 murein hydrolase B YP_002392602.1 2915361 R 585035 CDS YP_002392603.1 218559690 7128843 2916703..2917266 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87194727, 1334233, 3553176; Product type t : transporter; glucitol/sorbitol-specific enzyme IIC component of PTS 2917266 srlA 7128843 srlA Escherichia coli S88 glucitol/sorbitol-specific enzyme IIC component of PTS YP_002392603.1 2916703 D 585035 CDS YP_002392604.1 218559691 7130641 2917263..2918222 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1100602, 3553176; Product type t : transporter; glucitol/sorbitol-specific enzyme IIB component of PTS 2918222 srlE 7130641 srlE Escherichia coli S88 glucitol/sorbitol-specific enzyme IIB component of PTS YP_002392604.1 2917263 D 585035 CDS YP_002392605.1 218559692 7130644 2918233..2918604 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system glucitol/sorbitol-specific transporter subunit IIA 2918604 srlB 7130644 srlB Escherichia coli S88 PTS system glucitol/sorbitol-specific transporter subunit IIA YP_002392605.1 2918233 D 585035 CDS YP_002392606.1 218559693 7130642 2918608..2919387 1 NC_011742.1 catalyzes the conversion of sorbitol 6-phosphate into fructose 6-phosphate; sorbitol-6-phosphate dehydrogenase 2919387 srlD 7130642 srlD Escherichia coli S88 sorbitol-6-phosphate dehydrogenase YP_002392606.1 2918608 D 585035 CDS YP_002392607.1 218559694 7130643 2919493..2919852 1 NC_011742.1 regulator for glucitol utilization; DNA-binding transcriptional activator GutM 2919852 gutM 7130643 gutM Escherichia coli S88 DNA-binding transcriptional activator GutM YP_002392607.1 2919493 D 585035 CDS YP_002392608.1 218559695 7128881 2919919..2920692 1 NC_011742.1 regulates genes involved in glucitol utilization; DNA-bindng transcriptional repressor SrlR 2920692 srlR 7128881 srlR Escherichia coli S88 DNA-bindng transcriptional repressor SrlR YP_002392608.1 2919919 D 585035 CDS YP_002392609.1 218559696 7130645 2920685..2921650 1 NC_011742.1 catalyzes the conversion of D-arabinose 5-phosphate to D-ribulose-5-phosphate; D-arabinose 5-phosphate isomerase 2921650 gutQ 7130645 gutQ Escherichia coli S88 D-arabinose 5-phosphate isomerase YP_002392609.1 2920685 D 585035 CDS YP_002392610.1 218559697 7128882 complement(2921647..2923161) 1 NC_011742.1 Required for the expression of anaerobic nitric oxide (NO) reductase; acts as a transcriptional activator for the norVW operon; anaerobic nitric oxide reductase transcription regulator 2923161 norR 7128882 norR Escherichia coli S88 anaerobic nitric oxide reductase transcription regulator YP_002392610.1 2921647 R 585035 CDS YP_002392611.1 218559698 7129728 2923348..2924787 1 NC_011742.1 detoxifies nitric oxide using NADH; anaerobic nitric oxide reductase flavorubredoxin 2924787 norV 7129728 norV Escherichia coli S88 anaerobic nitric oxide reductase flavorubredoxin YP_002392611.1 2923348 D 585035 CDS YP_002392612.1 218559699 7129729 2924784..2925917 1 NC_011742.1 catalyzes the reduction of the rubredoxin moiety of nitric oxide reductase; nitric oxide reductase 2925917 norW 7129729 norW Escherichia coli S88 nitric oxide reductase YP_002392612.1 2924784 D 585035 CDS YP_002392613.1 218559700 7129147 complement(2926141..2928393) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12377778, 92255260, 8661925; Product type e : enzyme; carbamoyl phosphate phosphatase and maturation protein for [NiFe] hydrogenases 2928393 hypF 7129147 hypF Escherichia coli S88 carbamoyl phosphate phosphatase and maturation protein for [NiFe] hydrogenases YP_002392613.1 2926141 R 585035 CDS YP_002392614.1 218559701 7131598 complement(2928546..2929073) 1 NC_011742.1 involved in electron transport from formate to hydrogen; electron transport protein HydN 2929073 hydN 7131598 hydN Escherichia coli S88 electron transport protein HydN YP_002392614.1 2928546 R 585035 CDS YP_002392615.1 218559702 7131591 complement(2929222..2930235) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88297127, 92334140, 1630307; Product type r : regulator; DNA-binding transcriptional repressor 2930235 ascG 7131591 ascG Escherichia coli S88 DNA-binding transcriptional repressor YP_002392615.1 2929222 R 585035 CDS YP_002392616.1 218559703 7129941 2930492..2931949 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC 2931949 ascF 7129941 ascF Escherichia coli S88 PTS system cellobiose/arbutin/salicin-specific transporter subunits IIBC YP_002392616.1 2930492 D 585035 CDS YP_002392617.1 218559704 7129940 2931958..2933382 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88297127, 92334140, 1630307; Product type e : enzyme; cryptic 6-phospho-beta-glucosidase 2933382 ascB 7129940 ascB Escherichia coli S88 cryptic 6-phospho-beta-glucosidase YP_002392617.1 2931958 D 585035 CDS YP_002392618.1 218559705 7129939 complement(2933480..2933899) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative HTH-type transcriptional regulator ygjM 2933899 7129939 ECS88_2980 Escherichia coli S88 putative HTH-type transcriptional regulator ygjM YP_002392618.1 2933480 R 585035 CDS YP_002392619.1 218559706 7133293 complement(2933925..2934110) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 2934110 7133293 ECS88_2981 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002392619.1 2933925 R 585035 CDS YP_002392620.1 218559707 7133294 complement(2934135..2934605) 1 NC_011742.1 involved in the C-terminal processing of the large subunit of hydrogenase 3 HycE; hydrogenase 3 maturation protease 2934605 hycI 7133294 hycI Escherichia coli S88 hydrogenase 3 maturation protease YP_002392620.1 2934135 R 585035 CDS YP_002392621.1 218559708 7131590 complement(2934598..2935008) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92215587, 92326636, 1625581, 2187144, 7851435; Product type f : factor; protein required for maturation of hydrogenase 3 2935008 hycH 7131590 hycH Escherichia coli S88 protein required for maturation of hydrogenase 3 YP_002392621.1 2934598 R 585035 CDS YP_002392622.1 218559709 7131589 complement(2935005..2935772) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90251163, 92215587, 92326636, 2187144; Product type e : enzyme; hydrogenase 3 and formate hydrogenase complex, HycG subunit 2935772 hycG 7131589 hycG Escherichia coli S88 hydrogenase 3 and formate hydrogenase complex, HycG subunit YP_002392622.1 2935005 R 585035 CDS YP_002392623.1 218559710 7131588 complement(2935772..2936314) 1 NC_011742.1 electron transfer protein for hydrogenase-3; the formate hydrogenlyase complex comprises of a formate dehydrogenase, unidentified electron carriers and hydrogenase-3; in this non-energy conserving pathway, molecular hydrogen and carbodioxide are released from formate; formate hydrogenlyase complex iron-sulfur subunit 2936314 hycF 7131588 hycF Escherichia coli S88 formate hydrogenlyase complex iron-sulfur subunit YP_002392623.1 2935772 R 585035 CDS YP_002392624.1 218559711 7131587 complement(2936324..2938033) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92215587, 92326636, 94170785, 2187144, 8125094; Product type e : enzyme; hydrogenase 3, large subunit 2938033 hycE 7131587 hycE Escherichia coli S88 hydrogenase 3, large subunit YP_002392624.1 2936324 R 585035 CDS YP_002392625.1 218559712 7131586 complement(2938051..2938974) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90251163, 92215587, 92326636; Product type m : membrane component; hydrogenase 3, membrane subunit 2938974 hycD 7131586 hycD Escherichia coli S88 hydrogenase 3, membrane subunit YP_002392625.1 2938051 R 585035 CDS YP_002392626.1 218559713 7131585 complement(2938977..2940803) 1 NC_011742.1 catalyzes the oxidation of formate to carbon dioxide and molecular hydrogen; formate hydrogenlyase comprises of a formate dehydrogenase, unidentified electron carriers and a hydrogenase (subunit 3); formate hydrogenlyase subunit 3 2940803 hycC 7131585 hycC Escherichia coli S88 formate hydrogenlyase subunit 3 YP_002392626.1 2938977 R 585035 CDS YP_002392627.1 218559714 7131584 complement(2940800..2941411) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90251163, 92215587, 92326636, 2187144; Product type c : carrier; hydrogenase 3, Fe-S subunit 2941411 hycB 7131584 hycB Escherichia coli S88 hydrogenase 3, Fe-S subunit YP_002392627.1 2940800 R 585035 CDS YP_002392628.1 218559715 7131583 complement(2941536..2941997) 1 NC_011742.1 regulates several genes involved in the formate hydrogenlyase system; seems to prevent binding of FhlA transcriptional activator to the activator sequence of hyc operon; formate hydrogenlyase regulatory protein HycA 2941997 hycA 7131583 hycA Escherichia coli S88 formate hydrogenlyase regulatory protein HycA YP_002392628.1 2941536 R 585035 CDS YP_002392629.1 218559716 7131582 2942209..2942559 1 NC_011742.1 plays a role in hydrogenase nickel cofactor insertion; hydrogenase nickel incorporation protein 2942559 hypA 7131582 hypA Escherichia coli S88 hydrogenase nickel incorporation protein YP_002392629.1 2942209 D 585035 CDS YP_002392630.1 218559717 7131593 2942563..2943435 1 NC_011742.1 GTP hydrolase involved in nickel liganding into hydrogenases; hydrogenase nickel incorporation protein HypB 2943435 hypB 7131593 hypB Escherichia coli S88 hydrogenase nickel incorporation protein HypB YP_002392630.1 2942563 D 585035 CDS YP_002392631.1 218559718 7131594 2943426..2943698 1 NC_011742.1 HypC; accessory protein necessary for maturation of the hydrogenase isoforms 1, 2 and 3; forms a complex with HypD, HypE, and HypF proteins, which is the site of ligand biosynthesis and attachment to the iron atom of the NiFe site in the hydrogenase; hydrogenase assembly chaperone 2943698 hypC 7131594 hypC Escherichia coli S88 hydrogenase assembly chaperone YP_002392631.1 2943426 D 585035 CDS YP_002392632.1 218559719 7131595 2943698..2944819 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91194542, 92255260, 1849603; Product type f : factor; protein required for maturation of hydrogenases 2944819 hypD 7131595 hypD Escherichia coli S88 protein required for maturation of hydrogenases YP_002392632.1 2943698 D 585035 CDS YP_002392633.1 218559720 7131596 2944858..2945826 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91194542, 9485446, 1849603; Product type e : enzyme; carbamoyl phosphate phosphatase, hydrogenase 3 maturation protein 2945826 hypE 7131596 hypE Escherichia coli S88 carbamoyl phosphate phosphatase, hydrogenase 3 maturation protein YP_002392633.1 2944858 D 585035 CDS YP_002392634.1 218559721 7131597 2945900..2947978 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20307603, 21557168, 90368529, 92140045, 94018617, 2118503, 2280686; Product type r : regulator; DNA-binding transcriptional activator 2947978 fhlA 7131597 fhlA Escherichia coli S88 DNA-binding transcriptional activator YP_002392634.1 2945900 D 585035 CDS YP_002392635.1 218559722 7129481 2947984..2948451 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; Putative molybdenum-pterin-binding-protein 2948451 7129481 ECS88_2997 Escherichia coli S88 Putative molybdenum-pterin-binding-protein YP_002392635.1 2947984 D 585035 CDS YP_002392636.1 218559723 7133295 complement(2948490..2948834) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2948834 ygbA 7133295 ygbA Escherichia coli S88 hypothetical protein YP_002392636.1 2948490 R 585035 CDS YP_002392637.1 218559724 7133577 2949120..2951681 1 NC_011742.1 This protein performs the mismatch recognition step during the DNA repair process; DNA mismatch repair protein MutS 2951681 mutS 7133577 mutS Escherichia coli S88 DNA mismatch repair protein MutS YP_002392637.1 2949120 D 585035 CDS YP_002392638.1 218559725 7129642 2951787..2952443 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9130712; Product type e : enzyme; serine/threonine-specific protein phosphatase 2 2952443 pphB 7129642 pphB Escherichia coli S88 serine/threonine-specific protein phosphatase 2 YP_002392638.1 2951787 D 585035 CDS YP_002392639.1 218559726 7130759 complement(2952494..2953291) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 2953291 ygbI 7130759 ygbI Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392639.1 2952494 R 585035 CDS YP_002392640.1 218559727 7133579 2953457..2954365 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative dehydrogenase, with NAD(P)-binding Rossmann-fold domain 2954365 ygbJ 7133579 ygbJ Escherichia coli S88 putative dehydrogenase, with NAD(P)-binding Rossmann-fold domain YP_002392640.1 2953457 D 585035 CDS YP_002392641.1 218559728 7133580 2954362..2955624 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11520622; hypothetical protein 2955624 ygbK 7133580 ygbK Escherichia coli S88 hypothetical protein YP_002392641.1 2954362 D 585035 CDS YP_002392642.1 218559729 7133581 2955621..2956259 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative aldolase 2956259 ygbL 7133581 ygbL Escherichia coli S88 putative aldolase YP_002392642.1 2955621 D 585035 CDS YP_002392643.1 218559730 7133582 2956264..2957040 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2957040 ygbM 7133582 ygbM Escherichia coli S88 hypothetical protein YP_002392643.1 2956264 D 585035 CDS YP_002392644.1 218559731 7133583 2957129..2958493 1 NC_011742.1 member of the Gnt family of gluconate transporters; not involved in gluconate transport; unknown function; inner membrane permease YgbN 2958493 ygbN 7133583 ygbN Escherichia coli S88 inner membrane permease YgbN YP_002392644.1 2957129 D 585035 CDS YP_002392645.1 218559732 7133584 complement(2958636..2959679) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative exported Zn-dependent hydrolase 2959679 7133584 ECS88_3008 Escherichia coli S88 putative exported Zn-dependent hydrolase YP_002392645.1 2958636 R 585035 CDS YP_002392646.1 218559733 7133296 2959904..2960455 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9694845; Product type pf : putative factor; putative protein with flavodoxin fold 2960455 7133296 ECS88_3009 Escherichia coli S88 putative protein with flavodoxin fold YP_002392646.1 2959904 D 585035 CDS YP_002392647.1 218559734 7133297 complement(2960633..2961625) 1 NC_011742.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this sigma factor controls a regulon of genes required for protection against external stresses; RNA polymerase sigma factor RpoS 2961625 rpoS 7133297 rpoS Escherichia coli S88 RNA polymerase sigma factor RpoS YP_002392647.1 2960633 R 585035 CDS YP_002392648.1 218559735 7133781 complement(2961688..2962827) 1 NC_011742.1 outer membrane lipoprotein involved in stationary-phase cell survival; similar to LppB virulence determinant from Haemophilus somnus; lipoprotein NlpD 2962827 nlpD 7133781 nlpD Escherichia coli S88 lipoprotein NlpD YP_002392648.1 2961688 R 585035 CDS YP_002392649.1 218559736 7129723 complement(2962967..2963593) 1 NC_011742.1 catalyzes the methyl esterification of L-isoaspartyl residues that are formed in damaged proteins; protein-L-isoaspartate O-methyltransferase 2963593 pcm 7129723 pcm Escherichia coli S88 protein-L-isoaspartate O-methyltransferase YP_002392649.1 2962967 R 585035 CDS YP_002392650.1 218559737 7133178 complement(2963587..2964348) 1 NC_011742.1 catalyzes the conversion of a phosphate monoester to an alcohol and a phosphate; stationary phase survival protein SurE 2964348 surE 7133178 surE Escherichia coli S88 stationary phase survival protein SurE YP_002392650.1 2963587 R 585035 CDS YP_002392651.1 218559738 7131252 complement(2964329..2965378) 1 NC_011742.1 catalyzes the modification of U13 in tRNA(Glu); tRNA pseudouridine synthase D 2965378 truD 7131252 truD Escherichia coli S88 tRNA pseudouridine synthase D YP_002392651.1 2964329 R 585035 CDS YP_002392652.1 218559739 7130354 complement(2965375..2965854) 1 NC_011742.1 catalyzes the conversion of 4-diphosphocytidyl-2-C-methyl-D-erythritol 2-phosphate into 2-C-methyl-D-erythritol 2,4-cyclodiphosphate; 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase 2965854 ispF 7130354 ispF Escherichia coli S88 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase YP_002392652.1 2965375 R 585035 CDS YP_002392653.1 218559740 7130422 complement(2965854..2966564) 1 NC_011742.1 4-diphosphocytidyl-2C-methyl-D-erythritol synthase; MEP cytidylyltransferase; MCT; catalyzes the formation of 4-diphosphocytidyl-2-C-methyl-D-erythritol from CTP and 2-C-methyl-D-erythritol 4-phosphate; involved in isoprenoid and isopentenyl-PP biosynthesis; forms homodimers; 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase 2966564 ispD 7130422 ispD Escherichia coli S88 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase YP_002392653.1 2965854 R 585035 CDS YP_002392654.1 218559741 7130420 complement(2966583..2966894) 1 NC_011742.1 forms a complex with FtsL and FtsQ; colocalizes to the septal region of the dividing cell; membrane protein; cell division protein FtsB 2966894 ftsB 7130420 ftsB Escherichia coli S88 cell division protein FtsB YP_002392654.1 2966583 R 585035 CDS YP_002392655.1 218559742 7132847 complement(2967087..2967410) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 2967410 ygbE 7132847 ygbE Escherichia coli S88 hypothetical protein YP_002392655.1 2967087 R 585035 CDS YP_002392656.1 218559743 7133578 complement(2967460..2968065) 1 NC_011742.1 converts ATP and adenylyl sulfate to ADP and 3'-phosphoadenylyl sulfate; in Escherichia coli this enzyme functions in cysteine biosynthesis; adenylylsulfate kinase 2968065 cysC 7133578 cysC Escherichia coli S88 adenylylsulfate kinase YP_002392656.1 2967460 R 585035 CDS YP_002392657.1 218559744 7130535 complement(2968065..2969492) 1 NC_011742.1 may be GTPase that regulates ATP sulfurylase activity that is involved in converting ATP and sulfate to diphosphate and adenylylsulfate; in Escherichia coli this enzyme functions in cysteine biosynthesis in the first step; forms a heterodimer with CysD; part of the GTP-binding elongation factor family CysN/NodQ; sulfate adenylyltransferase subunit 1 2969492 cysN 7130535 cysN Escherichia coli S88 sulfate adenylyltransferase subunit 1 YP_002392657.1 2968065 R 585035 CDS YP_002392658.1 218559745 7130544 complement(2969494..2970402) 1 NC_011742.1 with CysN catalyzes the formation of adenylylsulfate from sulfate and ATP; sulfate adenylyltransferase subunit 2 2970402 cysD 7130544 cysD Escherichia coli S88 sulfate adenylyltransferase subunit 2 YP_002392658.1 2969494 R 585035 CDS YP_002392659.1 218559746 7130536 2970654..2971691 1 NC_011742.1 catalyzes the sequential removal of 2 amino-terminal arginines from alkaline phosphatase isozyme 1 to form isozymes 2 and 3; alkaline phosphatase isozyme conversion aminopeptidase 2971691 iap 7130536 iap Escherichia coli S88 alkaline phosphatase isozyme conversion aminopeptidase YP_002392659.1 2970654 D 585035 CDS YP_002392660.1 218559747 7131603 complement(2971816..2971968) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type pm : putative membrane component; small toxic peptide 2971968 7131603 ECS88_3025 Escherichia coli S88 small toxic peptide YP_002392660.1 2971816 R 585035 CDS YP_002392661.1 218559748 7133298 complement(2972233..2972967) 1 NC_011742.1 catalyzes the reduction of 3'-phosphoadenylyl sulfate into sulfite; phosphoadenosine phosphosulfate reductase 2972967 cysH 7133298 cysH Escherichia coli S88 phosphoadenosine phosphosulfate reductase YP_002392661.1 2972233 R 585035 CDS YP_002392662.1 218559749 7130539 complement(2973041..2974753) 1 NC_011742.1 hemoprotein; NADPH dependent; with the alpha subunit (a flavoprotein) catalyzes the reduction of sulfite to sulfide; sulfite reductase subunit beta 2974753 cysI 7130539 cysI Escherichia coli S88 sulfite reductase subunit beta YP_002392662.1 2973041 R 585035 CDS YP_002392663.1 218559750 7130540 complement(2974753..2976552) 1 NC_011742.1 catalyzes the reduction of sulfite to sulfide in the biosynthesis of L-cysteine from sulfate; a flavoprotein with flavin reductase activity; sulfite reductase subunit alpha 2976552 cysJ 7130540 cysJ Escherichia coli S88 sulfite reductase subunit alpha YP_002392663.1 2974753 R 585035 CDS YP_002392664.1 218559751 7130541 2976868..2977233 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12123838; Product type e : enzyme; 6-pyruvoyl tetrahydrobiopterin synthase (PTPS) 2977233 ygcM 7130541 ygcM Escherichia coli S88 6-pyruvoyl tetrahydrobiopterin synthase (PTPS) YP_002392664.1 2976868 D 585035 CDS YP_002392665.1 218559752 7133588 2977311..2978582 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase with FAD/NAD(P)-binding domain 2978582 ygcN 7133588 ygcN Escherichia coli S88 putative oxidoreductase with FAD/NAD(P)-binding domain YP_002392665.1 2977311 D 585035 CDS YP_002392666.1 218559753 7132362 2978573..2978833 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative 4Fe-4S cluster-containing protein 2978833 ygcO 7132362 ygcO Escherichia coli S88 putative 4Fe-4S cluster-containing protein YP_002392666.1 2978573 D 585035 CDS YP_002392667.1 218559754 7129517 2978850..2979425 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative anti-terminator regulatory protein 2979425 ygcP 7129517 ygcP Escherichia coli S88 putative anti-terminator regulatory protein YP_002392667.1 2978850 D 585035 CDS YP_002392668.1 218559755 7129518 complement(2979573..2980433) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative flavoprotein 2980433 ygcQ 7129518 ygcQ Escherichia coli S88 putative flavoprotein YP_002392668.1 2979573 R 585035 CDS YP_002392669.1 218559756 7129519 complement(2980430..2981209) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative flavoprotein 2981209 ygcR 7129519 ygcR Escherichia coli S88 putative flavoprotein YP_002392669.1 2980430 R 585035 CDS YP_002392670.1 218559757 7129520 complement(2981187..2982524) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 2982524 ygcS 7129520 ygcS Escherichia coli S88 putative transporter YP_002392670.1 2981187 R 585035 CDS YP_002392671.1 218559758 7129521 complement(2982618..2984072) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative FAD containing dehydrogenase 2984072 ygcU 7129521 ygcU Escherichia coli S88 putative FAD containing dehydrogenase YP_002392671.1 2982618 R 585035 CDS YP_002392672.1 218559759 7129522 complement(2984142..2984927) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative deoxygluconate dehydrogenase 2984927 ygcW 7129522 ygcW Escherichia coli S88 putative deoxygluconate dehydrogenase YP_002392672.1 2984142 R 585035 CDS YP_002392673.1 218559760 7129523 2985245..2986522 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 2986522 yqcE 7129523 yqcE Escherichia coli S88 putative transporter YP_002392673.1 2985245 D 585035 CDS YP_002392674.1 218559761 7132081 2986549..2988027 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative kinase 2988027 ygcE 7132081 ygcE Escherichia coli S88 putative kinase YP_002392674.1 2986549 D 585035 CDS YP_002392675.1 218559762 7133585 complement(2988501..2989172) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2989172 ygcF 7133585 ygcF Escherichia coli S88 hypothetical protein YP_002392675.1 2988501 R 585035 CDS YP_002392676.1 218559763 7133586 2989345..2989947 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2989947 7133586 ECS88_3042 Escherichia coli S88 hypothetical protein YP_002392676.1 2989345 D 585035 CDS YP_002392677.1 218559764 7133299 2989931..2990854 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2990854 ygcG 7133299 ygcG Escherichia coli S88 hypothetical protein YP_002392677.1 2989931 D 585035 CDS YP_002392678.1 218559765 7133587 2990869..2992017 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2992017 7133587 ECS88_3044 Escherichia coli S88 hypothetical protein YP_002392678.1 2990869 D 585035 CDS YP_002392679.1 218559766 7133300 2992011..2992916 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2992916 7133300 ECS88_3046 Escherichia coli S88 hypothetical protein YP_002392679.1 2992011 D 585035 CDS YP_002392680.1 218559767 7133301 complement(2992976..2994274) 1 NC_011742.1 enolase; catalyzes the formation of phosphoenolpyruvate from 2-phospho-D-glycerate in glycolysis; phosphopyruvate hydratase 2994274 eno 7133301 eno Escherichia coli S88 phosphopyruvate hydratase YP_002392680.1 2992976 R 585035 CDS YP_002392681.1 218559768 7132399 complement(2994362..2995999) 1 NC_011742.1 CTP synthase; cytidine triphosphate synthetase; catalyzes the ATP-dependent amination of UTP to CTP with either L-glutamine or ammonia as the source of nitrogen; in Escherichia coli this enzyme forms a homotetramer; CTP synthetase 2995999 pyrG 7132399 pyrG Escherichia coli S88 CTP synthetase YP_002392681.1 2994362 R 585035 CDS YP_002392682.1 218559769 7131768 complement(2996227..2997018) 1 NC_011742.1 functions in degradation of stringent response intracellular messenger ppGpp; in Escherichia coli this gene is co-transcribed with the toxin/antitoxin genes mazEF; activity of MazG is inhibited by MazEF in vitro; ppGpp inhibits mazEF expression; MazG thus works in limiting the toxic activity of the MazF toxin induced during starvation; MazG also interacts with the GTPase protein Era; nucleoside triphosphate pyrophosphohydrolase 2997018 mazG 7131768 mazG Escherichia coli S88 nucleoside triphosphate pyrophosphohydrolase YP_002392682.1 2996227 R 585035 CDS YP_002392683.1 218559770 7129428 complement(2997090..2997425) 1 NC_011742.1 MazF; endoribonuclease; toxin of the ChpA-ChpR toxin-antitoxin system; toxin ChpA 2997425 chpA 7129428 chpA Escherichia coli S88 toxin ChpA YP_002392683.1 2997090 R 585035 CDS YP_002392684.1 218559771 7131904 complement(2997425..2997673) 1 NC_011742.1 part of the MazF-MazE toxin-antitoxin system; conteracts MazF; antitoxin MazE 2997673 chpR 7131904 chpR Escherichia coli S88 antitoxin MazE YP_002392684.1 2997425 R 585035 CDS YP_002392685.1 218559772 7131905 complement(2997751..2999985) 1 NC_011742.1 (p)ppGpp synthetase; catalyzes the formation of pppGpp and ppGpp from ATP and GTP or GDP; GDP/GTP pyrophosphokinase 2999985 relA 7131905 relA Escherichia coli S88 GDP/GTP pyrophosphokinase YP_002392685.1 2997751 R 585035 CDS YP_002392686.1 218559773 7131816 complement(3000033..3001334) 1 NC_011742.1 in Escherichia coli this enzyme catalyzes the SAM-dependent methylation of U1939 in the 23S ribomal RNA; binds an iron-sulfur cluster [4Fe-4S]; 23S rRNA 5-methyluridine methyltransferase 3001334 rumA 7131816 rumA Escherichia coli S88 23S rRNA 5-methyluridine methyltransferase YP_002392686.1 3000033 R 585035 CDS YP_002392687.1 218559774 7131310 3001391..3004147 1 NC_011742.1 part of the two-component regulatory system with UvrY; involved in the regulation of carbon metabolism via the csrA/csrB regulatory system; hybrid sensory histidine kinase BarA 3004147 barA 7131310 barA Escherichia coli S88 hybrid sensory histidine kinase BarA YP_002392687.1 3001391 D 585035 CDS YP_002392688.1 218559775 7129987 complement(3004378..3005718) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20233700, 9772162, 10762278, 13971911; Product type e : enzyme; (D)-glucarate dehydratase 1 3005718 gudD 7129987 gudD Escherichia coli S88 (D)-glucarate dehydratase 1 YP_002392688.1 3004378 R 585035 CDS YP_002392689.1 218559776 7128878 complement(3005739..3007079) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 9772162; Product type e : enzyme; glucarate dehydratase 3007079 gudX 7128878 gudX Escherichia coli S88 glucarate dehydratase YP_002392689.1 3005739 R 585035 CDS YP_002392690.1 218559777 7128880 complement(3007081..3008433) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10762278; Product type pt : putative transporter; putative D-glucarate transporter 3008433 gudP 7128880 gudP Escherichia coli S88 putative D-glucarate transporter YP_002392690.1 3007081 R 585035 CDS YP_002392691.1 218559778 7128879 complement(3008867..3009316) 1 NC_011742.1 An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin 3009316 yqcA 7128879 yqcA Escherichia coli S88 flavodoxin YP_002392691.1 3008867 R 585035 CDS YP_002392692.1 218559779 7132079 complement(3009334..3010116) 1 NC_011742.1 catalyzes formation of pseudouridine at position 65 in tRNA-Ile1 and tRNA-Asp; tRNA pseudouridine synthase C 3010116 truC 7132079 truC Escherichia coli S88 tRNA pseudouridine synthase C YP_002392692.1 3009334 R 585035 CDS YP_002392693.1 218559780 7130353 complement(3010116..3010445) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3010445 yqcC 7130353 yqcC Escherichia coli S88 hypothetical protein YP_002392693.1 3010116 R 585035 CDS YP_002392694.1 218559781 7130503 complement(3011067..3011612) 1 NC_011742.1 putative SecY regulator that either chelates excess SecY or negatively regulates the SecYE translocase function; SecY interacting protein Syd 3011612 syd 7130503 syd Escherichia coli S88 SecY interacting protein Syd YP_002392694.1 3011067 R 585035 CDS YP_002392695.1 218559782 7131253 3011680..3012528 1 NC_011742.1 catalyzes the NADPH-dependent reduction of 7-cyano-7-deazaguanine (preQ0) to 7-aminomethyl-7-deazaguanine (preQ1) in queuosine biosynthesis; 7-cyano-7-deazaguanine reductase 3012528 queF 7131253 queF Escherichia coli S88 7-cyano-7-deazaguanine reductase YP_002392695.1 3011680 D 585035 CDS YP_002392696.1 218559783 7131777 3012640..3014004 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3014004 ygdH 7131777 ygdH Escherichia coli S88 hypothetical protein YP_002392696.1 3012640 D 585035 CDS YP_002392697.1 218559784 7129527 3014561..3015850 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8752353, 8026499; Product type pt : putative transporter; putative serine transporter 3015850 sdaC 7129527 sdaC Escherichia coli S88 putative serine transporter YP_002392697.1 3014561 D 585035 CDS YP_002392698.1 218559785 7131372 3015908..3017275 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91193203, 93215657, 8385012; Product type e : enzyme; L-serine deaminase II 3017275 sdaB 7131372 sdaB Escherichia coli S88 L-serine deaminase II YP_002392698.1 3015908 D 585035 CDS YP_002392699.1 218559786 7131371 3017297..3018142 1 NC_011742.1 has 3'-5' exonuclease activity that preferentially acts on ssDNA; also 3'-phosphodiesterase activity at sites with 3' incised apurinic/apyrimidinic sites; can remove 3' phosphoglycolate groups; exonuclease IX 3018142 xni 7131371 xni Escherichia coli S88 exonuclease IX YP_002392699.1 3017297 D 585035 CDS YP_002392700.1 218559787 7132438 complement(3018247..3019398) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88142551, 89291720, 2553671, 2661535, 2664711, 8385012; Product type e : enzyme; L-1,2-propanediol oxidoreductase 3019398 fucO 7132438 fucO Escherichia coli S88 L-1,2-propanediol oxidoreductase YP_002392700.1 3018247 R 585035 CDS YP_002392701.1 218559788 7132149 complement(3019423..3020070) 1 NC_011742.1 catalyzes the formation of glycerone phosphate and (S)-lactaldehyde from L-fuculose 1-phosphate; L-fuculose phosphate aldolase 3020070 fucA 7132149 fucA Escherichia coli S88 L-fuculose phosphate aldolase YP_002392701.1 3019423 R 585035 CDS YP_002392702.1 218559789 7132146 3020617..3021933 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88142551, 90036697, 2553671, 2664711, 7783647; Product type t : transporter; L-fucose transporter 3021933 fucP 7132146 fucP Escherichia coli S88 L-fucose transporter YP_002392702.1 3020617 D 585035 CDS YP_002392703.1 218559790 7132150 3021966..3023741 1 NC_011742.1 catalyzes the conversion of the aldose L-fucose into the corresponding ketose L-fuculose; L-fucose isomerase 3023741 fucI 7132150 fucI Escherichia coli S88 L-fucose isomerase YP_002392703.1 3021966 D 585035 CDS YP_002392704.1 218559791 7132147 3023820..3025268 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88142551, 90036697, 2664711, 13905785; Product type e : enzyme; L-fuculokinase 3025268 fucK 7132147 fucK Escherichia coli S88 L-fuculokinase YP_002392704.1 3023820 D 585035 CDS YP_002392705.1 218559792 7132148 3025270..3025692 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15060078, 12738765, 80049526, 2664711; Product type e : enzyme; L-fucose mutarotase 3025692 fucU 7132148 fucU Escherichia coli S88 L-fucose mutarotase YP_002392705.1 3025270 D 585035 CDS YP_002392706.1 218559793 7132152 3025750..3026481 1 NC_011742.1 regulates expression of genes involved in L-fucose utilization; DNA-binding transcriptional activator FucR 3026481 fucR 7132152 fucR Escherichia coli S88 DNA-binding transcriptional activator FucR YP_002392706.1 3025750 D 585035 CDS YP_002392707.1 218559794 7132151 complement(3026525..3027625) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 21188420, 7704273; Product type pe : putative enzyme; putative RNA 2'-O-ribose methyltransferase 3027625 ygdE 7132151 ygdE Escherichia coli S88 putative RNA 2'-O-ribose methyltransferase YP_002392707.1 3026525 R 585035 CDS YP_002392708.1 218559795 7129526 complement(3027618..3028013) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 7704273; Product type pm : putative membrane component; hypothetical protein 3028013 ygdD 7129526 ygdD Escherichia coli S88 hypothetical protein YP_002392708.1 3027618 R 585035 CDS YP_002392709.1 218559796 7129525 complement(3028032..3028949) 1 NC_011742.1 Glycine cleavage system transcriptional activator; activates the gcvTHP operon in the presence of glycine and represses the operon in its absence; DNA-binding transcriptional activator GcvA 3028949 gcvA 7129525 gcvA Escherichia coli S88 DNA-binding transcriptional activator GcvA YP_002392709.1 3028032 R 585035 CDS YP_002392710.1 218559797 7132197 complement(3029300..3029527) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3029527 ygdI 7132197 ygdI Escherichia coli S88 hypothetical protein YP_002392710.1 3029300 R 585035 CDS YP_002392711.1 218559798 7129528 3029719..3030924 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15148362, 9278392, 10739946, 10829016; Product type e : enzyme; cysteine sulfinate desulfinase 3030924 csdA 7129528 csdA Escherichia coli S88 cysteine sulfinate desulfinase YP_002392711.1 3029719 D 585035 CDS YP_002392712.1 218559799 7131969 3030924..3031367 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative Fe-S metabolism protein (sufE-like) 3031367 ygdK 7131969 ygdK Escherichia coli S88 putative Fe-S metabolism protein (sufE-like) YP_002392712.1 3030924 D 585035 CDS YP_002392713.1 218559800 7129529 complement(3031418..3032224) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3032224 ygdL 7129529 ygdL Escherichia coli S88 hypothetical protein YP_002392713.1 3031418 R 585035 CDS YP_002392714.1 218559801 7129530 complement(3032301..3033398) 1 NC_011742.1 membrane-bound, lytic; catalyzes the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid and N-acetylglucosamine residues; murein transglycosylase A 3033398 mltA 7129530 mltA Escherichia coli S88 murein transglycosylase A YP_002392714.1 3032301 R 585035 CDS YP_002392715.1 218559802 7129892 3034518..3035039 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3035039 7129892 ECS88_3083 Escherichia coli S88 hypothetical protein YP_002392715.1 3034518 D 585035 CDS YP_002392716.1 218559803 7133302 3035092..3036636 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3036636 7133302 ECS88_3084 Escherichia coli S88 hypothetical protein YP_002392716.1 3035092 D 585035 CDS YP_002392717.1 218559804 7133303 3036654..3037991 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3037991 7133303 ECS88_3085 Escherichia coli S88 hypothetical protein YP_002392717.1 3036654 D 585035 CDS YP_002392718.1 218559805 7133304 3037988..3038653 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative membrane associated protein 3038653 7133304 ECS88_3086 Escherichia coli S88 conserved hypothetical protein; putative membrane associated protein YP_002392718.1 3037988 D 585035 CDS YP_002392719.1 218559806 7133305 3038666..3040318 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3040318 7133305 ECS88_3087 Escherichia coli S88 hypothetical protein YP_002392719.1 3038666 D 585035 CDS YP_002392720.1 218559807 7133306 3040376..3040867 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3040867 7133306 ECS88_3088 Escherichia coli S88 hypothetical protein YP_002392720.1 3040376 D 585035 CDS YP_002392721.1 218559808 7133307 3041059..3043704 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type f : factor; ATPases with chaperone activity, ATP-binding subunit 3043704 7133307 ECS88_3089 Escherichia coli S88 ATPases with chaperone activity, ATP-binding subunit YP_002392721.1 3041059 D 585035 CDS YP_002392722.1 218559809 7133308 3043716..3046196 1 NC_011742.1 hypothetical protein 3046196 7133308 ECS88_3090 Escherichia coli S88 hypothetical protein YP_002392722.1 3043716 D 585035 CDS YP_002392723.1 218559810 7133309 3046168..3047382 1 NC_011742.1 hypothetical protein 3047382 7133309 ECS88_3091 Escherichia coli S88 hypothetical protein YP_002392723.1 3046168 D 585035 CDS YP_002392724.1 218559811 7133310 3047361..3047975 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 3047975 7133310 ECS88_3092 Escherichia coli S88 hypothetical protein YP_002392724.1 3047361 D 585035 CDS YP_002392725.1 218559812 7133311 3047950..3048783 1 NC_011742.1 hypothetical protein 3048783 7133311 ECS88_3093 Escherichia coli S88 hypothetical protein YP_002392725.1 3047950 D 585035 CDS YP_002392726.1 218559813 7133312 3048752..3049045 1 NC_011742.1 hypothetical protein 3049045 7133312 ECS88_3094 Escherichia coli S88 hypothetical protein YP_002392726.1 3048752 D 585035 CDS YP_002392727.1 218559814 7133314 3049660..3050907 1 NC_011742.1 hypothetical protein 3050907 7133314 ECS88_3096 Escherichia coli S88 hypothetical protein YP_002392727.1 3049660 D 585035 CDS YP_002392728.1 218559815 7133315 3050917..3054270 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3054270 7133315 ECS88_3097 Escherichia coli S88 hypothetical protein YP_002392728.1 3050917 D 585035 CDS YP_002392729.1 218559816 7133316 3054236..3055873 1 NC_011742.1 hypothetical protein 3055873 7133316 ECS88_3098 Escherichia coli S88 hypothetical protein YP_002392729.1 3054236 D 585035 CDS YP_002392730.1 218559817 7133317 3055873..3057456 1 NC_011742.1 hypothetical protein 3057456 7133317 ECS88_3099 Escherichia coli S88 hypothetical protein YP_002392730.1 3055873 D 585035 CDS YP_002392731.1 218559818 7133318 3057444..3058085 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3058085 7133318 ECS88_3100 Escherichia coli S88 hypothetical protein YP_002392731.1 3057444 D 585035 CDS YP_002392732.1 218559819 7133319 3059155..3060915 1 NC_011742.1 hypothetical protein 3060915 7133319 ECS88_3102 Escherichia coli S88 hypothetical protein YP_002392732.1 3059155 D 585035 CDS YP_002392733.1 218559820 7133320 3060870..3061958 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3061958 7133320 ECS88_3103 Escherichia coli S88 hypothetical protein YP_002392733.1 3060870 D 585035 CDS YP_002392734.1 218559821 7133321 3061939..3062475 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3062475 7133321 ECS88_3104 Escherichia coli S88 hypothetical protein YP_002392734.1 3061939 D 585035 CDS YP_002392735.1 218559822 7133322 3062479..3062907 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3062907 7133322 ECS88_3105 Escherichia coli S88 hypothetical protein YP_002392735.1 3062479 D 585035 CDS YP_002392736.1 218559823 7133323 3062907..3064283 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3064283 7133323 ECS88_3106 Escherichia coli S88 hypothetical protein YP_002392736.1 3062907 D 585035 CDS YP_002392737.1 218559824 7133324 complement(3064585..3065541) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme; 2-hydroxyacid dehydrogenase 3065541 7133324 ECS88_3107 Escherichia coli S88 2-hydroxyacid dehydrogenase YP_002392737.1 3064585 R 585035 CDS YP_002392738.1 218559825 7133325 complement(3065604..3066200) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphosugar isomerase 3066200 7133325 ECS88_3108 Escherichia coli S88 putative phosphosugar isomerase YP_002392738.1 3065604 R 585035 CDS YP_002392739.1 218559826 7133326 complement(3066203..3067378) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative aminotransferase 3067378 7133326 ECS88_3109 Escherichia coli S88 putative aminotransferase YP_002392739.1 3066203 R 585035 CDS YP_002392740.1 218559827 7133327 complement(3067378..3068958) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type t : transporter; Phosphotransferase system system, maltose and glucose-specific IIABC component 3068958 7133327 ECS88_3110 Escherichia coli S88 Phosphotransferase system system, maltose and glucose-specific IIABC component YP_002392740.1 3067378 R 585035 CDS YP_002392741.1 218559828 7133328 complement(3068990..3069871) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcription antiterminator 3069871 7133328 ECS88_3111 Escherichia coli S88 putative transcription antiterminator YP_002392741.1 3068990 R 585035 CDS YP_002392742.1 218559829 7133329 complement(3070072..3071325) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12787347, 21348478; Product type e : enzyme; N-acetylmuramoyl-L-alanine amidase 3071325 amiC 7133329 amiC Escherichia coli S88 N-acetylmuramoyl-L-alanine amidase YP_002392742.1 3070072 R 585035 CDS YP_002392743.1 218559830 7133059 3071557..3072888 1 NC_011742.1 catalyzes the formation of N-acetyl-L-glutamate from L-glutamate and acetyl-CoA in arginine biosynthesis; N-acetylglutamate synthase 3072888 argA 7133059 argA Escherichia coli S88 N-acetylglutamate synthase YP_002392743.1 3071557 D 585035 CDS YP_002392744.1 218559831 7133091 complement(3072950..3074776) 1 NC_011742.1 helicase/nuclease; with RecBC catalyzes the exonucleolytic cleavage of DNA; RecD has 5' to 3' helicase activity; exonuclease V subunit alpha 3074776 recD 7133091 recD Escherichia coli S88 exonuclease V subunit alpha YP_002392744.1 3072950 R 585035 CDS YP_002392745.1 218559832 7131806 complement(3074776..3078318) 1 NC_011742.1 helicase/nuclease; with RecCD catalyzes the exonucleolytic cleavage of DNA; RecD has 5' to 3' helicase activity; exonuclease V subunit beta 3078318 recB 7131806 recB Escherichia coli S88 exonuclease V subunit beta YP_002392745.1 3074776 R 585035 CDS YP_002392746.1 218559833 7131804 complement(3078311..3081199) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91193232, 1570301, 3308636, 3534791, 3537960, 8099278; Product type e : enzyme; protease III 3081199 ptr 7131804 ptr Escherichia coli S88 protease III YP_002392746.1 3078311 R 585035 CDS YP_002392747.1 218559834 7130816 complement(3081375..3084743) 1 NC_011742.1 catalyzes ATP-dependent exonucleolytic cleavage in either 5'- to 3'- or 3'- to 5'-direction to yield 5'-phosphooligonucleotides; component of the RecBCD (Exo V) helicase/nuclease complex that is essential for recombination; exonuclease V subunit gamma 3084743 recC 7130816 recC Escherichia coli S88 exonuclease V subunit gamma YP_002392747.1 3081375 R 585035 CDS YP_002392748.1 218559835 7131805 complement(3084756..3085079) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 7934814; Product type e : enzyme; hypothetical protein 3085079 ppdC 7131805 ppdC Escherichia coli S88 hypothetical protein YP_002392748.1 3084756 R 585035 CDS YP_002392749.1 218559836 7130756 complement(3085064..3085471) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3085471 ygdB 7130756 ygdB Escherichia coli S88 hypothetical protein YP_002392749.1 3085064 R 585035 CDS YP_002392750.1 218559837 7129524 complement(3085468..3086031) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 7934814; Product type e : enzyme; hypothetical protein 3086031 ppdB 7129524 ppdB Escherichia coli S88 hypothetical protein YP_002392750.1 3085468 R 585035 CDS YP_002392751.1 218559838 7130755 complement(3086022..3086492) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 7934814; Product type e : enzyme; hypothetical protein 3086492 ppdA 7130755 ppdA Escherichia coli S88 hypothetical protein YP_002392751.1 3086022 R 585035 CDS YP_002392752.1 218559839 7130754 complement(3086677..3087471) 1 NC_011742.1 ThyA; catalyzes formation of dTMP and 7,8-dihydrofolate from 5,10-methylenetetrahydrofolate and dUMP; involved in deoxyribonucleotide biosynthesis; there are 2 copies in some Bacilli, one of which appears to be phage-derived; thymidylate synthase 3087471 thyA 7130754 thyA Escherichia coli S88 thymidylate synthase YP_002392752.1 3086677 R 585035 CDS YP_002392753.1 218559840 7131308 complement(3087478..3088353) 1 NC_011742.1 transfers the N-acyl diglyceride moiety to the prospective N-terminal cysteine in prolipoprotein; prolipoprotein diacylglyceryl transferase 3088353 lgt 7131308 lgt Escherichia coli S88 prolipoprotein diacylglyceryl transferase YP_002392753.1 3087478 R 585035 CDS YP_002392754.1 218559841 7130492 complement(3088504..3090750) 1 NC_011742.1 member of a second PTS chain involved in nitrogen metabolism; PtsP phosphorylates NPr; fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain 3090750 ptsP 7130492 ptsP Escherichia coli S88 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain YP_002392754.1 3088504 R 585035 CDS YP_002392755.1 218559842 7131743 complement(3090763..3091293) 1 NC_011742.1 hydrolyzes diadenosine polyphosphate; dinucleoside polyphosphate hydrolase 3091293 nudH 7131743 nudH Escherichia coli S88 dinucleoside polyphosphate hydrolase YP_002392755.1 3090763 R 585035 CDS YP_002392756.1 218559843 7129756 3091978..3092667 1 NC_011742.1 MutH; Sequence-specific endonuclease that cleaves unmethylated GATC sequences during DNA repair; DNA mismatch repair protein 3092667 mutH 7129756 mutH Escherichia coli S88 DNA mismatch repair protein YP_002392756.1 3091978 D 585035 CDS YP_002392757.1 218559844 7129639 3092736..3093449 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3093449 ygdQ 7129639 ygdQ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392757.1 3092736 D 585035 CDS YP_002392758.1 218559845 7129533 3093587..3093805 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3093805 ygdR 7129533 ygdR Escherichia coli S88 hypothetical protein YP_002392758.1 3093587 D 585035 CDS YP_002392759.1 218559846 7129534 3093913..3094953 1 NC_011742.1 complements the prephenate dehydrogenase dysfunction of an Escherichia coli tyrosine auxotroph strain; member of the aldo/keto reductase 2 family; crystal structure of purified Escherichia coli protein shows bound NADPH; putative aldo-keto reductase 3094953 tas 7129534 tas Escherichia coli S88 putative aldo-keto reductase YP_002392759.1 3093913 D 585035 CDS YP_002392760.1 218559847 7131261 complement(3094985..3096178) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8300626; Product type pm : putative membrane component; lysophospholipid transporter LplT 3096178 ygeD 7131261 ygeD Escherichia coli S88 lysophospholipid transporter LplT YP_002392760.1 3094985 R 585035 CDS YP_002392761.1 218559848 7129536 complement(3096171..3098330) 1 NC_011742.1 Transfers fatty acids to the 1-position via an enzyme-bound acyl-ACP intermediate in the presence of ATP and magnesium. Its physiological function is to regenerate phosphatidylethanolamine from 2-acyl-glycero-3-phosphoethanolamine (2-acyl-GPE) formed by transacylation reactions or degradation by phospholipase A1; bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase 3098330 aas 7129536 aas Escherichia coli S88 bifunctional acyl-[acyl carrier protein] synthetase/2-acylglycerophosphoethanolamine acyltransferase YP_002392761.1 3096171 R 585035 CDS YP_002392762.1 218559849 7133134 3098916..3099947 1 NC_011742.1 controls transcription of galETKM; DNA-binding transcriptional regulator GalR 3099947 galR 7133134 galR Escherichia coli S88 DNA-binding transcriptional regulator GalR YP_002392762.1 3098916 D 585035 CDS YP_002392763.1 218559850 7132175 complement(3099954..3101216) 1 NC_011742.1 catalyzes the decarboxylation of diaminopimelate into lysine; pyridoxal phosphate(PLP)-binding; diaminopimelate decarboxylase 3101216 lysA 7132175 lysA Escherichia coli S88 diaminopimelate decarboxylase YP_002392763.1 3099954 R 585035 CDS YP_002392764.1 218559851 7129393 3101338..3102273 1 NC_011742.1 activates the transcription of the lysA gene encoding diaminopimelate decarboxylase; DNA-binding transcriptional regulator LysR 3102273 lysR 7129393 lysR Escherichia coli S88 DNA-binding transcriptional regulator LysR YP_002392764.1 3101338 D 585035 CDS YP_002392765.1 218559852 7129396 complement(3102260..3102952) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15135544; Product type pe : putative enzyme; putative racemase 3102952 ygeA 7129396 ygeA Escherichia coli S88 putative racemase YP_002392765.1 3102260 R 585035 CDS YP_002392766.1 218559853 7129535 complement(3103081..3104499) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 7030324, 90239116, 91154204, 2836407, 3543693, 6319708; Product type t : transporter; arabinose transporter 3104499 araE 7129535 araE Escherichia coli S88 arabinose transporter YP_002392766.1 3103081 R 585035 CDS YP_002392767.1 218559854 7133084 complement(3104814..3105575) 1 NC_011742.1 catalyzes the formation of 3-dehydro-2-deoxy-D-gluconate from 2-deoxy-D-gluconate; 2-deoxy-D-gluconate 3-dehydrogenase 3105575 kduD 7133084 kduD Escherichia coli S88 2-deoxy-D-gluconate 3-dehydrogenase YP_002392767.1 3104814 R 585035 CDS YP_002392768.1 218559855 7130451 complement(3105605..3106441) 1 NC_011742.1 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase; catalyzes the interconversion of 4-deoxy-L-threo-5-hexosulose uronate to 3-deoxy-D-glycero-2,5-hexodiulosonate; 5-keto-4-deoxyuronate isomerase 3106441 kduI 7130451 kduI Escherichia coli S88 5-keto-4-deoxyuronate isomerase YP_002392768.1 3105605 R 585035 CDS YP_002392769.1 218559856 7130452 complement(3106728..3107909) 1 NC_011742.1 Catalyzes the synthesis of acetoacetyl coenzyme A from two molecules of acetyl coenzyme A. It can also act as a thiolase, catalyzing the reverse reaction and generating two-carbon units from the four-carbon product of fatty acid oxidation; in Rhizobia and Ralstonia is involved in PHB biosynthesis; acetyl-CoA acetyltransferase 3107909 yqeF 7130452 yqeF Escherichia coli S88 acetyl-CoA acetyltransferase YP_002392769.1 3106728 R 585035 CDS YP_002392770.1 218559857 7132085 3108164..3109393 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 3109393 yqeG 7132085 yqeG Escherichia coli S88 putative transporter YP_002392770.1 3108164 D 585035 CDS YP_002392771.1 218559858 7131985 complement(3109862..3110617) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15150243; Product type r : regulator; Tetratricopeptide repeat transcriptional regulator 3110617 ygeR 7131985 ygeR Escherichia coli S88 Tetratricopeptide repeat transcriptional regulator YP_002392771.1 3109862 R 585035 CDS YP_002392772.1 218559859 7129537 3111070..3113328 1 NC_011742.1 putative molybdenum cofactor-binding protein; participates in purine salvage; xanthine dehydrogenase subunit XdhA 3113328 xdhA 7129537 xdhA Escherichia coli S88 xanthine dehydrogenase subunit XdhA YP_002392772.1 3111070 D 585035 CDS YP_002392773.1 218559860 7132516 3113339..3114217 1 NC_011742.1 FAD-binding subunit; with XdhA and XdhC participates in purine salvage; xanthine dehydrogenase subunit XdhB 3114217 xdhB 7132516 xdhB Escherichia coli S88 xanthine dehydrogenase subunit XdhB YP_002392773.1 3113339 D 585035 CDS YP_002392774.1 218559861 7132517 3114214..3114693 1 NC_011742.1 iron-sulfur-binding subunit; with XdhA and XdhB participates in purine salvage; xanthine dehydrogenase subunit XdhC 3114693 xdhC 7132517 xdhC Escherichia coli S88 xanthine dehydrogenase subunit XdhC YP_002392774.1 3114214 D 585035 CDS YP_002392775.1 218559862 7132518 complement(3114733..3116511) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3116511 ygeV 7132518 ygeV Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392775.1 3114733 R 585035 CDS YP_002392776.1 218559863 7129538 3116987..3118177 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; aspartate/ornithine carbamoyltransferase family protein 3118177 ygeW 7129538 ygeW Escherichia coli S88 aspartate/ornithine carbamoyltransferase family protein YP_002392776.1 3116987 D 585035 CDS YP_002392777.1 218559864 7129539 3118235..3119431 1 NC_011742.1 catalyzes the formation of pyruvate from 2,3-diaminopropionate; diaminopropionate ammonia-lyase 3119431 ygeX 7129539 ygeX Escherichia coli S88 diaminopropionate ammonia-lyase YP_002392777.1 3118235 D 585035 CDS YP_002392778.1 218559865 7129540 3119489..3120700 1 NC_011742.1 Zn-dependent extracellular dipeptidase; similar to succinyl-diaminopimelate desuccinylases; peptidase 3120700 ygeY 7129540 ygeY Escherichia coli S88 peptidase YP_002392778.1 3119489 D 585035 CDS YP_002392779.1 218559866 7129541 3120753..3122138 1 NC_011742.1 catalyzes the hydrolytic cleavage of hydantoin with aromatic side chains at the 5'position; phenylhydantoinase 3122138 hyuA 7129541 hyuA Escherichia coli S88 phenylhydantoinase YP_002392779.1 3120753 D 585035 CDS YP_002392780.1 218559867 7131599 3122186..3123118 1 NC_011742.1 catalyzes the reversible synthesis of carbamate and ATP from carbamoyl phosphate and ADP; carbamate kinase 3123118 yqeA 7131599 yqeA Escherichia coli S88 carbamate kinase YP_002392780.1 3122186 D 585035 CDS YP_002392781.1 218559868 7132082 complement(3123159..3124784) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative NAD(P)-binding Rossman fold 3124784 yqeB 7132082 yqeB Escherichia coli S88 conserved hypothetical protein; putative NAD(P)-binding Rossman fold YP_002392781.1 3123159 R 585035 CDS YP_002392782.1 218559869 7132083 complement(3124832..3125602) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3125602 yqeC 7132083 yqeC Escherichia coli S88 hypothetical protein YP_002392782.1 3124832 R 585035 CDS YP_002392783.1 218559870 7132084 3125706..3126284 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3126284 ygfJ 7132084 ygfJ Escherichia coli S88 hypothetical protein YP_002392783.1 3125706 D 585035 CDS YP_002392784.1 218559871 7129545 3126606..3129704 1 NC_011742.1 with YgfM and YgfN forms a selenate reductase, which seems to catalyze the reduction of selenate to selenite; YgfK mutants are unable to reduce selenate; involved in purine salvage process; seems to act as an oxidoreductase, but sequence similarity suggests it is a dihydrothymine dehydrogenase; putative selenate reductase subunit YgfK 3129704 ygfK 7129545 ygfK Escherichia coli S88 putative selenate reductase subunit YgfK YP_002392784.1 3126606 D 585035 CDS YP_002392785.1 218559872 7129546 3129707..3131035 1 NC_011742.1 in Escherichia coli expression is induced in response to phase-specific signals and controlled by RpoS; putative chlorohydrolase/aminohydrolase 3131035 ssnA 7129546 ssnA Escherichia coli S88 putative chlorohydrolase/aminohydrolase YP_002392785.1 3129707 D 585035 CDS YP_002392786.1 218559873 7130651 3131086..3131865 1 NC_011742.1 with YgfK and YgfN forms a selenate reductase, which seems to catalyze the reduction of selenate to selenite; YgfM contains a FAD domain; putative selenate reductase subunit YgfM 3131865 ygfM 7130651 ygfM Escherichia coli S88 putative selenate reductase subunit YgfM YP_002392786.1 3131086 D 585035 CDS YP_002392787.1 218559874 7129547 3131862..3134732 1 NC_011742.1 with YgfK and YgfM forms a selenate reductase, which seems to catalyze the reduction of selenate to selenite; molybdopterin-containing enzyme; oxidase activity toward hypoxanthine and xanthine can be detected if these substrates are present at high concentration; putative selenate reductase subunit YgfN 3134732 xdhD 7129547 xdhD Escherichia coli S88 putative selenate reductase subunit YgfN YP_002392787.1 3131862 D 585035 CDS YP_002392788.1 218559875 7132519 3134897..3136297 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 20372655, 98213740; Product type pt : putative transporter; putative transporter 3136297 ygfO 7132519 ygfO Escherichia coli S88 putative transporter YP_002392788.1 3134897 D 585035 CDS YP_002392789.1 218559876 7129548 3136312..3137631 1 NC_011742.1 Catalyzes the deamination of guanine; guanine deaminase 3137631 guaD 7129548 guaD Escherichia coli S88 guanine deaminase YP_002392789.1 3136312 D 585035 CDS YP_002392790.1 218559877 7128877 3137667..3139034 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 3139034 ygfQ 7128877 ygfQ Escherichia coli S88 putative transporter YP_002392790.1 3137667 D 585035 CDS YP_002392791.1 218559878 7129549 complement(3139070..3139558) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative oxidoreductase, 4Fe-4S ferredoxin-type subunit 3139558 ygfS 7129549 ygfS Escherichia coli S88 putative oxidoreductase, 4Fe-4S ferredoxin-type subunit YP_002392791.1 3139070 R 585035 CDS YP_002392792.1 218559879 7129550 complement(3139558..3141477) 1 NC_011742.1 unknown function; in E. coli the aegA gene is regulated by Fnr, NarXL, and NarQ (but not ArcA), induced under anaerobic conditions and repressed in the presence of nitrate (anaerobic); putative oxidoreductase Fe-S binding subunit 3141477 ygfT 7129550 ygfT Escherichia coli S88 putative oxidoreductase Fe-S binding subunit YP_002392792.1 3139558 R 585035 CDS YP_002392793.1 218559880 7129551 3141780..3141968 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3141968 7129551 ECS88_3166 Escherichia coli S88 hypothetical protein YP_002392793.1 3141780 D 585035 CDS YP_002392794.1 218559881 7133330 3141913..3143361 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 9098051; Product type t : transporter; transporter 3143361 ygfU 7133330 ygfU Escherichia coli S88 transporter YP_002392794.1 3141913 D 585035 CDS YP_002392795.1 218559882 7129552 3143611..3144159 1 NC_011742.1 catalyzes the rearrangement of isopentenyl diphosphate to dimethylallyl phosphate; isopentenyl-diphosphate delta-isomerase 3144159 idi 7129552 idi Escherichia coli S88 isopentenyl-diphosphate delta-isomerase YP_002392795.1 3143611 D 585035 CDS YP_002392796.1 218559883 7131614 complement(3144202..3145719) 1 NC_011742.1 class II; LysRS2; catalyzes a two-step reaction, first charging a lysine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; in Methanosarcina barkeri, LysRS2 charges both tRNA molecules for lysine that exist in this organism and in addition can charge the tRNAPyl with lysine in the presence of LysRS1; lysyl-tRNA synthetase 3145719 lysS 7131614 lysS Escherichia coli S88 lysyl-tRNA synthetase YP_002392796.1 3144202 R 585035 CDS YP_002392797.1 218559884 7129397 complement(join(3145729..3146751,3146753..3146827)) 1 NC_011742.1 recognizes the termination signals UGA and UAA during protein translation a specificity which is dependent on amino acid residues residing in loops of the L-shaped tRNA-like molecule of RF2; in some organisms control of PrfB protein levels is maintained through a +1 ribosomal frameshifting mechanism; this protein is similar to release factor 1; peptide chain release factor 2 3146827 prfB 7129397 prfB Escherichia coli S88 peptide chain release factor 2 YP_002392797.1 3145729 R 585035 CDS YP_002392798.1 218559885 7130773 complement(3146918..3148651) 1 NC_011742.1 5'-3' single-stranded-DNA-specific exonuclease; ssDNA exonuclease RecJ 3148651 recJ 7130773 recJ Escherichia coli S88 ssDNA exonuclease RecJ YP_002392798.1 3146918 R 585035 CDS YP_002392799.1 218559886 7131809 complement(3148657..3149367) 1 NC_011742.1 DsbC; periplasmic protein with protein disulfide isomerase activity; this protein also shows disulfide oxidoreductase activity; thiol:disulfide interchange protein DsbC 3149367 dsbC 7131809 dsbC Escherichia coli S88 thiol:disulfide interchange protein DsbC YP_002392799.1 3148657 R 585035 CDS YP_002392800.1 218559887 7130241 complement(3149392..3150288) 1 NC_011742.1 site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; XerD specifically exchanges the bottom strands; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs; site-specific tyrosine recombinase XerD 3150288 xerD 7130241 xerD Escherichia coli S88 site-specific tyrosine recombinase XerD YP_002392800.1 3149392 R 585035 CDS YP_002392801.1 218559888 7132521 3150400..3150921 1 NC_011742.1 An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic; flavodoxin FldB 3150921 fldB 7132521 fldB Escherichia coli S88 flavodoxin FldB YP_002392801.1 3150400 D 585035 CDS YP_002392802.1 218559889 7129512 complement(3150961..3151368) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3151368 ygfX 7129512 ygfX Escherichia coli S88 hypothetical protein YP_002392802.1 3150961 R 585035 CDS YP_002392803.1 218559890 7129553 complement(3151349..3151615) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3151615 ygfY 7129553 ygfY Escherichia coli S88 hypothetical protein YP_002392803.1 3151349 R 585035 CDS YP_002392804.1 218559891 7129554 3151858..3152838 1 NC_011742.1 physiological role is not clear; not essential for growth but mutants grow poorly; mutations suppress hda null mutations; may be involved in regulation of ATP-DnaA levels; may also be involved in regulation of tRNA modifications; can bind folic acid and tetrahydrofolate; forms a three domain ring-like structure with a central channel; structurally similar to DMGO protein from A. globiformis; shows sequence similarity to yeast CAF17 transcriptional regulator; putative global regulator 3152838 ygfZ 7129554 ygfZ Escherichia coli S88 putative global regulator YP_002392804.1 3151858 D 585035 CDS YP_002392805.1 218559892 7129555 complement(3152915..3153574) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative hemolysin, inner membrane subunit 3153574 yqfA 7129555 yqfA Escherichia coli S88 putative hemolysin, inner membrane subunit YP_002392805.1 3152915 R 585035 CDS YP_002392806.1 218559893 7132087 complement(3153738..3154049) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3154049 yqfB 7132087 yqfB Escherichia coli S88 hypothetical protein YP_002392806.1 3153738 R 585035 CDS YP_002392807.1 218559894 7132088 3154088..3155527 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87222180, 88297127, 92334140; Product type e : enzyme; 6-phospho-beta-glucosidase A 3155527 bglA 7132088 bglA Escherichia coli S88 6-phospho-beta-glucosidase A YP_002392807.1 3154088 D 585035 CDS YP_002392808.1 218559895 7129113 complement(3155693..3158566) 1 NC_011742.1 acts in conjunction with GvcH to form H-protein-S-aminomethyldihydrolipoyllysine from glycine; glycine dehydrogenase 3158566 gcvP 7129113 gcvP Escherichia coli S88 glycine dehydrogenase YP_002392808.1 3155693 R 585035 CDS YP_002392809.1 218559896 7132199 complement(3158684..3159073) 1 NC_011742.1 part of multienzyme complex composed of H, L, P, and T proteins which catalyzes oxidation of glycine to yield carbon dioxide, ammonia, 5,10-CH2-H4folate and a reduced pyridine nucleotide; protein H is involved in transfer of methylamine group from the P to T protein; covalently bound to a lipoyl cofactor; glycine cleavage system protein H 3159073 gcvH 7132199 gcvH Escherichia coli S88 glycine cleavage system protein H YP_002392809.1 3158684 R 585035 CDS YP_002392810.1 218559897 7132198 complement(3159097..3160191) 1 NC_011742.1 catalyzes the transfer of a methylene carbon from the methylamine-loaded GcvH protein to tetrahydrofolate, causing the release of ammonia and the generation of reduced GcvH protein; glycine cleavage system aminomethyltransferase T 3160191 gcvT 7132198 gcvT Escherichia coli S88 glycine cleavage system aminomethyltransferase T YP_002392810.1 3159097 R 585035 CDS YP_002392811.1 218559898 7132201 complement(3160639..3161841) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1339425; Product type pe : putative enzyme; hypothetical protein 3161841 visC 7132201 visC Escherichia coli S88 hypothetical protein YP_002392811.1 3160639 R 585035 CDS YP_002392812.1 218559899 7132473 complement(3161864..3163042) 1 NC_011742.1 Oxygenase that introduces the hydroxyl group at carbon four of 2-octaprenyl-6-methoxyphenol resulting in the formation of 2-octaprenyl-6-methoxy-1,4-benzoquinone; 2-octaprenyl-6-methoxyphenyl hydroxylase 3163042 ubiH 7132473 ubiH Escherichia coli S88 2-octaprenyl-6-methoxyphenyl hydroxylase YP_002392812.1 3161864 R 585035 CDS YP_002392813.1 218559900 7130387 complement(3163039..3164364) 1 NC_011742.1 exopeptidase able to cleave the peptide bond of the last amino acid if linked to a proline residue; substrate can be as short as a dipeptide; proline aminopeptidase P II 3164364 pepP 7130387 pepP Escherichia coli S88 proline aminopeptidase P II YP_002392813.1 3163039 R 585035 CDS YP_002392814.1 218559901 7133674 complement(3164390..3164968) 1 NC_011742.1 the crystal structure of Haemophilus influenzae HI0817 showed that this protein forms dimers; function unknown; hypothetical protein 3164968 ygfB 7133674 ygfB Escherichia coli S88 hypothetical protein YP_002392814.1 3164390 R 585035 CDS YP_002392815.1 218559902 7129543 3165136..3165465 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 412171; Product type cp : cell process; Z-ring-associated protein 3165465 zapA 7129543 zapA Escherichia coli S88 Z-ring-associated protein YP_002392815.1 3165136 D 585035 CDS YP_002392816.1 218559903 7130655 3165765..3166313 1 NC_011742.1 ygfA expression increases five to eight fold in Escherichia coli cells growing as biofilms; unknown function; putative ligase 3166313 ygfA 7130655 ygfA Escherichia coli S88 putative ligase YP_002392816.1 3165765 D 585035 CDS YP_002392817.1 218559904 7131346 complement(3166703..3167935) 1 NC_011742.1 catalyzes the formation of 3-phosphonooxypyruvate from 3-phospho-D-glycerate in serine biosynthesis; can also reduce alpha ketoglutarate to form 2-hydroxyglutarate; D-3-phosphoglycerate dehydrogenase 3167935 serA 7131346 serA Escherichia coli S88 D-3-phosphoglycerate dehydrogenase YP_002392817.1 3166703 R 585035 CDS YP_002392818.1 218559905 7130579 complement(3168191..3168850) 1 NC_011742.1 Catalyzes D-ribose 5-phosphate --> D-ribulose 5-phosphate in the nonoxidative branch of the pentose phosphate pathway; ribose-5-phosphate isomerase A 3168850 rpiA 7130579 rpiA Escherichia coli S88 ribose-5-phosphate isomerase A YP_002392818.1 3168191 R 585035 CDS YP_002392819.1 218559906 7132760 complement(3168906..3169136) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3169136 yqfE 7132760 yqfE Escherichia coli S88 hypothetical protein YP_002392819.1 3168906 R 585035 CDS YP_002392820.1 218559907 7132089 3169277..3170170 1 NC_011742.1 specific inhibitor of chromosomal initiation of replication in vitro; binds the three 13-mers in the origin (oriC) to block initiation of replication; also controls genes involved in arginine transport; chromosome replication initiation inhibitor protein 3170170 argP 7132089 argP Escherichia coli S88 chromosome replication initiation inhibitor protein YP_002392820.1 3169277 D 585035 CDS YP_002392821.1 218559908 7131117 complement(3171425..3172321) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3172321 ygfI 7131117 ygfI Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392821.1 3171425 R 585035 CDS YP_002392822.1 218559909 7129544 complement(3172479..3173219) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3173219 yggE 7129544 yggE Escherichia coli S88 hypothetical protein YP_002392822.1 3172479 R 585035 CDS YP_002392823.1 218559910 7129558 complement(3173312..3173944) 1 NC_011742.1 Involved in the export of arginine; arginine exporter protein 3173944 argO 7129558 argO Escherichia coli S88 arginine exporter protein YP_002392823.1 3173312 R 585035 CDS YP_002392824.1 218559911 7133099 complement(3174083..3174943) 1 NC_011742.1 participates in the regulation of osmotic pressure changes within the cel; mechanosensitive channel MscS 3174943 mscS 7133099 mscS Escherichia coli S88 mechanosensitive channel MscS YP_002392824.1 3174083 R 585035 CDS YP_002392825.1 218559912 7129615 complement(3175134..3176213) 1 NC_011742.1 catalyzes the formation of glycerone phosphate and glyceraldehyde 3-phosphate from fructose 1,6, bisphosphate; fructose-bisphosphate aldolase 3176213 fbaA 7129615 fbaA Escherichia coli S88 fructose-bisphosphate aldolase YP_002392825.1 3175134 R 585035 CDS YP_002392826.1 218559913 7129447 complement(3176428..3177591) 1 NC_011742.1 Converts 3-phospho-D-glycerate to 3-phospho-D-glyceroyl phosphate during the glycolysis pathway; phosphoglycerate kinase 3177591 pgk 7129447 pgk Escherichia coli S88 phosphoglycerate kinase YP_002392826.1 3176428 R 585035 CDS YP_002392827.1 218559914 7133691 complement(3177641..3178660) 1 NC_011742.1 NAD-dependent; catalyzes the formation of 4-phosphoerythronate from erythrose 4-phosphate in the biosynthesis of pyridoxine 5'-phosphate; erythrose 4-phosphate dehydrogenase 3178660 epd 7133691 epd Escherichia coli S88 erythrose 4-phosphate dehydrogenase YP_002392827.1 3177641 R 585035 CDS YP_002392828.1 218559915 7132409 3179032..3179463 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein with PD1-like DNA-binding motif 3179463 7132409 ECS88_3204 Escherichia coli S88 conserved hypothetical protein with PD1-like DNA-binding motif YP_002392828.1 3179032 D 585035 CDS YP_002392829.1 218559916 7133331 3179486..3180064 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC-type transport system 3180064 7133331 ECS88_3205 Escherichia coli S88 putative ABC-type transport system YP_002392829.1 3179486 D 585035 CDS YP_002392830.1 218559917 7133332 3180065..3180772 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC-type transport system 3180772 7133332 ECS88_3206 Escherichia coli S88 putative ABC-type transport system YP_002392830.1 3180065 D 585035 CDS YP_002392831.1 218559918 7133333 3180754..3181437 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ATP-binding protein of ABC transport system 3181437 7133333 ECS88_3207 Escherichia coli S88 putative ATP-binding protein of ABC transport system YP_002392831.1 3180754 D 585035 CDS YP_002392832.1 218559919 7133334 3181398..3182108 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ATP-binding protein of ABC transport system 3182108 7133334 ECS88_3208 Escherichia coli S88 putative ATP-binding protein of ABC transport system YP_002392832.1 3181398 D 585035 CDS YP_002392833.1 218559920 7133335 complement(3182080..3182793) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; putative fructose transport system kinase 3182793 frcK 7133335 frcK Escherichia coli S88 putative fructose transport system kinase YP_002392833.1 3182080 R 585035 CDS YP_002392834.1 218559921 7129556 complement(3182790..3183299) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3183299 yggD 7129556 yggD Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392834.1 3182790 R 585035 CDS YP_002392835.1 218559922 7129560 complement(3183633..3184910) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative dehydrogenase 3184910 yggP 7129560 yggP Escherichia coli S88 putative dehydrogenase YP_002392835.1 3183633 R 585035 CDS YP_002392836.1 218559923 7129567 complement(3184925..3186313) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8353127; Product type t : transporter; fused mannitol-specific PTS enzymes: IIB component ; IIC component 3186313 cmtA 7129567 cmtA Escherichia coli S88 fused mannitol-specific PTS enzymes: IIB component ; IIC component YP_002392836.1 3184925 R 585035 CDS YP_002392837.1 218559924 7131936 complement(3186341..3186784) 1 NC_011742.1 TolM; with CmtA (IIBC), CmtB possibly forms the mannitol-like permease component of the cryptic mannitol phosphotransferase system, which phosphorylates and transports various carbohydrates and polyhydric alcohols in Escherichia coli; cytoplasmic protein; putative mannitol phosphotransferase subunit EIIA 3186784 cmtB 7131936 cmtB Escherichia coli S88 putative mannitol phosphotransferase subunit EIIA YP_002392837.1 3186341 R 585035 CDS YP_002392838.1 218559925 7131937 3187161..3188069 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane protease 3188069 7131937 ECS88_3216 Escherichia coli S88 putative membrane protease YP_002392838.1 3187161 D 585035 CDS YP_002392839.1 218559926 7133336 complement(3188289..3190280) 1 NC_011742.1 catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase; transketolase 3190280 tktA 7133336 tktA Escherichia coli S88 transketolase YP_002392839.1 3188289 R 585035 CDS YP_002392840.1 218559927 7133476 3190558..3191316 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1310091; Product type pe : putative enzyme; putative peptidase 3191316 yggG 7133476 yggG Escherichia coli S88 putative peptidase YP_002392840.1 3190558 D 585035 CDS YP_002392841.1 218559928 7129561 complement(3191520..3192440) 1 NC_011742.1 catalyzes the formation of putrescine from agmatine; agmatinase 3192440 speB 7129561 speB Escherichia coli S88 agmatinase YP_002392841.1 3191520 R 585035 CDS YP_002392842.1 218559929 7130625 complement(3192576..3193307) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 3193307 7130625 ECS88_3220 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002392842.1 3192576 R 585035 CDS YP_002392843.1 218559930 7133337 complement(3193453..3195429) 1 NC_011742.1 catalyzes the formation of agmatine from arginine in putrescine and spermidine biosynthesis; arginine decarboxylase 3195429 speA 7133337 speA Escherichia coli S88 arginine decarboxylase YP_002392843.1 3193453 R 585035 CDS YP_002392844.1 218559931 7130624 complement(3195438..3195584) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3195584 yqgB 7130624 yqgB Escherichia coli S88 hypothetical protein YP_002392844.1 3195438 R 585035 CDS YP_002392845.1 218559932 7132091 3195705..3195920 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3195920 yqgC 7132091 yqgC Escherichia coli S88 hypothetical protein YP_002392845.1 3195705 D 585035 CDS YP_002392846.1 218559933 7132092 3196224..3197378 1 NC_011742.1 catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase; S-adenosylmethionine synthetase 3197378 metK 7132092 metK Escherichia coli S88 S-adenosylmethionine synthetase YP_002392846.1 3196224 D 585035 CDS YP_002392847.1 218559934 7128819 3197815..3199209 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9182541; Product type t : transporter; D-galactose transporter 3199209 galP 7128819 galP Escherichia coli S88 D-galactose transporter YP_002392847.1 3197815 D 585035 CDS YP_002392848.1 218559935 7132174 3199286..3199783 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 7984428, 8113204; hypothetical protein 3199783 sprT 7132174 sprT Escherichia coli S88 hypothetical protein YP_002392848.1 3199286 D 585035 CDS YP_002392849.1 218559936 7130635 3199878..3200585 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 72060411, 92335461, 4955462, 7867949, 8113204; Product type e : enzyme; DNA-specific endonuclease I 3200585 endA 7130635 endA Escherichia coli S88 DNA-specific endonuclease I YP_002392849.1 3199878 D 585035 CDS YP_002392850.1 218559937 7132398 3200665..3201396 1 NC_011742.1 in Escherichia coli RsmE methylates the N3 position of the U1498 base in 16S rRNA; cells lacking this function can grow, but are outcompeted by wild-type; SAM-dependent m(3)U1498 methyltransferase; 16S ribosomal RNA methyltransferase RsmE 3201396 yggJ 7132398 yggJ Escherichia coli S88 16S ribosomal RNA methyltransferase RsmE YP_002392850.1 3200665 D 585035 CDS YP_002392851.1 218559938 7129563 3201409..3202359 1 NC_011742.1 catalyzes the second step in the glutathione biosynthesis pathway, where it synthesizes ATP + gamma-L-glutamyl-L-cysteine + glycine = ADP + phosphate + glutathione; glutathione synthetase 3202359 gshB 7129563 gshB Escherichia coli S88 glutathione synthetase YP_002392851.1 3201409 D 585035 CDS YP_002392852.1 218559939 7130077 3202468..3203031 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3203031 yqgE 7130077 yqgE Escherichia coli S88 hypothetical protein YP_002392852.1 3202468 D 585035 CDS YP_002392853.1 218559940 7132093 3203031..3203447 1 NC_011742.1 similar to RuvC resolvase with substantial differences; NMR structural information suggests this protein is monomeric; unknown cellular function; Holliday junction resolvase-like protein 3203447 yqgF 7132093 yqgF Escherichia coli S88 Holliday junction resolvase-like protein YP_002392853.1 3203031 D 585035 CDS YP_002392854.1 218559941 7132094 complement(3203621..3204601) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 1676385; Product type t : transporter; transporter 3204601 yggR 7132094 yggR Escherichia coli S88 transporter YP_002392854.1 3203621 R 585035 CDS YP_002392855.1 218559942 7129568 3204619..3205323 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative enzyme 3205323 yggS 7129568 yggS Escherichia coli S88 putative enzyme YP_002392855.1 3204619 D 585035 CDS YP_002392856.1 218559943 7129569 3205341..3205907 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3205907 yggT 7129569 yggT Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392856.1 3205341 D 585035 CDS YP_002392857.1 218559944 7129570 3205904..3206194 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 12975589; hypothetical protein 3206194 yggU 7129570 yggU Escherichia coli S88 hypothetical protein YP_002392857.1 3205904 D 585035 CDS YP_002392858.1 218559945 7129571 3206202..3206795 1 NC_011742.1 HAM1-like protein; Rec-dependent growth; RgdB; yggV; it is suspected that this protein functions to remove misincorporated bases such as xanthine or hypoxanthine; putative deoxyribonucleotide triphosphate pyrophosphatase 3206795 yggV 7129571 yggV Escherichia coli S88 putative deoxyribonucleotide triphosphate pyrophosphatase YP_002392858.1 3206202 D 585035 CDS YP_002392859.1 218559946 7129572 3206788..3207924 1 NC_011742.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase 3207924 yggW 7129572 yggW Escherichia coli S88 coproporphyrinogen III oxidase YP_002392859.1 3206788 D 585035 CDS YP_002392860.1 218559947 7129573 complement(3207993..3209000) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3209000 yggM 7129573 yggM Escherichia coli S88 hypothetical protein YP_002392860.1 3207993 R 585035 CDS YP_002392861.1 218559948 7129565 complement(3209117..3210163) 1 NC_011742.1 catalyzes the formation of aspartate from asparagine, periplasmic; regulated by cyclic AMP receptor protein (CRP) and also induced by anaerobiosis; L-asparaginase II 3210163 ansB 7129565 ansB Escherichia coli S88 L-asparaginase II YP_002392861.1 3209117 R 585035 CDS YP_002392862.1 218559949 7133070 complement(3210339..3211058) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11274153; hypothetical protein 3211058 yggN 7133070 yggN Escherichia coli S88 hypothetical protein YP_002392862.1 3210339 R 585035 CDS YP_002392863.1 218559950 7129566 complement(3211242..3211568) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3211568 yggL 7129566 yggL Escherichia coli S88 hypothetical protein YP_002392863.1 3211242 R 585035 CDS YP_002392864.1 218559951 7129564 complement(3211568..3212287) 1 NC_011742.1 tRNA (guanine-N(7)-)-methyltransferase; catalyzes the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA by transferring the methyl residue from S-adenosyl-L-methionine; tRNA (guanine-N(7)-)-methyltransferase 3212287 trmB 7129564 trmB Escherichia coli S88 tRNA (guanine-N(7)-)-methyltransferase YP_002392864.1 3211568 R 585035 CDS YP_002392865.1 218559952 7129562 3212448..3213500 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14730969, 20187555, 20316830, 20580749, 21438845, 90046892, 92409600, 9801309, 2001994, 2197596, 9846876; Product type e : enzyme; adenine DNA glycosylase 3213500 mutY 7129562 mutY Escherichia coli S88 adenine DNA glycosylase YP_002392865.1 3212448 D 585035 CDS YP_002392866.1 218559953 7129644 3213528..3213803 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14594836, 10493123, 9298646, 9868784; Product type f : factor; hypothetical protein 3213803 yggX 7129644 yggX Escherichia coli S88 hypothetical protein YP_002392866.1 3213528 D 585035 CDS YP_002392867.1 218559954 7129574 3213868..3214947 1 NC_011742.1 Murein hydrolase C; membrane-bound; lytic; catalyzes the cleavage of the beta-1,4-glycosidic bond between N-acetylmuramic acid and N-acetylglucosamine residues; murein transglycosylase C 3214947 mltC 7129574 mltC Escherichia coli S88 murein transglycosylase C YP_002392867.1 3213868 D 585035 CDS YP_002392868.1 218559955 7128844 3215149..3216405 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88029453, 90323001, 3311747; Product type t : transporter; nucleoside transporter 3216405 nupG 7128844 nupG Escherichia coli S88 nucleoside transporter YP_002392868.1 3215149 D 585035 CDS YP_002392869.1 218559956 7133115 complement(3216454..3218589) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87222180, 87260820; Product type e : enzyme; ornithine decarboxylase 3218589 speC 7133115 speC Escherichia coli S88 ornithine decarboxylase YP_002392869.1 3216454 R 585035 CDS YP_002392870.1 218559957 7130626 3218988..3219695 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3219695 yqgA 7130626 yqgA Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392870.1 3218988 D 585035 CDS YP_002392871.1 218559958 7129893 3220074..3221336 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Prophage integrase 3221336 int 7129893 int Escherichia coli S88 Prophage integrase YP_002392871.1 3220074 D 585035 CDS YP_002392872.1 218559959 7131651 3221776..3225303 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative superfamily I DNA helicase 3225303 7131651 ECS88_3251 Escherichia coli S88 Putative superfamily I DNA helicase YP_002392872.1 3221776 D 585035 CDS YP_002392873.1 218559960 7133339 3226497..3228038 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11094055; Product type pe : putative enzyme; Putative transposase for ISEc12, catalytic region (orf1) 3228038 7133339 ECS88_3253 Escherichia coli S88 Putative transposase for ISEc12, catalytic region (orf1) YP_002392873.1 3226497 D 585035 CDS YP_002392874.1 218559961 7133340 3228050..3228799 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11094055; Product type pe : putative enzyme; putative transposase iISEc12, ATP-binding protein (orf2) 3228799 7133340 ECS88_3254 Escherichia coli S88 putative transposase iISEc12, ATP-binding protein (orf2) YP_002392874.1 3228050 D 585035 CDS YP_002392875.1 218559962 7133342 complement(3229672..3230427) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8675335, 16369033; Product type f : factor; Tia invasion determinant 3230427 tia 7133342 tia Escherichia coli S88 Tia invasion determinant YP_002392875.1 3229672 R 585035 CDS YP_002392876.1 218559963 7133471 complement(3230778..3231788) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1357526, 2895103, 11440716; Product type s : structure; Fimbrial PapG protein (P pilus class II adhesin) (PapGII) 3231788 papG 7133471 papG Escherichia coli S88 Fimbrial PapG protein (P pilus class II adhesin) (PapGII) YP_002392876.1 3230778 R 585035 CDS YP_002392877.1 218559964 7133168 complement(3231832..3232362) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2869489, 2895103, 1357526, 8096174, 10049807; Product type s : structure; Fimbrial adapter PapF precursor 3232362 papF 7133168 papF Escherichia coli S88 Fimbrial adapter PapF precursor YP_002392877.1 3231832 R 585035 CDS YP_002392878.1 218559965 7133167 complement(3232407..3232946) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 2869489, 2895103, 1357526, 10049807; Product type s : structure; Fimbrial tip protein PapE 3232946 papE 7133167 papE Escherichia coli S88 Fimbrial tip protein PapE YP_002392878.1 3232407 R 585035 CDS YP_002392879.1 218559966 7133166 complement(3232955..3233494) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1357526, 8096174, 10049807, 10446050; Product type s : structure; Fimbrial adapter PapK precursor 3233494 papK 7133166 papK Escherichia coli S88 Fimbrial adapter PapK precursor YP_002392879.1 3232955 R 585035 CDS YP_002392880.1 218559967 7133172 complement(3233501..3234082) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1975085, 1357526; Product type f : factor; Protein PapJ precursor, P pilus assembly 3234082 papJ 7133172 papJ Escherichia coli S88 Protein PapJ precursor, P pilus assembly YP_002392880.1 3233501 R 585035 CDS YP_002392881.1 218559968 7133171 complement(3234119..3234853) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1357526, 10049807, 2478891, 10446050; Product type f : factor; Chaperone protein PapD precursor 3234853 papD 7133171 papD Escherichia coli S88 Chaperone protein PapD precursor YP_002392881.1 3234119 R 585035 CDS YP_002392882.1 218559969 7133165 complement(3234924..3237455) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2897064, 1357526, 12399496, 2572580, 7909802, 9501230; Product type f : factor; Outer membrane usher protein PapC precursor 3237455 papC 7133165 papC Escherichia coli S88 Outer membrane usher protein PapC precursor YP_002392882.1 3234924 R 585035 CDS YP_002392883.1 218559970 7133164 complement(3237493..3238080) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2882856, 1357526, 2897064; Product type s : structure; minor pilin protein PapH 3238080 papH 7133164 papH Escherichia coli S88 minor pilin protein PapH YP_002392883.1 3237493 R 585035 CDS YP_002392884.1 218559971 7133169 complement(3238143..3238724) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6140260, 1357526, 10049807; Product type s : structure; major pilin protein PapA 3238724 papA 7133169 papA Escherichia coli S88 major pilin protein PapA YP_002392884.1 3238143 R 585035 CDS YP_002392885.1 218559972 7133162 complement(3238898..3239212) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2656260, 2868893; Product type r : regulator; pap operon regulatory protein PapB 3239212 papB 7133162 papB Escherichia coli S88 pap operon regulatory protein PapB YP_002392885.1 3238898 R 585035 CDS YP_002392886.1 218559973 7133163 3239644..3239877 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2868893, 1357526; Product type r : regulator; pap operon regulatory protein PapI 3239877 papI 7133163 papI Escherichia coli S88 pap operon regulatory protein PapI YP_002392886.1 3239644 D 585035 CDS YP_002392887.1 218559974 7133170 complement(3240072..3240335) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 3240335 7133170 ECS88_3268 Escherichia coli S88 hypothetical protein YP_002392887.1 3240072 R 585035 CDS YP_002392888.1 218559975 7133343 complement(3240220..3240456) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative phage regulatory protein 3240456 7133343 ECS88_3269 Escherichia coli S88 conserved hypothetical protein; putative phage regulatory protein YP_002392888.1 3240220 R 585035 CDS YP_002392889.1 218559976 7133344 complement(3240525..3241130) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3241130 7133344 ECS88_3270 Escherichia coli S88 hypothetical protein YP_002392889.1 3240525 R 585035 CDS YP_002392890.1 218559977 7133345 complement(3241358..3241924) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3241924 7133345 ECS88_3271 Escherichia coli S88 hypothetical protein YP_002392890.1 3241358 R 585035 CDS YP_002392891.1 218559978 7133346 3242019..3242174 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3242174 7133346 ECS88_3272 Escherichia coli S88 hypothetical protein YP_002392891.1 3242019 D 585035 CDS YP_002392892.1 218559979 7131645 complement(3243921..3245285) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type t : transporter; Phosphoglycerate transporter protein 3245285 pgtP 7131645 pgtP Escherichia coli S88 Phosphoglycerate transporter protein YP_002392892.1 3243921 R 585035 CDS YP_002392893.1 218559980 7133700 3245594..3246901 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 2842312; Product type r : regulator; Phosphoglycerate transport regulatory protein 3246901 pgtC 7133700 pgtC Escherichia coli S88 Phosphoglycerate transport regulatory protein YP_002392893.1 3245594 D 585035 CDS YP_002392894.1 218559981 7133699 3246898..3248907 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2842311, 2842312; Product type t : transporter; Phosphoglycerate transport system sensor protein 3248907 pgtB 7133699 pgtB Escherichia coli S88 Phosphoglycerate transport system sensor protein YP_002392894.1 3246898 D 585035 CDS YP_002392895.1 218559982 7133698 3248888..3250144 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 3023201; Product type r : regulator; Phosphoglycerate transport system transcriptional regulatory protein 3250144 pgtA 7133698 pgtA Escherichia coli S88 Phosphoglycerate transport system transcriptional regulatory protein YP_002392895.1 3248888 D 585035 CDS YP_002392896.1 218559983 7133697 3250353..3250628 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 3250628 7133697 ECS88_3281 Escherichia coli S88 hypothetical protein YP_002392896.1 3250353 D 585035 CDS YP_002392897.1 218559984 7133350 3250685..3250834 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3250834 7133350 ECS88_3282 Escherichia coli S88 hypothetical protein YP_002392897.1 3250685 D 585035 CDS YP_002392898.1 218559985 7133351 complement(3250737..3251060) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3251060 7133351 ECS88_3283 Escherichia coli S88 hypothetical protein YP_002392898.1 3250737 R 585035 CDS YP_002392899.1 218559986 7133352 complement(3251125..3251769) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3251769 7133352 ECS88_3284 Escherichia coli S88 hypothetical protein YP_002392899.1 3251125 R 585035 CDS YP_002392900.1 218559987 7133353 complement(3251790..3252098) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative transcriptional regulator 3252098 7133353 ECS88_3285 Escherichia coli S88 conserved hypothetical protein; putative transcriptional regulator YP_002392900.1 3251790 R 585035 CDS YP_002392901.1 218559988 7131610 complement(3252768..3254000) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12057959; Product type r : regulator; immunoglobulin-binding regulator 3254000 ibrA 7131610 ibrA Escherichia coli S88 immunoglobulin-binding regulator YP_002392901.1 3252768 R 585035 CDS YP_002392902.1 218559989 7131607 complement(3254136..3254789) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 3254789 7131607 ECS88_3289 Escherichia coli S88 hypothetical protein YP_002392902.1 3254136 R 585035 CDS YP_002392903.1 218559990 7133355 complement(3254974..3256434) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2695400; Product type pf : putative factor; putative overcoming lysogenization defect protein (old-like) 3256434 7133355 ECS88_3290 Escherichia coli S88 putative overcoming lysogenization defect protein (old-like) YP_002392903.1 3254974 R 585035 CDS YP_002392904.1 218559991 7133356 complement(3256593..3257480) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF B, IS629 3257480 7133356 ECS88_3291 Escherichia coli S88 transposase ORF B, IS629 YP_002392904.1 3256593 R 585035 CDS YP_002392905.1 218559992 7133357 complement(3257480..3257806) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF A, IS629 3257806 7133357 ECS88_3292 Escherichia coli S88 transposase ORF A, IS629 YP_002392905.1 3257480 R 585035 CDS YP_002392906.1 218559993 7133360 complement(3259200..3261248) 1 NC_011742.1 iron-responsive element (ireA); ireA gene is located on pathogenicity island I (PAI I); outer membrane protein; putative iron-regulated outer membrane virulence protein 3261248 ireA 7133360 ireA Escherichia coli S88 putative iron-regulated outer membrane virulence protein YP_002392906.1 3259200 R 585035 CDS YP_002392907.1 218559994 7131654 complement(3261724..3261942) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3261942 7131654 ECS88_3296 Escherichia coli S88 hypothetical protein YP_002392907.1 3261724 R 585035 CDS YP_002392908.1 218559995 7133361 complement(3262030..3262770) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3262770 7133361 ECS88_3297 Escherichia coli S88 hypothetical protein YP_002392908.1 3262030 R 585035 CDS YP_002392909.1 218559996 7133362 3262875..3263123 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3263123 7133362 ECS88_3298 Escherichia coli S88 hypothetical protein YP_002392909.1 3262875 D 585035 CDS YP_002392910.1 218559997 7133363 complement(3263129..3263365) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3263365 7133363 ECS88_3299 Escherichia coli S88 hypothetical protein YP_002392910.1 3263129 R 585035 CDS YP_002392911.1 218559998 7133364 3263635..3263778 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3263778 7133364 ECS88_3300 Escherichia coli S88 hypothetical protein YP_002392911.1 3263635 D 585035 CDS YP_002392912.1 218559999 7133365 complement(3263903..3264076) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 3264076 7133365 ECS88_3301 Escherichia coli S88 hypothetical protein YP_002392912.1 3263903 R 585035 CDS YP_002392913.1 218560000 7133366 3264375..3265250 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3265250 7133366 ECS88_3302 Escherichia coli S88 hypothetical protein YP_002392913.1 3264375 D 585035 CDS YP_002392914.1 218560001 7133367 complement(3265247..3266200) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3266200 7133367 ECS88_3303 Escherichia coli S88 hypothetical protein YP_002392914.1 3265247 R 585035 CDS YP_002392915.1 218560002 7133368 3266303..3267187 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative GTP-binding protein 3267187 7133368 ECS88_3304 Escherichia coli S88 putative GTP-binding protein YP_002392915.1 3266303 D 585035 CDS YP_002392916.1 218560003 7133369 3267390..3268070 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative HTH-type transcriptional regulator 3268070 yfjR 7133369 yfjR Escherichia coli S88 putative HTH-type transcriptional regulator YP_002392916.1 3267390 D 585035 CDS YP_002392917.1 218560004 7133565 3268113..3268895 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 3268895 7133565 ECS88_3307 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002392917.1 3268113 D 585035 CDS YP_002392918.1 218560005 7133370 3268901..3269134 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3269134 7133370 ECS88_3308 Escherichia coli S88 hypothetical protein YP_002392918.1 3268901 D 585035 CDS YP_002392919.1 218560006 7133371 3269224..3270042 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3270042 7133371 ECS88_3309 Escherichia coli S88 hypothetical protein YP_002392919.1 3269224 D 585035 CDS YP_002392920.1 218560007 7133372 3270133..3270618 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7519596; Product type pf : putative factor; putative antirestriction protein (klcA-like) 3270618 7133372 ECS88_3311 Escherichia coli S88 putative antirestriction protein (klcA-like) YP_002392920.1 3270133 D 585035 CDS YP_002392921.1 218560008 7133373 3270663..3271109 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11053371; Product type pf : putative factor; putative DNA repair protein; CP4-44 prophage 3271109 yeeS 7133373 yeeS Escherichia coli S88 putative DNA repair protein; CP4-44 prophage YP_002392921.1 3270663 D 585035 CDS YP_002392922.1 218560009 7132957 3271178..3271399 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CP4-44 prophage 3271399 yeeT 7132957 yeeT Escherichia coli S88 conserved hypothetical protein; CP4-44 prophage YP_002392922.1 3271178 D 585035 CDS YP_002392923.1 218560010 7132961 3271478..3271855 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14594833; Product type h : extrachromosomal origin; antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage 3271855 yeeU 7132961 yeeU Escherichia coli S88 antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage YP_002392923.1 3271478 D 585035 CDS YP_002392924.1 218560011 7132965 3271788..3272279 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14594833; Product type f : factor; toxin of the YeeV-YeeU toxin-antitoxin system 3272279 yeeV 7132965 yeeV Escherichia coli S88 toxin of the YeeV-YeeU toxin-antitoxin system YP_002392924.1 3271788 D 585035 CDS YP_002392925.1 218560012 7132969 3272276..3272764 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3272764 yeeW 7132969 yeeW Escherichia coli S88 hypothetical protein YP_002392925.1 3272276 D 585035 CDS YP_002392926.1 218560013 7132972 3272731..3272973 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3272973 7132972 ECS88_3317 Escherichia coli S88 hypothetical protein YP_002392926.1 3272731 D 585035 CDS YP_002392927.1 218560014 7133374 3273058..3273903 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 9987116; hypothetical protein 3273903 7133374 ECS88_3318 Escherichia coli S88 hypothetical protein YP_002392927.1 3273058 D 585035 CDS YP_002392928.1 218560015 7133375 3273974..3275509 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative EAL domain 3275509 7133375 ECS88_3319 Escherichia coli S88 conserved hypothetical protein; putative EAL domain YP_002392928.1 3273974 D 585035 CDS YP_002392929.1 218560016 7133377 3276850..3277869 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8253690; Product type e : enzyme; Polysialic acid capsule expression protein 3277869 kpsF 7133377 kpsF Escherichia coli S88 Polysialic acid capsule expression protein YP_002392929.1 3276850 D 585035 CDS YP_002392930.1 218560017 7130462 3277941..3279089 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8253690; Product type t : transporter; Capsule polysaccharide export inner-membrane protein 3279089 kpsE 7130462 kpsE Escherichia coli S88 Capsule polysaccharide export inner-membrane protein YP_002392930.1 3277941 D 585035 CDS YP_002392931.1 218560018 7130461 3279110..3280789 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8021185; Product type t : transporter; Polysialic acid transport protein precursor 3280789 kpsD 7130461 kpsD Escherichia coli S88 Polysialic acid transport protein precursor YP_002392931.1 3279110 D 585035 CDS YP_002392932.1 218560019 7130460 3280799..3281539 1 NC_011742.1 CMP-2-keto-3-deoxyoctulosonic acid synthetase; catalyzes the formation of CMP-3-deoxy-D-manno-octulosonate from CTP and 3-deoxy-D-manno-octulosonate which is incorporated into LPS; 3-deoxy-manno-octulosonate cytidylyltransferase 3281539 kpsU 7130460 kpsU Escherichia coli S88 3-deoxy-manno-octulosonate cytidylyltransferase YP_002392932.1 3280799 D 585035 CDS YP_002392933.1 218560020 7130466 3281536..3283563 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 8397187, 8326861; Product type t : transporter; Capsule polysaccharide export protein 3283563 kpsC 7130466 kpsC Escherichia coli S88 Capsule polysaccharide export protein YP_002392933.1 3281536 D 585035 CDS YP_002392934.1 218560021 7130459 3283598..3284803 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 8397187, 8326861; Product type t : transporter; Capsule polysaccharide export protein 3284803 kpsS 7130459 kpsS Escherichia coli S88 Capsule polysaccharide export protein YP_002392934.1 3283598 D 585035 CDS YP_002392935.1 218560022 7130464 complement(3286172..3287407) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 16484189, 1735705; Product type e : enzyme; polysialic acid biosynthesis protein 3287407 neuE 7130464 neuE Escherichia coli S88 polysialic acid biosynthesis protein YP_002392935.1 3286172 R 585035 CDS YP_002392936.1 218560023 7129698 complement(3287313..3288488) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14729696, 1729218; Product type e : enzyme; UDP-N-acetylglucosamine 2-epimerase 3288488 neuC 7129698 neuC Escherichia coli S88 UDP-N-acetylglucosamine 2-epimerase YP_002392936.1 3287313 R 585035 CDS YP_002392937.1 218560024 7129696 complement(3288485..3289741) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2549035; Product type e : enzyme; N-acylneuraminate cytidylyltransferase 3289741 neuA 7129696 neuA Escherichia coli S88 N-acylneuraminate cytidylyltransferase YP_002392937.1 3288485 R 585035 CDS YP_002392938.1 218560025 7129694 complement(3289741..3290781) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 7814319; Product type e : enzyme; N-acylneuraminate-9-phosphate synthase 3290781 neuB 7129694 neuB Escherichia coli S88 N-acylneuraminate-9-phosphate synthase YP_002392938.1 3289741 R 585035 CDS YP_002392939.1 218560026 7129695 complement(3290778..3291401) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10930752, 7814319; Product type e : enzyme; NeuD protein involved in sialic acid synthesis 3291401 neuD 7129695 neuD Escherichia coli S88 NeuD protein involved in sialic acid synthesis YP_002392939.1 3290778 R 585035 CDS YP_002392940.1 218560027 7129697 complement(3291451..3292110) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1856162, 8051103, 2082146; Product type t : transporter; Polysialic acid transport ATP-binding protein 3292110 kpsT 7129697 kpsT Escherichia coli S88 Polysialic acid transport ATP-binding protein YP_002392940.1 3291451 R 585035 CDS YP_002392941.1 218560028 7130465 complement(3292107..3292943) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1856162, 7715449; Product type t : transporter; Polysialic acid transport protein 3292943 kpsM 7130465 kpsM Escherichia coli S88 Polysialic acid transport protein YP_002392941.1 3292107 R 585035 CDS YP_002392942.1 218560029 7130463 complement(3293941..3294477) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative general secretion pathway protein YghD 3294477 yghD 7130463 yghD Escherichia coli S88 putative general secretion pathway protein YghD YP_002392942.1 3293941 R 585035 CDS YP_002392943.1 218560030 7129577 complement(3294479..3295657) 1 NC_011742.1 similar to general secretory pathway protein L; GspL-like protein 3295657 yghE 7129577 yghE Escherichia coli S88 GspL-like protein YP_002392943.1 3294479 R 585035 CDS YP_002392944.1 218560031 7129578 complement(3295654..3296631) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative type II secretion protein (GspK-like) 3296631 7129578 ECS88_3337 Escherichia coli S88 putative type II secretion protein (GspK-like) YP_002392944.1 3295654 R 585035 CDS YP_002392945.1 218560032 7133378 complement(3296628..3297233) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 3297233 7133378 ECS88_3338 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002392945.1 3296628 R 585035 CDS YP_002392946.1 218560033 7133379 complement(3297230..3297601) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative type II secretion protein (GspI-like) 3297601 7133379 ECS88_3339 Escherichia coli S88 putative type II secretion protein (GspI-like) YP_002392946.1 3297230 R 585035 CDS YP_002392947.1 218560034 7133380 complement(3297598..3298161) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 3298161 7133380 ECS88_3340 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002392947.1 3297598 R 585035 CDS YP_002392948.1 218560035 7133381 complement(3298165..3298647) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative general secretion pathway protein G precursor (epsG-like) 3298647 7133381 ECS88_3341 Escherichia coli S88 putative general secretion pathway protein G precursor (epsG-like) YP_002392948.1 3298165 R 585035 CDS YP_002392949.1 218560036 7133382 complement(3298637..3299860) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type t : transporter; General secretion pathway protein F 3299860 epsF 7133382 epsF Escherichia coli S88 General secretion pathway protein F YP_002392949.1 3298637 R 585035 CDS YP_002392950.1 218560037 7132412 complement(3299860..3301353) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type t : transporter; general secretion pathway protein E 3301353 epsE 7132412 epsE Escherichia coli S88 general secretion pathway protein E YP_002392950.1 3299860 R 585035 CDS YP_002392951.1 218560038 7132411 complement(3301353..3303413) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type t : transporter; general secretion pathway protein D precursor 3303413 epsD 7132411 epsD Escherichia coli S88 general secretion pathway protein D precursor YP_002392951.1 3301353 R 585035 CDS YP_002392952.1 218560039 7132410 complement(3303443..3304273) 1 NC_011742.1 part of the general (type II) secretion pathway (GSP), a signal sequence-dependent process responsible for protein export; involved in trans-location of exoproteins from the cytoplasm to the periplasm; putative type II secretion protein GspC 3304273 yghF 7132410 yghF Escherichia coli S88 putative type II secretion protein GspC YP_002392952.1 3303443 R 585035 CDS YP_002392953.1 218560040 7129579 complement(3304420..3304830) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3304830 yghG 7129579 yghG Escherichia coli S88 hypothetical protein YP_002392953.1 3304420 R 585035 CDS YP_002392954.1 218560041 7129580 complement(3304896..3305705) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 98175453; Product type e : enzyme; bifunctional prepilin leader peptidase and methylase 3305705 pppA 7129580 pppA Escherichia coli S88 bifunctional prepilin leader peptidase and methylase YP_002392954.1 3304896 R 585035 CDS YP_002392955.1 218560042 7130765 complement(3305869..3310449) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 1644747; Product type lp : lipoprotein; inner membrane lipoprotein 3310449 yghJ 7130765 yghJ Escherichia coli S88 inner membrane lipoprotein YP_002392955.1 3305869 R 585035 CDS YP_002392956.1 218560043 7129581 complement(3310915..3312597) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11785976, 21178909, 11283302; Product type t : transporter; glycolate transporter 3312597 yghK 7129581 yghK Escherichia coli S88 glycolate transporter YP_002392956.1 3310915 R 585035 CDS YP_002392957.1 218560044 7129142 complement(3312953..3315124) 1 NC_011742.1 catalyzes the formation of malate from glyoxylate and acetyl-CoA; malate synthase G 3315124 glcB 7129142 glcB Escherichia coli S88 malate synthase G YP_002392957.1 3312953 R 585035 CDS YP_002392958.1 218560045 7132206 complement(3315146..3315550) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3315550 glcG 7132206 glcG Escherichia coli S88 hypothetical protein YP_002392958.1 3315146 R 585035 CDS YP_002392959.1 218560046 7132211 complement(3315555..3316778) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96178972, 8606183; Product type c : carrier; glycolate oxidase iron-sulfur subunit 3316778 glcF 7132211 glcF Escherichia coli S88 glycolate oxidase iron-sulfur subunit YP_002392959.1 3315555 R 585035 CDS YP_002392960.1 218560047 7132210 complement(3316789..3317841) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96178972, 8606183; Product type e : enzyme; glycolate oxidase FAD binding subunit 3317841 glcE 7132210 glcE Escherichia coli S88 glycolate oxidase FAD binding subunit YP_002392960.1 3316789 R 585035 CDS YP_002392961.1 218560048 7132209 complement(3317841..3319340) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96178972, 8606183; Product type e : enzyme; glycolate oxidase subunit GlcD 3319340 glcD 7132209 glcD Escherichia coli S88 glycolate oxidase subunit GlcD YP_002392961.1 3317841 R 585035 CDS YP_002392962.1 218560049 7132208 3319591..3320355 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96178972, 9880556, 8606183; Product type r : regulator; DNA-binding transcriptional regulator GlcC 3320355 glcC 7132208 glcC Escherichia coli S88 DNA-binding transcriptional regulator GlcC YP_002392962.1 3319591 D 585035 CDS YP_002392963.1 218560050 7132207 complement(3320362..3321504) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3321504 yghO 7132207 yghO Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392963.1 3320362 R 585035 CDS YP_002392964.1 218560051 7133383 3323386..3324510 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative epimerase 3324510 7133383 ECS88_3358 Escherichia coli S88 putative epimerase YP_002392964.1 3323386 D 585035 CDS YP_002392965.1 218560052 7133384 3324542..3324790 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3324790 7133384 ECS88_3359 Escherichia coli S88 hypothetical protein YP_002392965.1 3324542 D 585035 CDS YP_002392966.1 218560053 7133385 3324790..3325962 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative 8-amino-7-oxononanoate synthase 3325962 7133385 ECS88_3360 Escherichia coli S88 Putative 8-amino-7-oxononanoate synthase YP_002392966.1 3324790 D 585035 CDS YP_002392967.1 218560054 7133386 complement(3325997..3327157) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3327157 7133386 ECS88_3361 Escherichia coli S88 hypothetical protein YP_002392967.1 3325997 R 585035 CDS YP_002392968.1 218560055 7129353 complement(3327073..3328143) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3328143 7129353 ECS88_3362 Escherichia coli S88 hypothetical protein YP_002392968.1 3327073 R 585035 CDS YP_002392969.1 218560056 7133022 complement(3328174..3328734) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; Putative transcriptional regulator 3328734 7133022 ECS88_3363 Escherichia coli S88 Putative transcriptional regulator YP_002392969.1 3328174 R 585035 CDS YP_002392970.1 218560057 7132856 complement(3328734..3329570) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3329570 7132856 ECS88_3364 Escherichia coli S88 hypothetical protein YP_002392970.1 3328734 R 585035 CDS YP_002392971.1 218560058 7132857 complement(3329570..3330919) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative membrane protein, conserved protein 3330919 7132857 ECS88_3365 Escherichia coli S88 putative membrane protein, conserved protein YP_002392971.1 3329570 R 585035 CDS YP_002392972.1 218560059 7132858 complement(3330965..3331723) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain 3331723 yghR 7132858 yghR Escherichia coli S88 conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain YP_002392972.1 3330965 R 585035 CDS YP_002392973.1 218560060 7129584 complement(3331755..3332468) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain 3332468 yghS 7129584 yghS Escherichia coli S88 conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain YP_002392973.1 3331755 R 585035 CDS YP_002392974.1 218560061 7129585 3332643..3333335 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain 3333335 yghT 7129585 yghT Escherichia coli S88 conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain YP_002392974.1 3332643 D 585035 CDS YP_002392975.1 218560062 7129586 complement(3333384..3334883) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21336523, 21382172, 7775463; Product type t : transporter; phosphate transporter 3334883 pitB 7129586 pitB Escherichia coli S88 phosphate transporter YP_002392975.1 3333384 R 585035 CDS YP_002392976.1 218560063 7133737 complement(3335175..3337034) 1 NC_011742.1 catalyzes the formation of glutathionylspermidine from glutathione and spermidine; also catalyzes the reverse reaction; bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase 3337034 gss 7133737 gss Escherichia coli S88 bifunctional glutathionylspermidine amidase/glutathionylspermidine synthetase YP_002392976.1 3335175 R 585035 CDS YP_002392977.1 218560064 7128872 3337239..3338105 1 NC_011742.1 YghU; B2989; one of eight putative glutathione transferase proteins from E. coli; putative glutathione S-transferase YghU 3338105 yghU 7128872 yghU Escherichia coli S88 putative glutathione S-transferase YghU YP_002392977.1 3337239 D 585035 CDS YP_002392978.1 218560065 7129587 complement(3338238..3338486) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92215587, 94292472, 8021226; Product type pf : putative factor; hydrogenase 2 accessory protein HypG 3338486 hybG 7129587 hybG Escherichia coli S88 hydrogenase 2 accessory protein HypG YP_002392978.1 3338238 R 585035 CDS YP_002392979.1 218560066 7131418 complement(3338499..3338840) 1 NC_011742.1 plays a role in hydrogenase nickel cofactor insertion; hydrogenase nickel incorporation protein HybF 3338840 hybF 7131418 hybF Escherichia coli S88 hydrogenase nickel incorporation protein HybF YP_002392979.1 3338499 R 585035 CDS YP_002392980.1 218560067 7131417 complement(3338833..3339321) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94292472, 8021226; Product type f : factor; hydrogenase 2-specific chaperone 3339321 hybE 7131417 hybE Escherichia coli S88 hydrogenase 2-specific chaperone YP_002392980.1 3338833 R 585035 CDS YP_002392981.1 218560068 7131416 complement(3339314..3339808) 1 NC_011742.1 protease responsible for the cleavage of a 15 amino acid peptide from the C-terminal end of the large subunit of hydrogenase 2 (HybC); hydrogenase 2 maturation endopeptidase 3339808 hybD 7131416 hybD Escherichia coli S88 hydrogenase 2 maturation endopeptidase YP_002392981.1 3339314 R 585035 CDS YP_002392982.1 218560069 7131415 complement(3339808..3341511) 1 NC_011742.1 involved in hydrogen uptake; hydrogenase 2 large subunit 3341511 hybC 7131415 hybC Escherichia coli S88 hydrogenase 2 large subunit YP_002392982.1 3339808 R 585035 CDS YP_002392983.1 218560070 7131414 complement(3341508..3342686) 1 NC_011742.1 HybB; cytochrome b subunit of the hydrogenase 2 enzyme, composed of HybA, B, C, and O subunits; putative hydrogenase 2 b cytochrome subunit 3342686 hybB 7131414 hybB Escherichia coli S88 putative hydrogenase 2 b cytochrome subunit YP_002392983.1 3341508 R 585035 CDS YP_002392984.1 218560071 7131413 complement(3342676..3343662) 1 NC_011742.1 Fe-S ferrodoxin type component; participates in the periplasmic electron-transferring activity of hydrogenase 2; hydrogenase 2 protein HybA 3343662 hybA 7131413 hybA Escherichia coli S88 hydrogenase 2 protein HybA YP_002392984.1 3342676 R 585035 CDS YP_002392985.1 218560072 7131412 complement(3343665..3344783) 1 NC_011742.1 involved in hydrogen uptake; hydrogenase 2 small subunit 3344783 hybO 7131412 hybO Escherichia coli S88 hydrogenase 2 small subunit YP_002392985.1 3343665 R 585035 CDS YP_002392986.1 218560073 7132280 complement(3344790..3344975) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3344975 7132280 ECS88_3380 Escherichia coli S88 hypothetical protein YP_002392986.1 3344790 R 585035 CDS YP_002392987.1 218560074 7132859 complement(3344972..3345259) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3345259 yghW 7132859 yghW Escherichia coli S88 hypothetical protein YP_002392987.1 3344972 R 585035 CDS YP_002392988.1 218560075 7129588 complement(3345378..3346304) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; putative enzyme 3346304 7129588 ECS88_3382 Escherichia coli S88 putative enzyme YP_002392988.1 3345378 R 585035 CDS YP_002392989.1 218560076 7132860 3346422..3347462 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12583903; Product type e : enzyme; aldo-keto reductase 3347462 yghZ 7132860 yghZ Escherichia coli S88 aldo-keto reductase YP_002392989.1 3346422 D 585035 CDS YP_002392990.1 218560077 7129589 complement(3347502..3347996) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 3347996 yqhA 7129589 yqhA Escherichia coli S88 hypothetical protein YP_002392990.1 3347502 R 585035 CDS YP_002392991.1 218560078 7132095 3348187..3349071 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; oxidoreductase 3349071 yghA 7132095 yghA Escherichia coli S88 oxidoreductase YP_002392991.1 3348187 D 585035 CDS YP_002392992.1 218560079 7129575 complement(3349110..3349535) 1 NC_011742.1 membrane spanning protein in TonB-ExbB-ExbD complex; involved in the tonB-independent energy-dependent transport iron-siderophore complexes and vitamin B12 into the cell; biopolymer transport protein ExbD 3349535 exbD 7129575 exbD Escherichia coli S88 biopolymer transport protein ExbD YP_002392992.1 3349110 R 585035 CDS YP_002392993.1 218560080 7132437 complement(3349542..3350276) 1 NC_011742.1 membrane spanning protein in TonB-ExbB-ExbD complex; involved in the tonB-independent energy-dependent transport iron-siderophore complexes and vitamin B12 into the cell; biopolymer transport protein ExbB 3350276 exbB 7132437 exbB Escherichia coli S88 biopolymer transport protein ExbB YP_002392993.1 3349542 R 585035 CDS YP_002392994.1 218560081 7132436 3350528..3351715 1 NC_011742.1 catalyzes the formation of L-homocysteine from cystathionine; cystathionine beta-lyase 3351715 metC 7132436 metC Escherichia coli S88 cystathionine beta-lyase YP_002392994.1 3350528 D 585035 CDS YP_002392995.1 218560082 7128812 3351855..3352514 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3352514 yghB 7128812 yghB Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002392995.1 3351855 D 585035 CDS YP_002392996.1 218560083 7129576 complement(3352554..3353510) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3353510 yqhC 7129576 yqhC Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002392996.1 3352554 R 585035 CDS YP_002392997.1 218560084 7132096 3353647..3354810 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15327949; Product type e : enzyme; alcohol dehydrogenase, NAD(P)-dependent 3354810 yqhD 7132096 yqhD Escherichia coli S88 alcohol dehydrogenase, NAD(P)-dependent YP_002392997.1 3353647 D 585035 CDS YP_002392998.1 218560085 7132097 3354915..3355742 1 NC_011742.1 methylglyoxal reductase/#-keto ester reductase; catalyzes the reduction of 2,5-diketo-D-gluconic acid to 2-keto-L-gulonic acid; also catalyzes the reduction of methylglyoxal, ethyl-2-methylacetoacetate and ethyl-acetoacetate; 2,5-diketo-D-gluconate reductase A 3355742 dkgA 7132097 dkgA Escherichia coli S88 2,5-diketo-D-gluconate reductase A YP_002392998.1 3354915 D 585035 CDS YP_002392999.1 218560086 7130212 3355942..3356868 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3356868 yqhG 7130212 yqhG Escherichia coli S88 hypothetical protein YP_002392999.1 3355942 D 585035 CDS YP_002393000.1 218560087 7132098 3356919..3357176 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; putative outer membrane lipoprotein 3357176 yqhH 7132098 yqhH Escherichia coli S88 putative outer membrane lipoprotein YP_002393000.1 3356919 D 585035 CDS YP_002393001.1 218560088 7132099 complement(3357218..3359437) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3359437 ygiQ 7132099 ygiQ Escherichia coli S88 hypothetical protein YP_002393001.1 3357218 R 585035 CDS YP_002393002.1 218560089 7132224 3359689..3360438 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative regulator 3360438 7132224 ECS88_3397 Escherichia coli S88 putative regulator YP_002393002.1 3359689 D 585035 CDS YP_002393003.1 218560090 7132861 3360725..3362233 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative Fructuronate reductase 3362233 7132861 ECS88_3398 Escherichia coli S88 putative Fructuronate reductase YP_002393003.1 3360725 D 585035 CDS YP_002393004.1 218560091 7132862 3362230..3363246 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative L-threonine 3-dehydrogenase 3363246 7132862 ECS88_3399 Escherichia coli S88 putative L-threonine 3-dehydrogenase YP_002393004.1 3362230 D 585035 CDS YP_002393005.1 218560092 7132863 3363257..3364267 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme; Ureidoglycolate dehydrogenase 3364267 7132863 ECS88_3400 Escherichia coli S88 Ureidoglycolate dehydrogenase YP_002393005.1 3363257 D 585035 CDS YP_002393006.1 218560093 7132864 3364340..3365323 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative c4-dicarboxylate transport system binding protein; putative secreted protein 3365323 7132864 ECS88_3401 Escherichia coli S88 putative c4-dicarboxylate transport system binding protein; putative secreted protein YP_002393006.1 3364340 D 585035 CDS YP_002393007.1 218560094 7132865 3365365..3365847 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative membrane protein; putative TRAP-type C4-dicarboxylate transport system, small permease component 3365847 7132865 ECS88_3402 Escherichia coli S88 putative membrane protein; putative TRAP-type C4-dicarboxylate transport system, small permease component YP_002393007.1 3365365 D 585035 CDS YP_002393008.1 218560095 7132866 3365816..3367162 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type t : transporter; c4-dicarboxylate permease 3367162 ygiK 7132866 ygiK Escherichia coli S88 c4-dicarboxylate permease YP_002393008.1 3365816 D 585035 CDS YP_002393009.1 218560096 7129594 complement(3367233..3368645) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88314889, 1557036, 9298646; Product type r : regulator; repressor protein for FtsI 3368645 sufI 7129594 sufI Escherichia coli S88 repressor protein for FtsI YP_002393009.1 3367233 R 585035 CDS YP_002393010.1 218560097 7131246 complement(3368720..3369457) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92212294, 1557036; Product type e : enzyme; 1-acyl-sn-glycerol-3-phosphate acyltransferase 3369457 plsC 7131246 plsC Escherichia coli S88 1-acyl-sn-glycerol-3-phosphate acyltransferase YP_002393010.1 3368720 R 585035 CDS YP_002393011.1 218560098 7133741 complement(3369692..3371950) 1 NC_011742.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit A 3371950 parC 7133741 parC Escherichia coli S88 DNA topoisomerase IV subunit A YP_002393011.1 3369692 R 585035 CDS YP_002393012.1 218560099 7133173 complement(3372088..3373695) 1 NC_011742.1 YgiS; uncharacterized periplasmic protein that seems to be part of a binding-protein-dependent transport system; putative binding protein 3373695 ygiS 7133173 ygiS Escherichia coli S88 putative binding protein YP_002393012.1 3372088 R 585035 CDS YP_002393013.1 218560100 7132225 complement(3373804..3374286) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 3374286 ygiV 7132225 ygiV Escherichia coli S88 putative transcriptional regulator YP_002393013.1 3373804 R 585035 CDS YP_002393014.1 218560101 7132226 complement(3374339..3374731) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 9298646; hypothetical protein 3374731 ygiW 7132226 ygiW Escherichia coli S88 hypothetical protein YP_002393014.1 3374339 R 585035 CDS YP_002393015.1 218560102 7132227 3374883..3375542 1 NC_011742.1 response regulator in two-component regulatory system with QseC; regulates FlhCD which is the master regulator for flagella and motility genes; DNA-binding transcriptional regulator QseB 3375542 qseB 7132227 qseB Escherichia coli S88 DNA-binding transcriptional regulator QseB YP_002393015.1 3374883 D 585035 CDS YP_002393016.1 218560103 7131773 3375539..3376888 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21927389; Product type r : regulator; sensor protein QseC 3376888 qseC 7131773 qseC Escherichia coli S88 sensor protein QseC YP_002393016.1 3375539 D 585035 CDS YP_002393017.1 218560104 7131774 complement(3376934..3377266) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3377266 ygiZ 7131774 ygiZ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393017.1 3376934 R 585035 CDS YP_002393018.1 218560105 7132228 complement(3377273..3378010) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3378010 7132228 ECS88_3414 Escherichia coli S88 hypothetical protein YP_002393018.1 3377273 R 585035 CDS YP_002393019.1 218560106 7132867 complement(3377986..3378465) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3378465 7132867 ECS88_3415 Escherichia coli S88 hypothetical protein YP_002393019.1 3377986 R 585035 CDS YP_002393020.1 218560107 7132868 3378715..3379296 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96004656, 96217538; Product type c : carrier; NADPH quinone reductase 3379296 mdaB 7132868 mdaB Escherichia coli S88 NADPH quinone reductase YP_002393020.1 3378715 D 585035 CDS YP_002393021.1 218560108 7129430 3379327..3379641 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10493123, 9298646, 9600841, 9868784; Product type e : enzyme; quinol monooxygenase 3379641 ygiN 7129430 ygiN Escherichia coli S88 quinol monooxygenase YP_002393021.1 3379327 D 585035 CDS YP_002393022.1 218560109 7129596 complement(3379686..3380573) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative bifunctional protein: transcriptional regulator and sugar phosphate isomerase 3380573 7129596 ECS88_3418 Escherichia coli S88 putative bifunctional protein: transcriptional regulator and sugar phosphate isomerase YP_002393022.1 3379686 R 585035 CDS YP_002393023.1 218560110 7132869 complement(3380570..3381580) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative iron compound-binding protein of ABC transporter family 3381580 7132869 ECS88_3419 Escherichia coli S88 putative iron compound-binding protein of ABC transporter family YP_002393023.1 3380570 R 585035 CDS YP_002393024.1 218560111 7132870 complement(3381528..3382577) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative iron compound permease protein of ABC transporter family 3382577 7132870 ECS88_3420 Escherichia coli S88 putative iron compound permease protein of ABC transporter family YP_002393024.1 3381528 R 585035 CDS YP_002393025.1 218560112 7132871 complement(3382574..3383557) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative iron compound permease protein of ABC transporter family 3383557 7132871 ECS88_3421 Escherichia coli S88 putative iron compound permease protein of ABC transporter family YP_002393025.1 3382574 R 585035 CDS YP_002393026.1 218560113 7132872 complement(3383554..3384363) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type t : transporter; ferric enterobactin transport ATP-binding protein (fepC-like) 3384363 7132872 ECS88_3422 Escherichia coli S88 ferric enterobactin transport ATP-binding protein (fepC-like) YP_002393026.1 3383554 R 585035 CDS YP_002393027.1 218560114 7132873 3384737..3386878 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type prc : putative receptor; putative iron compound receptor 3386878 7132873 ECS88_3423 Escherichia coli S88 putative iron compound receptor YP_002393027.1 3384737 D 585035 CDS YP_002393028.1 218560115 7132874 complement(3386942..3388834) 1 NC_011742.1 decatenates newly replicated chromosomal DNA and relaxes positive and negative DNA supercoiling; DNA topoisomerase IV subunit B 3388834 parE 7132874 parE Escherichia coli S88 DNA topoisomerase IV subunit B YP_002393028.1 3386942 R 585035 CDS YP_002393029.1 218560116 7133174 complement(3388863..3389444) 1 NC_011742.1 Displays esterase activity toward palmitoyl-CoA and pNP-butyrate; esterase YqiA 3389444 yqiA 7133174 yqiA Escherichia coli S88 esterase YqiA YP_002393029.1 3388863 R 585035 CDS YP_002393030.1 218560117 7132100 complement(3389444..3390271) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96411758; Product type e : enzyme; cyclic 3',5'-adenosine monophosphate phosphodiesterase 3390271 cpdA 7132100 cpdA Escherichia coli S88 cyclic 3',5'-adenosine monophosphate phosphodiesterase YP_002393030.1 3389444 R 585035 CDS YP_002393031.1 218560118 7131951 complement(3390296..3390718) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 3390718 yqiB 7131951 yqiB Escherichia coli S88 hypothetical protein YP_002393031.1 3390296 R 585035 CDS YP_002393032.1 218560119 7132101 complement(3390719..3391348) 1 NC_011742.1 ADP-sugar pyrophosphatase; catalyzes the formation of D-ribose 5-phosphate from ADP-ribose; can also act on ADP-mannose and ADP-glucose; ADP-ribose pyrophosphatase NudF 3391348 nudF 7132101 nudF Escherichia coli S88 ADP-ribose pyrophosphatase NudF YP_002393032.1 3390719 R 585035 CDS YP_002393033.1 218560120 7129754 3391553..3393034 1 NC_011742.1 trimeric outer membrane protein involved in efflux of hydrophobic/amphipathic molecules; functions with a number of efflux systems in the inner membrane to transport molecules out of the cell; outer membrane channel protein 3393034 tolC 7129754 tolC Escherichia coli S88 outer membrane channel protein YP_002393033.1 3391553 D 585035 CDS YP_002393034.1 218560121 7133486 3393278..3393853 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 3393853 ygiB 7133486 ygiB Escherichia coli S88 hypothetical protein YP_002393034.1 3393278 D 585035 CDS YP_002393035.1 218560122 7129590 3393859..3395019 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative enzyme 3395019 ygiC 7129590 ygiC Escherichia coli S88 putative enzyme YP_002393035.1 3393859 D 585035 CDS YP_002393036.1 218560123 7129591 3395504..3397300 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 8887346, 11534764; Product type e : enzyme; arylsulfate sulfotransferase 3397300 assT 7129591 assT Escherichia coli S88 arylsulfate sulfotransferase YP_002393036.1 3395504 D 585035 CDS YP_002393037.1 218560124 7129954 3397318..3397986 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 8887346, 10600454; Product type e : enzyme; Thiol:disulfide interchange protein dsbA precursor 3397986 dsbA 7129954 dsbA Escherichia coli S88 Thiol:disulfide interchange protein dsbA precursor YP_002393037.1 3397318 D 585035 CDS YP_002393038.1 218560125 7130238 3398001..3398672 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10600454; Product type pe : putative enzyme; putative disulfide oxidoreductase 3398672 7130238 ECS88_3434 Escherichia coli S88 putative disulfide oxidoreductase YP_002393038.1 3398001 D 585035 CDS YP_002393039.1 218560126 7132875 complement(3398718..3399533) 1 NC_011742.1 seems to be involved in biofilm formation; in asymptomatic bacteriuria E. coli strains 83972 and VR50, the ygiD gene is upregulated during biofilm formation in urine; hypothetical protein 3399533 zupT 7132875 zupT Escherichia coli S88 hypothetical protein YP_002393039.1 3398718 R 585035 CDS YP_002393040.1 218560127 7131894 3399649..3400422 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11790762, 1314093; Product type t : transporter; zinc transporter ZupT 3400422 ygiE 7131894 ygiE Escherichia coli S88 zinc transporter ZupT YP_002393040.1 3399649 D 585035 CDS YP_002393041.1 218560128 7129592 complement(3400484..3400669) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3400669 7129592 ECS88_3438 Escherichia coli S88 hypothetical protein YP_002393041.1 3400484 R 585035 CDS YP_002393042.1 218560129 7132876 3401225..3401788 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial protein 3401788 ygiL 7132876 ygiL Escherichia coli S88 putative fimbrial protein YP_002393042.1 3401225 D 585035 CDS YP_002393043.1 218560130 7129595 3401875..3404397 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative outer membrane usher protein 3404397 yqiG 7129595 yqiG Escherichia coli S88 putative outer membrane usher protein YP_002393043.1 3401875 D 585035 CDS YP_002393044.1 218560131 7132103 3404404..3405153 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative periplasmic pilin chaperone 3405153 yqiH 7132103 yqiH Escherichia coli S88 putative periplasmic pilin chaperone YP_002393044.1 3404404 D 585035 CDS YP_002393045.1 218560132 7132104 3405150..3406199 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial adhesin 3406199 yqiI 7132104 yqiI Escherichia coli S88 putative fimbrial adhesin YP_002393045.1 3405150 D 585035 CDS YP_002393046.1 218560133 7132105 complement(3406253..3406906) 1 NC_011742.1 DHBP synthase; functions during riboflavin biosynthesis; 3,4-dihydroxy-2-butanone 4-phosphate synthase 3406906 ribB 7132105 ribB Escherichia coli S88 3,4-dihydroxy-2-butanone 4-phosphate synthase YP_002393046.1 3406253 R 585035 CDS YP_002393047.1 218560134 7129861 3407220..3407579 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3407579 yqiC 7129861 yqiC Escherichia coli S88 hypothetical protein YP_002393047.1 3407220 D 585035 CDS YP_002393048.1 218560135 7132102 complement(3407614..3407814) 1 NC_011742.1 Involved in glycogen synthesis. May be involved in glycogen priming; glycogen synthesis protein GlgS 3407814 glgS 7132102 glgS Escherichia coli S88 glycogen synthesis protein GlgS YP_002393048.1 3407614 R 585035 CDS YP_002393049.1 218560136 7132217 3408084..3408713 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3408713 yqiJ 7132217 yqiJ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393049.1 3408084 D 585035 CDS YP_002393050.1 218560137 7132106 3408740..3410401 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3410401 yqiK 7132106 yqiK Escherichia coli S88 hypothetical protein YP_002393050.1 3408740 D 585035 CDS YP_002393051.1 218560138 7131347 complement(3410820..3412253) 1 NC_011742.1 catalyzes the phosphorylation of D-glycero-D-manno-heptose 7-phosphate to form D,D-heptose-1,7-bisphosphate and catalyzes transfer of ADP to D-glycero-D-manno-heptose 1-phosphate forming ADP-D,D-heptose; bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase 3412253 rfaE 7131347 rfaE Escherichia coli S88 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase YP_002393051.1 3410820 R 585035 CDS YP_002393052.1 218560139 7131818 complement(3412301..3415141) 1 NC_011742.1 catalyzes the ATP-dependent addition of AMP to a subunit of glutamine synthetase; also catalyzes the reverse reaction - deadenylation; adenylation/deadenylation of glutamine synthetase subunits is important for the regulation of this enzyme; bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase 3415141 glnE 7131818 glnE Escherichia coli S88 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase YP_002393052.1 3412301 R 585035 CDS YP_002393053.1 218560140 7130007 complement(3415164..3416465) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8412694; Product type pe : putative enzyme; putative adenylate cyclase 3416465 ygiF 7130007 ygiF Escherichia coli S88 putative adenylate cyclase YP_002393053.1 3415164 R 585035 CDS YP_002393054.1 218560141 7129593 complement(3416482..3416688) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3416688 7129593 ECS88_3452 Escherichia coli S88 hypothetical protein YP_002393054.1 3416482 R 585035 CDS YP_002393055.1 218560142 7132877 3416707..3417327 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11274153; Product type pr : putative regulator; putative signal transduction protein 3417327 htrG 7132877 htrG Escherichia coli S88 putative signal transduction protein YP_002393055.1 3416707 D 585035 CDS YP_002393056.1 218560143 7131403 3417391..3418629 1 NC_011742.1 catalyzes the addition and repair of the essential 3'-terminal CCA sequence in tRNAs without using a nucleic acid template; phosphohydrolase activities include hydrolysis of pyrophosphate, 5'-nucleoside tri- and diphosphates, NADP, and 2'-AMP with the production of Pi, metal-dependent phosphodiesterase activity for 2',3'-cAMP, 2',3'-cGMP, and 2',3'-cCMP, and hydrolysis 2',3'-cyclic substrates with the formation of 2'-nucleotides and 3'-nucleotides; these phosphohydrolase activities are probably involved in the repair of the tRNA 3'-CCA terminus degraded by intracellular RNases; multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase 3418629 cca 7131403 cca Escherichia coli S88 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase YP_002393056.1 3417391 D 585035 CDS YP_002393057.1 218560144 7129165 complement(3418817..3419638) 1 NC_011742.1 BacA; phosphatase activity in Escherichia coli not kinase; involved in bacitracin resistance as bacitracin supposedly sequesters undecaprenyl disphosphate which reduces the pool of lipid carrier available to the cell; undecaprenyl pyrophosphate phosphatase 3419638 bacA 7129165 bacA Escherichia coli S88 undecaprenyl pyrophosphate phosphatase YP_002393057.1 3418817 R 585035 CDS YP_002393058.1 218560145 7129984 complement(3419729..3420097) 1 NC_011742.1 catalyzes the conversion of 7,8-dihydroneopterin to 6-hydroxymethyl-7,8-dihydropterin and can also catalyze the epimerization of carbon 2' of dihydroneopterin and dihydromonapterin; bifunctional dihydroneopterin aldolase/dihydroneopterin triphosphate 2'-epimerase 3420097 folB 7129984 folB Escherichia coli S88 bifunctional dihydroneopterin aldolase/dihydroneopterin triphosphate 2'-epimerase YP_002393058.1 3419729 R 585035 CDS YP_002393059.1 218560146 7132814 3420202..3420819 1 NC_011742.1 involved in acylation of glycerol-3-phosphate to form 1-acyl-glycerol-3 phosphate for use in phospholipid biosynthesis; functions with PlsX; putative glycerol-3-phosphate acyltransferase PlsY 3420819 plsY 7132814 plsY Escherichia coli S88 putative glycerol-3-phosphate acyltransferase PlsY YP_002393059.1 3420202 D 585035 CDS YP_002393060.1 218560147 7133743 complement(3420832..3421764) 1 NC_011742.1 activates expression of genes required for L-tartrate-dependent anaerobic growth on glycerol; transcriptional activator TtdR 3421764 ygiP 7133743 ygiP Escherichia coli S88 transcriptional activator TtdR YP_002393060.1 3420832 R 585035 CDS YP_002393061.1 218560148 7132223 3421971..3422882 1 NC_011742.1 Involved in the tartrate degradation pathway; tartrate dehydratase subunit alpha 3422882 ttdA 7132223 ttdA Escherichia coli S88 tartrate dehydratase subunit alpha YP_002393061.1 3421971 D 585035 CDS YP_002393062.1 218560149 7130363 3422879..3423484 1 NC_011742.1 Involved in the tartrate degradation pathway; L(+)-tartrate dehydratase subunit beta 3423484 ttdB 7130363 ttdB Escherichia coli S88 L(+)-tartrate dehydratase subunit beta YP_002393062.1 3422879 D 585035 CDS YP_002393063.1 218560150 7130364 3423532..3424995 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative tartrate:succinate antiporter 3424995 ygjE 7130364 ygjE Escherichia coli S88 putative tartrate:succinate antiporter YP_002393063.1 3423532 D 585035 CDS YP_002393064.1 218560151 7132229 complement(3425038..3426051) 1 NC_011742.1 in most organisms, only the N-terminal domain is present in a single polypeptide; in some archaea this domain is fused to a kinase domain; this gene is essential for growth in Escherichia coli and Bacillus subtilis; the secreted glycoprotease from Pasteurella haemolytica showed specificity for O-sialoglycosylated proteins; the Pyrococcus structure shows DNA-binding properties, iron-binding, ATP-binding, and AP endonuclease activity; putative DNA-binding/iron metalloprotein/AP endonuclease 3426051 gcp 7132229 gcp Escherichia coli S88 putative DNA-binding/iron metalloprotein/AP endonuclease YP_002393064.1 3425038 R 585035 CDS YP_002393065.1 218560152 7132195 3426289..3426504 1 NC_011742.1 a small basic protein that is one of the last in the subunit assembly; omission does not prevent assembly but the subunit is inactive; binds central domain of 16S rRNA; 30S ribosomal protein S21 3426504 rpsU 7132195 rpsU Escherichia coli S88 30S ribosomal protein S21 YP_002393065.1 3426289 D 585035 CDS YP_002393066.1 218560153 7133804 3426615..3428360 1 NC_011742.1 synthesizes RNA primers at the replication forks; DNA primase 3428360 dnaG 7133804 dnaG Escherichia coli S88 DNA primase YP_002393066.1 3426615 D 585035 CDS YP_002393067.1 218560154 7130224 3428555..3430396 1 NC_011742.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; this is the primary sigma factor of bacteria; RNA polymerase sigma factor RpoD 3430396 rpoD 7130224 rpoD Escherichia coli S88 RNA polymerase sigma factor RpoD YP_002393067.1 3428555 D 585035 CDS YP_002393068.1 218560155 7133777 complement(3430475..3430981) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20412902, 99453007, 6269063, 7567469, 8878487, 9489705; Product type e : enzyme; G/U mismatch-specific DNA glycosylase 3430981 ygjF 7133777 ygjF Escherichia coli S88 G/U mismatch-specific DNA glycosylase YP_002393068.1 3430475 R 585035 CDS YP_002393069.1 218560156 7129894 complement(3431235..3431999) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative siderophore interacting protein 3431999 yqjH 7129894 yqjH Escherichia coli S88 putative siderophore interacting protein YP_002393069.1 3431235 R 585035 CDS YP_002393070.1 218560157 7132115 3432276..3432899 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 3432899 yqjI 7132115 yqjI Escherichia coli S88 putative transcriptional regulator YP_002393070.1 3432276 D 585035 CDS YP_002393071.1 218560158 7132116 complement(3433053..3434573) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20015410, 9380671, 9643537, 9190831; Product type r : regulator; fused signal transducer for aerotaxis sensory component ; methyl accepting chemotaxis component 3434573 aer 7132116 aer Escherichia coli S88 fused signal transducer for aerotaxis sensory component ; methyl accepting chemotaxis component YP_002393071.1 3433053 R 585035 CDS YP_002393072.1 218560159 7133024 3434964..3436370 1 NC_011742.1 catalyzes the formation of 4-aminobutyraldehyde from putrescine and 2-oxoglutarate; putrescine--2-oxoglutarate aminotransferase 3436370 ygjG 7133024 ygjG Escherichia coli S88 putrescine--2-oxoglutarate aminotransferase YP_002393072.1 3434964 D 585035 CDS YP_002393073.1 218560160 7132231 complement(3436412..3436744) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 11101501; hypothetical protein 3436744 ygjH 7132231 ygjH Escherichia coli S88 hypothetical protein YP_002393073.1 3436412 R 585035 CDS YP_002393074.1 218560161 7132232 3436963..3437946 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89128452, 2515108, 3939708; Product type r : regulator; DNA-binding transcriptional repressor EbgR 3437946 ebgR 7132232 ebgR Escherichia coli S88 DNA-binding transcriptional repressor EbgR YP_002393074.1 3436963 D 585035 CDS YP_002393075.1 218560162 7132374 3438130..3441222 1 NC_011742.1 in Escherichia coli this is the second beta-galactosidase system; cryptic beta-D-galactosidase subunit alpha 3441222 ebgA 7132374 ebgA Escherichia coli S88 cryptic beta-D-galactosidase subunit alpha YP_002393075.1 3438130 D 585035 CDS YP_002393076.1 218560163 7132372 3441219..3441668 1 NC_011742.1 in Escherichia coli this is the second beta-galactosidase system; cryptic beta-D-galactosidase subunit beta 3441668 ebgC 7132372 ebgC Escherichia coli S88 cryptic beta-D-galactosidase subunit beta YP_002393076.1 3441219 D 585035 CDS YP_002393077.1 218560164 7132373 3441731..3443164 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 3443164 ygjI 7132373 ygjI Escherichia coli S88 putative transporter YP_002393077.1 3441731 D 585035 CDS YP_002393078.1 218560165 7132233 3443298..3444368 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3444368 ygjJ 7132233 ygjJ Escherichia coli S88 hypothetical protein YP_002393078.1 3443298 D 585035 CDS YP_002393079.1 218560166 7132234 3444385..3446736 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15213393; Product type pe : putative enzyme; putative glycosyl hydrolase 3446736 ygjK 7132234 ygjK Escherichia coli S88 putative glycosyl hydrolase YP_002393079.1 3444385 D 585035 CDS YP_002393080.1 218560167 7132235 3446907..3448925 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12840019, 89380266; Product type e : enzyme; 2,4-dienoyl-CoA reductase, NADH and FMN-linked 3448925 fadH 7132235 fadH Escherichia coli S88 2,4-dienoyl-CoA reductase, NADH and FMN-linked YP_002393080.1 3446907 D 585035 CDS YP_002393081.1 218560168 7129444 complement(3449043..3450179) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative methyltransferase small domain 3450179 ygjO 7129444 ygjO Escherichia coli S88 putative methyltransferase small domain YP_002393081.1 3449043 R 585035 CDS YP_002393082.1 218560169 7132236 3450264..3450767 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative metal dependent hydrolase 3450767 ygjP 7132236 ygjP Escherichia coli S88 putative metal dependent hydrolase YP_002393082.1 3450264 D 585035 CDS YP_002393083.1 218560170 7132237 3450844..3451536 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative thioredoxin-like 3451536 ygjQ 7132237 ygjQ Escherichia coli S88 putative thioredoxin-like YP_002393083.1 3450844 D 585035 CDS YP_002393084.1 218560171 7132238 3451597..3452601 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative NAD(P)-binding dehydrogenase 3452601 ygjR 7132238 ygjR Escherichia coli S88 putative NAD(P)-binding dehydrogenase YP_002393084.1 3451597 D 585035 CDS YP_002393085.1 218560172 7130639 3452884..3453849 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 12107143, 2108134; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein, part of terminus 3453849 alx 7130639 alx Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein, part of terminus YP_002393085.1 3452884 D 585035 CDS YP_002393086.1 218560173 7133056 3454173..3455417 1 NC_011742.1 involved in the import of serine and threonine coupled with the import of sodium; serine/threonine transporter SstT 3455417 sstT 7133056 sstT Escherichia coli S88 serine/threonine transporter SstT YP_002393086.1 3454173 D 585035 CDS YP_002393087.1 218560174 7130656 complement(3455421..3455972) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3455972 ygjV 7130656 ygjV Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393087.1 3455421 R 585035 CDS YP_002393088.1 218560175 7132240 complement(3456055..3457542) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 4570160, 83114543, 3038546; Product type e : enzyme; altronate hydrolase 3457542 uxaA 7132240 uxaA Escherichia coli S88 altronate hydrolase YP_002393088.1 3456055 R 585035 CDS YP_002393089.1 218560176 7132463 complement(3457557..3458969) 1 NC_011742.1 catalyzes the interconversion of D-glucuronate to D-fructuronate or D-galacturonate to D-tagaturonate; functions in glucuronic and galacturonic metabolism; glucuronate isomerase 3458969 uxaC 7132463 uxaC Escherichia coli S88 glucuronate isomerase YP_002393089.1 3457557 R 585035 CDS YP_002393090.1 218560177 7132465 3459332..3460750 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 83218546, 98190790; Product type t : transporter; hexuronate transporter 3460750 exuT 7132465 exuT Escherichia coli S88 hexuronate transporter YP_002393090.1 3459332 D 585035 CDS YP_002393091.1 218560178 7132441 3460880..3461656 1 NC_011742.1 regulates the exuT, uxaCA and uxuRAB operons which encode genes involved in hexuronate utilization.; DNA-binding transcriptional repressor ExuR 3461656 exuR 7132441 exuR Escherichia coli S88 DNA-binding transcriptional repressor ExuR YP_002393091.1 3460880 D 585035 CDS YP_002393092.1 218560179 7132440 3462001..3462663 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3462663 yqjA 7132440 yqjA Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393092.1 3462001 D 585035 CDS YP_002393093.1 218560180 7132108 3462667..3463050 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11274153; hypothetical protein 3463050 yqjB 7132108 yqjB Escherichia coli S88 hypothetical protein YP_002393093.1 3462667 D 585035 CDS YP_002393094.1 218560181 7132109 3463197..3463565 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3463565 yqjC 7132109 yqjC Escherichia coli S88 hypothetical protein YP_002393094.1 3463197 D 585035 CDS YP_002393095.1 218560182 7132110 3463603..3463908 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3463908 yqjD 7132110 yqjD Escherichia coli S88 hypothetical protein YP_002393095.1 3463603 D 585035 CDS YP_002393096.1 218560183 7132111 3463911..3464315 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3464315 yqjE 7132111 yqjE Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393096.1 3463911 D 585035 CDS YP_002393097.1 218560184 7132112 3464305..3464604 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3464604 yqjK 7132112 yqjK Escherichia coli S88 hypothetical protein YP_002393097.1 3464305 D 585035 CDS YP_002393098.1 218560185 7132117 3464791..3465183 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative quinol oxidase subunit 3465183 yqjF 7132117 yqjF Escherichia coli S88 putative quinol oxidase subunit YP_002393098.1 3464791 D 585035 CDS YP_002393099.1 218560186 7132113 3465253..3466239 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8478329; Product type e : enzyme; S-transferase 3466239 yqjG 7132113 yqjG Escherichia coli S88 S-transferase YP_002393099.1 3465253 D 585035 CDS YP_002393100.1 218560187 7132114 3466522..3466890 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3466890 yhaH 7132114 yhaH Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393100.1 3466522 D 585035 CDS YP_002393101.1 218560188 7132241 complement(3466924..3467820) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3467820 yhaJ 7132241 yhaJ Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393101.1 3466924 R 585035 CDS YP_002393102.1 218560189 7132242 3467925..3468626 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative pirin-related protein 3468626 yhaK 7132242 yhaK Escherichia coli S88 putative pirin-related protein YP_002393102.1 3467925 D 585035 CDS YP_002393103.1 218560190 7132243 3468649..3468813 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3468813 yhaL 7132243 yhaL Escherichia coli S88 hypothetical protein YP_002393103.1 3468649 D 585035 CDS YP_002393104.1 218560191 7132244 complement(3468945..3470255) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3470255 yhaM 7132244 yhaM Escherichia coli S88 hypothetical protein YP_002393104.1 3468945 R 585035 CDS YP_002393105.1 218560192 7132245 complement(3470283..3471551) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 3471551 yhaO 7132245 yhaO Escherichia coli S88 putative transporter YP_002393105.1 3470283 R 585035 CDS YP_002393106.1 218560193 7132246 complement(3471889..3473253) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 98143432, 9484901; Product type e : enzyme; L-serine dehydratase 3 3473253 tdcG 7132246 tdcG Escherichia coli S88 L-serine dehydratase 3 YP_002393106.1 3471889 R 585035 CDS YP_002393107.1 218560194 7131278 complement(3473325..3473714) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12777779, 9484901; Product type e : enzyme; hypothetical protein 3473714 tdcF 7131278 tdcF Escherichia coli S88 hypothetical protein YP_002393107.1 3473325 R 585035 CDS YP_002393108.1 218560195 7131277 complement(3473728..3476022) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 98143432, 9484901; Product type e : enzyme; pyruvate formate-lyase 4/2-ketobutyrate formate-lyase 3476022 tdcE 7131277 tdcE Escherichia coli S88 pyruvate formate-lyase 4/2-ketobutyrate formate-lyase YP_002393108.1 3473728 R 585035 CDS YP_002393109.1 218560196 7131276 complement(3476056..3477276) 1 NC_011742.1 catalyzes the formation of propanoyl phosphate from propanoate and ATP; TdcD also has acetate kinase activities and functions in anaerobic threonine catabolism; propionate/acetate kinase 3477276 tdcD 7131276 tdcD Escherichia coli S88 propionate/acetate kinase YP_002393109.1 3476056 R 585035 CDS YP_002393110.1 218560197 7131275 complement(3477290..3478621) 1 NC_011742.1 involved in the import of threonine and serine in combination with the import of a proton; threonine/serine transporter TdcC 3478621 tdcC 7131275 tdcC Escherichia coli S88 threonine/serine transporter TdcC YP_002393110.1 3477290 R 585035 CDS YP_002393111.1 218560198 7131274 complement(3478643..3479632) 1 NC_011742.1 catalyzes the formation of 2-oxobutanoate from L-threonine; catabolic; threonine dehydratase 3479632 tdcB 7131274 tdcB Escherichia coli S88 threonine dehydratase YP_002393111.1 3478643 R 585035 CDS YP_002393112.1 218560199 7131273 complement(3479725..3480663) 1 NC_011742.1 regulates the tdcABCDEFG operon which is involved in amino acid degradation; DNA-binding transcriptional activator TdcA 3480663 tdcA 7131273 tdcA Escherichia coli S88 DNA-binding transcriptional activator TdcA YP_002393112.1 3479725 R 585035 CDS YP_002393113.1 218560200 7132752 complement(3482171..3483397) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20225875, 69151449, 9772162; Product type e : enzyme; glycerate kinase I 3483397 garK 7132752 garK Escherichia coli S88 glycerate kinase I YP_002393113.1 3482171 R 585035 CDS YP_002393114.1 218560201 7132182 complement(3483413..3484303) 1 NC_011742.1 catalyzes the reduction of tartronate semialdehyde to glycerate; tartronate semialdehyde reductase 3484303 garR 7132182 garR Escherichia coli S88 tartronate semialdehyde reductase YP_002393114.1 3483413 R 585035 CDS YP_002393115.1 218560202 7132185 complement(3484333..3485103) 1 NC_011742.1 cleaves 5-dehydro-4-deoxy-glucarate and 2-dehydro-3-deoxy-D-glucarate; alpha-dehydro-beta-deoxy-D-glucarate aldolase 3485103 garL 7132185 garL Escherichia coli S88 alpha-dehydro-beta-deoxy-D-glucarate aldolase YP_002393115.1 3484333 R 585035 CDS YP_002393116.1 218560203 7132183 complement(3485119..3486453) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10762278, 9772162; Product type pt : putative transporter; putative (D)-galactarate transporter 3486453 garP 7132183 garP Escherichia coli S88 putative (D)-galactarate transporter YP_002393116.1 3485119 R 585035 CDS YP_002393117.1 218560204 7132184 3486828..3488399 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20225875, 66096392, 81027430, 9772162, 10762278, 2407727; Product type e : enzyme; (D)-galactarate dehydrogenase 3488399 garD 7132184 garD Escherichia coli S88 (D)-galactarate dehydrogenase YP_002393117.1 3486828 D 585035 CDS YP_002393118.1 218560205 7132181 complement(3488451..3489275) 1 NC_011742.1 transcriptional repressor for the agaZVWA and agaSYBCDI operons; DNA-binding transcriptional regulator AgaR 3489275 agaR 7132181 agaR Escherichia coli S88 DNA-binding transcriptional regulator AgaR YP_002393118.1 3488451 R 585035 CDS YP_002393119.1 218560206 7133031 3489524..3490804 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11976750, 20392444, 10931310, 8932697; Product type e : enzyme; tagatose 6-phosphate aldolase 1, kbaZ subunit 3490804 kbaZ 7133031 kbaZ Escherichia coli S88 tagatose 6-phosphate aldolase 1, kbaZ subunit YP_002393119.1 3489524 D 585035 CDS YP_002393120.1 218560207 7130434 3490827..3491300 1 NC_011742.1 catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake;involved in N-acetylgalactosamine transport; PTS system N-acetylgalactosamine-specific transporter subunit IIB 3491300 agaV 7130434 agaV Escherichia coli S88 PTS system N-acetylgalactosamine-specific transporter subunit IIB YP_002393120.1 3490827 D 585035 CDS YP_002393121.1 218560208 7133033 3491311..3492090 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative enzyme IIC component of PTS 3492090 7133033 ECS88_3520 Escherichia coli S88 putative enzyme IIC component of PTS YP_002393121.1 3491311 D 585035 CDS YP_002393122.1 218560209 7132878 3492074..3492958 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative hexose/hexosamine family PTS permease IID component 3492958 7132878 ECS88_3521 Escherichia coli S88 putative hexose/hexosamine family PTS permease IID component YP_002393122.1 3492074 D 585035 CDS YP_002393123.1 218560210 7132879 3492976..3493410 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotransferase system enzyme subunit (N-acetyl-galactosamine / galactosamine PTS system enzyme IIA component) 3493410 7132879 ECS88_3522 Escherichia coli S88 putative phosphotransferase system enzyme subunit (N-acetyl-galactosamine / galactosamine PTS system enzyme IIA component) YP_002393123.1 3492976 D 585035 CDS YP_002393124.1 218560211 7132880 3493386..3494540 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme; N-acetylglucosamine-6-phosphate deacetylase (GlcNAc 6-P deacetylase) 3494540 agaA 7132880 agaA Escherichia coli S88 N-acetylglucosamine-6-phosphate deacetylase (GlcNAc 6-P deacetylase) YP_002393124.1 3493386 D 585035 CDS YP_002393125.1 218560212 7133026 3494889..3496043 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9689210, 9697096, 14731281, 8932697; Product type e : enzyme; tagatose-6-phosphate ketose/aldose isomerase 3496043 agaS 7133026 agaS Escherichia coli S88 tagatose-6-phosphate ketose/aldose isomerase YP_002393125.1 3494889 D 585035 CDS YP_002393126.1 218560213 7133032 3496056..3496916 1 NC_011742.1 catalyzes the reversible reaction of dihydroxyacetone phosphate with glyceraldehyde 3-phosphate to produce tagatose 1,6-bisphosphate; in enteric bacteria there are two D-tagatose 1,6-bisphosphate-specific aldolases: KbaY (also called AgaY), involved in catabolism of N-acetyl-galactosamine and D-galactosamine, and GatY which is part of the galactitol catabolism pathway; tagatose-bisphosphate aldolase 3496916 kbaY 7133032 kbaY Escherichia coli S88 tagatose-bisphosphate aldolase YP_002393126.1 3496056 D 585035 CDS YP_002393127.1 218560214 7130433 3497083..3497559 1 NC_011742.1 catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; involved in N-acetylgalactosamine transport; PTS system N-acetylgalactosamine-specific transporter subunit IIB 3497559 agaB 7130433 agaB Escherichia coli S88 PTS system N-acetylgalactosamine-specific transporter subunit IIB YP_002393127.1 3497083 D 585035 CDS YP_002393128.1 218560215 7133027 3497598..3498401 1 NC_011742.1 catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane;protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; involved in N-acetylgalactosamine transport; PTS system N-acetylgalactosamine-specific transporter subunit IIC 3498401 agaC 7133027 agaC Escherichia coli S88 PTS system N-acetylgalactosamine-specific transporter subunit IIC YP_002393128.1 3497598 D 585035 CDS YP_002393129.1 218560216 7133028 3498391..3499182 1 NC_011742.1 catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; involved in N-acetylgalactosamine transport; PTS system N-acetylgalactosamine-specific transporter subunit IID 3499182 agaD 7133028 agaD Escherichia coli S88 PTS system N-acetylgalactosamine-specific transporter subunit IID YP_002393129.1 3498391 D 585035 CDS YP_002393130.1 218560217 7133029 3499183..3499950 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10931310; Product type e : enzyme; galactosamine-6-phosphate isomerase 3499950 agaI 7133029 agaI Escherichia coli S88 galactosamine-6-phosphate isomerase YP_002393130.1 3499183 D 585035 CDS YP_002393131.1 218560218 7133030 complement(3500000..3500863) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative methyltransferase 3500863 yraL 7133030 yraL Escherichia coli S88 putative methyltransferase YP_002393131.1 3500000 R 585035 CDS YP_002393132.1 218560219 7132118 3500928..3502964 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3502964 yraM 7132118 yraM Escherichia coli S88 hypothetical protein YP_002393132.1 3500928 D 585035 CDS YP_002393133.1 218560220 7132119 3502922..3503317 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3503317 yraN 7132119 yraN Escherichia coli S88 hypothetical protein YP_002393133.1 3502922 D 585035 CDS YP_002393134.1 218560221 7132120 3503337..3503927 1 NC_011742.1 Required for the timely initiation of chromosomal replication via direct interactions with the dnaA initiator protein; DnaA initiator-associating protein DiaA 3503927 yraO 7132120 yraO Escherichia coli S88 DnaA initiator-associating protein DiaA YP_002393134.1 3503337 D 585035 CDS YP_002393135.1 218560222 7132121 3503937..3504512 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11274153; hypothetical protein 3504512 ecfH 7132121 ecfH Escherichia coli S88 hypothetical protein YP_002393135.1 3503937 D 585035 CDS YP_002393136.1 218560223 7132375 complement(3504625..3505665) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative permease 3505665 yraQ 7132375 yraQ Escherichia coli S88 putative permease YP_002393136.1 3504625 R 585035 CDS YP_002393137.1 218560224 7132122 complement(3505738..3506373) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative nucleoside-diphosphate-sugar epimerase 3506373 yraR 7132122 yraR Escherichia coli S88 putative nucleoside-diphosphate-sugar epimerase YP_002393137.1 3505738 R 585035 CDS YP_002393138.1 218560225 7132123 3506501..3507019 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative intracellular protease 3507019 yhbO 7132123 yhbO Escherichia coli S88 putative intracellular protease YP_002393138.1 3506501 D 585035 CDS YP_002393139.1 218560226 7132251 complement(3506999..3507442) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3507442 yhbP 7132251 yhbP Escherichia coli S88 hypothetical protein YP_002393139.1 3506999 R 585035 CDS YP_002393140.1 218560227 7132252 3507493..3507795 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; GIY-YIG nuclease superfamily protein 3507795 yhbQ 7132252 yhbQ Escherichia coli S88 GIY-YIG nuclease superfamily protein YP_002393140.1 3507493 D 585035 CDS YP_002393141.1 218560228 7132253 complement(3507782..3508285) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acyltransferase with acyl-CoA N-acyltransferase domain 3508285 yhbS 7132253 yhbS Escherichia coli S88 putative acyltransferase with acyl-CoA N-acyltransferase domain YP_002393141.1 3507782 R 585035 CDS YP_002393142.1 218560229 7132254 complement(3508279..3508803) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative lipid carrier protein 3508803 yhbT 7132254 yhbT Escherichia coli S88 putative lipid carrier protein YP_002393142.1 3508279 R 585035 CDS YP_002393143.1 218560230 7132255 3509012..3510007 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 10206698; Product type e : enzyme; peptidase (collagenase-like) 3510007 yhbU 7132255 yhbU Escherichia coli S88 peptidase (collagenase-like) YP_002393143.1 3509012 D 585035 CDS YP_002393144.1 218560231 7132256 3510016..3510894 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 10206698; Product type e : enzyme; protease 3510894 yhbV 7132256 yhbV Escherichia coli S88 protease YP_002393144.1 3510016 D 585035 CDS YP_002393145.1 218560232 7132257 3510975..3511982 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 3511982 yhbW 7132257 yhbW Escherichia coli S88 hypothetical protein YP_002393145.1 3510975 D 585035 CDS YP_002393146.1 218560233 7132258 complement(3512100..3513344) 1 NC_011742.1 tryptophan transporter of high affinity; tryptophan permease 3513344 mtr 7132258 mtr Escherichia coli S88 tryptophan permease YP_002393146.1 3512100 R 585035 CDS YP_002393147.1 218560234 7129626 complement(3513498..3515387) 1 NC_011742.1 participates in the assembly of the large subunit of the ribosome; plays a key role in optimal cell growth at low temperature and is required for normal cell division; ATP-dependent RNA helicase DeaD 3515387 deaD 7129626 deaD Escherichia coli S88 ATP-dependent RNA helicase DeaD YP_002393147.1 3513498 R 585035 CDS YP_002393148.1 218560235 7130177 complement(3515567..3516451) 1 NC_011742.1 lipoprotein that appears to be involved in cell division; interacts with the periplasmic protease Prc and may be activated by protease processing; lipoprotein NlpI 3516451 nlpI 7130177 nlpI Escherichia coli S88 lipoprotein NlpI YP_002393148.1 3515567 R 585035 CDS YP_002393149.1 218560236 7129725 complement(3516560..3518764) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87083499, 91198209, 99234021, 99340204, 2432069, 3005122, 6382163, 9008164, 9298646; Product type e : enzyme; polynucleotide phosphorylase/polyadenylase 3518764 pnp 7129725 pnp Escherichia coli S88 polynucleotide phosphorylase/polyadenylase YP_002393149.1 3516560 R 585035 CDS YP_002393150.1 218560237 7130640 complement(3518942..3519211) 1 NC_011742.1 primary rRNA binding protein; helps nucleate assembly of 30S; binds directly to the 16S rRNA and an intersubunit bridge to the 23S rRNA; autoregulates translation through interactions with the mRNA leader sequence; 30S ribosomal protein S15 3519211 rpsO 7130640 rpsO Escherichia coli S88 30S ribosomal protein S15 YP_002393150.1 3518942 R 585035 CDS YP_002393151.1 218560238 7133798 complement(3519360..3520304) 1 NC_011742.1 catalyzes isomerization of specific uridines in RNA to pseudouridine; responsible for residues in T loops of many tRNAs; tRNA pseudouridine synthase B 3520304 truB 7133798 truB Escherichia coli S88 tRNA pseudouridine synthase B YP_002393151.1 3519360 R 585035 CDS YP_002393152.1 218560239 7130352 complement(3520304..3520705) 1 NC_011742.1 associates with free 30S ribosomal subunits; essential for efficient processing of 16S rRNA; in Escherichia coli rbfA is induced by cold shock; ribosome-binding factor A 3520705 rbfA 7130352 rbfA Escherichia coli S88 ribosome-binding factor A YP_002393152.1 3520304 R 585035 CDS YP_002393153.1 218560240 7131786 complement(3520869..3523541) 1 NC_011742.1 Protects formylmethionyl-tRNA from spontaneous hydrolysis and promotes its binding to the 30S ribosomal subunits during initiation of protein synthesis. Also involved in the hydrolysis of GTP during the formation of the 70S ribosomal complex; translation initiation factor IF-2 3523541 infB 7131786 infB Escherichia coli S88 translation initiation factor IF-2 YP_002393153.1 3520869 R 585035 CDS YP_002393154.1 218560241 7131634 complement(3523566..3525053) 1 NC_011742.1 modifies transcription through interactions with RNA polymerase affecting elongation, readthrough, termination, and antitermination; transcription elongation factor NusA 3525053 nusA 7131634 nusA Escherichia coli S88 transcription elongation factor NusA YP_002393154.1 3523566 R 585035 CDS YP_002393155.1 218560242 7133116 complement(3525081..3525533) 1 NC_011742.1 in Streptococcus pneumoniae this gene was found to be essential; structure determination of the Streptococcus protein shows that it is similar to a number of other proteins; hypothetical protein 3525533 yhbC 7133116 yhbC Escherichia coli S88 hypothetical protein YP_002393155.1 3525081 R 585035 CDS YP_002393156.1 218560243 7131984 3526164..3527507 1 NC_011742.1 catalyzes the formation of arginosuccinate from citrulline and aspartate in arginine biosynthesis; argininosuccinate synthase 3527507 argG 7131984 argG Escherichia coli S88 argininosuccinate synthase YP_002393156.1 3526164 D 585035 CDS YP_002393157.1 218560244 7133096 complement(3527515..3529140) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase, inner membrane 3529140 yhbX 7133096 yhbX Escherichia coli S88 putative hydrolase, inner membrane YP_002393157.1 3527515 R 585035 CDS YP_002393158.1 218560245 7131983 complement(3529695..3530027) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20194819, 21125563, 9020118, 94074540, 9564033, 9644254, 9829959, 99298179, 7556084, 8034620, 8045257, 8244950, 8253068; Product type t : transporter; preprotein translocase subunit SecG 3530027 secG 7131983 secG Escherichia coli S88 preprotein translocase subunit SecG YP_002393158.1 3529695 R 585035 CDS YP_002393159.1 218560246 7131383 complement(3530255..3531592) 1 NC_011742.1 catalyzes the conversion of glucosamine-6-phosphate to glucosamine-1-phosphate; phosphoglucosamine mutase 3531592 glmM 7131383 glmM Escherichia coli S88 phosphoglucosamine mutase YP_002393159.1 3530255 R 585035 CDS YP_002393160.1 218560247 7132220 complement(3531585..3532433) 1 NC_011742.1 catalyzes the formation of dihydropteroate from 2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine diphosphate and 4-aminobenzoate; dihydropteroate synthase 3532433 folP 7132220 folP Escherichia coli S88 dihydropteroate synthase YP_002393160.1 3531585 R 585035 CDS YP_002393161.1 218560248 7132820 complement(3532523..3534457) 1 NC_011742.1 inner membrane metalloprotease; may be involved in degradation of aberrant cytoplasmic and membrane proteins; ATP-dependent metalloprotease 3534457 hflB 7132820 hflB Escherichia coli S88 ATP-dependent metalloprotease YP_002393161.1 3532523 R 585035 CDS YP_002393162.1 218560249 7132849 complement(3534557..3535186) 1 NC_011742.1 Specifically methylates the uridine in position 2552 of 23S rRNA in the fully assembled 50S ribosomal subunit; 23S rRNA methyltransferase J 3535186 rrmJ 7132849 rrmJ Escherichia coli S88 23S rRNA methyltransferase J YP_002393162.1 3534557 R 585035 CDS YP_002393163.1 218560250 7133807 3535312..3535605 1 NC_011742.1 RNA binding protein found associated to pre-50S subunit of the ribosome; putative role in ribosome assembly; necessary for optimal growth but not cell viability; RNA-binding protein YhbY 3535605 yhbY 7133807 yhbY Escherichia coli S88 RNA-binding protein YhbY YP_002393163.1 3535312 D 585035 CDS YP_002393164.1 218560251 7132260 complement(3535761..3536237) 1 NC_011742.1 necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus; transcription elongation factor GreA 3536237 greA 7132260 greA Escherichia coli S88 transcription elongation factor GreA YP_002393164.1 3535761 R 585035 CDS YP_002393165.1 218560252 7130068 3536485..3537918 1 NC_011742.1 penicillin binding protein 4; penicillin sensitive; catalyzes the formation of D-alanine from D-alanyl-D-alanine; one of four, DD-carboxypeptidase low-molecular weight penicillin-binding proteins that remove terminal D-alanine from pentapeptide side chains; D-alanyl-D-alanine carboxypeptidase/endopeptidase 3537918 dacB 7130068 dacB Escherichia coli S88 D-alanyl-D-alanine carboxypeptidase/endopeptidase YP_002393165.1 3536485 D 585035 CDS YP_002393166.1 218560253 7130554 complement(3537959..3539131) 1 NC_011742.1 essential GTPase; exhibits high exchange rate for GTP/GDP; associates with 50S ribosomal subunit; involved in regulation of chromosomal replication; GTPase ObgE 3539131 obgE 7130554 obgE Escherichia coli S88 GTPase ObgE YP_002393166.1 3537959 R 585035 CDS YP_002393167.1 218560254 7133120 complement(3539147..3540112) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3540112 yhbE 7133120 yhbE Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393167.1 3539147 R 585035 CDS YP_002393168.1 218560255 7132248 complement(3540239..3540496) 1 NC_011742.1 involved in the peptidyltransferase reaction during translation; 50S ribosomal protein L27 3540496 rpmA 7132248 rpmA Escherichia coli S88 50S ribosomal protein L27 YP_002393168.1 3540239 R 585035 CDS YP_002393169.1 218560256 7133765 complement(3540517..3540828) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91088242, 94146411, 10094780, 387076, 8312607; Product type s : structure; 50S ribosomal protein L21 3540828 rplU 7133765 rplU Escherichia coli S88 50S ribosomal protein L21 YP_002393169.1 3540517 R 585035 CDS YP_002393170.1 218560257 7133760 3541087..3542058 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94311902, 97284515, 2670911, 8037730, 8312607; Product type e : enzyme; octaprenyl diphosphate synthase 3542058 ispB 7133760 ispB Escherichia coli S88 octaprenyl diphosphate synthase YP_002393170.1 3541087 D 585035 CDS YP_002393171.1 218560258 7130419 3542291..3542569 1 NC_011742.1 activator of maltose metabolism genes; DNA-binding transcriptional regulator Nlp 3542569 sfsB 7130419 sfsB Escherichia coli S88 DNA-binding transcriptional regulator Nlp YP_002393171.1 3542291 D 585035 CDS YP_002393172.1 218560259 7130586 complement(3542617..3543876) 1 NC_011742.1 adds enolpyruvyl to UDP-N-acetylglucosamine as a component of cell wall formation; gram-positive bacteria have 2 copies of MurA which are active; UDP-N-acetylglucosamine 1-carboxyvinyltransferase 3543876 murA 7130586 murA Escherichia coli S88 UDP-N-acetylglucosamine 1-carboxyvinyltransferase YP_002393172.1 3542617 R 585035 CDS YP_002393173.1 218560260 7129630 complement(3543931..3544185) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3544185 yrbA 7129630 yrbA Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393173.1 3543931 R 585035 CDS YP_002393174.1 218560261 7132124 complement(3544345..3544638) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3544638 yrbB 7132124 yrbB Escherichia coli S88 hypothetical protein YP_002393174.1 3544345 R 585035 CDS YP_002393175.1 218560262 7132125 complement(3544638..3545273) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 9658016; Product type t : transporter; toluene transporter subunit: membrane component of ABC superfamily 3545273 yrbC 7132125 yrbC Escherichia coli S88 toluene transporter subunit: membrane component of ABC superfamily YP_002393175.1 3544638 R 585035 CDS YP_002393176.1 218560263 7132126 complement(3545292..3545843) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 9658016; Product type t : transporter; toluene transporter subunit: membrane component of ABC superfamily 3545843 yrbD 7132126 yrbD Escherichia coli S88 toluene transporter subunit: membrane component of ABC superfamily YP_002393176.1 3545292 R 585035 CDS YP_002393177.1 218560264 7132127 complement(3545848..3546630) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 9658016; Product type t : transporter; toluene transporter subunit: membrane component of ABC superfamily 3546630 yrbE 7132127 yrbE Escherichia coli S88 toluene transporter subunit: membrane component of ABC superfamily YP_002393177.1 3545848 R 585035 CDS YP_002393178.1 218560265 7132128 complement(3546638..3547447) 1 NC_011742.1 ATP-binding subunit of a putative ABC toluene efflux transporter; putative ABC transporter ATP-binding protein YrbF 3547447 yrbF 7132128 yrbF Escherichia coli S88 putative ABC transporter ATP-binding protein YrbF YP_002393178.1 3546638 R 585035 CDS YP_002393179.1 218560266 7132129 3547657..3548634 1 NC_011742.1 YrbG; inner membrane protein involved in cell envelope integrity; putative sodium ion/calcium ion exchanger; in E. coli it is non essential for cell viability; member of the YRBG family of cation/Ca2+ exchangers; putative calcium/sodium:proton antiporter 3548634 yrbG 7132129 yrbG Escherichia coli S88 putative calcium/sodium:proton antiporter YP_002393179.1 3547657 D 585035 CDS YP_002393180.1 218560267 7132130 3548648..3549634 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12805358; Product type e : enzyme; D-arabinose 5-phosphate isomerase 3549634 kdsD 7132130 kdsD Escherichia coli S88 D-arabinose 5-phosphate isomerase YP_002393180.1 3548648 D 585035 CDS YP_002393181.1 218560268 7130449 3549655..3550221 1 NC_011742.1 forms homotetramers; catalyzes hydrolysis of KDO 8-P to KDO and inorganic phosphate; functions in lipopolysaccharide biosynthesis; 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase 3550221 kdsC 7130449 kdsC Escherichia coli S88 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase YP_002393181.1 3549655 D 585035 CDS YP_002393182.1 218560269 7130448 3550218..3550793 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3550793 yrbK 7130448 yrbK Escherichia coli S88 hypothetical protein YP_002393182.1 3550218 D 585035 CDS YP_002393183.1 218560270 7132131 3550762..3551319 1 NC_011742.1 LptA; periplasmic binding protein part of a putative ABC superfamily of uptake transporters; interacts with LptB protein, the ATP binding component of the uptake system; lipopolysaccharide transport periplasmic protein LptA 3551319 lptA 7132131 lptA Escherichia coli S88 lipopolysaccharide transport periplasmic protein LptA YP_002393183.1 3550762 D 585035 CDS YP_002393184.1 218560271 7129378 3551326..3552051 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7876255, 9298646, 17056748; Product type pt : putative transporter; putative ABC transporter ATP-binding protein YhbG 3552051 lptB 7129378 lptB Escherichia coli S88 putative ABC transporter ATP-binding protein YhbG YP_002393184.1 3551326 D 585035 CDS YP_002393185.1 218560272 7129379 3552099..3553532 1 NC_011742.1 sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released; sigma 54 factor is responsible for the expression of enzymes involved in nitrogen assimilation and metabolism; the rhizobia often have 2 copies of this sigma factor; in Rhizobium etli RpoN1 shown to be involved in the assimilation of several nitrogen and carbon sources during free-living aerobic growth and RpoN2 is involved in symbiotic nitrogen fixation; in Bradyrhizobium both RpoN1 and N2 are functional in free-living and symbiotic conditions, rpoN1 gene was regulated in response to oxygen; RNA polymerase factor sigma-54 3553532 rpoN 7129379 rpoN Escherichia coli S88 RNA polymerase factor sigma-54 YP_002393185.1 3552099 D 585035 CDS YP_002393186.1 218560273 7133780 3553555..3553842 1 NC_011742.1 YhbH; resting ribosome-binding protein involved in ribosome stabilization and preservation in stationary phase; binds specifically 100S ribosomes (an inactive ribosome product of a 70S ribosome dimerization); seems to be involved in modulation of the sigma(54) (RpoN) activity for quorum sensing; putative sigma(54) modulation protein 3553842 yhbH 7133780 yhbH Escherichia coli S88 putative sigma(54) modulation protein YP_002393186.1 3553555 D 585035 CDS YP_002393187.1 218560274 7132249 3553960..3554451 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88212176, 90136533, 90274974, 95020584, 95181483, 7876255, 8025669, 8444818, 9636714; Product type t : transporter; PTS system transporter subunit IIA-like nitrogen-regulatory protein PtsN 3554451 ptsN 7132249 ptsN Escherichia coli S88 PTS system transporter subunit IIA-like nitrogen-regulatory protein PtsN YP_002393187.1 3553960 D 585035 CDS YP_002393188.1 218560275 7131742 3554497..3555351 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3555351 yhbJ 7131742 yhbJ Escherichia coli S88 hypothetical protein YP_002393188.1 3554497 D 585035 CDS YP_002393189.1 218560276 7132250 3555348..3555620 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10473571, 95181483, 7876255, 8025669; Product type t : transporter; phosphohistidinoprotein-hexose phosphotransferase component of N-regulated PTS system (Npr) 3555620 npr 7132250 npr Escherichia coli S88 phosphohistidinoprotein-hexose phosphotransferase component of N-regulated PTS system (Npr) YP_002393189.1 3555348 D 585035 CDS YP_002393190.1 218560277 7129731 3555834..3556466 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 89083480; hypothetical protein 3556466 yrbL 7129731 yrbL Escherichia coli S88 hypothetical protein YP_002393190.1 3555834 D 585035 CDS YP_002393191.1 218560278 7132132 complement(3556463..3557191) 1 NC_011742.1 glycosyltransferase; polymerizes glycan strands in the peptidoglycan; monofunctional biosynthetic peptidoglycan transglycosylase 3557191 mtgA 7132132 mtgA Escherichia coli S88 monofunctional biosynthetic peptidoglycan transglycosylase YP_002393191.1 3556463 R 585035 CDS YP_002393192.1 218560279 7129619 complement(3557188..3557841) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92246944, 98269038, 1575737, 9603997; Product type pe : putative enzyme; isoprenoid biosynthesis protein with amidotransferase-like domain 3557841 elbB 7129619 elbB Escherichia coli S88 isoprenoid biosynthesis protein with amidotransferase-like domain YP_002393192.1 3557188 R 585035 CDS YP_002393193.1 218560280 7131348 complement(3558071..3560407) 1 NC_011742.1 sensor-regulator protein which regulates the expression of many genes in response to respiratory growth conditions including anaerobic repression of the arc modulon; hybrid sensory histidine kinase in two-component regulatory system with ArcA; aerobic respiration control sensor protein ArcB 3560407 arcB 7131348 arcB Escherichia coli S88 aerobic respiration control sensor protein ArcB YP_002393193.1 3558071 R 585035 CDS YP_002393194.1 218560281 7133090 complement(3560503..3561432) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative Fe-S oxidoreductase 3561432 yhcC 7133090 yhcC Escherichia coli S88 putative Fe-S oxidoreductase YP_002393194.1 3560503 R 585035 CDS YP_002393195.1 218560282 7132262 3562014..3566567 1 NC_011742.1 catalyzes the formation of glutamate from glutamine and alpha-ketoglutarate; glutamate synthase subunit alpha 3566567 gltB 7132262 gltB Escherichia coli S88 glutamate synthase subunit alpha YP_002393195.1 3562014 D 585035 CDS YP_002393196.1 218560283 7130030 3566580..3567998 1 NC_011742.1 glutamate synthase is composed of subunits alpha and beta; beta subunit is a flavin adenine dinucleotide-NADPH dependent oxidoreductase; provides electrons to the alpha subunit, which binds L-glutamine and 2-oxoglutarate and forms L-glutamate; glutamate synthase subunit beta 3567998 gltD 7130030 gltD Escherichia coli S88 glutamate synthase subunit beta YP_002393196.1 3566580 D 585035 CDS YP_002393197.1 218560284 7130031 complement(3568066..3568530) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3568530 yhcH 7130031 yhcH Escherichia coli S88 hypothetical protein YP_002393197.1 3568066 R 585035 CDS YP_002393198.1 218560285 7132263 complement(3568527..3569402) 1 NC_011742.1 catalyzes the phosphorylation of the N-acetylmannosamine (ManNAc) liberated from N-acetyl-neuraminic acid by the nanA protein; N-acetylmannosamine kinase 3569402 nanK 7132263 nanK Escherichia coli S88 N-acetylmannosamine kinase YP_002393198.1 3568527 R 585035 CDS YP_002393199.1 218560286 7129664 complement(3569399..3570088) 1 NC_011742.1 Converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate; N-acetylmannosamine-6-phosphate 2-epimerase 3570088 nanE 7129664 nanE Escherichia coli S88 N-acetylmannosamine-6-phosphate 2-epimerase YP_002393199.1 3569399 R 585035 CDS YP_002393200.1 218560287 7129663 complement(3570136..3571626) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96011396, 9864311, 7592358; Product type t : transporter; putative sialic acid transporter 3571626 nanT 7129663 nanT Escherichia coli S88 putative sialic acid transporter YP_002393200.1 3570136 R 585035 CDS YP_002393201.1 218560288 7129666 complement(3571735..3572628) 1 NC_011742.1 catalyzes the formation of pyruvate and N-acetylmannosamine from N-acetylneuraminic acid; N-acetylneuraminate lyase 3572628 nanA 7129666 nanA Escherichia coli S88 N-acetylneuraminate lyase YP_002393201.1 3571735 R 585035 CDS YP_002393202.1 218560289 7129662 complement(3572750..3573541) 1 NC_011742.1 Transcriptional repressor of the nan operon that encodes proteins involved in sialic acid utilization; transcriptional regulator NanR 3573541 nanR 7129662 nanR Escherichia coli S88 transcriptional regulator NanR YP_002393202.1 3572750 R 585035 CDS YP_002393203.1 218560290 7129665 complement(3573649..3574146) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12445774, 94293773, 1721886, 3029697, 8022275; Product type f : factor; ClpXP protease specificity-enhancing factor 3574146 sspB 7129665 sspB Escherichia coli S88 ClpXP protease specificity-enhancing factor YP_002393203.1 3573649 R 585035 CDS YP_002393204.1 218560291 7130653 complement(3574152..3574790) 1 NC_011742.1 transcriptional activator; required for activation of bacteriophage P1 late promoter; induced by starvation; stringent starvation protein A 3574790 sspA 7130653 sspA Escherichia coli S88 stringent starvation protein A YP_002393204.1 3574152 R 585035 CDS YP_002393205.1 218560292 7130652 complement(3575185..3575577) 1 NC_011742.1 forms a direct contact with the tRNA during translation; 30S ribosomal protein S9 3575577 rpsI 7130652 rpsI Escherichia coli S88 30S ribosomal protein S9 YP_002393205.1 3575185 R 585035 CDS YP_002393206.1 218560293 7133792 complement(3575593..3576021) 1 NC_011742.1 in Escherichia coli this protein is one of the earliest assembly proteins in the large subunit; 50S ribosomal protein L13 3576021 rplM 7133792 rplM Escherichia coli S88 50S ribosomal protein L13 YP_002393206.1 3575593 R 585035 CDS YP_002393207.1 218560294 7133752 complement(3576241..3577368) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain 3577368 yhcM 7133752 yhcM Escherichia coli S88 conserved hypothetical protein; putative nucleoside triphosphate hydrolase domain YP_002393207.1 3576241 R 585035 CDS YP_002393208.1 218560295 7132264 3577562..3577960 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16079137; Product type pe : putative enzyme; cytochrome d ubiquinol oxidase subunit III 3577960 yhcB 7132264 yhcB Escherichia coli S88 cytochrome d ubiquinol oxidase subunit III YP_002393208.1 3577562 D 585035 CDS YP_002393209.1 218560296 7132261 3578114..3579481 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8830688, 96165272, 8576051, 8576052, 9740056; Product type e : enzyme; serine endoprotease 3579481 degQ 7132261 degQ Escherichia coli S88 serine endoprotease YP_002393209.1 3578114 D 585035 CDS YP_002393210.1 218560297 7130182 3579571..3580638 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15137941, 15225661, 21352996, 96165272, 99431977, 3322223, 8576051; Product type e : enzyme; serine endoprotease 3580638 degS 7130182 degS Escherichia coli S88 serine endoprotease YP_002393210.1 3579571 D 585035 CDS YP_002393211.1 218560298 7130183 complement(3580701..3581639) 1 NC_011742.1 oxidizes malate to oxaloacetate; malate dehydrogenase 3581639 mdh 7130183 mdh Escherichia coli S88 malate dehydrogenase YP_002393211.1 3580701 R 585035 CDS YP_002393212.1 218560299 7129431 3582074..3582544 1 NC_011742.1 regulates arginine biosynthesis when complexed with arginine by binding at site that overlap the promotors of the arginine biosynthesis genes; arginine repressor 3582544 argR 7129431 argR Escherichia coli S88 arginine repressor YP_002393212.1 3582074 D 585035 CDS YP_002393213.1 218560300 7133101 3582908..3583171 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3583171 yhcN 7133101 yhcN Escherichia coli S88 hypothetical protein YP_002393213.1 3582908 D 585035 CDS YP_002393214.1 218560301 7132265 complement(3583226..3583498) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative barnase inhibitor 3583498 yhcO 7132265 yhcO Escherichia coli S88 putative barnase inhibitor YP_002393214.1 3583226 R 585035 CDS YP_002393215.1 218560302 7132266 complement(3583590..3585557) 1 NC_011742.1 with AaeA forms an efflux pump whose substrates are p-hydroxybenzoic acid 6-hydroxy-2-naphthoic and 2-hydroxycinnamate; p-hydroxybenzoic acid efflux subunit AaeB 3585557 aaeB 7132266 aaeB Escherichia coli S88 p-hydroxybenzoic acid efflux subunit AaeB YP_002393215.1 3583590 R 585035 CDS YP_002393216.1 218560303 7132015 complement(3585563..3586495) 1 NC_011742.1 with AaeB forms an efflux pump whose substrates are p-hydroxybenzoic acid, 6-hydroxy-2-naphthoic and 2-hydroxycinnamate; p-hydroxybenzoic acid efflux subunit AaeA 3586495 aaeA 7132015 aaeA Escherichia coli S88 p-hydroxybenzoic acid efflux subunit AaeA YP_002393216.1 3585563 R 585035 CDS YP_002393217.1 218560304 7132014 complement(3586503..3586706) 1 NC_011742.1 membrane protein AaeX; the gene is a member of the aaeXAB operon; hypothetical protein 3586706 aaeX 7132014 aaeX Escherichia coli S88 hypothetical protein YP_002393217.1 3586503 R 585035 CDS YP_002393218.1 218560305 7132017 3586889..3587818 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15489430; Product type r : regulator; putative DNA-binding transcriptional regulator 3587818 aaeR 7132017 aaeR Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393218.1 3586889 D 585035 CDS YP_002393219.1 218560306 7132016 complement(3587946..3589391) 1 NC_011742.1 responsible for the proteolytic maturation of the E. coli pMccB17 plasmid-encoded microcin B17, an exported protein that targets the essential topoisomerase II DNA gyrase; degrades the E. coli plasmid F-encoded CcdA; protease TldD 3589391 tldD 7132016 tldD Escherichia coli S88 protease TldD YP_002393219.1 3587946 R 585035 CDS YP_002393220.1 218560307 7133478 complement(3589547..3593347) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 10960106; Product type pm : putative membrane component; hypothetical protein 3593347 yhdP 7133478 yhdP Escherichia coli S88 hypothetical protein YP_002393220.1 3589547 R 585035 CDS YP_002393221.1 218560308 7132272 complement(3593415..3594884) 1 NC_011742.1 involved in the processing of the 5'end of 16S rRNA; ribonuclease G 3594884 rng 7132272 rng Escherichia coli S88 ribonuclease G YP_002393221.1 3593415 R 585035 CDS YP_002393222.1 218560309 7132747 complement(3594874..3595467) 1 NC_011742.1 Maf; overexpression in Bacillus subtilis inhibits septation in the dividing cell; Maf-like protein 3595467 yhdE 7132747 yhdE Escherichia coli S88 Maf-like protein YP_002393222.1 3594874 R 585035 CDS YP_002393223.1 218560310 7132267 complement(3595476..3595964) 1 NC_011742.1 part of cell wall structural complex MreBCD; transmembrane component; rod shape-determining protein MreD 3595964 mreD 7132267 mreD Escherichia coli S88 rod shape-determining protein MreD YP_002393223.1 3595476 R 585035 CDS YP_002393224.1 218560311 7129611 complement(3595948..3596079) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3596079 7129611 ECS88_3625 Escherichia coli S88 hypothetical protein YP_002393224.1 3595948 R 585035 CDS YP_002393225.1 218560312 7132881 complement(3595964..3597067) 1 NC_011742.1 in some organisms this protein is a transmembrane protein while in others it is periplasmic; involved in some organisms with other components of the MreBCD complex and with penicillin binding proteins in the periplasm or cell wall; rod shape-determining protein MreC 3597067 mreC 7132881 mreC Escherichia coli S88 rod shape-determining protein MreC YP_002393225.1 3595964 R 585035 CDS YP_002393226.1 218560313 7129610 complement(3597133..3598176) 1 NC_011742.1 functions in MreBCD complex in some organisms; rod shape-determining protein MreB 3598176 mreB 7129610 mreB Escherichia coli S88 rod shape-determining protein MreB YP_002393226.1 3597133 R 585035 CDS YP_002393227.1 218560314 7129609 3598284..3598472 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3598472 7129609 ECS88_3628 Escherichia coli S88 hypothetical protein YP_002393227.1 3598284 D 585035 CDS YP_002393228.1 218560315 7132882 complement(3598481..3600421) 1 NC_011742.1 regulates the degradation of the small RNAs CsrB and CsrC; may function to targate RNase E to specific RNA molecules; regulatory protein CsrD 3600421 csrD 7132882 csrD Escherichia coli S88 regulatory protein CsrD YP_002393228.1 3598481 R 585035 CDS YP_002393229.1 218560316 7130505 3600573..3601547 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase, Zn-dependent and NAD(P)-binding 3601547 yhdH 7130505 yhdH Escherichia coli S88 putative oxidoreductase, Zn-dependent and NAD(P)-binding YP_002393229.1 3600573 D 585035 CDS YP_002393230.1 218560317 7132268 3602525..3602995 1 NC_011742.1 composes the biotin carboxyl carrier protein subunit of the acetyl-CoA carboxylase complex, the enzyme that catalyzes the carboxylation of acetyl-CoA to malonyl-CoA, which in turn controls the rate of fatty acid metabolism; acetyl-CoA carboxylase biotin carboxyl carrier protein subunit 3602995 accB 7132268 accB Escherichia coli S88 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit YP_002393230.1 3602525 D 585035 CDS YP_002393231.1 218560318 7132027 3603006..3604355 1 NC_011742.1 an AccC homodimer forms the biotin carboxylase subunit of the acetyl CoA carboxylase, an enzyme that catalyzes the formation of malonyl-CoA, which in turn controls the rate of fatty acid metabolism; acetyl-CoA carboxylase biotin carboxylase subunit 3604355 accC 7132027 accC Escherichia coli S88 acetyl-CoA carboxylase biotin carboxylase subunit YP_002393231.1 3603006 D 585035 CDS YP_002393232.1 218560319 7132028 complement(3604447..3605493) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3605493 7132028 ECS88_3633 Escherichia coli S88 hypothetical protein YP_002393232.1 3604447 R 585035 CDS YP_002393233.1 218560320 7132883 complement(3605490..3606452) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative carbohydrate kinase 3606452 7132883 ECS88_3634 Escherichia coli S88 putative carbohydrate kinase YP_002393233.1 3605490 R 585035 CDS YP_002393234.1 218560321 7132884 complement(3606474..3607463) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: membrane component of ABC superfamily 3607463 7132884 ECS88_3635 Escherichia coli S88 putative sugar transporter subunit: membrane component of ABC superfamily YP_002393234.1 3606474 R 585035 CDS YP_002393235.1 218560322 7132885 complement(3607464..3608993) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: ATP-binding component of ABC superfamily 3608993 7132885 ECS88_3636 Escherichia coli S88 putative sugar transporter subunit: ATP-binding component of ABC superfamily YP_002393235.1 3607464 R 585035 CDS YP_002393236.1 218560323 7132886 complement(3609024..3609920) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC-type sugar transport system, periplasmic component 3609920 7132886 ECS88_3637 Escherichia coli S88 putative ABC-type sugar transport system, periplasmic component YP_002393236.1 3609024 R 585035 CDS YP_002393237.1 218560324 7132887 complement(3609950..3610804) 1 NC_011742.1 catalyzes the reversible reaction of dihydroxyacetone phosphate with glyceraldehyde 3-phosphate to produce tagatose 1,6-bisphosphate; in enteric bacteria there are two D-tagatose 1,6-bisphosphate-specific aldolases: KbaY (also called AgaY), involved in catabolism of N-acetyl-galactosamine and D-galactosamine, and GatY which is part of the galactitol catabolism pathway; tagatose-bisphosphate aldolase 3610804 gatY 7132887 gatY Escherichia coli S88 tagatose-bisphosphate aldolase YP_002393237.1 3609950 R 585035 CDS YP_002393238.1 218560325 7132888 3611145..3611975 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DEOR-type transcriptional regulator 3611975 7132888 ECS88_3639 Escherichia coli S88 putative DEOR-type transcriptional regulator YP_002393238.1 3611145 D 585035 CDS YP_002393239.1 218560326 7132891 3613035..3613277 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 3613277 yhdT 7132891 yhdT Escherichia coli S88 hypothetical protein YP_002393239.1 3613035 D 585035 CDS YP_002393240.1 218560327 7132273 3613267..3614718 1 NC_011742.1 mediates high affinitiy panthothenate transport which is stimulated by the presence of sodium ions; member of SSS family of sodium/solute symporters; the imported panthothenate is phosphorylated by panthothenate kinase; sodium/panthothenate symporter 3614718 panF 7132273 panF Escherichia coli S88 sodium/panthothenate symporter YP_002393240.1 3613267 D 585035 CDS YP_002393241.1 218560328 7133161 3614730..3615611 1 NC_011742.1 methylates ribosomal protein L11 at multiple amino acid positions; mutations of these genes in Escherichia coli or Thermus thermophilus has no apparent phenotype; ribosomal protein L11 methyltransferase 3615611 prmA 7133161 prmA Escherichia coli S88 ribosomal protein L11 methyltransferase YP_002393241.1 3614730 D 585035 CDS YP_002393242.1 218560329 7130781 3615940..3616905 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 22095566, 1459953, 1547773, 2835774, 2837762, 8226664; Product type e : enzyme; tRNA-dihydrouridine synthase B 3616905 dusB 7130781 dusB Escherichia coli S88 tRNA-dihydrouridine synthase B YP_002393242.1 3615940 D 585035 CDS YP_002393243.1 218560330 7132366 3616931..3617227 1 NC_011742.1 Stimulates excision of phage lambda; affects Mu development; acts as an activator of rRNA and iRNA transcription; DNA-binding protein Fis 3617227 fis 7132366 fis Escherichia coli S88 DNA-binding protein Fis YP_002393243.1 3616931 D 585035 CDS YP_002393244.1 218560331 7129502 3617315..3618199 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 15028690, 9073062; Product type e : enzyme; putative methyltransferase 3618199 yhdJ 7129502 yhdJ Escherichia coli S88 putative methyltransferase YP_002393244.1 3617315 D 585035 CDS YP_002393245.1 218560332 7132269 3618283..3618462 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 3618462 yhdU 7132269 yhdU Escherichia coli S88 hypothetical protein YP_002393245.1 3618283 D 585035 CDS YP_002393246.1 218560333 7132274 complement(3618465..3619127) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8203018, 11257026, 8407802, 1720861; Product type r : regulator; DNA-binding transcriptional regulator EnvR 3619127 envR 7132274 envR Escherichia coli S88 DNA-binding transcriptional regulator EnvR YP_002393246.1 3618465 R 585035 CDS YP_002393247.1 218560334 7132407 3619527..3620684 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94012493, 1720861; Product type lp : lipoprotein; cytoplasmic membrane lipoprotein 3620684 acrE 7132407 acrE Escherichia coli S88 cytoplasmic membrane lipoprotein YP_002393247.1 3619527 D 585035 CDS YP_002393248.1 218560335 7132045 3620696..3623800 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94262163, 99449638, 1720861, 8407802; Product type t : transporter; multidrug efflux system protein 3623800 acrF 7132045 acrF Escherichia coli S88 multidrug efflux system protein YP_002393248.1 3620696 D 585035 CDS YP_002393249.1 218560336 7132046 3624053..3624274 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative outer membrane protein 3624274 yhdV 7132046 yhdV Escherichia coli S88 conserved hypothetical protein; putative outer membrane protein YP_002393249.1 3624053 D 585035 CDS YP_002393250.1 218560337 7132892 3624813..3625730 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8898392; Product type t : transporter; amino-acid transporter subunit ; periplasmic-binding component of ABC superfamily 3625730 aapJ 7132892 aapJ Escherichia coli S88 amino-acid transporter subunit ; periplasmic-binding component of ABC superfamily YP_002393250.1 3624813 D 585035 CDS YP_002393251.1 218560338 7132018 3625798..3626979 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8898392; Product type t : transporter; amino-acid transporter subunit ; membrane component of ABC superfamily 3626979 aapQ 7132018 aapQ Escherichia coli S88 amino-acid transporter subunit ; membrane component of ABC superfamily YP_002393251.1 3625798 D 585035 CDS YP_002393252.1 218560339 7132021 3626989..3628092 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8898392; Product type t : transporter; amino-acid transporter subunit ; membrane component of ABC superfamily 3628092 aapM 7132021 aapM Escherichia coli S88 amino-acid transporter subunit ; membrane component of ABC superfamily YP_002393252.1 3626989 D 585035 CDS YP_002393253.1 218560340 7132019 3628100..3628858 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8809753, 8898392; Product type t : transporter; amino-acid transporter subunit ; ATP-binding component of ABC superfamily 3628858 aapP 7132019 aapP Escherichia coli S88 amino-acid transporter subunit ; ATP-binding component of ABC superfamily YP_002393253.1 3628100 D 585035 CDS YP_002393254.1 218560341 7129268 3634415..3635296 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3635296 yrdA 7129268 yrdA Escherichia coli S88 hypothetical protein YP_002393254.1 3634415 D 585035 CDS YP_002393255.1 218560342 7132133 complement(3635272..3635529) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3635529 yrdB 7132133 yrdB Escherichia coli S88 hypothetical protein YP_002393255.1 3635272 R 585035 CDS YP_002393256.1 218560343 7132134 complement(3635526..3636344) 1 NC_011742.1 AroE; catalyzes the conversion of shikimate to 3-dehydroshikimate; shikimate 5-dehydrogenase 3636344 aroE 7132134 aroE Escherichia coli S88 shikimate 5-dehydrogenase YP_002393256.1 3635526 R 585035 CDS YP_002393257.1 218560344 7129925 complement(3636349..3636921) 1 NC_011742.1 RimN; YrdC; required for maturation of 16s RNA; binds preferentially double stranded RNA; putative ribosome maturation factor 3636921 yrdC 7129925 yrdC Escherichia coli S88 putative ribosome maturation factor YP_002393257.1 3636349 R 585035 CDS YP_002393258.1 218560345 7132135 complement(3636926..3637468) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative DNA topoisomerase 3637468 yrdD 7132135 yrdD Escherichia coli S88 putative DNA topoisomerase YP_002393258.1 3636926 R 585035 CDS YP_002393259.1 218560346 7132136 complement(3637497..3637970) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8432722; hypothetical protein 3637970 smg 7132136 smg Escherichia coli S88 hypothetical protein YP_002393259.1 3637497 R 585035 CDS YP_002393260.1 218560347 7130612 complement(3637942..3639066) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8112305, 8432722; DNA protecting protein DprA 3639066 smf 7130612 smf Escherichia coli S88 DNA protecting protein DprA YP_002393260.1 3637942 R 585035 CDS YP_002393261.1 218560348 7130611 3639196..3639705 1 NC_011742.1 cleaves off formyl group from N-terminal methionine residues of newly synthesized proteins; binds iron(2+); peptide deformylase 3639705 def 7130611 def Escherichia coli S88 peptide deformylase YP_002393261.1 3639196 D 585035 CDS YP_002393262.1 218560349 7130180 3639720..3640667 1 NC_011742.1 modifies the free amino group of the aminoacyl moiety of methionyl-tRNA(fMet) which is important in translation initiation; inactivation of this gene in Escherichia coli severely impairs growth; methionyl-tRNA formyltransferase 3640667 fmt 7130180 fmt Escherichia coli S88 methionyl-tRNA formyltransferase YP_002393262.1 3639720 D 585035 CDS YP_002393263.1 218560350 7132810 3640719..3642008 1 NC_011742.1 catalyzes the methylation of cytosine at position 967 (m5C967) of 16S rRNA; SAM-dependent methyltransferase; 16S rRNA methyltransferase B 3642008 rsmB 7132810 rsmB Escherichia coli S88 16S rRNA methyltransferase B YP_002393263.1 3640719 D 585035 CDS YP_002393264.1 218560351 7133814 3642030..3643406 1 NC_011742.1 involved in potassium uptake; found to be peripherally associated with the inner membrane in Escherichia coli; contains an NAD-binding domain; potassium transporter peripheral membrane component 3643406 trkA 7133814 trkA Escherichia coli S88 potassium transporter peripheral membrane component YP_002393264.1 3642030 D 585035 CDS YP_002393265.1 218560352 7130334 3643536..3643949 1 NC_011742.1 forms homopentamer; channel that opens in response to pressure or hypoosmotic shock; large-conductance mechanosensitive channel 3643949 mscL 7130334 mscL Escherichia coli S88 large-conductance mechanosensitive channel YP_002393265.1 3643536 D 585035 CDS YP_002393266.1 218560353 7129614 complement(3643946..3644164) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3644164 yhdL 7129614 yhdL Escherichia coli S88 hypothetical protein YP_002393266.1 3643946 R 585035 CDS YP_002393267.1 218560354 7132270 complement(3644220..3644645) 1 NC_011742.1 mediates expression of the zinc export protein ZntA in response to high levels of zinc; member of MerR family of transcriptional regulators; zinc-responsive transcriptional regulator 3644645 zntR 7132270 zntR Escherichia coli S88 zinc-responsive transcriptional regulator YP_002393267.1 3644220 R 585035 CDS YP_002393268.1 218560355 7131887 complement(3644656..3645024) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3645024 yhdN 7131887 yhdN Escherichia coli S88 hypothetical protein YP_002393268.1 3644656 R 585035 CDS YP_002393269.1 218560356 7132271 complement(3645131..3645514) 1 NC_011742.1 is a component of the macrolide binding site in the peptidyl transferase center; 50S ribosomal protein L17 3645514 rplQ 7132271 rplQ Escherichia coli S88 50S ribosomal protein L17 YP_002393269.1 3645131 R 585035 CDS YP_002393270.1 218560357 7133756 complement(3645555..3646544) 1 NC_011742.1 catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Dimerization of the alpha subunit is the first step in the sequential assembly of subunits to form the holoenzyme; DNA-directed RNA polymerase subunit alpha 3646544 rpoA 7133756 rpoA Escherichia coli S88 DNA-directed RNA polymerase subunit alpha YP_002393270.1 3645555 R 585035 CDS YP_002393271.1 218560358 7133774 complement(3646570..3647190) 1 NC_011742.1 primary rRNA binding protein; nucleates 30S assembly; involved in translational accuracy with proteins S5 and S12; interacts with protein S5; involved in autogeneously regulating ribosomal proteins by binding to pseudoknot structures in the polycistronic mRNA; interacts with transcription complex and functions similar to protein NusA in antitermination; 30S ribosomal protein S4 3647190 rpsD 7133774 rpsD Escherichia coli S88 30S ribosomal protein S4 YP_002393271.1 3646570 R 585035 CDS YP_002393272.1 218560359 7133787 complement(3647224..3647613) 1 NC_011742.1 located on the platform of the 30S subunit, it bridges several disparate RNA helices of the 16S rRNA; forms part of the Shine-Dalgarno cleft in the 70S ribosome; interacts with S7 and S18 and IF-3; 30S ribosomal protein S11 3647613 rpsK 7133787 rpsK Escherichia coli S88 30S ribosomal protein S11 YP_002393272.1 3647224 R 585035 CDS YP_002393273.1 218560360 7133794 complement(3647630..3647986) 1 NC_011742.1 located at the top of the head of the 30S subunit, it contacts several helices of the 16S rRNA; makes contact with the large subunit via RNA-protein interactions and via protein-protein interactions with L5; contacts P-site tRNA; 30S ribosomal protein S13 3647986 rpsM 7133794 rpsM Escherichia coli S88 30S ribosomal protein S13 YP_002393273.1 3647630 R 585035 CDS YP_002393274.1 218560361 7133796 complement(3648281..3649612) 1 NC_011742.1 forms heterotrimeric complex in the membrane; in bacteria the complex consists of SecY which forms the channel pore and SecE and SecG; the SecG subunit is not essential; in bacteria translocation is driven via the SecA ATPase; preprotein translocase subunit SecY 3649612 secY 7133796 secY Escherichia coli S88 preprotein translocase subunit SecY YP_002393274.1 3648281 R 585035 CDS YP_002393275.1 218560362 7131385 complement(3649620..3650054) 1 NC_011742.1 late assembly protein; 50S ribosomal protein L15 3650054 rplO 7131385 rplO Escherichia coli S88 50S ribosomal protein L15 YP_002393275.1 3649620 R 585035 CDS YP_002393276.1 218560363 7133754 complement(3650058..3650237) 1 NC_011742.1 L30 binds domain II of the 23S rRNA and the 5S rRNA; similar to eukaryotic protein L7; 50S ribosomal protein L30 3650237 rpmD 7133754 rpmD Escherichia coli S88 50S ribosomal protein L30 YP_002393276.1 3650058 R 585035 CDS YP_002393277.1 218560364 7133768 complement(3650241..3650744) 1 NC_011742.1 located at the back of the 30S subunit body where it stabilizes the conformation of the head with respect to the body; contacts S4 and S8; with S4 and S12 plays a role in translational accuracy; mutations in this gene result in spectinomycin resistance; 30S ribosomal protein S5 3650744 rpsE 7133768 rpsE Escherichia coli S88 30S ribosomal protein S5 YP_002393277.1 3650241 R 585035 CDS YP_002393278.1 218560365 7133788 complement(3650759..3651112) 1 NC_011742.1 binds 5S rRNA along with protein L5 and L25; 50S ribosomal protein L18 3651112 rplR 7133788 rplR Escherichia coli S88 50S ribosomal protein L18 YP_002393278.1 3650759 R 585035 CDS YP_002393279.1 218560366 7133757 complement(3651122..3651655) 1 NC_011742.1 ribosomal protein L6 appears to have arisen as a result of an ancient gene duplication as based on structural comparison of the Bacillus stearothermophilus protein; RNA-binding appears to be in the C-terminal domain; mutations in the L6 gene confer resistance to aminoglycoside antibiotics such as gentamicin and these occur in truncations of the C-terminal domain; it has been localized to a region between the base of the L7/L12 stalk and the central protuberance; 50S ribosomal protein L6 3651655 rplF 7133757 rplF Escherichia coli S88 50S ribosomal protein L6 YP_002393279.1 3651122 R 585035 CDS YP_002393280.1 218560367 7132768 complement(3651668..3652060) 1 NC_011742.1 binds directly to 16S rRNA central domain where it helps coordinate assembly of the platform of the 30S subunit; 30S ribosomal protein S8 3652060 rpsH 7132768 rpsH Escherichia coli S88 30S ribosomal protein S8 YP_002393280.1 3651668 R 585035 CDS YP_002393281.1 218560368 7133791 complement(3652094..3652399) 1 NC_011742.1 located in the peptidyl transferase center and involved in assembly of 30S ribosome subunit; similar to what is observed with proteins L31 and L33, some proteins in this family contain CXXC motifs that are involved in zinc binding; if two copies are present in a genome, then the duplicated copy appears to have lost the zinc-binding motif and is instead regulated by zinc; the proteins in this group do not appear to have the zinc-binding motif; 30S ribosomal protein S14 3652399 rpsN 7133791 rpsN Escherichia coli S88 30S ribosomal protein S14 YP_002393281.1 3652094 R 585035 CDS YP_002393282.1 218560369 7133797 complement(3652414..3652953) 1 NC_011742.1 part of 50S and 5S/L5/L18/L25 subcomplex; contacts 5S rRNA and P site tRNA; forms a bridge to the 30S subunit in the ribosome by binding to S13; 50S ribosomal protein L5 3652953 rplE 7133797 rplE Escherichia coli S88 50S ribosomal protein L5 YP_002393282.1 3652414 R 585035 CDS YP_002393283.1 218560370 7132767 complement(3652968..3653282) 1 NC_011742.1 assembly initiator protein; binds to 5' end of 23S rRNA and nucleates assembly of the 50S; surrounds polypeptide exit tunnel; 50S ribosomal protein L24 3653282 rplX 7132767 rplX Escherichia coli S88 50S ribosomal protein L24 YP_002393283.1 3652968 R 585035 CDS YP_002393284.1 218560371 7133763 complement(3653293..3653664) 1 NC_011742.1 binds to the 23S rRNA between the centers for peptidyl transferase and GTPase; 50S ribosomal protein L14 3653664 rplN 7133763 rplN Escherichia coli S88 50S ribosomal protein L14 YP_002393284.1 3653293 R 585035 CDS YP_002393285.1 218560372 7133753 complement(3653829..3654083) 1 NC_011742.1 primary binding protein; helps mediate assembly; involved in translation fidelity; 30S ribosomal protein S17 3654083 rpsQ 7133753 rpsQ Escherichia coli S88 30S ribosomal protein S17 YP_002393285.1 3653829 R 585035 CDS YP_002393286.1 218560373 7133800 complement(3654083..3654274) 1 NC_011742.1 one of the stabilizing components for the large ribosomal subunit; 50S ribosomal protein L29 3654274 rpmC 7133800 rpmC Escherichia coli S88 50S ribosomal protein L29 YP_002393286.1 3654083 R 585035 CDS YP_002393287.1 218560374 7133767 complement(3654274..3654684) 1 NC_011742.1 located in the peptidyl transferase center and may be involved in peptidyl transferase activity; similar to archaeal L10e; 50S ribosomal protein L16 3654684 rplP 7133767 rplP Escherichia coli S88 50S ribosomal protein L16 YP_002393287.1 3654274 R 585035 CDS YP_002393288.1 218560375 7133755 complement(3654697..3655398) 1 NC_011742.1 forms a complex with S10 and S14; binds the lower part of the 30S subunit head and the mRNA in the complete ribosome to position it for translation; 30S ribosomal protein S3 3655398 rpsC 7133755 rpsC Escherichia coli S88 30S ribosomal protein S3 YP_002393288.1 3654697 R 585035 CDS YP_002393289.1 218560376 7133786 complement(3655416..3655748) 1 NC_011742.1 binds specifically to 23S rRNA during the early stages of 50S assembly; makes contact with all 6 domains of the 23S rRNA in the assembled 50S subunit and ribosome; mutations in this gene result in erythromycin resistance; located near peptidyl-transferase center; 50S ribosomal protein L22 3655748 rplV 7133786 rplV Escherichia coli S88 50S ribosomal protein L22 YP_002393289.1 3655416 R 585035 CDS YP_002393290.1 218560377 7133761 complement(3655763..3656041) 1 NC_011742.1 protein S19 forms a complex with S13 that binds strongly to the 16S ribosomal RNA; 30S ribosomal protein S19 3656041 rpsS 7133761 rpsS Escherichia coli S88 30S ribosomal protein S19 YP_002393290.1 3655763 R 585035 CDS YP_002393291.1 218560378 7133802 complement(3656058..3656879) 1 NC_011742.1 one of the primary rRNA-binding proteins; required for association of the 30S and 50S subunits to form the 70S ribosome, for tRNA binding and peptide bond formation; 50S ribosomal protein L2 3656879 rplB 7133802 rplB Escherichia coli S88 50S ribosomal protein L2 YP_002393291.1 3656058 R 585035 CDS YP_002393292.1 218560379 7132764 complement(3656897..3657199) 1 NC_011742.1 binds third domain of 23S rRNA and protein L29; part of exit tunnel; 50S ribosomal protein L23 3657199 rplW 7132764 rplW Escherichia coli S88 50S ribosomal protein L23 YP_002393292.1 3656897 R 585035 CDS YP_002393293.1 218560380 7133762 complement(3657196..3657801) 1 NC_011742.1 L4 is important during the early stages of 50S assembly; it initially binds near the 5' end of the 23S rRNA; 50S ribosomal protein L4 3657801 rplD 7133762 rplD Escherichia coli S88 50S ribosomal protein L4 YP_002393293.1 3657196 R 585035 CDS YP_002393294.1 218560381 7132766 complement(3657812..3658441) 1 NC_011742.1 binds directly near the 3' end of the 23S rRNA, where it nucleates assembly of the 50S subunit; essential for peptidyltransferase activity; mutations in this gene confer resistance to tiamulin; 50S ribosomal protein L3 3658441 rplC 7132766 rplC Escherichia coli S88 50S ribosomal protein L3 YP_002393294.1 3657812 R 585035 CDS YP_002393295.1 218560382 7132765 complement(3658474..3658785) 1 NC_011742.1 NusE; involved in assembly of the 30S subunit; in the ribosome, this protein is involved in the binding of tRNA; in Escherichia coli this protein was also found to be involved in transcription antitermination; NusB/S10 heterodimers bind boxA sequences in the leader RNA of rrn operons which is required for antitermination; binding of NusB/S10 to boxA nucleates assembly of the antitermination complex; 30S ribosomal protein S10 3658785 rpsJ 7132765 rpsJ Escherichia coli S88 30S ribosomal protein S10 YP_002393295.1 3658474 R 585035 CDS YP_002393296.1 218560383 7133793 complement(3659023..3659442) 1 NC_011742.1 calcium-binding protein that may be required for the initiation of chromosome replication; chromosome replication protein PioO 3659442 pioO 7133793 pioO Escherichia coli S88 chromosome replication protein PioO YP_002393296.1 3659023 R 585035 CDS YP_002393297.1 218560384 7133735 complement(3659444..3660913) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96256608; Product type t : transporter; general secretory pathway component, cryptic 3660913 gspA 7133735 gspA Escherichia coli S88 general secretory pathway component, cryptic YP_002393297.1 3659444 R 585035 CDS YP_002393298.1 218560385 7130079 3661093..3661908 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96256608; Product type t : transporter; general secretory pathway component, cryptic 3661908 gspC 7130079 gspC Escherichia coli S88 general secretory pathway component, cryptic YP_002393298.1 3661093 D 585035 CDS YP_002393299.1 218560386 7130080 3661892..3663844 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96256608; Product type t : transporter; general secretory pathway component, cryptic 3663844 gspD 7130080 gspD Escherichia coli S88 general secretory pathway component, cryptic YP_002393299.1 3661892 D 585035 CDS YP_002393300.1 218560387 7130081 3663854..3665335 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96256608; Product type t : transporter; general secretory pathway component, cryptic 3665335 gspE 7130081 gspE Escherichia coli S88 general secretory pathway component, cryptic YP_002393300.1 3663854 D 585035 CDS YP_002393301.1 218560388 7130082 3665332..3666528 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96256608, 7896718; Product type t : transporter; general secretory pathway component, cryptic 3666528 gspF 7130082 gspF Escherichia coli S88 general secretory pathway component, cryptic YP_002393301.1 3665332 D 585035 CDS YP_002393302.1 218560389 7130083 3666538..3666975 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 95204361, 96256608; Product type t : transporter; pseudopilin, cryptic, general secretion pathway 3666975 gspG 7130083 gspG Escherichia coli S88 pseudopilin, cryptic, general secretion pathway YP_002393302.1 3666538 D 585035 CDS YP_002393303.1 218560390 7130084 3666983..3667492 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96256608; Product type pt : putative transporter; putative general secretory pathway component, cryptic 3667492 gspH 7130084 gspH Escherichia coli S88 putative general secretory pathway component, cryptic YP_002393303.1 3666983 D 585035 CDS YP_002393304.1 218560391 7130085 3667489..3667884 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96256608, 1588814; Product type t : transporter; general secretory pathway component, cryptic 3667884 gspI 7130085 gspI Escherichia coli S88 general secretory pathway component, cryptic YP_002393304.1 3667489 D 585035 CDS YP_002393305.1 218560392 7128866 3667877..3668464 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96256608; Product type pt : putative transporter; putative general secretory pathway component, cryptic 3668464 gspJ 7128866 gspJ Escherichia coli S88 putative general secretory pathway component, cryptic YP_002393305.1 3667877 D 585035 CDS YP_002393306.1 218560393 7128867 3668457..3669440 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96256608; Product type t : transporter; general secretory pathway component, cryptic 3669440 gspK 7128867 gspK Escherichia coli S88 general secretory pathway component, cryptic YP_002393306.1 3668457 D 585035 CDS YP_002393307.1 218560394 7128868 3669455..3670618 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96256608; Product type t : transporter; general secretory pathway component, cryptic 3670618 gspL 7128868 gspL Escherichia coli S88 general secretory pathway component, cryptic YP_002393307.1 3669455 D 585035 CDS YP_002393308.1 218560395 7128869 3670615..3671076 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 96099298, 96256608, 7959070; Product type t : transporter; general secretory pathway component, cryptic 3671076 gspM 7128869 gspM Escherichia coli S88 general secretory pathway component, cryptic YP_002393308.1 3670615 D 585035 CDS YP_002393309.1 218560396 7128870 3671076..3671753 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95047556, 96256608, 98175453, 1676385, 2661540, 7959070; Product type e : enzyme; bifunctional prepilin leader peptidase and methylase 3671753 gspO 7128870 gspO Escherichia coli S88 bifunctional prepilin leader peptidase and methylase YP_002393309.1 3671076 D 585035 CDS YP_002393310.1 218560397 7128871 complement(3671782..3672258) 1 NC_011742.1 iron storage protein; bacterioferritin 3672258 bfr 7128871 bfr Escherichia coli S88 bacterioferritin YP_002393310.1 3671782 R 585035 CDS YP_002393311.1 218560398 7129112 complement(3672330..3672524) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8954950, 9889981, 2661540, 8639572; Product type c : carrier; bacterioferritin-associated ferredoxin 3672524 bfd 7129112 bfd Escherichia coli S88 bacterioferritin-associated ferredoxin YP_002393311.1 3672330 R 585035 CDS YP_002393312.1 218560399 7129111 complement(3672693..3675395) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10760150, 10419961, 2661540; Product type e : enzyme; periplasmic endochitinase 3675395 chiA 7129111 chiA Escherichia coli S88 periplasmic endochitinase YP_002393312.1 3672693 R 585035 CDS YP_002393313.1 218560400 7131903 complement(3675687..3676871) 1 NC_011742.1 EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu; elongation factor Tu 3676871 tufA 7131903 tufA Escherichia coli S88 elongation factor Tu YP_002393313.1 3675687 R 585035 CDS YP_002393314.1 218560401 7130366 complement(3676942..3679056) 1 NC_011742.1 EF-G; promotes GTP-dependent translocation of the ribosome during translation; many organisms have multiple copies of this gene; elongation factor G 3679056 fusA 7130366 fusA Escherichia coli S88 elongation factor G YP_002393314.1 3676942 R 585035 CDS YP_002393315.1 218560402 7132157 complement(3679153..3679623) 1 NC_011742.1 binds directly to 16S rRNA where it nucleates assembly of the head domain of the 30S subunit; 30S ribosomal protein S7 3679623 rpsG 7132157 rpsG Escherichia coli S88 30S ribosomal protein S7 YP_002393315.1 3679153 R 585035 CDS YP_002393316.1 218560403 7133790 complement(3679720..3680094) 1 NC_011742.1 interacts with and stabilizes bases of the 16S rRNA that are involved in tRNA selection in the A site and with the mRNA backbone; located at the interface of the 30S and 50S subunits, it traverses the body of the 30S subunit contacting proteins on the other side; mutations in the S12 gene confer streptomycin resistance; 30S ribosomal protein S12 3680094 rpsL 7133790 rpsL Escherichia coli S88 30S ribosomal protein S12 YP_002393316.1 3679720 R 585035 CDS YP_002393317.1 218560404 7133795 complement(3680220..3680507) 1 NC_011742.1 in Escherichai coli the heterohexameric TusBCD complex is involved in sulfur related that results in thiouridation to U34 position in some tRNAs; sulfur transfer complex subunit TusB 3680507 tusB 7133795 tusB Escherichia coli S88 sulfur transfer complex subunit TusB YP_002393317.1 3680220 R 585035 CDS YP_002393318.1 218560405 7130370 complement(3680514..3680873) 1 NC_011742.1 in Escherichai coli the heterohexameric TusBCD complex is involved in sulfur related that results in thiouridation to U34 position in some tRNAs; sulfur relay protein TusC 3680873 tusC 7130370 tusC Escherichia coli S88 sulfur relay protein TusC YP_002393318.1 3680514 R 585035 CDS YP_002393319.1 218560406 7130371 complement(3680873..3681259) 1 NC_011742.1 in Escherichai coli the heterohexameric TusBCD complex is involved in sulfur related that results in thiouridation to U34 position in some tRNAs; sulfur transfer complex subunit TusD 3681259 tusD 7130371 tusD Escherichia coli S88 sulfur transfer complex subunit TusD YP_002393319.1 3680873 R 585035 CDS YP_002393320.1 218560407 7130372 complement(3681259..3681981) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3681981 yheO 7130372 yheO Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393320.1 3681259 R 585035 CDS YP_002393321.1 218560408 7132276 complement(3682148..3682960) 1 NC_011742.1 rotamase; FKBP-type peptidyl-prolyl cis-trans isomerase 3682960 fkpA 7132276 fkpA Escherichia coli S88 FKBP-type peptidyl-prolyl cis-trans isomerase YP_002393321.1 3682148 R 585035 CDS YP_002393322.1 218560409 7129509 3683181..3683399 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3683399 slyX 7129509 slyX Escherichia coli S88 hypothetical protein YP_002393322.1 3683181 D 585035 CDS YP_002393323.1 218560410 7130610 complement(3683448..3684038) 1 NC_011742.1 rotamase; FKBP-type peptidyl-prolyl cis-trans isomerase 3684038 slyD 7130610 slyD Escherichia coli S88 FKBP-type peptidyl-prolyl cis-trans isomerase YP_002393323.1 3683448 R 585035 CDS YP_002393324.1 218560411 7130609 complement(3684133..3684333) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3684333 yheV 7130609 yheV Escherichia coli S88 hypothetical protein YP_002393324.1 3684133 R 585035 CDS YP_002393325.1 218560412 7132281 complement(3684343..3686148) 1 NC_011742.1 involved in potassium efflux; glutathione-regulated potassium-efflux system protein KefB 3686148 kefB 7132281 kefB Escherichia coli S88 glutathione-regulated potassium-efflux system protein KefB YP_002393325.1 3684343 R 585035 CDS YP_002393326.1 218560413 7130454 complement(3686148..3686702) 1 NC_011742.1 required for KefB activity; glutathione-regulated potassium-efflux system ancillary protein KefG 3686702 kefG 7130454 kefG Escherichia coli S88 glutathione-regulated potassium-efflux system ancillary protein KefG YP_002393326.1 3686148 R 585035 CDS YP_002393327.1 218560414 7130457 3686830..3688743 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC transporter ATP-binding protein 3688743 yheS 7130457 yheS Escherichia coli S88 putative ABC transporter ATP-binding protein YP_002393327.1 3686830 D 585035 CDS YP_002393328.1 218560415 7132277 3688743..3689765 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9889164; Product type pe : putative enzyme; putative hydrolase 3689765 yheT 7132277 yheT Escherichia coli S88 putative hydrolase YP_002393328.1 3688743 D 585035 CDS YP_002393329.1 218560416 7132278 3689759..3689977 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3689977 yheU 7132278 yheU Escherichia coli S88 hypothetical protein YP_002393329.1 3689759 D 585035 CDS YP_002393330.1 218560417 7129679 3690031..3690900 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 2559876; Product type e : enzyme; phosphoribulokinase 3690900 prkB 7129679 prkB Escherichia coli S88 phosphoribulokinase YP_002393330.1 3690031 D 585035 CDS YP_002393331.1 218560418 7130779 complement(3690955..3691359) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3691359 yhfA 7130779 yhfA Escherichia coli S88 hypothetical protein YP_002393331.1 3690955 R 585035 CDS YP_002393332.1 218560419 7131967 3691439..3691654 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 3691654 7131967 ECS88_3747 Escherichia coli S88 hypothetical protein YP_002393332.1 3691439 D 585035 CDS YP_002393333.1 218560420 7132893 3691661..3692293 1 NC_011742.1 complexes with cyclic AMP and binds to specific DNA sites near the promoter to regulate the transcription of several catabolite-sensitive operons; cAMP-regulatory protein 3692293 crp 7132893 crp Escherichia coli S88 cAMP-regulatory protein YP_002393333.1 3691661 D 585035 CDS YP_002393334.1 218560421 7131966 3692332..3694434 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3694434 yhfK 7131966 yhfK Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393334.1 3692332 D 585035 CDS YP_002393335.1 218560422 7132284 complement(3694501..3695721) 1 NC_011742.1 DapATase; bifunctional enzyme that functions in arginine and lysine biosynthetic pathways; catalyzes the formation of N-acetyl-L-glutamate 5-semialdehyde from 2-oxoglutarate and N(2)-acetyl-L-ornithine or N-succinyl-2-L-amino-6-oxoheptanedioate from 2-oxoglutarate and N-succinyl-L-2,6-diaminoheptanedioate; bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein 3695721 argD 7132284 argD Escherichia coli S88 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein YP_002393335.1 3694501 R 585035 CDS YP_002393336.1 218560423 7133094 complement(3695807..3696370) 1 NC_011742.1 aminodeoxychorismate synthase subunit PabA; with PabB catalyzes the formation of 4-amino-4-deoxychorismate from chorismate and glutamine in para-aminobenzoate synthesis; PabA provides the glutamine amidotransferase activity; para-aminobenzoate synthase component II 3696370 pabA 7133094 pabA Escherichia coli S88 para-aminobenzoate synthase component II YP_002393336.1 3695807 R 585035 CDS YP_002393337.1 218560424 7133153 complement(3696402..3697004) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92021789, 94095125, 2007139, 2403545, 2546924, 7549107; Product type cp : cell process; cell filamentation protein Fic 3697004 fic 7133153 fic Escherichia coli S88 cell filamentation protein Fic YP_002393337.1 3696402 R 585035 CDS YP_002393338.1 218560425 7129489 complement(3696994..3697161) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3697161 yhfG 7129489 yhfG Escherichia coli S88 hypothetical protein YP_002393338.1 3696994 R 585035 CDS YP_002393339.1 218560426 7132283 complement(3697266..3697838) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90272647, 91175755, 1606970, 2001362, 2007139, 2190212, 2403545, 2546924, 8130188, 8180197; Product type e : enzyme; peptidyl-prolyl cis-trans isomerase A (rotamase A) 3697838 ppiA 7132283 ppiA Escherichia coli S88 peptidyl-prolyl cis-trans isomerase A (rotamase A) YP_002393339.1 3697266 R 585035 CDS YP_002393340.1 218560427 7130760 3698108..3699289 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 20509826; Product type pt : putative transporter; hypothetical protein 3699289 tsgA 7130760 tsgA Escherichia coli S88 hypothetical protein YP_002393340.1 3698108 D 585035 CDS YP_002393341.1 218560428 7130359 3699551..3702094 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93062014, 2200672, 2445993, 2543955; Product type e : enzyme; nitrite reductase, large subunit, NAD(P) H-binding 3702094 nirB 7130359 nirB Escherichia coli S88 nitrite reductase, large subunit, NAD(P) H-binding YP_002393341.1 3699551 D 585035 CDS YP_002393342.1 218560429 7129717 3702091..3702417 1 NC_011742.1 involved in reducing nitrite to ammonium to detoxify nitrite accumulation in anaerobic nitrate-respiring cells and regenerate NAD+; bounds to NirB, the cytoplasmic subunit, whose expression is induced at high nitrate concentrations; nitrite reductase small subunit 3702417 nirD 7129717 nirD Escherichia coli S88 nitrite reductase small subunit YP_002393342.1 3702091 D 585035 CDS YP_002393343.1 218560430 7129719 3702543..3703349 1 NC_011742.1 member of the FNT family of formate and nitrite transporters; nitrite transporter NirC 3703349 nirC 7129719 nirC Escherichia coli S88 nitrite transporter NirC YP_002393343.1 3702543 D 585035 CDS YP_002393344.1 218560431 7129718 3703368..3704741 1 NC_011742.1 multifunction enzyme consisting of uroporphyrin-III C-methyltransferase, precorrin-2 dehydrogenase and sirohydrochlorin ferrochelatase; catalyzes the methylation of uroporphyrinogen III to form precorrin-2, then catalyzes formation of sirohydrochlorin from precorrin-2 and finally catalyzed the formation of siroheme from sirohydrochlorin; siroheme synthase 3704741 cysG 7129718 cysG Escherichia coli S88 siroheme synthase YP_002393344.1 3703368 D 585035 CDS YP_002393345.1 218560432 7130538 3704993..3705160 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative secreted peptide 3705160 yhfL 7130538 yhfL Escherichia coli S88 conserved hypothetical protein; putative secreted peptide YP_002393345.1 3704993 D 585035 CDS YP_002393346.1 218560433 7132285 complement(3705268..3706353) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3706353 yhfS 7132285 yhfS Escherichia coli S88 hypothetical protein YP_002393346.1 3705268 R 585035 CDS YP_002393347.1 218560434 7132286 complement(3706365..3707669) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3707669 yhfT 7132286 yhfT Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393347.1 3706365 R 585035 CDS YP_002393348.1 218560435 7132287 complement(3707681..3708034) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3708034 yhfU 7132287 yhfU Escherichia coli S88 hypothetical protein YP_002393348.1 3707681 R 585035 CDS YP_002393349.1 218560436 7132288 complement(3708045..3708923) 1 NC_011742.1 phosphotriesterase homology protein; PhP; YhfV; member of a family of proteins related to phosphotriesterase (PTE); putative hydrolase 3708923 php 7132288 php Escherichia coli S88 putative hydrolase YP_002393349.1 3708045 R 585035 CDS YP_002393350.1 218560437 7133730 complement(3708920..3710146) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative mutase 3710146 yhfW 7133730 yhfW Escherichia coli S88 putative mutase YP_002393350.1 3708920 R 585035 CDS YP_002393351.1 218560438 7132289 complement(3710147..3711310) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative amino acid racemase 3711310 yhfX 7132289 yhfX Escherichia coli S88 putative amino acid racemase YP_002393351.1 3710147 R 585035 CDS YP_002393352.1 218560439 7132290 complement(3711394..3711756) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3711756 yhfY 7132290 yhfY Escherichia coli S88 hypothetical protein YP_002393352.1 3711394 R 585035 CDS YP_002393353.1 218560440 7132291 complement(3711773..3712678) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3712678 yhfZ 7132291 yhfZ Escherichia coli S88 hypothetical protein YP_002393353.1 3711773 R 585035 CDS YP_002393354.1 218560441 7132292 complement(3712838..3713842) 1 NC_011742.1 catalyzes a two-step reaction, first charging a tryptophan molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; tryptophanyl-tRNA synthetase 3713842 trpS 7132292 trpS Escherichia coli S88 tryptophanyl-tRNA synthetase YP_002393354.1 3712838 R 585035 CDS YP_002393355.1 218560442 7130350 complement(3713835..3714593) 1 NC_011742.1 catalyzes the dephosphorylation of 2-phosphoglycolate to form glycolate and phosphate; phosphoglycolate phosphatase 3714593 gph 7130350 gph Escherichia coli S88 phosphoglycolate phosphatase YP_002393355.1 3713835 R 585035 CDS YP_002393356.1 218560443 7130060 complement(3714586..3715263) 1 NC_011742.1 catalyzes the interconversion of D-ribulose 5-phosphate to xylulose 5-phosphate; ribulose-phosphate 3-epimerase 3715263 rpe 7130060 rpe Escherichia coli S88 ribulose-phosphate 3-epimerase YP_002393356.1 3714586 R 585035 CDS YP_002393357.1 218560444 7132758 complement(3715281..3716117) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90136529, 92262475, 92272672, 2549371, 6300769, 7603433, 8341592; Product type e : enzyme; DNA adenine methylase 3716117 dam 7132758 dam Escherichia coli S88 DNA adenine methylase YP_002393357.1 3715281 R 585035 CDS YP_002393358.1 218560445 7130561 complement(3716224..3717510) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3717510 damX 7130561 damX Escherichia coli S88 hypothetical protein YP_002393358.1 3716224 R 585035 CDS YP_002393359.1 218560446 7130562 complement(3717602..3718690) 1 NC_011742.1 catalyzes the formation of 3-dehydroquinate from 3-deoxy-arabino-heptulonate 7-phosphate; functions in aromatic amino acid biosynthesis; 3-dehydroquinate synthase 3718690 aroB 7130562 aroB Escherichia coli S88 3-dehydroquinate synthase YP_002393359.1 3717602 R 585035 CDS YP_002393360.1 218560447 7131860 complement(3718747..3719268) 1 NC_011742.1 type I enzyme similar to type II but differentially regulated; major shikimate kinase in fully repressed cells; catalyzes the formation of shikimate 3-phosphate from shikimate in aromatic amino acid biosynthesis; shikimate kinase I 3719268 aroK 7131860 aroK Escherichia coli S88 shikimate kinase I YP_002393360.1 3718747 R 585035 CDS YP_002393361.1 218560448 7129929 complement(3719669..3720907) 1 NC_011742.1 outer membrane porin probably involved in uptake of extracellular double-stranded DNA; similar to outer membrane competence protein ComE from Haemophilus influenzae and outer membrane protein PilQ involved in type IV pilus production from Pseudomonas aeruginosa; outer membrane porin HofQ 3720907 hofQ 7129929 hofQ Escherichia coli S88 outer membrane porin HofQ YP_002393361.1 3719669 R 585035 CDS YP_002393362.1 218560449 7128939 complement(3720819..3721223) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3721223 yrfA 7128939 yrfA Escherichia coli S88 hypothetical protein YP_002393362.1 3720819 R 585035 CDS YP_002393363.1 218560450 7132137 complement(3721213..3721653) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 3721653 yrfB 7132137 yrfB Escherichia coli S88 hypothetical protein YP_002393363.1 3721213 R 585035 CDS YP_002393364.1 218560451 7132138 complement(3721637..3722176) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative fimbrial assembly protein (pilN-like) 3722176 yrfC 7132138 yrfC Escherichia coli S88 putative fimbrial assembly protein (pilN-like) YP_002393364.1 3721637 R 585035 CDS YP_002393365.1 218560452 7132139 complement(3722176..3722955) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative pilus assembly protein 3722955 yrfD 7132139 yrfD Escherichia coli S88 putative pilus assembly protein YP_002393365.1 3722176 R 585035 CDS YP_002393366.1 218560453 7132140 3723075..3725627 1 NC_011742.1 bifunctional murein transglycosylase/murein transpeptidase; penicillin-binding protein 1A; involved in the synthesis of cross-linked peptidoglycan from the lipid intermediates in cell wall formation; penicillin-insensitive transglycosylase catalyzes the formation of linear glycan strands and the penicillin-sensitive transpeptidase catalyzes the cross-linking of the peptide subunits; peptidoglycan synthetase 3725627 mrcA 7132140 mrcA Escherichia coli S88 peptidoglycan synthetase YP_002393366.1 3723075 D 585035 CDS YP_002393367.1 218560454 7129605 complement(3725793..3726353) 1 NC_011742.1 ADP-sugar pyrophosphatase; catalyzes the formation of D-ribose 5-phosphate from ADP-ribose; can also act on ADP-mannose and ADP-glucose; ADP-ribose diphosphatase NudE 3726353 nudE 7129605 nudE Escherichia coli S88 ADP-ribose diphosphatase NudE YP_002393367.1 3725793 R 585035 CDS YP_002393368.1 218560455 7129753 3726673..3728808 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 11553591; Product type r : regulator; intracellular growth attenuator protein 3728808 igaA 7129753 igaA Escherichia coli S88 intracellular growth attenuator protein YP_002393368.1 3726673 D 585035 CDS YP_002393369.1 218560456 7131615 3728873..3729541 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative hydrolase 3729541 yrfG 7131615 yrfG Escherichia coli S88 putative hydrolase YP_002393369.1 3728873 D 585035 CDS YP_002393370.1 218560457 7132141 3729552..3729953 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9867837, 10675343, 10675344; Product type f : factor; ribosome-associated heat shock protein Hsp15 3729953 hslR 7132141 hslR Escherichia coli S88 ribosome-associated heat shock protein Hsp15 YP_002393370.1 3729552 D 585035 CDS YP_002393371.1 218560458 7131395 3729978..3730856 1 NC_011742.1 becomes active under oxidative stress; four conserved cysteines bind a zinc atom when they are in the reduced state and the enzyme is inactive; oxidative stress results in oxidized cysteines, release of zinc, and binding of Hsp33 to aggregation-prone proteins; forms dimers and higher order oligomers; Hsp33-like chaperonin 3730856 hslO 7131395 hslO Escherichia coli S88 Hsp33-like chaperonin YP_002393371.1 3729978 D 585035 CDS YP_002393372.1 218560459 7131394 complement(3730919..3732643) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 20223645; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3732643 yhgE 7131394 yhgE Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393372.1 3730919 R 585035 CDS YP_002393373.1 218560460 7132294 complement(3732719..3732850) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3732850 7132294 ECS88_3789 Escherichia coli S88 hypothetical protein YP_002393373.1 3732719 R 585035 CDS YP_002393374.1 218560461 7132894 3733022..3734644 1 NC_011742.1 PEP carboxykinase; PEP carboxylase; PEPCK; catalyzes the phosphorylation and decarboxylation of oxaloacetate to form phosphoenolpyruvate using ATP; phosphoenolpyruvate carboxykinase 3734644 pck 7132894 pck Escherichia coli S88 phosphoenolpyruvate carboxykinase YP_002393374.1 3733022 D 585035 CDS YP_002393375.1 218560462 7133177 complement(3734720..3736072) 1 NC_011742.1 membrane-localized osmosensor; histidine kinase; in high osmolarity EnvZ autophosphorylates itself and transfers phosphoryl group to OmpR; osmolarity sensor protein 3736072 envZ 7133177 envZ Escherichia coli S88 osmolarity sensor protein YP_002393375.1 3734720 R 585035 CDS YP_002393376.1 218560463 7132408 complement(3736069..3736788) 1 NC_011742.1 part of two-component system EnvZ/OmpR; regulates transcription of outer membrane porin genes ompC/F; under high osmolarity EnvZ functions as kinase/phosphotransferase and phosphorylates OmpR; the result is increased expression of ompC and repression of ompF; also functions in regulation of other genes; forms dimers upon phosphorylation; osmolarity response regulator 3736788 ompR 7132408 ompR Escherichia coli S88 osmolarity response regulator YP_002393376.1 3736069 R 585035 CDS YP_002393377.1 218560464 7133128 3737016..3737492 1 NC_011742.1 necessary for efficient RNA polymerase transcription elongation past template-encoded arresting sites; arresting sites in DNA have the property of trapping a certain fraction of elongating RNA polymerases that pass through, resulting in locked ternary complexes. Cleavage of the nascent transcript by cleavage factors such as GreA or GreB allows the resumption of elongation from the new 3'terminus; transcription elongation factor GreB 3737492 greB 7133128 greB Escherichia coli S88 transcription elongation factor GreB YP_002393377.1 3737016 D 585035 CDS YP_002393378.1 218560465 7130069 3737589..3739910 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8755871; Product type f : factor; transcriptional accessory protein 3739910 yhgF 7130069 yhgF Escherichia coli S88 transcriptional accessory protein YP_002393378.1 3737589 D 585035 CDS YP_002393379.1 218560466 7132295 3740350..3740577 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94012482, 8407793; Product type t : transporter; ferrous iron transport protein A 3740577 feoA 7132295 feoA Escherichia coli S88 ferrous iron transport protein A YP_002393379.1 3740350 D 585035 CDS YP_002393380.1 218560467 7129469 3740594..3742915 1 NC_011742.1 cytoplasmic membrane ferrous uptake system permease; mutations disrupt the ability of Escherichia coli to take up ferrous iron; GTP-binding protein which requires GTP for efficient iron(II) uptake; ferrous iron transport protein B 3742915 feoB 7129469 feoB Escherichia coli S88 ferrous iron transport protein B YP_002393380.1 3740594 D 585035 CDS YP_002393381.1 218560468 7129470 3742926..3743162 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3743162 yhgG 7129470 yhgG Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393381.1 3742926 D 585035 CDS YP_002393382.1 218560469 7132296 3743365..3744258 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2678009; Product type ph : phenotype; hypothetical protein 3744258 yhgA 7132296 yhgA Escherichia coli S88 hypothetical protein YP_002393382.1 3743365 D 585035 CDS YP_002393383.1 218560470 7132293 complement(3744478..3745248) 1 NC_011742.1 Shows carboxylesterase activity with a preference for short chain fatty acid esters; involved in pimeloyl-CoA synthesis; carboxylesterase BioH 3745248 bioH 7132293 bioH Escherichia coli S88 carboxylesterase BioH YP_002393383.1 3744478 R 585035 CDS YP_002393384.1 218560471 7129125 3745286..3745969 1 NC_011742.1 involved in high-affinity gluconate transport; gluconate periplasmic binding protein 3745969 gntX 7129125 gntX Escherichia coli S88 gluconate periplasmic binding protein YP_002393384.1 3745286 D 585035 CDS YP_002393385.1 218560472 7130055 3746028..3746603 1 NC_011742.1 cytoplasmic protein that may be involved in the utilization of double-stranded DNA as a carbon source; putative DNA uptake protein 3746603 gntY 7130055 gntY Escherichia coli S88 putative DNA uptake protein YP_002393385.1 3746028 D 585035 CDS YP_002393386.1 218560473 7130056 3746964..3748280 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 172599, 4574689, 4582156, 93139975, 97141270, 98019089, 2845225, 3040894, 7984428, 9045817; Product type t : transporter; gluconate transporter, high-affinity GNT I system 3748280 gntT 7130056 gntT Escherichia coli S88 gluconate transporter, high-affinity GNT I system YP_002393386.1 3746964 D 585035 CDS YP_002393387.1 218560474 7130053 complement(3748325..3750409) 1 NC_011742.1 amylomaltase; acts to release glucose from maltodextrins; 4-alpha-glucanotransferase 3750409 malQ 7130053 malQ Escherichia coli S88 4-alpha-glucanotransferase YP_002393387.1 3748325 R 585035 CDS YP_002393388.1 218560475 7129413 complement(3750419..3752812) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89033892, 10220320, 10469642, 2845225, 3037809, 3155826, 6283313, 6339728, 6986282, 9009262; Product type e : enzyme; maltodextrin phosphorylase 3752812 malP 7129413 malP Escherichia coli S88 maltodextrin phosphorylase YP_002393388.1 3750419 R 585035 CDS YP_002393389.1 218560476 7129412 3753435..3756140 1 NC_011742.1 Positively regulates the transcription of the maltose regulon whose gene products are responsible for uptake and catabolism of malto-oligosaccharides; transcriptional regulator MalT 3756140 malT 7129412 malT Escherichia coli S88 transcriptional regulator MalT YP_002393389.1 3753435 D 585035 CDS YP_002393390.1 218560477 7129415 complement(3756183..3757199) 1 NC_011742.1 catalyzes the conversion of terminal3'-phosphate of RNA to the 2',3'-cyclicphosphodiester; RNA 3'-terminal-phosphate cyclase 3757199 rtcA 7129415 rtcA Escherichia coli S88 RNA 3'-terminal-phosphate cyclase YP_002393390.1 3756183 R 585035 CDS YP_002393391.1 218560478 7133830 complement(3757203..3758429) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 9738023; hypothetical protein 3758429 rtcB 7133830 rtcB Escherichia coli S88 hypothetical protein YP_002393391.1 3757203 R 585035 CDS YP_002393392.1 218560479 7133106 complement(3760197..3760955) 1 NC_011742.1 represses the glpD, glpFK, glpTQ, and glpACB operons involved in glycerol-3-phosphate metabolism; DNA-binding transcriptional repressor GlpR 3760955 glpR 7133106 glpR Escherichia coli S88 DNA-binding transcriptional repressor GlpR YP_002393392.1 3760197 R 585035 CDS YP_002393393.1 218560480 7130026 complement(3760972..3761802) 1 NC_011742.1 protease responsible for the cleavage between Ser and Asp residues of proteins in regions of high local hydrophilicity; intramembrane serine protease GlpG 3761802 glpG 7130026 glpG Escherichia coli S88 intramembrane serine protease GlpG YP_002393393.1 3760972 R 585035 CDS YP_002393394.1 218560481 7130023 complement(3761847..3762173) 1 NC_011742.1 belongs to rhodanese family; thiosulfate thiotransferase; in Escherichia coli this enzyme catalyzes the formation of thiocyanate from thiosulfate and cyanide with low efficiency; contains an active site cysteine; thiosulfate sulfurtransferase 3762173 glpE 7130023 glpE Escherichia coli S88 thiosulfate sulfurtransferase YP_002393394.1 3761847 R 585035 CDS YP_002393395.1 218560482 7130021 3762363..3763868 1 NC_011742.1 in Escherichia coli this homodimeric enzyme is expressed under aerobic conditions; anaerobic expression is repressed by the arcAB system; converts sn-glycerol-3-phosphate and ubiquinone-8 to dihydroxy acetone phosphate and ubiquinol-8; associates with the cytoplasmic membrane; glycerol-3-phosphate dehydrogenase 3763868 glpD 7130021 glpD Escherichia coli S88 glycerol-3-phosphate dehydrogenase YP_002393395.1 3762363 D 585035 CDS YP_002393396.1 218560483 7130020 complement(3763922..3764527) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3764527 7130020 ECS88_3816 Escherichia coli S88 hypothetical protein YP_002393396.1 3763922 R 585035 CDS YP_002393397.1 218560484 7132895 complement(3764530..3765297) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3765297 7132895 ECS88_3817 Escherichia coli S88 hypothetical protein YP_002393397.1 3764530 R 585035 CDS YP_002393398.1 218560485 7132896 complement(3765300..3766010) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3766010 7132896 ECS88_3818 Escherichia coli S88 hypothetical protein YP_002393398.1 3765300 R 585035 CDS YP_002393399.1 218560486 7132897 complement(3766183..3767304) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15213132; Product type ps : putative structure; putative fimbrial-like adhesin protein AufG 3767304 aufG 7132897 aufG Escherichia coli S88 putative fimbrial-like adhesin protein AufG YP_002393399.1 3766183 R 585035 CDS YP_002393400.1 218560487 7129981 complement(3767319..3768119) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15213132; Product type pf : putative factor; putative fimbrial chaperone AufF 3768119 aufF 7129981 aufF Escherichia coli S88 putative fimbrial chaperone AufF YP_002393400.1 3767319 R 585035 CDS YP_002393401.1 218560488 7129980 complement(3768126..3768641) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15213132; Product type ps : putative structure; putative minor fimbrial subunit AufE 3768641 aufE 7129980 aufE Escherichia coli S88 putative minor fimbrial subunit AufE YP_002393401.1 3768126 R 585035 CDS YP_002393402.1 218560489 7129979 complement(3768586..3769158) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative minor fimbrial subunit AufD 3769158 aufD 7129979 aufD Escherichia coli S88 putative minor fimbrial subunit AufD YP_002393402.1 3768586 R 585035 CDS YP_002393403.1 218560490 7129978 complement(3769149..3771743) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15213132; Product type pf : putative factor; putative outer membrane export usher protein AufC 3771743 aufC 7129978 aufC Escherichia coli S88 putative outer membrane export usher protein AufC YP_002393403.1 3769149 R 585035 CDS YP_002393404.1 218560491 7129977 complement(3771780..3772559) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15213132; Product type pf : putative factor; putative fimbrial chaperone AufB 3772559 aufB 7129977 aufB Escherichia coli S88 putative fimbrial chaperone AufB YP_002393404.1 3771780 R 585035 CDS YP_002393405.1 218560492 7129976 complement(3772633..3773337) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15213132; Product type s : structure; Auf fimbriae major fimbrial subunit AufA 3773337 aufA 7129976 aufA Escherichia coli S88 Auf fimbriae major fimbrial subunit AufA YP_002393405.1 3772633 R 585035 CDS YP_002393406.1 218560493 7129975 complement(3773831..3776278) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88330897, 91104907, 91236706, 2645169, 2975249, 3047129, 3097003; Product type e : enzyme; glycogen phosphorylase 3776278 glgP 7129975 glgP Escherichia coli S88 glycogen phosphorylase YP_002393406.1 3773831 R 585035 CDS YP_002393407.1 218560494 7132216 complement(3776297..3777730) 1 NC_011742.1 catalyzes the formation of alpha-1,4-glucan chains from ADP-glucose; glycogen synthase 3777730 glgA 7132216 glgA Escherichia coli S88 glycogen synthase YP_002393407.1 3776297 R 585035 CDS YP_002393408.1 218560495 7132213 complement(3777730..3779025) 1 NC_011742.1 catalyzes the formation of ADP-glucose and diphosphate from ATP and alpha-D-glucose 1-phosphate; glucose-1-phosphate adenylyltransferase 3779025 glgC 7132213 glgC Escherichia coli S88 glucose-1-phosphate adenylyltransferase YP_002393408.1 3777730 R 585035 CDS YP_002393409.1 218560496 7132215 complement(3779043..3781016) 1 NC_011742.1 catalyzes the hydrolysis of the alpha-1,6-glucosidic linkages in partially depolymerized glycogen; glycogen debranching enzyme 3781016 glgX 7132215 glgX Escherichia coli S88 glycogen debranching enzyme YP_002393409.1 3779043 R 585035 CDS YP_002393410.1 218560497 7132218 complement(3781013..3783199) 1 NC_011742.1 catalyzes the transfer of a segment of a 1,4-alpha-D-glucan chain to a primary hydroxy group in a similar glucan chain; glycogen branching enzyme 3783199 glgB 7132218 glgB Escherichia coli S88 glycogen branching enzyme YP_002393410.1 3781013 R 585035 CDS YP_002393411.1 218560498 7132214 complement(3783472..3784575) 1 NC_011742.1 catalyzes the formation of 4-aspartyl phosphate from aspartate 4-semialdehyde; aspartate-semialdehyde dehydrogenase 3784575 asd 7132214 asd Escherichia coli S88 aspartate-semialdehyde dehydrogenase YP_002393411.1 3783472 R 585035 CDS YP_002393412.1 218560499 7129942 3784767..3785360 1 NC_011742.1 YhgN; Ec0197; hydrolyzes nucleoside triphosphates with an O6 atom-containing purine base to nucleoside monophosphate and pyrophosphate; seems to play a role in the elimination of aberrant purine-derived nucleotides containing the 6-keto group; shows preference for deoxyinosine triphosphate and xanthosine triphosphate over standard nucleoside triphosphates (dATP, dCTP, dGTP, and dTTP); putative dITP- and XTP- hydrolase 3785360 yhgN 7129942 yhgN Escherichia coli S88 putative dITP- and XTP- hydrolase YP_002393412.1 3784767 D 585035 CDS YP_002393413.1 218560500 7132297 complement(3785417..3786757) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8655507, 9119199, 9135111, 97141270; Product type t : transporter; low affinity gluconate transporter 3786757 gntU 7132297 gntU Escherichia coli S88 low affinity gluconate transporter YP_002393413.1 3785417 R 585035 CDS YP_002393414.1 218560501 7130054 complement(3786761..3787288) 1 NC_011742.1 thermoresistant; catalyzes the formation of 6-phospho-D-gluconate from gluconate; gluconate kinase 1 3787288 gntK 7130054 gntK Escherichia coli S88 gluconate kinase 1 YP_002393414.1 3786761 R 585035 CDS YP_002393415.1 218560502 7130050 complement(3787427..3788422) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 172599, 9135111, 93139975, 9537375, 8655507; Product type r : regulator; DNA-binding transcriptional repressor 3788422 gntR 7130050 gntR Escherichia coli S88 DNA-binding transcriptional repressor YP_002393415.1 3787427 R 585035 CDS YP_002393416.1 218560503 7130052 complement(3788515..3789210) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3789210 yhhW 7130052 yhhW Escherichia coli S88 hypothetical protein YP_002393416.1 3788515 R 585035 CDS YP_002393417.1 218560504 7132307 complement(3789333..3790370) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10493123; Product type pe : putative enzyme; putative dehydrogenase 3790370 yhhX 7132307 yhhX Escherichia coli S88 putative dehydrogenase YP_002393417.1 3789333 R 585035 CDS YP_002393418.1 218560505 7132308 3790215..3790475 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3790475 7132308 ECS88_3838 Escherichia coli S88 hypothetical protein YP_002393418.1 3790215 D 585035 CDS YP_002393419.1 218560506 7131349 3790704..3791192 1 NC_011742.1 YhhY; regulated by the fur regulator; unknown function; putative acetyltransferase YhhY 3791192 yhhY 7131349 yhhY Escherichia coli S88 putative acetyltransferase YhhY YP_002393419.1 3790704 D 585035 CDS YP_002393420.1 218560507 7132311 3792606..3793097 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3793097 yrhA 7132311 yrhA Escherichia coli S88 hypothetical protein YP_002393420.1 3792606 D 585035 CDS YP_002393421.1 218560508 7132142 3793547..3793831 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3793831 yrhB 7132142 yrhB Escherichia coli S88 hypothetical protein YP_002393421.1 3793547 D 585035 CDS YP_002393422.1 218560509 7130575 complement(3793869..3795602) 1 NC_011742.1 periplasmic enzyme; post-translationally processed into two subunits which are required for wild-type enzyme activity; cleaves the gammaglutamyl linkages of compounds such as glutathione and transfer the gammaglutamyl group to other amino acids and peptides; gamma-glutamyltranspeptidase 3795602 ggt 7130575 ggt Escherichia coli S88 gamma-glutamyltranspeptidase YP_002393422.1 3793869 R 585035 CDS YP_002393423.1 218560510 7132203 3795722..3796162 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3796162 yhhA 7132203 yhhA Escherichia coli S88 hypothetical protein YP_002393423.1 3795722 D 585035 CDS YP_002393424.1 218560511 7132298 complement(3796149..3796892) 1 NC_011742.1 hydrolyzes diesters during transport at the inner face of the cytoplasmic membrane to glycerol-3-phosphate and alcohol; induced when cells are starved for inorganic phosphate; cytoplasmic glycerophosphodiester phosphodiesterase 3796892 ugpQ 7132298 ugpQ Escherichia coli S88 cytoplasmic glycerophosphodiester phosphodiesterase YP_002393424.1 3796149 R 585035 CDS YP_002393425.1 218560512 7130397 complement(3796889..3797959) 1 NC_011742.1 part of the UgpABCE glycerol-3-phosphate uptake system; glycerol-3-phosphate transporter ATP-binding subunit 3797959 ugpC 7130397 ugpC Escherichia coli S88 glycerol-3-phosphate transporter ATP-binding subunit YP_002393425.1 3796889 R 585035 CDS YP_002393426.1 218560513 7130395 complement(3797961..3798806) 1 NC_011742.1 with UgpABC is involved in uptake of glycerol-3-phosphate; glycerol-3-phosphate transporter membrane protein 3798806 ugpE 7130395 ugpE Escherichia coli S88 glycerol-3-phosphate transporter membrane protein YP_002393426.1 3797961 R 585035 CDS YP_002393427.1 218560514 7130396 complement(3798803..3799690) 1 NC_011742.1 with UgpEC is involved in the uptake of glycerol-3-phosphate; glycerol-3-phosphate transporter permease 3799690 ugpA 7130396 ugpA Escherichia coli S88 glycerol-3-phosphate transporter permease YP_002393427.1 3798803 R 585035 CDS YP_002393428.1 218560515 7130393 complement(3799788..3801104) 1 NC_011742.1 with UgpACE is involved in the uptake of glycerol-3-phosphate; glycerol-3-phosphate transporter periplasmic binding protein 3801104 ugpB 7130393 ugpB Escherichia coli S88 glycerol-3-phosphate transporter periplasmic binding protein YP_002393428.1 3799788 R 585035 CDS YP_002393429.1 218560516 7130394 complement(3801501..3802214) 1 NC_011742.1 with LivGHMJ and LivGHMK is part of the high-affinity branched-chain amino acid transport system; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine; leucine/isoleucine/valine transporter ATP-binding subunit 3802214 livF 7130394 livF Escherichia coli S88 leucine/isoleucine/valine transporter ATP-binding subunit YP_002393429.1 3801501 R 585035 CDS YP_002393430.1 218560517 7129358 complement(3802216..3802983) 1 NC_011742.1 Part of the ABC transporter complexes LivFGHMJ and LivFGHMK involved in the high-affinity transport of branched-chain amino acids; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine; leucine/isoleucine/valine transporter ATP-binding subunit 3802983 livG 7129358 livG Escherichia coli S88 leucine/isoleucine/valine transporter ATP-binding subunit YP_002393430.1 3802216 R 585035 CDS YP_002393431.1 218560518 7129359 complement(3802980..3804257) 1 NC_011742.1 Part of the ABC transporter complex LivFGHMJ and LivFGHMK involved in the high-affinity transport of branched-chain amino acids; LivFGHMK is specific for the transport of leucine, while LivFGHMJ is a transporter for leucine, isoleucine, and valine; leucine/isoleucine/valine transporter permease subunit 3804257 livM 7129359 livM Escherichia coli S88 leucine/isoleucine/valine transporter permease subunit YP_002393431.1 3802980 R 585035 CDS YP_002393432.1 218560519 7129363 complement(3804254..3805180) 1 NC_011742.1 LivHMGF is the membrane component of the LIV-I/LS branched-chain amino acid transporter; branched-chain amino acid transporter permease subunit LivH 3805180 livH 7129363 livH Escherichia coli S88 branched-chain amino acid transporter permease subunit LivH YP_002393432.1 3804254 R 585035 CDS YP_002393433.1 218560520 7129360 complement(3805228..3806337) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14702302, 90307651, 2195019, 2649683, 3891753, 4077929, 9298646, 9298646; Product type t : transporter; leucine transporter subunit ; periplasmic-binding component of ABC superfamily 3806337 livK 7129360 livK Escherichia coli S88 leucine transporter subunit ; periplasmic-binding component of ABC superfamily YP_002393433.1 3805228 R 585035 CDS YP_002393434.1 218560521 7129362 3806761..3807144 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3807144 yhhK 7129362 yhhK Escherichia coli S88 hypothetical protein YP_002393434.1 3806761 D 585035 CDS YP_002393435.1 218560522 7132301 complement(3807332..3808435) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14702302, 90307651, 2195019, 2649682, 328304, 3891753, 4077929, 9298646, 10972807; Product type t : transporter; leucine/isoleucine/valine transporter subunit ; periplasmic-binding component of ABC superfamily 3808435 livJ 7132301 livJ Escherichia coli S88 leucine/isoleucine/valine transporter subunit ; periplasmic-binding component of ABC superfamily YP_002393435.1 3807332 R 585035 CDS YP_002393436.1 218560523 7129361 3809370..3809771 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative component of a paralog of phosphotransferase system, mannose/fructose-specific component IIA 3809771 7129361 ECS88_3858 Escherichia coli S88 putative component of a paralog of phosphotransferase system, mannose/fructose-specific component IIA YP_002393436.1 3809370 D 585035 CDS YP_002393437.1 218560524 7132899 3809778..3810263 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative component of a paralog of phosphotransferase system, mannose/fructose-specific component IIA 3810263 7132899 ECS88_3859 Escherichia coli S88 putative component of a paralog of phosphotransferase system, mannose/fructose-specific component IIA YP_002393437.1 3809778 D 585035 CDS YP_002393438.1 218560525 7132900 3810280..3811026 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotransferase system enzyme IIC 3811026 7132900 ECS88_3860 Escherichia coli S88 putative phosphotransferase system enzyme IIC YP_002393438.1 3810280 D 585035 CDS YP_002393439.1 218560526 7132901 3810947..3811873 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotransferase system enzyme IID 3811873 7132901 ECS88_3861 Escherichia coli S88 putative phosphotransferase system enzyme IID YP_002393439.1 3810947 D 585035 CDS YP_002393440.1 218560527 7132902 3811845..3812795 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative Phosphoglycerate dehydrogenase 3812795 7132902 ECS88_3862 Escherichia coli S88 putative Phosphoglycerate dehydrogenase YP_002393440.1 3811845 D 585035 CDS YP_002393441.1 218560528 7132903 3812795..3813679 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative paralog of dihydrodipicolinate synthase 3813679 7132903 ECS88_3863 Escherichia coli S88 putative paralog of dihydrodipicolinate synthase YP_002393441.1 3812795 D 585035 CDS YP_002393442.1 218560529 7132904 complement(3813783..3814637) 1 NC_011742.1 binds with the catalytic core of RNA polymerase to produce the holoenzyme; this sigma factor is responsible for the expression of heat shock promoters; RNA polymerase factor sigma-32 3814637 rpoH 7132904 rpoH Escherichia coli S88 RNA polymerase factor sigma-32 YP_002393442.1 3813783 R 585035 CDS YP_002393443.1 218560530 7133779 complement(3814882..3815940) 1 NC_011742.1 putative ABC transporter, membrane protein; cell division protein FtsX 3815940 ftsX 7133779 ftsX Escherichia coli S88 cell division protein FtsX YP_002393443.1 3814882 R 585035 CDS YP_002393444.1 218560531 7132143 complement(3815933..3816601) 1 NC_011742.1 putative ATP-binding protein of an ATP-binding cassette transporter; when bound to FtsX, FtsEX localizes to the cell division site and plays a role in the assembly or stability of the septal ring under low-salt growth conditions; cell division protein FtsE 3816601 ftsE 7132143 ftsE Escherichia coli S88 cell division protein FtsE YP_002393444.1 3815933 R 585035 CDS YP_002393445.1 218560532 7132848 complement(3816604..3818100) 1 NC_011742.1 signal recognition protein receptor; functions in the targeting and insertion of membrane proteins; cell division protein FtsY 3818100 ftsY 7132848 ftsY Escherichia coli S88 cell division protein FtsY YP_002393445.1 3816604 R 585035 CDS YP_002393446.1 218560533 7132144 3818250..3818846 1 NC_011742.1 catalyzes the methylation of 16S rRNA at position G966; 16S rRNA m(2)G966-methyltransferase 3818846 rsmD 7132144 rsmD Escherichia coli S88 16S rRNA m(2)G966-methyltransferase YP_002393446.1 3818250 D 585035 CDS YP_002393447.1 218560534 7132299 3818713..3819105 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3819105 7132299 ECS88_3869 Escherichia coli S88 hypothetical protein YP_002393447.1 3818713 D 585035 CDS YP_002393448.1 218560535 7132905 complement(3819108..3819467) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3819467 yhhM 7132905 yhhM Escherichia coli S88 hypothetical protein YP_002393448.1 3819108 R 585035 CDS YP_002393449.1 218560536 7132302 3819608..3820234 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3820234 yhhN 7132302 yhhN Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393449.1 3819608 D 585035 CDS YP_002393450.1 218560537 7132303 3820308..3822506 1 NC_011742.1 P-type ATPase involved in the export of lead, cadmium, zinc and mercury; zinc/cadmium/mercury/lead-transporting ATPase 3822506 zntA 7132303 zntA Escherichia coli S88 zinc/cadmium/mercury/lead-transporting ATPase YP_002393450.1 3820308 D 585035 CDS YP_002393451.1 218560538 7131886 complement(3822775..3823020) 1 NC_011742.1 TusA; transfers sulfur to TusBCD complex; involved in thiouridation of U34 position of some tRNAs; sulfur transfer protein SirA 3823020 tusA 7131886 tusA Escherichia coli S88 sulfur transfer protein SirA YP_002393451.1 3822775 R 585035 CDS YP_002393452.1 218560539 7130369 3823241..3823906 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 3823906 yhhQ 7130369 yhhQ Escherichia coli S88 hypothetical protein YP_002393452.1 3823241 D 585035 CDS YP_002393453.1 218560540 7132304 3823979..3824536 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12558182, 8752353; Product type t : transporter; hypothetical protein 3824536 dcrB 7132304 dcrB Escherichia coli S88 hypothetical protein YP_002393453.1 3823979 D 585035 CDS YP_002393454.1 218560541 7130573 complement(3824540..3825757) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; major facilitator superfamily transporter 3825757 yhhS 7130573 yhhS Escherichia coli S88 major facilitator superfamily transporter YP_002393454.1 3824540 R 585035 CDS YP_002393455.1 218560542 7132305 3825889..3826938 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3826938 yhhT 7132305 yhhT Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393455.1 3825889 D 585035 CDS YP_002393456.1 218560543 7132306 3826993..3827580 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20092861, 10625633, 8939709; Product type e : enzyme; holo-(acyl carrier protein) synthase 2 3827580 acpT 7132306 acpT Escherichia coli S88 holo-(acyl carrier protein) synthase 2 YP_002393456.1 3826993 D 585035 CDS YP_002393457.1 218560544 7132041 3827691..3829265 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12960164, 7934931, 92077434, 7867647; Product type t : transporter; nickel transporter subunit ; periplasmic-binding component of ABC superfamily 3829265 nikA 7132041 nikA Escherichia coli S88 nickel transporter subunit ; periplasmic-binding component of ABC superfamily YP_002393457.1 3827691 D 585035 CDS YP_002393458.1 218560545 7129710 3829265..3830209 1 NC_011742.1 with NikACDE is involved in nickel transport into the cell; nickel transporter permease NikB 3830209 nikB 7129710 nikB Escherichia coli S88 nickel transporter permease NikB YP_002393458.1 3829265 D 585035 CDS YP_002393459.1 218560546 7129711 3830206..3831039 1 NC_011742.1 with NikABDE is involved in nickel transport into the cell; nickel transporter permease NikC 3831039 nikC 7129711 nikC Escherichia coli S88 nickel transporter permease NikC YP_002393459.1 3830206 D 585035 CDS YP_002393460.1 218560547 7129712 3831039..3831803 1 NC_011742.1 with NikABCE is involved in nickel transport into the cell; nickel transporter ATP-binding protein NikD 3831803 nikD 7129712 nikD Escherichia coli S88 nickel transporter ATP-binding protein NikD YP_002393460.1 3831039 D 585035 CDS YP_002393461.1 218560548 7129713 3831800..3832606 1 NC_011742.1 with NikABCD is involved with nickel transport into the cell; nickel transporter ATP-binding protein NikE 3832606 nikE 7129713 nikE Escherichia coli S88 nickel transporter ATP-binding protein NikE YP_002393461.1 3831800 D 585035 CDS YP_002393462.1 218560549 7129714 3832612..3833013 1 NC_011742.1 Inhibits transcription at high concentrations of nickel; nickel responsive regulator 3833013 nikR 7129714 nikR Escherichia coli S88 nickel responsive regulator YP_002393462.1 3832612 D 585035 CDS YP_002393463.1 218560550 7129715 3833203..3833958 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 3833958 7129715 ECS88_3885 Escherichia coli S88 putative transcriptional regulator YP_002393463.1 3833203 D 585035 CDS YP_002393464.1 218560551 7132906 3833983..3834456 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotransferase system enzyme subunit IIA 3834456 7132906 ECS88_3886 Escherichia coli S88 putative phosphotransferase system enzyme subunit IIA YP_002393464.1 3833983 D 585035 CDS YP_002393465.1 218560552 7132907 3834453..3834734 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphotransferase system enzyme IIB 3834734 7132907 ECS88_3887 Escherichia coli S88 putative phosphotransferase system enzyme IIB YP_002393465.1 3834453 D 585035 CDS YP_002393466.1 218560553 7132908 3834781..3836169 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative phosphotransferase system permease component IIC 3836169 7132908 ECS88_3888 Escherichia coli S88 putative phosphotransferase system permease component IIC YP_002393466.1 3834781 D 585035 CDS YP_002393467.1 218560554 7132909 3836162..3837670 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative carbohydrate kinase 3837670 7132909 ECS88_3889 Escherichia coli S88 putative carbohydrate kinase YP_002393467.1 3836162 D 585035 CDS YP_002393468.1 218560555 7132910 3837660..3837929 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative phosphocarrier HPr protein of a carbohydrate phosphotransferase system 3837929 7132910 ECS88_3890 Escherichia coli S88 putative phosphocarrier HPr protein of a carbohydrate phosphotransferase system YP_002393468.1 3837660 D 585035 CDS YP_002393469.1 218560556 7132911 3837961..3838812 1 NC_011742.1 class II aldolase; catalyzes the reversible aldol condensation of dihydroxyacetonephosphate and glyceraldehyde 3-phosphate in the Calvin cycle, glycolysis and gluconeogenesis; putative fructose-1,6-bisphosphate aldolase 3838812 gatY 7132911 gatY Escherichia coli S88 putative fructose-1,6-bisphosphate aldolase YP_002393469.1 3837961 D 585035 CDS YP_002393470.1 218560557 7132912 complement(3838922..3840046) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter subunit: membrane component of ABC superfamily 3840046 yhhJ 7132912 yhhJ Escherichia coli S88 putative transporter subunit: membrane component of ABC superfamily YP_002393470.1 3838922 R 585035 CDS YP_002393471.1 218560558 7132300 complement(3840046..3842781) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20074572; Product type e : enzyme; fused ribosome-associated ATPase: ATP-binding protein ; ATP-binding protein ; putative membrane protein 3842781 rbbA 7132300 rbbA Escherichia coli S88 fused ribosome-associated ATPase: ATP-binding protein ; ATP-binding protein ; putative membrane protein YP_002393471.1 3840046 R 585035 CDS YP_002393472.1 218560559 7131785 complement(3842778..3843845) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative HlyD family secretion protein 3843845 yhiI 7131785 yhiI Escherichia coli S88 putative HlyD family secretion protein YP_002393472.1 3842778 R 585035 CDS YP_002393473.1 218560560 7132314 3844579..3845631 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3845631 yhiM 7132314 yhiM Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393473.1 3844579 D 585035 CDS YP_002393474.1 218560561 7132315 complement(3845718..3846911) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase with FAD/NAD(P)-binding domain 3846911 yhiN 7132315 yhiN Escherichia coli S88 putative oxidoreductase with FAD/NAD(P)-binding domain YP_002393474.1 3845718 R 585035 CDS YP_002393475.1 218560562 7132316 3847143..3848642 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87014120; Product type t : transporter; phosphate transporter, low-affinity 3848642 pitA 7132316 pitA Escherichia coli S88 phosphate transporter, low-affinity YP_002393475.1 3847143 D 585035 CDS YP_002393476.1 218560563 7133736 complement(3848713..3849048) 1 NC_011742.1 ppGpp-dependent, membrane associated, stress protein produced under conditions of nutrient deprivation, osmotic shock and oxidative stress; universal stress protein UspB 3849048 yhiO 7133736 yhiO Escherichia coli S88 universal stress protein UspB YP_002393476.1 3848713 R 585035 CDS YP_002393477.1 218560564 7132317 3849439..3849873 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12732303, 93086426, 93308072, 94203056, 10499297, 10652104, 10931298, 11157932, 1453957, 8506346, 8932299, 9298646, 9405142; Product type f : factor; universal stress global response regulator 3849873 uspA 7132317 uspA Escherichia coli S88 universal stress global response regulator YP_002393477.1 3849439 D 585035 CDS YP_002393478.1 218560565 7132453 3850190..3851659 1 NC_011742.1 member of the POT family of peptide transporters; probable proton-dependent peptide transporter function; inner membrane transporter YhiP 3851659 yhiP 7132453 yhiP Escherichia coli S88 inner membrane transporter YhiP YP_002393478.1 3850190 D 585035 CDS YP_002393479.1 218560566 7132318 complement(3851708..3852460) 1 NC_011742.1 predicted SAM-dependent methyltransferase; putative methyltransferase 3852460 yhiQ 7132318 yhiQ Escherichia coli S88 putative methyltransferase YP_002393479.1 3851708 R 585035 CDS YP_002393480.1 218560567 7132319 complement(3852468..3854510) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92394891, 1325967, 8366062; Product type e : enzyme; oligopeptidase A 3854510 prlC 7132319 prlC Escherichia coli S88 oligopeptidase A YP_002393480.1 3852468 R 585035 CDS YP_002393481.1 218560568 7130780 3854713..3855555 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11591672; Product type pe : putative enzyme; putative DNA (exogenous) processing protein 3855555 yhiR 7130780 yhiR Escherichia coli S88 putative DNA (exogenous) processing protein YP_002393481.1 3854713 D 585035 CDS YP_002393482.1 218560569 7132320 3855627..3856979 1 NC_011742.1 catalyzes the reduction of 2 glutathione to glutathione disulfide; maintains high levels of reduced glutathione in the cytosol; involved in redox regulation and oxidative defense; glutathione reductase 3856979 gor 7132320 gor Escherichia coli S88 glutathione reductase YP_002393482.1 3855627 D 585035 CDS YP_002393483.1 218560570 7130057 complement(3857033..3857182) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3857182 7130057 ECS88_3906 Escherichia coli S88 hypothetical protein YP_002393483.1 3857033 R 585035 CDS YP_002393484.1 218560571 7132913 3857138..3857317 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3857317 7132913 ECS88_3907 Escherichia coli S88 hypothetical protein YP_002393484.1 3857138 D 585035 CDS YP_002393485.1 218560572 7132914 3857650..3858075 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95355341, 7721697; Product type e : enzyme; arsenate reductase 3858075 arsC 7132914 arsC Escherichia coli S88 arsenate reductase YP_002393485.1 3857650 D 585035 CDS YP_002393486.1 218560573 7132321 3859259..3859825 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94293775, 8022277; Product type lp : lipoprotein; outer membrane lipoprotein 3859825 slp 7132321 slp Escherichia coli S88 outer membrane lipoprotein YP_002393486.1 3859259 D 585035 CDS YP_002393487.1 218560574 7130605 3859978..3860508 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8022277; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3860508 yhiF 7130605 yhiF Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393487.1 3859978 D 585035 CDS YP_002393488.1 218560575 7132313 complement(3860565..3861593) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16275907; Product type e : enzyme; Heme oxygenase 3861593 chuS 7132313 chuS Escherichia coli S88 Heme oxygenase YP_002393488.1 3860565 R 585035 CDS YP_002393489.1 218560576 7131907 complement(3861642..3863624) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11179376, 7768795, 9393841, 9680204, 9157252; Product type t : transporter; outer membrane hemin receptor 3863624 chuA 7131907 chuA Escherichia coli S88 outer membrane hemin receptor YP_002393489.1 3861642 R 585035 CDS YP_002393490.1 218560577 7131906 3864230..3865222 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7768795, 9393841, 9680204; Product type pt : putative transporter; putative periplasmic binding protein 3865222 chuT 7131906 chuT Escherichia coli S88 putative periplasmic binding protein YP_002393490.1 3864230 D 585035 CDS YP_002393491.1 218560578 7131908 3865242..3866579 1 NC_011742.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase 3866579 7131908 ECS88_3915 Escherichia coli S88 coproporphyrinogen III oxidase YP_002393491.1 3865242 D 585035 CDS YP_002393492.1 218560579 7132915 3866592..3867086 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein (chuX protein) 3867086 7132915 ECS88_3916 Escherichia coli S88 conserved hypothetical protein (chuX protein) YP_002393492.1 3866592 D 585035 CDS YP_002393493.1 218560580 7132916 3867086..3867709 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein (chuY) 3867709 7132916 ECS88_3917 Escherichia coli S88 conserved hypothetical protein (chuY) YP_002393493.1 3867086 D 585035 CDS YP_002393494.1 218560581 7132917 3867758..3868750 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative hemin transport system permease 3868750 chuU 7132917 chuU Escherichia coli S88 putative hemin transport system permease YP_002393494.1 3867758 D 585035 CDS YP_002393495.1 218560582 7131909 3868594..3869517 1 NC_011742.1 with HmuTU is involved in the transport of hemin; hemin importer ATP-binding subunit 3869517 hmuV 7131909 hmuV Escherichia coli S88 hemin importer ATP-binding subunit YP_002393495.1 3868594 D 585035 CDS YP_002393496.1 218560583 7131910 complement(3869569..3870216) 1 NC_011742.1 inner membrane protein involved in cell density-dependent acid resistance; part of the acid fitness island (AFI) of E. coli; putative Mg(2+) transport ATPase 3870216 yhiD 7131910 yhiD Escherichia coli S88 putative Mg(2+) transport ATPase YP_002393496.1 3869569 R 585035 CDS YP_002393497.1 218560584 7132312 complement(3870280..3870606) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94064579, 8885264, 12071744, 8244952, 8455549, 9298646, 9868784; Product type pf : putative factor; acid-resistance protein 3870606 hdeB 7132312 hdeB Escherichia coli S88 acid-resistance protein YP_002393497.1 3870280 R 585035 CDS YP_002393498.1 218560585 7128891 complement(3870722..3871054) 1 NC_011742.1 inactive form; acid-resistance protein 3871054 hdeA 7128891 hdeA Escherichia coli S88 acid-resistance protein YP_002393498.1 3870722 R 585035 CDS YP_002393499.1 218560586 7128890 3871309..3871881 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94064579, 8244952, 8455549; Product type pm : putative membrane component; acid-resistance membrane protein 3871881 hdeD 7128890 hdeD Escherichia coli S88 acid-resistance membrane protein YP_002393499.1 3871309 D 585035 CDS YP_002393500.1 218560587 7128892 3872680..3873207 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12399493, 12940989, 14702398; Product type r : regulator; DNA-binding transcriptional activator 3873207 gadE 7128892 gadE Escherichia coli S88 DNA-binding transcriptional activator YP_002393500.1 3872680 D 585035 CDS YP_002393501.1 218560588 7132166 3873546..3874703 1 NC_011742.1 with MdtF and tolC is involved in resistance to rhodamine 6G, erythromycin, doxorubicin and other compounds; multidrug efflux system protein MdtE 3874703 mdtE 7132166 mdtE Escherichia coli S88 multidrug efflux system protein MdtE YP_002393501.1 3873546 D 585035 CDS YP_002393502.1 218560589 7128793 3874728..3877841 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21450803; Product type t : transporter; multidrug transporter, RpoS-dependent 3877841 mdtF 7128793 mdtF Escherichia coli S88 multidrug transporter, RpoS-dependent YP_002393502.1 3874728 D 585035 CDS YP_002393503.1 218560590 7128794 complement(3878204..3878932) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12446650; Product type r : regulator; DNA-binding transcriptional activator 3878932 gadW 7128794 gadW Escherichia coli S88 DNA-binding transcriptional activator YP_002393503.1 3878204 R 585035 CDS YP_002393504.1 218560591 7132169 complement(3879301..3880125) 1 NC_011742.1 regulates genes in response to acid and/or during stationary phase; DNA-binding transcriptional regulator GadX 3880125 gadX 7132169 gadX Escherichia coli S88 DNA-binding transcriptional regulator GadX YP_002393504.1 3879301 R 585035 CDS YP_002393505.1 218560592 7132168 complement(3880493..3881893) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92155241, 92394884, 99406302, 1522060, 1740158, 7764225, 9298646; Product type e : enzyme; glutamate decarboxylase A, PLP-dependent 3881893 gadA 7132168 gadA Escherichia coli S88 glutamate decarboxylase A, PLP-dependent YP_002393505.1 3880493 R 585035 CDS YP_002393506.1 218560593 7132163 complement(3882104..3883501) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8163487, 14563563; Product type e : enzyme; cytochrome C peroxidase (cpp-like) 3883501 yhjA 7132163 yhjA Escherichia coli S88 cytochrome C peroxidase (cpp-like) YP_002393506.1 3882104 R 585035 CDS YP_002393507.1 218560594 7132322 3883906..3885555 1 NC_011742.1 cytoplasmic; catalyzes the hydrolysis of trehalose to glucose; trehalase 3885555 treF 7132322 treF Escherichia coli S88 trehalase YP_002393507.1 3883906 D 585035 CDS YP_002393508.1 218560595 7130330 complement(3885606..3886208) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding response regulator in two-component regulatory system 3886208 yhjB 7130330 yhjB Escherichia coli S88 putative DNA-binding response regulator in two-component regulatory system YP_002393508.1 3885606 R 585035 CDS YP_002393509.1 218560596 7132323 3886656..3887627 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 3887627 yhjC 7132323 yhjC Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393509.1 3886656 D 585035 CDS YP_002393510.1 218560597 7132324 3887676..3888689 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3888689 yhjD 7132324 yhjD Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393510.1 3887676 D 585035 CDS YP_002393511.1 218560598 7132325 3889082..3890404 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 3890404 yhjE 7132325 yhjE Escherichia coli S88 putative transporter YP_002393511.1 3889082 D 585035 CDS YP_002393512.1 218560599 7132326 complement(3890457..3892520) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative outer membrane biogenesis protein 3892520 yhjG 7132326 yhjG Escherichia coli S88 putative outer membrane biogenesis protein YP_002393512.1 3890457 R 585035 CDS YP_002393513.1 218560600 7132327 complement(3892575..3893342) 1 NC_011742.1 in Escherichia coli this protein is involved in flagellar function; EAL domain-containing protein 3893342 yhjH 7132327 yhjH Escherichia coli S88 EAL domain-containing protein YP_002393513.1 3892575 R 585035 CDS YP_002393514.1 218560601 7132328 3893296..3893490 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3893490 7132328 ECS88_3939 Escherichia coli S88 hypothetical protein YP_002393514.1 3893296 D 585035 CDS YP_002393515.1 218560602 7132918 3893574..3894503 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 4359651, 13813474; Product type e : enzyme; ketodeoxygluconokinase 3894503 kdgK 7132918 kdgK Escherichia coli S88 ketodeoxygluconokinase YP_002393515.1 3893574 D 585035 CDS YP_002393516.1 218560603 7130437 complement(3894599..3896095) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9298646; Product type pe : putative enzyme; putative zinc-dependent peptidase 3896095 yhjJ 7130437 yhjJ Escherichia coli S88 putative zinc-dependent peptidase YP_002393516.1 3894599 R 585035 CDS YP_002393517.1 218560604 7132329 complement(3896315..3897601) 1 NC_011742.1 involved in the transport of C4-dicarboxylates across the membrane; C4-dicarboxylate transporter DctA 3897601 dctA 7132329 dctA Escherichia coli S88 C4-dicarboxylate transporter DctA YP_002393517.1 3896315 R 585035 CDS YP_002393518.1 218560605 7130574 complement(3897784..3899733) 1 NC_011742.1 HmsP in Yersinia pestis plays a role in invasion of epithelial cells; the EAL-domain portion of HmsP from Y. pestis shows phosphodiesterase activity which is required for the inhibition of biofilm formation; inner membrane protein; similar to a putative phosphodiesterase protein from E. coli; putative phosphodiesterase 3899733 yhjK 7130574 yhjK Escherichia coli S88 putative phosphodiesterase YP_002393518.1 3897784 R 585035 CDS YP_002393519.1 218560606 7132330 complement(3899854..3903327) 1 NC_011742.1 cellulose is produced by the multicellular morphotypes of E. coli and Salmonella typhimurium; the cellulose biosynthesis genes bcsA, bcsB, bcsZ and bcsC are constitutively transcribed, however, cellulose synthesis is dependent on the expression of adrA; cellulose synthase subunit BcsC 3903327 bcsC 7132330 bcsC Escherichia coli S88 cellulose synthase subunit BcsC YP_002393519.1 3899854 R 585035 CDS YP_002393520.1 218560607 7129996 complement(3903309..3904415) 1 NC_011742.1 catalyzes the hydrolysis of 1,4-beta-D-glucosidic linkages in cellulose, lichenin and cereal beta-D-glucans; endo-1,4-D-glucanase 3904415 bcsZ 7129996 bcsZ Escherichia coli S88 endo-1,4-D-glucanase YP_002393520.1 3903309 R 585035 CDS YP_002393521.1 218560608 7130000 complement(3904422..3906761) 1 NC_011742.1 binds the cellulose synthase activator, bis-(3'-5') cyclic diguanylic acid (c-di-GMP); cellulose synthase regulator protein 3906761 bcsB 7130000 bcsB Escherichia coli S88 cellulose synthase regulator protein YP_002393521.1 3904422 R 585035 CDS YP_002393522.1 218560609 7132331 complement(3910150..3910338) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3910338 yhjR 7132331 yhjR Escherichia coli S88 hypothetical protein YP_002393522.1 3910150 R 585035 CDS YP_002393523.1 218560610 7132332 3910611..3912182 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11929533, 11260463; Product type pe : putative enzyme; putative cellulose biosynthesis protease 3912182 bcsE 7132332 bcsE Escherichia coli S88 putative cellulose biosynthesis protease YP_002393523.1 3910611 D 585035 CDS YP_002393524.1 218560611 7129997 3912179..3912370 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3912370 bcsF 7129997 bcsF Escherichia coli S88 hypothetical protein YP_002393524.1 3912179 D 585035 CDS YP_002393525.1 218560612 7129998 3912367..3914046 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11929533, 11260463; Product type pe : putative enzyme; putative cellulose biosynthesis endoglucanase 3914046 bcsG 7129998 bcsG Escherichia coli S88 putative cellulose biosynthesis endoglucanase YP_002393525.1 3912367 D 585035 CDS YP_002393526.1 218560613 7129999 complement(3914132..3914374) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12123448; Product type f : factor; toxic polypeptide, small 3914374 ldrD 7129999 ldrD Escherichia coli S88 toxic polypeptide, small YP_002393526.1 3914132 R 585035 CDS YP_002393527.1 218560614 7131801 complement(3914615..3914857) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12123448; Product type f : factor; toxic polypeptide, small 3914857 ldrD 7131801 ldrD Escherichia coli S88 toxic polypeptide, small YP_002393527.1 3914615 R 585035 CDS YP_002393528.1 218560615 7130480 complement(3915097..3915372) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12123448; Product type f : factor; toxic polypeptide, small 3915372 ldrD 7130480 ldrD Escherichia coli S88 toxic polypeptide, small YP_002393528.1 3915097 R 585035 CDS YP_002393529.1 218560616 7131802 complement(3915369..3915530) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3915530 7131802 ECS88_3958 Escherichia coli S88 hypothetical protein YP_002393529.1 3915369 R 585035 CDS YP_002393530.1 218560617 7132919 3915680..3916951 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 15901718; Product type t : transporter; transporter 3916951 yhjV 7132919 yhjV Escherichia coli S88 transporter YP_002393530.1 3915680 D 585035 CDS YP_002393531.1 218560618 7132333 complement(3916981..3917985) 1 NC_011742.1 Part of the ABC transporter complex DppABCDF involved in the transport of dipeptides; dipeptide transporter ATP-binding subunit 3917985 dppF 7132333 dppF Escherichia coli S88 dipeptide transporter ATP-binding subunit YP_002393531.1 3916981 R 585035 CDS YP_002393532.1 218560619 7130236 complement(3917982..3918965) 1 NC_011742.1 DppD and DppF are the ATP-binding components of the ABC dipeptide transport system DppABCDF; dipeptide transporter ATP-binding subunit 3918965 dppD 7130236 dppD Escherichia coli S88 dipeptide transporter ATP-binding subunit YP_002393532.1 3917982 R 585035 CDS YP_002393533.1 218560620 7130235 complement(3918976..3919878) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 7536291; Product type t : transporter; dipeptide transporter 3919878 dppC 7130235 dppC Escherichia coli S88 dipeptide transporter YP_002393533.1 3918976 R 585035 CDS YP_002393534.1 218560621 7130234 complement(3919888..3920907) 1 NC_011742.1 transports peptides consisting of two or three amino acids; dipeptide transporter permease DppB 3920907 dppB 7130234 dppB Escherichia coli S88 dipeptide transporter permease DppB YP_002393534.1 3919888 R 585035 CDS YP_002393535.1 218560622 7130233 complement(3921058..3922665) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91100289, 92065799, 1702779, 1956284, 7536291, 8527431, 8563629, 9298646, 9600841, 9740056, 10972807; Product type t : transporter; dipeptide transporter ; periplasmic-binding component of ABC superfamily 3922665 dppA 7130233 dppA Escherichia coli S88 dipeptide transporter ; periplasmic-binding component of ABC superfamily YP_002393535.1 3921058 R 585035 CDS YP_002393536.1 218560623 7129922 complement(3923574..3925265) 1 NC_011742.1 catalyzes the addition of a phosphoethanolamine group to the outer Kdo residue of lipopolysaccharide; phosphoethanolamine transferase 3925265 eptB 7129922 eptB Escherichia coli S88 phosphoethanolamine transferase YP_002393536.1 3923574 R 585035 CDS YP_002393537.1 218560624 7132414 complement(3925589..3926797) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 3926797 yhjX 7132414 yhjX Escherichia coli S88 putative transporter YP_002393537.1 3925589 R 585035 CDS YP_002393538.1 218560625 7132334 complement(3927026..3927724) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3927724 yhjY 7132334 yhjY Escherichia coli S88 hypothetical protein YP_002393538.1 3927026 R 585035 CDS YP_002393539.1 218560626 7132335 3927882..3928445 1 NC_011742.1 constitutive, catalyzes the hydrolysis of alkylated DNA, releasing 3-methyladenine; 3-methyl-adenine DNA glycosylase I 3928445 tag 7132335 tag Escherichia coli S88 3-methyl-adenine DNA glycosylase I YP_002393539.1 3927882 D 585035 CDS YP_002393540.1 218560627 7131256 3928442..3928882 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11237876; Product type pe : putative enzyme; hypothetical protein 3928882 yiaC 7131256 yiaC Escherichia coli S88 hypothetical protein YP_002393540.1 3928442 D 585035 CDS YP_002393541.1 218560628 7132338 complement(3928851..3931130) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 82119950, 90202748, 2180922, 374979; Product type e : enzyme; biotin sulfoxide reductase 3931130 bisC 7132338 bisC Escherichia coli S88 biotin sulfoxide reductase YP_002393541.1 3928851 R 585035 CDS YP_002393542.1 218560629 7129128 3931337..3931996 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative outer membrane lipoprotein 3931996 yiaD 7129128 yiaD Escherichia coli S88 putative outer membrane lipoprotein YP_002393542.1 3931337 D 585035 CDS YP_002393543.1 218560630 7132339 3932100..3933074 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15801772, 11237876, 99030322, 99357626, 9298646, 9811658; Product type e : enzyme; 2-oxo-carboxylic acid reductase (glyoxalate reductase) (2-ketoaldonate reductase) 3933074 tiaE 7132339 tiaE Escherichia coli S88 2-oxo-carboxylic acid reductase (glyoxalate reductase) (2-ketoaldonate reductase) YP_002393543.1 3932100 D 585035 CDS YP_002393544.1 218560631 7133472 complement(3933124..3933834) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3933834 yiaF 7133472 yiaF Escherichia coli S88 hypothetical protein YP_002393544.1 3933124 R 585035 CDS YP_002393545.1 218560632 7132340 3934268..3934558 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 3934558 yiaG 7132340 yiaG Escherichia coli S88 putative transcriptional regulator YP_002393545.1 3934268 D 585035 CDS YP_002393546.1 218560633 7132341 3934839..3935051 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20345064, 90115858, 94293754, 94293756, 99177178, 10696873, 1597410, 1961761, 2404279, 7515185, 8197194, 9405743, 9439003, 9692981; Product type f : factor; major cold shock protein 3935051 cspA 7132341 cspA Escherichia coli S88 major cold shock protein YP_002393546.1 3934839 D 585035 CDS YP_002393547.1 218560634 7132772 complement(3935714..3937783) 1 NC_011742.1 glycine--tRNA ligase beta chain; glyS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking the carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA; glycyl-tRNA synthetase subunit beta 3937783 glyS 7132772 glyS Escherichia coli S88 glycyl-tRNA synthetase subunit beta YP_002393547.1 3935714 R 585035 CDS YP_002393548.1 218560635 7130043 complement(3937793..3938704) 1 NC_011742.1 glycine--tRNA ligase alpha chain; GlyRS; class II aminoacyl tRNA synthetase; tetramer of alpha(2)beta(2); catalyzes a two-step reaction; first charging a glycine molecule by linking its carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA; glycyl-tRNA synthetase subunit alpha 3938704 glyQ 7130043 glyQ Escherichia coli S88 glycyl-tRNA synthetase subunit alpha YP_002393548.1 3937793 R 585035 CDS YP_002393549.1 218560636 7130042 complement(3938799..3939098) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3939098 ysaB 7130042 ysaB Escherichia coli S88 hypothetical protein YP_002393549.1 3938799 R 585035 CDS YP_002393550.1 218560637 7131863 3939273..3940268 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3940268 yiaH 7131863 yiaH Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393550.1 3939273 D 585035 CDS YP_002393551.1 218560638 7132342 complement(3940310..3940747) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 3940747 yiaA 7132342 yiaA Escherichia coli S88 hypothetical protein YP_002393551.1 3940310 R 585035 CDS YP_002393552.1 218560639 7132336 complement(3940793..3941134) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 6320721; Product type pm : putative membrane component; hypothetical protein 3941134 yiaB 7132336 yiaB Escherichia coli S88 hypothetical protein YP_002393552.1 3940793 R 585035 CDS YP_002393553.1 218560640 7132337 complement(3941303..3942757) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6330500, 92366447, 95050816, 6320721; Product type e : enzyme; xylulokinase 3942757 xylB 7132337 xylB Escherichia coli S88 xylulokinase YP_002393553.1 3941303 R 585035 CDS YP_002393554.1 218560641 7132526 complement(3942829..3944151) 1 NC_011742.1 catalyzes the interconversion of D-xylose to D-xylulose; xylose isomerase 3944151 xylA 7132526 xylA Escherichia coli S88 xylose isomerase YP_002393554.1 3942829 R 585035 CDS YP_002393555.1 218560642 7132525 3944517..3945509 1 NC_011742.1 periplasmic substrate-binding component of the ATP-dependent xylose transport system; high affinity; D-xylose transporter subunit XylF 3945509 xylF 7132525 xylF Escherichia coli S88 D-xylose transporter subunit XylF YP_002393555.1 3944517 D 585035 CDS YP_002393556.1 218560643 7130820 3945587..3947128 1 NC_011742.1 with XylFH is part of the high affinity xylose ABC transporter; xylose transporter ATP-binding subunit 3947128 xylG 7130820 xylG Escherichia coli S88 xylose transporter ATP-binding subunit YP_002393556.1 3945587 D 585035 CDS YP_002393557.1 218560644 7130248 3947106..3948287 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94316500; Product type t : transporter; D-xylose transporter subunit ; membrane component of ABC superfamily 3948287 xylH 7130248 xylH Escherichia coli S88 D-xylose transporter subunit ; membrane component of ABC superfamily YP_002393557.1 3947106 D 585035 CDS YP_002393558.1 218560645 7130249 3948199..3948375 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 3948375 7130249 ECS88_3987 Escherichia coli S88 hypothetical protein YP_002393558.1 3948199 D 585035 CDS YP_002393559.1 218560646 7132920 3948365..3949516 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6330500, 94316500; Product type r : regulator; DNA-binding transcriptional activator, xylose-binding 3949516 xylR 7132920 xylR Escherichia coli S88 DNA-binding transcriptional activator, xylose-binding YP_002393559.1 3948365 D 585035 CDS YP_002393560.1 218560647 7130250 complement(3949640..3950464) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 1544897; hypothetical protein 3950464 bax 7130250 bax Escherichia coli S88 hypothetical protein YP_002393560.1 3949640 R 585035 CDS YP_002393561.1 218560648 7129990 3950784..3952814 1 NC_011742.1 periplasmic enzyme that degrades maltodextrins that enter via the outer membrane porin LamB; hydrolyzes alpha-(1,4) glycosidic linkages; contains internal disulfide bonds; periplasmic alpha-amylase precursor 3952814 malS 7129990 malS Escherichia coli S88 periplasmic alpha-amylase precursor YP_002393561.1 3950784 D 585035 CDS YP_002393562.1 218560649 7129414 3952992..3954245 1 NC_011742.1 transaminase C; catalyzes transamination of alanine, valine, and 2-aminobutyrate with their respective 2-keto acids; also catalyzes terminal step in valine biosynthesis; valine--pyruvate transaminase 3954245 avtA 7129414 avtA Escherichia coli S88 valine--pyruvate transaminase YP_002393562.1 3952992 D 585035 CDS YP_002393563.1 218560650 7129982 complement(3954397..3954870) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative hydrogenase, 4Fe-4S ferredoxin-type component 3954870 yiaI 7129982 yiaI Escherichia coli S88 putative hydrogenase, 4Fe-4S ferredoxin-type component YP_002393563.1 3954397 R 585035 CDS YP_002393564.1 218560651 7132343 complement(3954972..3955820) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 20372646, 9826648; Product type r : regulator; DNA-binding transcriptional repressor 3955820 yiaJ 7132343 yiaJ Escherichia coli S88 DNA-binding transcriptional repressor YP_002393564.1 3954972 R 585035 CDS YP_002393565.1 218560652 7132344 3956021..3957019 1 NC_011742.1 NAD(P)H-dependent; catalyzes the reduction of 2,3-diketo-L-gulonate to 3-keto-L-gulonate; 2,3-diketo-L-gulonate reductase 3957019 yiaK 7132344 yiaK Escherichia coli S88 2,3-diketo-L-gulonate reductase YP_002393565.1 3956021 D 585035 CDS YP_002393566.1 218560653 7132345 3957031..3957495 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 21617392; hypothetical protein 3957495 yiaL 7132345 yiaL Escherichia coli S88 hypothetical protein YP_002393566.1 3957031 D 585035 CDS YP_002393567.1 218560654 7132346 3957518..3958438 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3958438 7132346 ECS88_3996 Escherichia coli S88 hypothetical protein YP_002393567.1 3957518 D 585035 CDS YP_002393568.1 218560655 7132921 3958552..3959019 1 NC_011742.1 membrane-spanning protein involved in uptake of 2,3-diketo-L-gulonate; part of the tri-partite ATP-independent periplasmic transport system (TRAP) YiaMNO; 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM 3959019 yiaM 7132921 yiaM Escherichia coli S88 2,3-diketo-L-gulonate TRAP transporter small permease protein YiaM YP_002393568.1 3958552 D 585035 CDS YP_002393569.1 218560656 7132347 3958824..3960299 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14668138, 21617392; Product type t : transporter; transporter 3960299 yiaN 7132347 yiaN Escherichia coli S88 transporter YP_002393569.1 3958824 D 585035 CDS YP_002393570.1 218560657 7132348 3960312..3961298 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14668138, 21617392; Product type t : transporter; transporter 3961298 yiaO 7132348 yiaO Escherichia coli S88 transporter YP_002393570.1 3960312 D 585035 CDS YP_002393571.1 218560658 7132349 3961302..3962798 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21617392, 95050816, 7961955; Product type e : enzyme; L-xylulose kinase 3962798 lyxK 7132349 lyxK Escherichia coli S88 L-xylulose kinase YP_002393571.1 3961302 D 585035 CDS YP_002393572.1 218560659 7129399 3962795..3963457 1 NC_011742.1 catalyzes the formation of L-xylulose-5-phosphate from 3-keto-L-gulonate-6-phosphate; 3-keto-L-gulonate-6-phosphate decarboxylase 3963457 sgbH 7129399 sgbH Escherichia coli S88 3-keto-L-gulonate-6-phosphate decarboxylase YP_002393572.1 3962795 D 585035 CDS YP_002393573.1 218560660 7130588 3963450..3964310 1 NC_011742.1 L-xylulose 5-phosphate 3-epimerase activity not yet demonstrated; may be involved in the utilization of 2,3-diketo-L-gulonate; putative L-xylulose 5-phosphate 3-epimerase 3964310 sgbU 7130588 sgbU Escherichia coli S88 putative L-xylulose 5-phosphate 3-epimerase YP_002393573.1 3963450 D 585035 CDS YP_002393574.1 218560661 7130589 3964304..3964999 1 NC_011742.1 catalyzes the isomerization of L-ribulose 5-phosphate to D-xylulose 5-phosphate in the anaerobic catabolism of L-ascorbate; links the arabinose metabolic pathway to the pentose phosphate pathway and allows the bacteria to use arabinose as an energy source; L-ribulose-5-phosphate 4-epimerase 3964999 sgbE 7130589 sgbE Escherichia coli S88 L-ribulose-5-phosphate 4-epimerase YP_002393574.1 3964304 D 585035 CDS YP_002393575.1 218560662 7130587 complement(3965046..3966584) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95286498, 7768815; Product type e : enzyme; aldehyde dehydrogenase B 3966584 aldB 7130587 aldB Escherichia coli S88 aldehyde dehydrogenase B YP_002393575.1 3965046 R 585035 CDS YP_002393576.1 218560663 7133041 complement(3966692..3967987) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3967987 7133041 ECS88_4005 Escherichia coli S88 hypothetical protein YP_002393576.1 3966692 R 585035 CDS YP_002393577.1 218560664 7132922 complement(3968117..3969268) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 2935393; Product type e : enzyme; putative alcohol dehydrogenase 3969268 yiaY 7132922 yiaY Escherichia coli S88 putative alcohol dehydrogenase YP_002393577.1 3968117 R 585035 CDS YP_002393578.1 218560665 7132350 complement(3969459..3971303) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90264431, 91317715, 9315303, 94148228, 2140572, 2531290; Product type f : factor; selenocysteinyl-tRNA-specific translation factor 3971303 selB 7132350 selB Escherichia coli S88 selenocysteinyl-tRNA-specific translation factor YP_002393578.1 3969459 R 585035 CDS YP_002393579.1 218560666 7131387 complement(3971300..3972691) 1 NC_011742.1 catalyzes the formation of selenocysteinyl-tRNA(Sec) from seryl-tRNA(Sec) and L-selenophosphate in selenoprotein biosynthesis; selenocysteine synthase 3972691 selA 7131387 selA Escherichia coli S88 selenocysteine synthase YP_002393579.1 3971300 R 585035 CDS YP_002393580.1 218560667 7131386 complement(3972789..3973397) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8387990; Product type pe : putative enzyme; putative glutathione S-transferase 3973397 yibF 7131386 yibF Escherichia coli S88 putative glutathione S-transferase YP_002393580.1 3972789 R 585035 CDS YP_002393581.1 218560668 7132352 complement(3973468..3974604) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3974604 yibH 7132352 yibH Escherichia coli S88 hypothetical protein YP_002393581.1 3973468 R 585035 CDS YP_002393582.1 218560669 7132353 complement(3974607..3974969) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 3974969 yibI 7132353 yibI Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393582.1 3974607 R 585035 CDS YP_002393583.1 218560670 7132354 3975505..3977418 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92052139, 92283796, 94131964, 1946374, 3135464, 3142516, 6309813, 9551558; Product type t : transporter; fused mannitol-specific PTS enzymes: IIA components ; IIB components ; IIC components 3977418 mtlA 7132354 mtlA Escherichia coli S88 fused mannitol-specific PTS enzymes: IIA components ; IIB components ; IIC components YP_002393583.1 3975505 D 585035 CDS YP_002393584.1 218560671 7129620 3977737..3978885 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90254197, 1964486, 3135464, 6384188, 8300537, 13295236; Product type e : enzyme; mannitol-1-phosphate 5-dehydrogenase 3978885 mtlD 7129620 mtlD Escherichia coli S88 mannitol-1-phosphate 5-dehydrogenase YP_002393584.1 3977737 D 585035 CDS YP_002393585.1 218560672 7129621 3978885..3979472 1 NC_011742.1 Acts as a repressor of the mtlAD operon; mannitol repressor protein 3979472 mtlR 7129621 mtlR Escherichia coli S88 mannitol repressor protein YP_002393585.1 3978885 D 585035 CDS YP_002393586.1 218560673 7129622 complement(3979483..3979692) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3979692 yibT 7129622 yibT Escherichia coli S88 hypothetical protein YP_002393586.1 3979483 R 585035 CDS YP_002393587.1 218560674 7132359 3979976..3980338 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3980338 yibL 7132359 yibL Escherichia coli S88 hypothetical protein YP_002393587.1 3979976 D 585035 CDS YP_002393588.1 218560675 7132356 3980897..3981055 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 3981055 7132356 ECS88_4017 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002393588.1 3980897 D 585035 CDS YP_002393589.1 218560676 7132923 3981131..3981580 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3981580 7132923 ECS88_4018 Escherichia coli S88 hypothetical protein YP_002393589.1 3981131 D 585035 CDS YP_002393590.1 218560677 7132924 3981624..3986375 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative exported adhesin 3986375 7132924 ECS88_4019 Escherichia coli S88 putative exported adhesin YP_002393590.1 3981624 D 585035 CDS YP_002393591.1 218560678 7132925 3986785..3988440 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94012541, 11283302, 11785976, 8407843; Product type t : transporter; L-lactate permease 3988440 lldP 7132925 lldP Escherichia coli S88 L-lactate permease YP_002393591.1 3986785 D 585035 CDS YP_002393592.1 218560679 7129365 3988440..3989216 1 NC_011742.1 represses the lctPRD operon; DNA-binding transcriptional repressor LldR 3989216 lldR 7129365 lldR Escherichia coli S88 DNA-binding transcriptional repressor LldR YP_002393592.1 3988440 D 585035 CDS YP_002393593.1 218560680 7129366 3989213..3990403 1 NC_011742.1 flavin mononucleotide-dependent dehydrogenase; functions in aerobic respiration and also has a role in anaerobic nitrate respiration; L-lactate dehydrogenase 3990403 lldD 7129366 lldD Escherichia coli S88 L-lactate dehydrogenase YP_002393593.1 3989213 D 585035 CDS YP_002393594.1 218560681 7129364 3990451..3990924 1 NC_011742.1 member of the SPOUT superfamily of RNA methyltransferases; no methyltransferase activity observed with certain tRNA substrates; putative tRNA/rRNA methyltransferase YibK 3990924 yibK 7129364 yibK Escherichia coli S88 putative tRNA/rRNA methyltransferase YibK YP_002393594.1 3990451 D 585035 CDS YP_002393595.1 218560682 7132355 complement(3990979..3991800) 1 NC_011742.1 catalyzes the O-acetylation of serine; serine acetyltransferase 3991800 cysE 7132355 cysE Escherichia coli S88 serine acetyltransferase YP_002393595.1 3990979 R 585035 CDS YP_002393596.1 218560683 7130537 complement(3991880..3992899) 1 NC_011742.1 catalyzes the NAD(P)H-dependent reduction of glycerol 3-phosphate to glycerone phosphate; NAD(P)H-dependent glycerol-3-phosphate dehydrogenase 3992899 gpsA 7130537 gpsA Escherichia coli S88 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase YP_002393596.1 3991880 R 585035 CDS YP_002393597.1 218560684 7130064 complement(3992899..3993366) 1 NC_011742.1 molecular chaperone that is required for the normal export of envelope proteins out of the cell cytoplasm; in Escherichia coli this proteins forms a homotetramer in the cytoplasm and delivers proteins to be exported to SecA; preprotein translocase subunit SecB 3993366 secB 7130064 secB Escherichia coli S88 preprotein translocase subunit SecB YP_002393597.1 3992899 R 585035 CDS YP_002393598.1 218560685 7131379 complement(3993430..3993681) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94316500, 95024051, 99175138, 11031118, 7937896, 8636094, 9973569; Product type c : carrier; glutaredoxin 3 3993681 grxC 7131379 grxC Escherichia coli S88 glutaredoxin 3 YP_002393598.1 3993430 R 585035 CDS YP_002393599.1 218560686 7130075 complement(3993822..3994253) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative rhodanese-related sulfurtransferase 3994253 yibN 7130075 yibN Escherichia coli S88 putative rhodanese-related sulfurtransferase YP_002393599.1 3993822 R 585035 CDS YP_002393600.1 218560687 7132357 3994498..3996042 1 NC_011742.1 catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate; phosphoglyceromutase 3996042 gpmI 7132357 gpmI Escherichia coli S88 phosphoglyceromutase YP_002393600.1 3994498 D 585035 CDS YP_002393601.1 218560688 7130062 3996076..3997335 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12113939, 21972773; Product type cp : cell process; hypothetical protein 3997335 envC 7130062 envC Escherichia coli S88 hypothetical protein YP_002393601.1 3996076 D 585035 CDS YP_002393602.1 218560689 7132406 3997339..3998298 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative polysaccharide deacetylase 3998298 yibQ 7132406 yibQ Escherichia coli S88 putative polysaccharide deacetylase YP_002393602.1 3997339 D 585035 CDS YP_002393603.1 218560690 7132358 complement(3998285..3999319) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15659689, 2647748; Product type pe : putative enzyme; putative glycosyl transferase 3999319 yibD 7132358 yibD Escherichia coli S88 putative glycosyl transferase YP_002393603.1 3998285 R 585035 CDS YP_002393604.1 218560691 7132351 complement(3999558..4000583) 1 NC_011742.1 converts threonine and NAD to 1,2-amino-3-oxobutanoate and NADH; functions in threonine catabolism; L-threonine 3-dehydrogenase 4000583 tdh 7132351 tdh Escherichia coli S88 L-threonine 3-dehydrogenase YP_002393604.1 3999558 R 585035 CDS YP_002393605.1 218560692 7131279 complement(4000593..4001789) 1 NC_011742.1 catalyzes the formation of 2-amino-3-oxobutanoate from acetyl-CoA and glycine; 2-amino-3-ketobutyrate coenzyme A ligase 4001789 kbl 7131279 kbl Escherichia coli S88 2-amino-3-ketobutyrate coenzyme A ligase YP_002393605.1 4000593 R 585035 CDS YP_002393606.1 218560693 7130435 4002003..4002935 1 NC_011742.1 catalyzes the interconversion between ADP-D-glycero-beta-D-manno-heptose and ADP-L-glycero-beta-D-manno-heptose; ADP-L-glycero-D-mannoheptose-6-epimerase 4002935 rfaD 7130435 rfaD Escherichia coli S88 ADP-L-glycero-D-mannoheptose-6-epimerase YP_002393606.1 4002003 D 585035 CDS YP_002393607.1 218560694 7132477 4002945..4003991 1 NC_011742.1 catalyzes the transfer of the second heptose to the heptosyl-KDO2 moiety of the lipopolysaccharide inner core; ADP-heptose:LPS heptosyltransferase II 4003991 waaF 7132477 waaF Escherichia coli S88 ADP-heptose:LPS heptosyltransferase II YP_002393607.1 4002945 D 585035 CDS YP_002393608.1 218560695 7132478 4003995..4004975 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20507564, 92250420, 93239678, 9446588, 1624462, 8478319; Product type e : enzyme; ADP-heptose:LPS heptosyl transferase I 4004975 waaC 7132478 waaC Escherichia coli S88 ADP-heptose:LPS heptosyl transferase I YP_002393608.1 4003995 D 585035 CDS YP_002393609.1 218560696 7132476 complement(4005045..4006298) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92250420, 92325067, 93054344, 1624462; Product type e : enzyme; lipid A-core surface O-antigen ligase 4006298 waaL 7132476 waaL Escherichia coli S88 lipid A-core surface O-antigen ligase YP_002393609.1 4005045 R 585035 CDS YP_002393610.1 218560697 7132480 complement(4006344..4007327) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative beta1,3-glucosyltransferase 4007327 waaV 7132480 waaV Escherichia coli S88 putative beta1,3-glucosyltransferase YP_002393610.1 4006344 R 585035 CDS YP_002393611.1 218560698 7132485 complement(4007409..4008437) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9791168, 9756860, 9792656; Product type e : enzyme; UDP-galactose:(Galactosyl) LPS alpha1, 2-galactosyltransferase 4008437 waaW 7132485 waaW Escherichia coli S88 UDP-galactose:(Galactosyl) LPS alpha1, 2-galactosyltransferase YP_002393611.1 4007409 R 585035 CDS YP_002393612.1 218560699 7132486 complement(4008463..4009155) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92250420, 92325067, 9756860; Product type e : enzyme; lipopolysaccharide core biosynthesis protein 4009155 waaY 7132486 waaY Escherichia coli S88 lipopolysaccharide core biosynthesis protein YP_002393612.1 4008463 R 585035 CDS YP_002393613.1 218560700 7132487 complement(4009165..4010160) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9791168, 9756860, 9792656; Product type e : enzyme; UDP-galactose:(Glucosyl) LPS alpha1, 2-galactosyltransferase 4010160 waaT 7132487 waaT Escherichia coli S88 UDP-galactose:(Glucosyl) LPS alpha1, 2-galactosyltransferase YP_002393613.1 4009165 R 585035 CDS YP_002393614.1 218560701 7132484 complement(4010177..4011193) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type e : enzyme; UDP-glucose:(Glucosyl) LPS alpha1, 3-glucosyltransferase 4011193 waaO 7132484 waaO Escherichia coli S88 UDP-glucose:(Glucosyl) LPS alpha1, 3-glucosyltransferase YP_002393614.1 4010177 R 585035 CDS YP_002393615.1 218560702 7132481 complement(4011209..4012015) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21101922, 92121133, 92210496, 9756860, 1732225; Product type e : enzyme; kinase that phosphorylates core heptose of lipopolysaccharide 4012015 waaP 7132481 waaP Escherichia coli S88 kinase that phosphorylates core heptose of lipopolysaccharide YP_002393615.1 4011209 R 585035 CDS YP_002393616.1 218560703 7132482 complement(4011999..4013123) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92121133, 92210496, 92250420, 1447141, 1732225, 7988890; Product type e : enzyme; glucosyltransferase I 4013123 waaG 7132482 waaG Escherichia coli S88 glucosyltransferase I YP_002393616.1 4011999 R 585035 CDS YP_002393617.1 218560704 7132479 complement(4013120..4014178) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9756860, 1447141, 1732225; Product type e : enzyme; lipopolysaccharide core biosynthesis protein 4014178 waaQ 7132479 waaQ Escherichia coli S88 lipopolysaccharide core biosynthesis protein YP_002393617.1 4013120 R 585035 CDS YP_002393618.1 218560705 7132483 4014591..4015868 1 NC_011742.1 catalyzes the transfer of 2-keto-3-deoxy-D-manno-octulosonic acid to lipid A; 3-deoxy-D-manno-octulosonic-acid transferase 4015868 kdtA 7132483 kdtA Escherichia coli S88 3-deoxy-D-manno-octulosonic-acid transferase YP_002393618.1 4014591 D 585035 CDS YP_002393619.1 218560706 7130450 4015876..4016355 1 NC_011742.1 Catalyzes the conversion of ATP and pantetheine 4'-phosphate to diphosphate and 3'-dephospho-coA; phosphopantetheine adenylyltransferase 4016355 coaD 7130450 coaD Escherichia coli S88 phosphopantetheine adenylyltransferase YP_002393619.1 4015876 D 585035 CDS YP_002393620.1 218560707 7131939 complement(4016394..4017203) 1 NC_011742.1 Involved in base excision repair of DNA damaged by oxidation or by mutagenic agents. Acts as DNA glycosylase that recognizes and removes damaged bases; formamidopyrimidine-DNA glycosylase 4017203 mutM 7131939 mutM Escherichia coli S88 formamidopyrimidine-DNA glycosylase YP_002393620.1 4016394 R 585035 CDS YP_002393621.1 218560708 7129641 complement(4017301..4017468) 1 NC_011742.1 in Escherichia coli BM108, a mutation that results in lack of L33 synthesis had no effect on ribosome synthesis or function; there are paralogous genes in several bacterial genomes, and a CXXC motif for zinc binding and an upstream regulation region of the paralog lacking this motif that are regulated by zinc similar to other ribosomal proteins like L31; the proteins in this group lack the CXXC motif; 50S ribosomal protein L33 4017468 rpmG 7129641 rpmG Escherichia coli S88 50S ribosomal protein L33 YP_002393621.1 4017301 R 585035 CDS YP_002393622.1 218560709 7133771 complement(4017489..4017725) 1 NC_011742.1 required for 70S ribosome assembly; 50S ribosomal protein L28 4017725 rpmB 7133771 rpmB Escherichia coli S88 50S ribosomal protein L28 YP_002393622.1 4017489 R 585035 CDS YP_002393623.1 218560710 7133766 complement(4017942..4018610) 1 NC_011742.1 Involved in DNA double-strand break repair and recombination. Promotes the annealing of complementary single-stranded DNA and by simulation of RAD51 recombinase; DNA repair protein RadC 4018610 radC 7133766 radC Escherichia coli S88 DNA repair protein RadC YP_002393623.1 4017942 R 585035 CDS YP_002393624.1 218560711 7130828 4018782..4020002 1 NC_011742.1 catalyzes the conjugation of cysteine to 4'-phosphopantothenate to form 4-phosphopantothenoylcysteine, which is then decarboxylated to form 4'-phosphopantotheine; bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase 4020002 dfp 7130828 dfp Escherichia coli S88 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase YP_002393624.1 4018782 D 585035 CDS YP_002393625.1 218560712 7130191 4019983..4020438 1 NC_011742.1 catalyzes the formation of dUMP from dUTP; deoxyuridine 5'-triphosphate nucleotidohydrolase 4020438 dut 7130191 dut Escherichia coli S88 deoxyuridine 5'-triphosphate nucleotidohydrolase YP_002393625.1 4019983 D 585035 CDS YP_002393626.1 218560713 7132368 4020545..4021141 1 NC_011742.1 FtsZ binding protein; synthetically lethal with a defect in the Min system; this protein is the first identified nucleoid occlusion factor which works along with the Min system to properly position the FtsZ ring assembly; nucleoid occlusion protein 4021141 slmA 7132368 slmA Escherichia coli S88 nucleoid occlusion protein YP_002393626.1 4020545 D 585035 CDS YP_002393627.1 218560714 7130365 complement(4021178..4021819) 1 NC_011742.1 involved in fifth step of pyrimidine biosynthesis; converts orotidine 5'-phosphate and diphosphate to orotate and 5-phospho-alpha-D-ribose 1-diphosphate; orotate phosphoribosyltransferase 4021819 pyrE 7130365 pyrE Escherichia coli S88 orotate phosphoribosyltransferase YP_002393627.1 4021178 R 585035 CDS YP_002393628.1 218560715 7131766 complement(4021885..4022625) 1 NC_011742.1 RNase PH; tRNA nucleotidyltransferase; forms hexamers in Bacillus subtilis; phosphoroltic 3'-5' exoribonuclease; involved in maturation of tRNA precursors and removes terminal nucleotides near CCA acceptor arms of mature tRNAs; ribonuclease PH 4022625 rph 7131766 rph Escherichia coli S88 ribonuclease PH YP_002393628.1 4021885 R 585035 CDS YP_002393629.1 218560716 7132759 4022728..4023591 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4023591 yicC 7132759 yicC Escherichia coli S88 hypothetical protein YP_002393629.1 4022728 D 585035 CDS YP_002393630.1 218560717 7132360 4023801..4024637 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 913680, 94334998, 95095962, 1925027, 2158980, 2664418, 8002613, 8057377, 8195095; Product type cp : cell process; DNA-damage-inducible protein D 4024637 dinD 7132360 dinD Escherichia coli S88 DNA-damage-inducible protein D YP_002393630.1 4023801 D 585035 CDS YP_002393631.1 218560718 7130206 4024929..4025546 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4025546 yicG 7130206 yicG Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393631.1 4024929 D 585035 CDS YP_002393632.1 218560719 7132279 complement(4025543..4027225) 1 NC_011742.1 this ligase is similar to LigA but it lacks the C-terminal BRCT domain; catalyzes strand joining of nicked DNA in the presence of a divalent cation and NAD+; NAD-dependent DNA ligase LigB 4027225 ligB 7132279 ligB Escherichia coli S88 NAD-dependent DNA ligase LigB YP_002393632.1 4025543 R 585035 CDS YP_002393633.1 218560720 7129354 4027483..4028106 1 NC_011742.1 Essential for recycling GMP and indirectly, cGMP; guanylate kinase 4028106 gmk 7129354 gmk Escherichia coli S88 guanylate kinase YP_002393633.1 4027483 D 585035 CDS YP_002393634.1 218560721 7130046 4028161..4028436 1 NC_011742.1 promotes RNA polymerase assembly or stability; latches the N- and C-terminal regions of the beta' subunit thereby facilitating its interaction with the beta and alpha subunits; DNA-directed RNA polymerase subunit omega 4028436 rpoZ 7130046 rpoZ Escherichia coli S88 DNA-directed RNA polymerase subunit omega YP_002393634.1 4028161 D 585035 CDS YP_002393635.1 218560722 7133782 4028455..4030563 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12224635, 89255395, 93266525, 94068533, 2005134, 2549050; Product type e : enzyme; bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase 4030563 spoT 7133782 spoT Escherichia coli S88 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase YP_002393635.1 4028455 D 585035 CDS YP_002393636.1 218560723 7130632 4030570..4031259 1 NC_011742.1 specifically modifies tRNA at position G18; tRNA guanosine-2'-O-methyltransferase 4031259 trmH 7130632 trmH Escherichia coli S88 tRNA guanosine-2'-O-methyltransferase YP_002393636.1 4030570 D 585035 CDS YP_002393637.1 218560724 7130341 4031265..4033346 1 NC_011742.1 catalyzes branch migration in Holliday junction intermediates; ATP-dependent DNA helicase RecG 4033346 recG 7130341 recG Escherichia coli S88 ATP-dependent DNA helicase RecG YP_002393637.1 4031265 D 585035 CDS YP_002393638.1 218560725 7131808 complement(4033380..4034585) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91203811, 93106943, 1544582, 2017136, 2254324; Product type t : transporter; glutamate transporter 4034585 gltS 7131808 gltS Escherichia coli S88 glutamate transporter YP_002393638.1 4033380 R 585035 CDS YP_002393639.1 218560726 7130037 4034865..4036256 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 4036256 yicE 7130037 yicE Escherichia coli S88 putative transporter YP_002393639.1 4034865 D 585035 CDS YP_002393640.1 218560727 7132361 4036377..4038086 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4038086 yicH 7132361 yicH Escherichia coli S88 hypothetical protein YP_002393640.1 4036377 D 585035 CDS YP_002393641.1 218560728 7130821 complement(4038130..4038849) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative sugar related regulatory protein 4038849 7130821 ECS88_4072 Escherichia coli S88 conserved hypothetical protein, putative sugar related regulatory protein YP_002393641.1 4038130 R 585035 CDS YP_002393642.1 218560729 7132926 complement(4038791..4039756) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative sugar kinase/transcriptional regulator. ATPase domain 4039756 7132926 ECS88_4073 Escherichia coli S88 putative sugar kinase/transcriptional regulator. ATPase domain YP_002393642.1 4038791 R 585035 CDS YP_002393643.1 218560730 7132927 complement(4039771..4040631) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 4040631 7132927 ECS88_4074 Escherichia coli S88 hypothetical protein YP_002393643.1 4039771 R 585035 CDS YP_002393644.1 218560731 7132928 complement(4040712..4041563) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative sugar aldolase 4041563 7132928 ECS88_4075 Escherichia coli S88 putative sugar aldolase YP_002393644.1 4040712 R 585035 CDS YP_002393645.1 218560732 7132929 complement(4041575..4042666) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative phosphotransferase system, fructose-specific IIC component 4042666 7132929 ECS88_4076 Escherichia coli S88 putative phosphotransferase system, fructose-specific IIC component YP_002393645.1 4041575 R 585035 CDS YP_002393646.1 218560733 7132930 complement(4042691..4043005) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative phosphotransferase system, fructose-specific IIB subunit 4043005 7132930 ECS88_4077 Escherichia coli S88 putative phosphotransferase system, fructose-specific IIB subunit YP_002393646.1 4042691 R 585035 CDS YP_002393647.1 218560734 7132931 complement(4043023..4043493) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative phosphotransferase system (PTS), fructose-specific IIA component 4043493 7132931 ECS88_4078 Escherichia coli S88 putative phosphotransferase system (PTS), fructose-specific IIA component YP_002393647.1 4043023 R 585035 CDS YP_002393648.1 218560735 7132932 complement(4043520..4045073) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative PTS system transcriptional antiterminator 4045073 7132932 ECS88_4079 Escherichia coli S88 putative PTS system transcriptional antiterminator YP_002393648.1 4043520 R 585035 CDS YP_002393649.1 218560736 7132933 complement(4045368..4047686) 1 NC_011742.1 catalyzes the transfer of alpha-xylosyl residue from alpha-xyloside to xylose, glucose, mannose, fructose, maltose, isomaltose, nigerose, kojibiose, sucrose, and trehalose; shows higher activity against alpha-xylosyl fluoride, isoprimeverose (6-O-alpha-xylopyranosyl-glucopyranose), and alpha-xyloside in xyloglucan oligosaccharides; alpha-xylosidase YicI 4047686 yicI 7132933 yicI Escherichia coli S88 alpha-xylosidase YicI YP_002393649.1 4045368 R 585035 CDS YP_002393650.1 218560737 7130822 complement(4047696..4049078) 1 NC_011742.1 may be involved in the transport of galactosides-pentoses-hexuronides; putative transporter 4049078 yicJ 7130822 yicJ Escherichia coli S88 putative transporter YP_002393650.1 4047696 R 585035 CDS YP_002393651.1 218560738 7129895 4049389..4050555 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative RhuM-like cytoplasmic protein 4050555 7129895 ECS88_4082 Escherichia coli S88 conserved hypothetical protein, putative RhuM-like cytoplasmic protein YP_002393651.1 4049389 D 585035 CDS YP_002393652.1 218560739 7132934 4051125..4051493 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4051493 7132934 ECS88_4083 Escherichia coli S88 hypothetical protein YP_002393652.1 4051125 D 585035 CDS YP_002393653.1 218560740 7132935 4051790..4052713 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4052713 yicL 7132935 yicL Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393653.1 4051790 D 585035 CDS YP_002393654.1 218560741 7130824 complement(4052717..4053535) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88298691, 89359178, 9914480, 3003106; Product type lp : lipoprotein; cytoplasmic membrane lipoprotein-28 4053535 nlpA 7130824 nlpA Escherichia coli S88 cytoplasmic membrane lipoprotein-28 YP_002393654.1 4052717 R 585035 CDS YP_002393655.1 218560742 7129720 4053688..4054050 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4054050 yicS 7129720 yicS Escherichia coli S88 hypothetical protein YP_002393655.1 4053688 D 585035 CDS YP_002393656.1 218560743 7130829 complement(4054091..4055446) 1 NC_011742.1 experimental results in Escherichia coli suggest that this gene encodes an inosine export protein; member of major facilitator superfamily; MFS; ribonucleoside transporter 4055446 nepI 7130829 nepI Escherichia coli S88 ribonucleoside transporter YP_002393656.1 4054091 R 585035 CDS YP_002393657.1 218560744 7130825 complement(4055492..4055944) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4055944 yicN 7130825 yicN Escherichia coli S88 hypothetical protein YP_002393657.1 4055492 R 585035 CDS YP_002393658.1 218560745 7130826 complement(4055997..4057331) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative xanthine/uracil permease 4057331 yicO 7130826 yicO Escherichia coli S88 putative xanthine/uracil permease YP_002393658.1 4055997 R 585035 CDS YP_002393659.1 218560746 7130827 4057506..4059272 1 NC_011742.1 catalyzes the formation of hypoxanthine from adenine; in E. coli this activity has been detected in mutant strains but not in wild type; cryptic adenine deaminase 4059272 ade 7130827 ade Escherichia coli S88 cryptic adenine deaminase YP_002393659.1 4057506 D 585035 CDS YP_002393660.1 218560747 7132052 complement(4059319..4060710) 1 NC_011742.1 cytoplasmic membrane protein that functions as a monomer; catalyzes the active transport of sugar-phosphates such as glucose-6-phosphate with the obligatory exchange of inorganic phosphate or organophosphate; sugar phosphate antiporter 4060710 uhpT 7132052 uhpT Escherichia coli S88 sugar phosphate antiporter YP_002393660.1 4059319 R 585035 CDS YP_002393661.1 218560748 7130401 complement(4060848..4062167) 1 NC_011742.1 membrane protein regulates uhpT expression; regulatory protein UhpC 4062167 uhpC 7130401 uhpC Escherichia coli S88 regulatory protein UhpC YP_002393661.1 4060848 R 585035 CDS YP_002393662.1 218560749 7130400 complement(4062177..4063679) 1 NC_011742.1 Member of the two-component regulatory system UhpB/UhpA involved in the regulation of the uptake of hexose ph; sensory histidine kinase UhpB 4063679 uhpB 7130400 uhpB Escherichia coli S88 sensory histidine kinase UhpB YP_002393662.1 4062177 R 585035 CDS YP_002393663.1 218560750 7130399 complement(4063679..4064269) 1 NC_011742.1 response regulator in two-component regulatory system wtih UhpB; phosphorylated UhpA is a positive activator uhpT, a hexose phosphates transporter; DNA-binding transcriptional activator UhpA 4064269 uhpA 7130399 uhpA Escherichia coli S88 DNA-binding transcriptional activator UhpA YP_002393663.1 4063679 R 585035 CDS YP_002393664.1 218560751 7130398 complement(4064342..4064632) 1 NC_011742.1 with IlvB catalyzes the formation of 2-acetolactate from pyruvate, the small subunit is required for full activity and valine sensitivity; E.coli produces 3 isoenzymes of acetolactate synthase which differ in specificity to substrates, valine sensitivity and affinity for cofactors; also known as acetolactate synthase small subunit; acetolactate synthase 1 regulatory subunit 4064632 ilvN 7130398 ilvN Escherichia coli S88 acetolactate synthase 1 regulatory subunit YP_002393664.1 4064342 R 585035 CDS YP_002393665.1 218560752 7131629 complement(4064636..4066324) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2989782, 85242083, 92380929, 2989781; Product type e : enzyme; acetolactate synthase catalytic subunit 4066324 ilvB 7131629 ilvB Escherichia coli S88 acetolactate synthase catalytic subunit YP_002393665.1 4064636 R 585035 CDS YP_002393666.1 218560753 7131620 complement(4066430..4066528) 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type l : leader peptide; ilvB operon leader peptide 4066528 ivbL 7131620 ivbL Escherichia coli S88 ilvB operon leader peptide YP_002393666.1 4066430 R 585035 CDS YP_002393667.1 218560754 7130428 4066929..4068113 1 NC_011742.1 multidrug efflux protein involved in adaptation to low energy shock; multidrug resistance protein D 4068113 emrD 7130428 emrD Escherichia coli S88 multidrug resistance protein D YP_002393667.1 4066929 D 585035 CDS YP_002393668.1 218560755 7132393 complement(4068121..4068618) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 4068618 yidF 7132393 yidF Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393668.1 4068121 R 585035 CDS YP_002393669.1 218560756 7130835 complement(4068615..4068977) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4068977 yidG 7130835 yidG Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393669.1 4068615 R 585035 CDS YP_002393670.1 218560757 7130836 complement(4068967..4069314) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4069314 yidH 7130836 yidH Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393670.1 4068967 R 585035 CDS YP_002393671.1 218560758 7130841 4072702..4073598 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 4073598 yidL 7130841 yidL Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393671.1 4072702 D 585035 CDS YP_002393672.1 218560759 7130842 complement(4073688..4075349) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1356969; Product type pt : putative transporter; hypothetical protein 4075349 yidE 7130842 yidE Escherichia coli S88 hypothetical protein YP_002393672.1 4073688 R 585035 CDS YP_002393673.1 218560760 7130834 4075379..4075549 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 4075549 7130834 ECS88_4108 Escherichia coli S88 hypothetical protein YP_002393673.1 4075379 D 585035 CDS YP_002393674.1 218560761 7132936 complement(4075546..4075974) 1 NC_011742.1 16 kDa heat shock protein B; associates with aggregated proteins, together with ibpA, to stabilize and protect them from irreversible denaturation and extensive proteolysis during heat shock and oxidative stress; ATP-independent; heat shock chaperone IbpB 4075974 ibpB 7132936 ibpB Escherichia coli S88 heat shock chaperone IbpB YP_002393674.1 4075546 R 585035 CDS YP_002393675.1 218560762 7131605 complement(4076086..4076499) 1 NC_011742.1 with IbpB associates with aggregated proteins to stabilize and protect them from irreversible denaturation and extensive proteolysis during heat shock and oxidative stress; heat shock protein IbpA 4076499 ibpA 7131605 ibpA Escherichia coli S88 heat shock protein IbpA YP_002393675.1 4076086 R 585035 CDS YP_002393676.1 218560763 7131604 4076805..4077137 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 4077137 yidQ 7131604 yidQ Escherichia coli S88 hypothetical protein YP_002393676.1 4076805 D 585035 CDS YP_002393677.1 218560764 7130843 complement(4077141..4078355) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4078355 yidR 7130843 yidR Escherichia coli S88 hypothetical protein YP_002393677.1 4077141 R 585035 CDS YP_002393678.1 218560765 7130844 4078456..4079556 1 NC_011742.1 FAD/NAD(P)-binding domain; putative oxidoreductase 4079556 cbrA 7130844 cbrA Escherichia coli S88 putative oxidoreductase YP_002393678.1 4078456 D 585035 CDS YP_002393679.1 218560766 7129164 complement(4079517..4080809) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 79020349; Product type t : transporter; D-galactonate transporter 4080809 dgoT 7129164 dgoT Escherichia coli S88 D-galactonate transporter YP_002393679.1 4079517 R 585035 CDS YP_002393680.1 218560767 7130197 complement(4080929..4082077) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 79020349; Product type e : enzyme; galactonate dehydratase 4082077 dgoD 7130197 dgoD Escherichia coli S88 galactonate dehydratase YP_002393680.1 4080929 R 585035 CDS YP_002393681.1 218560768 7130194 complement(4082074..4082691) 1 NC_011742.1 catalyzes the formation of D-glyceraldehyde 3-phosphate and pyruvate from 2-dehydro-3-deoxy-D-galactonate 6-phosphate; functions in galactonate metabolism; 2-dehydro-3-deoxy-6-phosphogalactonate aldolase 4082691 dgoA 7130194 dgoA Escherichia coli S88 2-dehydro-3-deoxy-6-phosphogalactonate aldolase YP_002393681.1 4082074 R 585035 CDS YP_002393682.1 218560769 7130193 complement(4082675..4083553) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 79020349; Product type e : enzyme; 2-oxo-3-deoxygalactonate kinase 4083553 dgoK 7130193 dgoK Escherichia coli S88 2-oxo-3-deoxygalactonate kinase YP_002393682.1 4082675 R 585035 CDS YP_002393683.1 218560770 7130195 complement(4083550..4084239) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 79020349; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 4084239 dgoR 7130195 dgoR Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393683.1 4083550 R 585035 CDS YP_002393684.1 218560771 7130196 4084500..4085174 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; hypothetical protein 4085174 yidX 7130196 yidX Escherichia coli S88 hypothetical protein YP_002393684.1 4084500 D 585035 CDS YP_002393685.1 218560772 7130845 complement(4085218..4086030) 1 NC_011742.1 YidA; catalyzes the dephosphorylation of erythrose 4-phosphate (preferred substrate), mannose 1-phosphate and p-nitrophenyl phosphate; hydrolyzes the alpha-D-glucose-1-phosphate but not the beta form; member of the haloacid dehalogenase-like hydrolases superfamily and Cof family of proteins; sugar phosphatase 4086030 yidA 7130845 yidA Escherichia coli S88 sugar phosphatase YP_002393685.1 4085218 R 585035 CDS YP_002393686.1 218560773 7130830 complement(4086145..4086543) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4086543 yidB 7130830 yidB Escherichia coli S88 hypothetical protein YP_002393686.1 4086145 R 585035 CDS YP_002393687.1 218560774 7130831 complement(4086783..4089197) 1 NC_011742.1 negatively supercoils closed circular double-stranded DNA; DNA gyrase subunit B 4089197 gyrB 7130831 gyrB Escherichia coli S88 DNA gyrase subunit B YP_002393687.1 4086783 R 585035 CDS YP_002393688.1 218560775 7128884 complement(4089226..4090299) 1 NC_011742.1 Required for DNA replication; binds preferentially to single-stranded, linear DNA; recombination protein F 4090299 recF 7128884 recF Escherichia coli S88 recombination protein F YP_002393688.1 4089226 R 585035 CDS YP_002393689.1 218560776 7131807 complement(4090299..4091399) 1 NC_011742.1 binds the polymerase to DNA and acts as a sliding clamp; DNA polymerase III subunit beta 4091399 dnaN 7131807 dnaN Escherichia coli S88 DNA polymerase III subunit beta YP_002393689.1 4090299 R 585035 CDS YP_002393690.1 218560777 7130227 complement(4091404..4092807) 1 NC_011742.1 binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself.; chromosomal replication initiation protein 4092807 dnaA 7130227 dnaA Escherichia coli S88 chromosomal replication initiation protein YP_002393690.1 4091404 R 585035 CDS YP_002393691.1 218560778 7130220 4093414..4093554 1 NC_011742.1 in Escherichia coli transcription of this gene is enhanced by polyamines; 50S ribosomal protein L34 4093554 rpmH 7130220 rpmH Escherichia coli S88 50S ribosomal protein L34 YP_002393691.1 4093414 D 585035 CDS YP_002393692.1 218560779 7133772 4093571..4093930 1 NC_011742.1 protein component of RNaseP which catalyzes the removal of the 5'-leader sequence from pre-tRNA to produce the mature 5'terminus; this enzyme also cleaves other RNA substrates; ribonuclease P 4093930 rnpA 7133772 rnpA Escherichia coli S88 ribonuclease P YP_002393692.1 4093571 D 585035 CDS YP_002393693.1 218560780 7132751 4093894..4094151 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4094151 yidD 7132751 yidD Escherichia coli S88 hypothetical protein YP_002393693.1 4093894 D 585035 CDS YP_002393694.1 218560781 7130833 4094154..4095800 1 NC_011742.1 functions to insert inner membrane proteins into the IM in Escherichia coli; interacts with transmembrane segments; functions in both Sec-dependent and -independent membrane insertion; similar to Oxa1p in mitochondria; putative inner membrane protein translocase component YidC 4095800 yidC 7130833 yidC Escherichia coli S88 putative inner membrane protein translocase component YidC YP_002393694.1 4094154 D 585035 CDS YP_002393695.1 218560782 7130832 4095906..4097270 1 NC_011742.1 in Escherichia coli this protein is involved in the biosynthesis of the hypermodified nucleoside 5-methylaminomethyl-2-thiouridine, which is found in the wobble position of some tRNAs and affects ribosomal frameshifting; shows potassium-dependent dimerization and GTP hydrolysis; also involved in regulation of glutamate-dependent acid resistance and activation of gadE; tRNA modification GTPase TrmE 4097270 trmE 7130832 trmE Escherichia coli S88 tRNA modification GTPase TrmE YP_002393695.1 4095906 D 585035 CDS YP_002393696.1 218560783 7130340 4097512..4097586 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type l : leader peptide; tryptophanase leader peptide 4097586 tnaC 7130340 tnaC Escherichia coli S88 tryptophanase leader peptide YP_002393696.1 4097512 D 585035 CDS YP_002393697.1 218560784 7133483 4097807..4099222 1 NC_011742.1 tryptophan indole-lyase; catalyzes the formation of indole and pyruvate from tryptophan; tryptophanase 4099222 tnaA 7133483 tnaA Escherichia coli S88 tryptophanase YP_002393697.1 4097807 D 585035 CDS YP_002393698.1 218560785 7133481 4099314..4100561 1 NC_011742.1 tryptophan transporter of low affinity; tryptophan permease TnaB 4100561 tnaB 7133481 tnaB Escherichia coli S88 tryptophan permease TnaB YP_002393698.1 4099314 D 585035 CDS YP_002393699.1 218560786 7133482 4100693..4101868 1 NC_011742.1 Confers resistance to chloramphenicol; multidrug efflux system protein MdtL 4101868 mdtL 7133482 mdtL Escherichia coli S88 multidrug efflux system protein MdtL YP_002393699.1 4100693 D 585035 CDS YP_002393700.1 218560787 7128800 4101843..4102802 1 NC_011742.1 Involved in anaerobic NO protection; DNA-binding transcriptional regulator YidZ 4102802 yidZ 7128800 yidZ Escherichia coli S88 DNA-binding transcriptional regulator YidZ YP_002393700.1 4101843 D 585035 CDS YP_002393701.1 218560788 7130846 4102947..4103708 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphopantetheinyl transferase 4103708 yieE 7130846 yieE Escherichia coli S88 putative phosphopantetheinyl transferase YP_002393701.1 4102947 D 585035 CDS YP_002393702.1 218560789 7130847 4103730..4104296 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14766567; Product type e : enzyme; chromate reductase, Class I, flavoprotein 4104296 yieF 7130847 yieF Escherichia coli S88 chromate reductase, Class I, flavoprotein YP_002393702.1 4103730 D 585035 CDS YP_002393703.1 218560790 7130848 complement(4104349..4105686) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4105686 yieG 7130848 yieG Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393703.1 4104349 R 585035 CDS YP_002393704.1 218560791 7130849 4105853..4106518 1 NC_011742.1 YieH; catalyzes the dephosphorylation of phosphoenolpyruvate, AMP and p-nitrophenyl phosphate; purine and pyrimidine nucleotides are secondary substrates; member of the haloacid dehalogenase-like hydrolases superfamily; 6-phosphogluconate phosphatase 4106518 yieH 7130849 yieH Escherichia coli S88 6-phosphogluconate phosphatase YP_002393704.1 4105853 D 585035 CDS YP_002393705.1 218560792 7130850 4106585..4107058 1 NC_011742.1 might be involved in hypersensitivity to nitrofurzone; putative inner membrane protein 4107058 yieI 7130850 yieI Escherichia coli S88 putative inner membrane protein YP_002393705.1 4106585 D 585035 CDS YP_002393706.1 218560793 7130851 complement(4107140..4107862) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative 6-phosphogluconolactonase 4107862 yieK 7130851 yieK Escherichia coli S88 putative 6-phosphogluconolactonase YP_002393706.1 4107140 R 585035 CDS YP_002393707.1 218560794 7130852 complement(4107877..4109073) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative xylanase 4109073 yieL 7130852 yieL Escherichia coli S88 putative xylanase YP_002393707.1 4107877 R 585035 CDS YP_002393708.1 218560795 7130853 complement(4109073..4110689) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10027967; Product type t : transporter; carbohydrate-specific outer membrane porin, cryptic 4110689 bglH 7130853 bglH Escherichia coli S88 carbohydrate-specific outer membrane porin, cryptic YP_002393708.1 4109073 R 585035 CDS YP_002393709.1 218560796 7129117 complement(4110775..4112169) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87222180, 88297127, 92334140, 3034860, 3309161; Product type e : enzyme; cryptic phospho-beta-glucosidase B 4112169 bglB 7129117 bglB Escherichia coli S88 cryptic phospho-beta-glucosidase B YP_002393709.1 4110775 R 585035 CDS YP_002393710.1 218560797 7129114 complement(4112188..4114062) 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system beta-glucoside-specific transporter subunits IIABC 4114062 bglF 7129114 bglF Escherichia coli S88 PTS system beta-glucoside-specific transporter subunits IIABC YP_002393710.1 4112188 R 585035 CDS YP_002393711.1 218560798 7129115 complement(4114196..4115032) 1 NC_011742.1 positive regulator of the beta-glucoside operon; transcriptional antiterminator; transcriptional antiterminator BglG 4115032 bglG 7129115 bglG Escherichia coli S88 transcriptional antiterminator BglG YP_002393711.1 4114196 R 585035 CDS YP_002393712.1 218560799 7129116 complement(4115318..4116043) 1 NC_011742.1 regulates several genes involved in high affinity phosphate uptake; under conditions of high phosphate concentrations downregulates the PHO regulon; transcriptional regulator PhoU 4116043 phoU 7129116 phoU Escherichia coli S88 transcriptional regulator PhoU YP_002393712.1 4115318 R 585035 CDS YP_002393713.1 218560800 7133729 complement(4116058..4116831) 1 NC_011742.1 ATP-binding protein; PstABCS is an ATP dependent phosphate uptake system which is responsible for inorganic phosphate uptake during phosphate starvation; phosphate transporter ATP-binding protein 4116831 pstB 7133729 pstB Escherichia coli S88 phosphate transporter ATP-binding protein YP_002393713.1 4116058 R 585035 CDS YP_002393714.1 218560801 7130811 complement(4116922..4117812) 1 NC_011742.1 Part of the ABC transporter complex PstABCS responsible for inorganic phosphate (Pi) uptake under Pi starvation conditions; phosphate transporter permease subunit PtsA 4117812 pstA 7130811 pstA Escherichia coli S88 phosphate transporter permease subunit PtsA YP_002393714.1 4116922 R 585035 CDS YP_002393715.1 218560802 7130810 complement(4117812..4118771) 1 NC_011742.1 part of the ATP-dependent phosphate uptake system PstABCS responsible for inorganic phosphate (Pi) uptake under Pi starvation conditions; phosphate transporter permease subunit PstC 4118771 pstC 7130810 pstC Escherichia coli S88 phosphate transporter permease subunit PstC YP_002393715.1 4117812 R 585035 CDS YP_002393716.1 218560803 7130812 complement(4118858..4119898) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90133909, 2215649, 6321434, 6365894, 9228942, 9298646, 9671506; Product type t : transporter; phosphate ABC transporter periplasmic substrate-binding protein PstS 4119898 pstS 7130812 pstS Escherichia coli S88 phosphate ABC transporter periplasmic substrate-binding protein PstS YP_002393716.1 4118858 R 585035 CDS YP_002393717.1 218560804 7130813 complement(4120212..4122041) 1 NC_011742.1 Catalyzes the first step in hexosamine metabolism, converting fructose-6P into glucosamine-6P using glutamine as a nitrogen source; glucosamine--fructose-6-phosphate aminotransferase 4122041 glmS 7130813 glmS Escherichia coli S88 glucosamine--fructose-6-phosphate aminotransferase YP_002393717.1 4120212 R 585035 CDS YP_002393718.1 218560805 7132221 complement(4122202..4123572) 1 NC_011742.1 forms a homotrimer; catalyzes the acetylation of glucosamine-1-phosphate and uridylation of N-acetylglucosamine-1-phosphate to produce UDP-GlcNAc; function in cell wall synthesis; bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase 4123572 glmU 7132221 glmU Escherichia coli S88 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase YP_002393718.1 4122202 R 585035 CDS YP_002393719.1 218560806 7132222 complement(4123926..4124345) 1 NC_011742.1 part of catalytic core of ATP synthase; alpha(3)beta(3)gamma(1)delta(1)epsilon(1); involved in producing ATP from ADP in the presence of the proton motive force across the membrane; F0F1 ATP synthase subunit epsilon 4124345 atpC 7132222 atpC Escherichia coli S88 F0F1 ATP synthase subunit epsilon YP_002393719.1 4123926 R 585035 CDS YP_002393720.1 218560807 7129968 complement(4124366..4125748) 1 NC_011742.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The beta chain is a regulatory subunit; F0F1 ATP synthase subunit beta 4125748 atpD 7129968 atpD Escherichia coli S88 F0F1 ATP synthase subunit beta YP_002393720.1 4124366 R 585035 CDS YP_002393721.1 218560808 7129969 complement(4125775..4126638) 1 NC_011742.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. The gamma chain is a regulatory subunit; F0F1 ATP synthase subunit gamma 4126638 atpG 7129969 atpG Escherichia coli S88 F0F1 ATP synthase subunit gamma YP_002393721.1 4125775 R 585035 CDS YP_002393722.1 218560809 7129972 complement(4126689..4128230) 1 NC_011742.1 produces ATP from ADP in the presence of a proton gradient across the membrane; the alpha chain is a catalytic subunit; F0F1 ATP synthase subunit alpha 4128230 atpA 7129972 atpA Escherichia coli S88 F0F1 ATP synthase subunit alpha YP_002393722.1 4126689 R 585035 CDS YP_002393723.1 218560810 7129966 complement(4128243..4128776) 1 NC_011742.1 Produces ATP from ADP in the presence of a proton gradient across the membrane; the delta subunit is part of the catalytic core of the ATP synthase complex; F0F1 ATP synthase subunit delta 4128776 atpH 7129966 atpH Escherichia coli S88 F0F1 ATP synthase subunit delta YP_002393723.1 4128243 R 585035 CDS YP_002393724.1 218560811 7129973 complement(4128791..4129261) 1 NC_011742.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit B is part of the membrane proton channel.; F0F1 ATP synthase subunit B 4129261 atpF 7129973 atpF Escherichia coli S88 F0F1 ATP synthase subunit B YP_002393724.1 4128791 R 585035 CDS YP_002393725.1 218560812 7129971 complement(4129323..4129562) 1 NC_011742.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit C is part of the membrane proton channel F0; F0F1 ATP synthase subunit C 4129562 atpE 7129971 atpE Escherichia coli S88 F0F1 ATP synthase subunit C YP_002393725.1 4129323 R 585035 CDS YP_002393726.1 218560813 7129970 complement(4129609..4130424) 1 NC_011742.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit A is part of the membrane proton channel F0; F0F1 ATP synthase subunit A 4130424 atpB 7129970 atpB Escherichia coli S88 F0F1 ATP synthase subunit A YP_002393726.1 4129609 R 585035 CDS YP_002393727.1 218560814 7129967 complement(4130433..4130813) 1 NC_011742.1 Produces ATP from ADP in the presence of a proton gradient across the membrane. Subunit I associates with the membrane and may be involved with cation translocation; F0F1 ATP synthase subunit I 4130813 atpI 7129967 atpI Escherichia coli S88 F0F1 ATP synthase subunit I YP_002393727.1 4130433 R 585035 CDS YP_002393728.1 218560815 7129974 complement(4131430..4132053) 1 NC_011742.1 glucose-inhibited division protein B; SAM-dependent methyltransferase; methylates the N7 position of guanosine in position 527 of 16S rRNA; 16S rRNA methyltransferase GidB 4132053 gidB 7129974 gidB Escherichia coli S88 16S rRNA methyltransferase GidB YP_002393728.1 4131430 R 585035 CDS YP_002393729.1 218560816 7132205 complement(4132117..4134006) 1 NC_011742.1 GidA; glucose-inhibited cell division protein A; involved in the 5-carboxymethylaminomethyl modification (mnm(5)s(2)U) of the wobble uridine base in some tRNAs; tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA 4134006 gidA 7132205 gidA Escherichia coli S88 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA YP_002393729.1 4132117 R 585035 CDS YP_002393730.1 218560817 7132204 complement(4134385..4134828) 1 NC_011742.1 An electron-transfer protein; flavodoxin binds one FMN molecule, which serves as a redox-active prosthetic group; flavodoxin 4134828 mioC 7132204 mioC Escherichia coli S88 flavodoxin YP_002393730.1 4134385 R 585035 CDS YP_002393731.1 218560818 7128839 complement(4134918..4135376) 1 NC_011742.1 transcriptional repressor of asnA which codes for aspartate-ammonia ligase; DNA-binding transcriptional regulator AsnC 4135376 asnC 7128839 asnC Escherichia coli S88 DNA-binding transcriptional regulator AsnC YP_002393731.1 4134918 R 585035 CDS YP_002393732.1 218560819 7129948 4135528..4136520 1 NC_011742.1 catalyzes the formation of asparagine from aspartate and ammonia; asparagine synthetase AsnA 4136520 asnA 7129948 asnA Escherichia coli S88 asparagine synthetase AsnA YP_002393732.1 4135528 D 585035 CDS YP_002393733.1 218560820 7129946 complement(4136525..4137976) 1 NC_011742.1 contains a von Willibrand factor type A domain; stimulates the ATPase activity of RavA; hypothetical protein 4137976 yieM 7129946 yieM Escherichia coli S88 hypothetical protein YP_002393733.1 4136525 R 585035 CDS YP_002393734.1 218560821 7130854 complement(4137970..4139466) 1 NC_011742.1 interacts with LdcI, lysine decarboxylase; may be active in late log/ early stationary phase; regulatory ATPase RavA 4139466 ravA 7130854 ravA Escherichia coli S88 regulatory ATPase RavA YP_002393734.1 4137970 R 585035 CDS YP_002393735.1 218560822 7131784 4139689..4141557 1 NC_011742.1 Responsible for the low-affinity transport of potassium into the cell; involved in potassium ion uptake under hyper-osmotic stress at a low pH; potassium transport protein Kup 4141557 trkD 7131784 trkD Escherichia coli S88 potassium transport protein Kup YP_002393735.1 4139689 D 585035 CDS YP_002393736.1 218560823 7130335 4141724..4142143 1 NC_011742.1 cytoplasmic mutarotase that catalyzes the conversion between beta-pyran and beta-furan forms of D-ribose; RbsD is required for efficient ribose utilization in E. coli; rbsD-mutant E. coli strains are unable to use ribose as a sole carbon source; D-ribose pyranase 4142143 rbsD 7130335 rbsD Escherichia coli S88 D-ribose pyranase YP_002393736.1 4141724 D 585035 CDS YP_002393737.1 218560824 7131791 4142151..4143656 1 NC_011742.1 with RbsBCD acts to import ribose into the cell; RbsA contains 2 ATP-binding domain; D-ribose transporter ATP binding protein 4143656 rbsA 7131791 rbsA Escherichia coli S88 D-ribose transporter ATP binding protein YP_002393737.1 4142151 D 585035 CDS YP_002393738.1 218560825 7131788 4143661..4144626 1 NC_011742.1 functions to transport ribose at high affinity; forms a complex with RbsA2C2B; ribose ABC transporter permease protein 4144626 rbsC 7131788 rbsC Escherichia coli S88 ribose ABC transporter permease protein YP_002393738.1 4143661 D 585035 CDS YP_002393739.1 218560826 7131790 4144651..4145541 1 NC_011742.1 periplasmic substrate-binding component of the ATP-dependent ribose transport system; D-ribose transporter subunit RbsB 4145541 rbsB 7131790 rbsB Escherichia coli S88 D-ribose transporter subunit RbsB YP_002393739.1 4144651 D 585035 CDS YP_002393740.1 218560827 7131789 4145667..4146596 1 NC_011742.1 catalyzes the formation of D-ribose 5-phosphate from ribose; ribokinase 4146596 rbsK 7131789 rbsK Escherichia coli S88 ribokinase YP_002393740.1 4145667 D 585035 CDS YP_002393741.1 218560828 7131792 4146600..4147592 1 NC_011742.1 DNA-binding transcriptional repressor of ribose metabolism; transcriptional repressor RbsR 4147592 rbsR 7131792 rbsR Escherichia coli S88 transcriptional repressor RbsR YP_002393741.1 4146600 D 585035 CDS YP_002393742.1 218560829 7131793 complement(4147558..4148985) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 20218988, 12107133; Product type t : transporter; multidrug or homocysteine efflux system 4148985 hsrA 7131793 hsrA Escherichia coli S88 multidrug or homocysteine efflux system YP_002393742.1 4147558 R 585035 CDS YP_002393743.1 218560830 7131398 complement(4149008..4149700) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 4149700 yieP 7131398 yieP Escherichia coli S88 putative transcriptional regulator YP_002393743.1 4149008 R 585035 CDS YP_002393744.1 218560831 7129898 complement(4155501..4156340) 1 NC_011742.1 Negatively regulates the transcription of the flagellar master operon flhDC by binding to the upstream region of the operon; transcriptional regulator HdfR 4156340 hdfR 7129898 hdfR Escherichia coli S88 transcriptional regulator HdfR YP_002393744.1 4155501 R 585035 CDS YP_002393745.1 218560832 7128893 4156459..4156797 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4156797 yifE 7128893 yifE Escherichia coli S88 hypothetical protein YP_002393745.1 4156459 D 585035 CDS YP_002393746.1 218560833 7130857 complement(4156822..4158372) 1 NC_011742.1 among the AAA+ ATPases, the YifB protease family belongs to the Helix 2 insert clade; unknown function; putative ATP-dependent protease 4158372 yifB 7130857 yifB Escherichia coli S88 putative ATP-dependent protease YP_002393746.1 4156822 R 585035 CDS YP_002393747.1 218560834 7130856 4158695..4158793 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87174741; Product type l : leader peptide; ilvG operon leader peptide 4158793 ilvL 7130856 ilvL Escherichia coli S88 ilvG operon leader peptide YP_002393747.1 4158695 D 585035 CDS YP_002393748.1 218560835 7131627 4158933..4160579 1 NC_011742.1 catalyzes the formation of 2-acetolactate from pyruvate; also known as acetolactate synthase large subunit; acetolactate synthase 2 catalytic subunit 4160579 ilvG 7131627 ilvG Escherichia coli S88 acetolactate synthase 2 catalytic subunit YP_002393748.1 4158933 D 585035 CDS YP_002393749.1 218560836 7131624 4160576..4160839 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92332418, 92380929, 1569580, 3550695, 3897211; Product type e : enzyme; acetolactate synthase 2 regulatory subunit 4160839 ilvM 7131624 ilvM Escherichia coli S88 acetolactate synthase 2 regulatory subunit YP_002393749.1 4160576 D 585035 CDS YP_002393750.1 218560837 7131628 4160859..4161788 1 NC_011742.1 catalyzes the transamination of the branched-chain amino acids to their respective alpha-keto acids; branched-chain amino acid aminotransferase 4161788 ilvE 7131628 ilvE Escherichia coli S88 branched-chain amino acid aminotransferase YP_002393750.1 4160859 D 585035 CDS YP_002393751.1 218560838 7131623 4161853..4163703 1 NC_011742.1 catalyzes the dehydration of 2,3-dihydroxy-3-methylbutanoate to 3-methyl-2-oxobutanoate in valine and isoleucine biosynthesis; dihydroxy-acid dehydratase 4163703 ilvD 7131623 ilvD Escherichia coli S88 dihydroxy-acid dehydratase YP_002393751.1 4161853 D 585035 CDS YP_002393752.1 218560839 7131622 4163706..4165250 1 NC_011742.1 threonine deaminase; threonine dehydratase; in Escherichia coli, IlvA is part of the isoleucine biosynthetic pathway; threonine dehydratase 4165250 ilvA 7131622 ilvA Escherichia coli S88 threonine dehydratase YP_002393752.1 4163706 D 585035 CDS YP_002393753.1 218560840 7131619 complement(4165247..4166137) 1 NC_011742.1 participates in controlling several genes involved in isoleucine and valine biosynthesis; activates the transcription of the ilvC gene in the presence of acetolactate or acetohydroxybutyrate; DNA-binding transcriptional regulator IlvY 4166137 ilvY 7131619 ilvY Escherichia coli S88 DNA-binding transcriptional regulator IlvY YP_002393753.1 4165247 R 585035 CDS YP_002393754.1 218560841 7131630 4166287..4167762 1 NC_011742.1 catalyzes the formation of (R)-2,3-dihydroxy-3-methylbutanoate from (S)-2-hydroxy-2-methyl-3-oxobutanoate in valine and isoleucine biosynthesis; ketol-acid reductoisomerase 4167762 ilvC 7131630 ilvC Escherichia coli S88 ketol-acid reductoisomerase YP_002393754.1 4166287 D 585035 CDS YP_002393755.1 218560842 7131621 complement(4167808..4168089) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94215709, 7878732, 7925971, 8163020; Product type e : enzyme; peptidyl-prolyl cis-trans isomerase C (rotamase C) 4168089 ppiC 7131621 ppiC Escherichia coli S88 peptidyl-prolyl cis-trans isomerase C (rotamase C) YP_002393755.1 4167808 R 585035 CDS YP_002393756.1 218560843 7130762 4168176..4170197 1 NC_011742.1 single-stranded DNA-dependent ATPase; initiates unwinding at a nick in the DNA; involved in DNA replication; ATP-dependent DNA helicase Rep 4170197 rep 7130762 rep Escherichia coli S88 ATP-dependent DNA helicase Rep YP_002393756.1 4168176 D 585035 CDS YP_002393757.1 218560844 7131817 complement(4170244..4171728) 1 NC_011742.1 catalyzes the conversion of guanosine 5'-triphosphate,3'-diphosphate (pppGpp) to guanosine 5'-diphosphate,3'-diphosphate (ppGpp); pppGpp and ppGpp control the stringent response during amino acid starvation; guanosine pentaphosphate phosphohydrolase 4171728 gpp 7131817 gpp Escherichia coli S88 guanosine pentaphosphate phosphohydrolase YP_002393757.1 4170244 R 585035 CDS YP_002393758.1 218560845 7130063 complement(4171734..4171913) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 4171913 7130063 ECS88_4201 Escherichia coli S88 hypothetical protein YP_002393758.1 4171734 R 585035 CDS YP_002393759.1 218560846 7132937 complement(4171864..4173129) 1 NC_011742.1 enables ATP-dependent unwinding of double stranded RNA as a component of the RNA degradosome, a multi-enzyme complex important in RNA processing and messenger RNA degradation; ATP-dependent RNA helicase RhlB 4173129 rhlB 7132937 rhlB Escherichia coli S88 ATP-dependent RNA helicase RhlB YP_002393759.1 4171864 R 585035 CDS YP_002393760.1 218560847 7132707 4173260..4173589 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90202710, 91154193, 92250497, 99175138, 10489448, 1094461, 10947986, 1561103, 2181145, 2193685, 3891733, 4616096, 4883076, 6098320, 6099324, 7812718, 8098620, 8253691; Product type c : carrier; thioredoxin 4173589 trxA 7132707 trxA Escherichia coli S88 thioredoxin YP_002393760.1 4173260 D 585035 CDS YP_002393761.1 218560848 7130355 4173730..4173831 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type l : leader peptide; putative rho operon leader peptide 4173831 rhoL 7130355 rhoL Escherichia coli S88 putative rho operon leader peptide YP_002393761.1 4173730 D 585035 CDS YP_002393762.1 218560849 7132710 4173916..4175175 1 NC_011742.1 An RNA-DNA helicase that actively releases nascent mRNAs from paused transcription complexes; transcription termination factor Rho 4175175 rho 7132710 rho Escherichia coli S88 transcription termination factor Rho YP_002393762.1 4173916 D 585035 CDS YP_002393763.1 218560850 7132709 4175415..4176518 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92114763, 94245613, 94292435, 10629198, 11024259, 11700352, 11832520, 1722555, 1730666; Product type e : enzyme; UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase 4176518 rfe 7132709 rfe Escherichia coli S88 UDP-GlcNAc:undecaprenylphosphate GlcNAc-1-phosphate transferase YP_002393763.1 4175415 D 585035 CDS YP_002393764.1 218560851 7132690 4176530..4177576 1 NC_011742.1 Enterobacterial Common Antigen (ECA) polysaccharide chain length modulation protein; lipopolysaccharide biosynthesis protein WzzE 4177576 wzzE 7132690 wzzE Escherichia coli S88 lipopolysaccharide biosynthesis protein WzzE YP_002393764.1 4176530 D 585035 CDS YP_002393765.1 218560852 7132511 4177632..4178762 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90212314, 90337949, 92112804, 94042873, 11106477, 7559340, 8170390, 8226648; Product type e : enzyme; UDP-N-acetyl glucosamine-2-epimerase 4178762 rffE 7132511 rffE Escherichia coli S88 UDP-N-acetyl glucosamine-2-epimerase YP_002393765.1 4177632 D 585035 CDS YP_002393766.1 218560853 7132695 4178759..4180021 1 NC_011742.1 catalyzes the oxidation of UDP-N-acetyl-D-mannosamine to UDP-N-acetylmannosaminuronic acid; UDP-N-acetyl-D-mannosamine dehydrogenase 4180021 wecC 7132695 wecC Escherichia coli S88 UDP-N-acetyl-D-mannosamine dehydrogenase YP_002393766.1 4178759 D 585035 CDS YP_002393767.1 218560854 7132694 4180021..4181088 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88086930, 90212314, 90337949, 92112804, 92174908, 94018634, 94042873, 7559340; Product type e : enzyme; dTDP-glucose 4,6-dehydratase 4181088 rffG 7132694 rffG Escherichia coli S88 dTDP-glucose 4,6-dehydratase YP_002393767.1 4180021 D 585035 CDS YP_002393768.1 218560855 7132696 4181107..4181988 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94292435, 96032389; Product type e : enzyme; glucose-1-phosphate thymidylyltransferase 4181988 rffH 7132696 rffH Escherichia coli S88 glucose-1-phosphate thymidylyltransferase YP_002393768.1 4181107 D 585035 CDS YP_002393769.1 218560856 7132697 4182095..4182640 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90212314, 90337949, 92112804, 8366065; Product type e : enzyme; TDP-fucosamine acetyltransferase 4182640 rffC 7132697 rffC Escherichia coli S88 TDP-fucosamine acetyltransferase YP_002393769.1 4182095 D 585035 CDS YP_002393770.1 218560857 7132693 4182645..4183775 1 NC_011742.1 catalyzes the formation of dTDP-D-fucosamine from dTDP-4-oxo-6-deoxy-D-glucose in enterobacterial common antigen biosynthesis; TDP-4-oxo-6-deoxy-D-glucose transaminase 4183775 rffA 7132693 rffA Escherichia coli S88 TDP-4-oxo-6-deoxy-D-glucose transaminase YP_002393770.1 4182645 D 585035 CDS YP_002393771.1 218560858 7132692 4183777..4185027 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12621029, 20044778; Product type t : transporter; O-antigen translocase 4185027 wzxE 7132692 wzxE Escherichia coli S88 O-antigen translocase YP_002393771.1 4183777 D 585035 CDS YP_002393772.1 218560859 7132508 4185024..4186103 1 NC_011742.1 catalyzes the synthesis of a lipid-linked intermediate involved in ECA synthesis; 4-alpha-L-fucosyltransferase 4186103 rffT 7132508 rffT Escherichia coli S88 4-alpha-L-fucosyltransferase YP_002393772.1 4185024 D 585035 CDS YP_002393773.1 218560860 7132699 4186100..4187452 1 NC_011742.1 enterobacterial common antigen polymerase; putative common antigen polymerase 4187452 wzyE 7132699 wzyE Escherichia coli S88 putative common antigen polymerase YP_002393773.1 4186100 D 585035 CDS YP_002393774.1 218560861 7132510 4187455..4188195 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88086874, 90337949, 92112804; Product type e : enzyme; putative UDP-N-acetyl-D-mannosaminuronic acid transferase 4188195 rffM 7132510 rffM Escherichia coli S88 putative UDP-N-acetyl-D-mannosaminuronic acid transferase YP_002393774.1 4187455 D 585035 CDS YP_002393775.1 218560862 7132698 4188386..4189771 1 NC_011742.1 uncharacterized member of the amino acid-polyamine-organocation (APC) superfamily of amino acid transporters; unknown function; putative transport protein YifK 4189771 yifK 7132698 yifK Escherichia coli S88 putative transport protein YifK YP_002393775.1 4188386 D 585035 CDS YP_002393776.1 218560863 7129903 4190457..4191692 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 11222759, 2180918, 12419807, 14749327; Product type pr : putative regulator; regulator of arylsulfatase activity 4191692 aslB 7129903 aslB Escherichia coli S88 regulator of arylsulfatase activity YP_002393776.1 4190457 D 585035 CDS YP_002393777.1 218560864 7129944 complement(4191850..4193505) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 16766528, 92358234, 15477040; Product type e : enzyme; arylsulfatase-like enzyme 4193505 aslA 7129944 aslA Escherichia coli S88 arylsulfatase-like enzyme YP_002393777.1 4191850 R 585035 CDS YP_002393778.1 218560865 7131350 complement(4194184..4195380) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 89041586; Product type pe : putative enzyme; putative protoheme IX biogenesis protein 4195380 hemY 7131350 hemY Escherichia coli S88 putative protoheme IX biogenesis protein YP_002393778.1 4194184 R 585035 CDS YP_002393779.1 218560866 7128907 complement(4195383..4196570) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 89098348, 92358234, 3054815, 3062586, 9298646; Product type pe : putative enzyme; putative uroporphyrinogen III C-methyltransferase 4196570 hemX 7128907 hemX Escherichia coli S88 putative uroporphyrinogen III C-methyltransferase YP_002393779.1 4195383 R 585035 CDS YP_002393780.1 218560867 7128906 complement(4196592..4197332) 1 NC_011742.1 catalyzes the formation of uroporphyrinogen-III from hydroxymethylbilane; functions in tetrapyrrole and heme biosynthesis; uroporphyrinogen-III synthase 4197332 hemD 7128906 hemD Escherichia coli S88 uroporphyrinogen-III synthase YP_002393780.1 4196592 R 585035 CDS YP_002393781.1 218560868 7128899 complement(4197329..4198270) 1 NC_011742.1 transformation of porphobilinogen to hydroxymethylbilane in porphyrin biosynthesis; porphobilinogen deaminase 4198270 hemC 7128899 hemC Escherichia coli S88 porphobilinogen deaminase YP_002393781.1 4197329 R 585035 CDS YP_002393782.1 218560869 7128898 4198657..4201203 1 NC_011742.1 catalyzes transfer of adenylyl group of ATP from pyrophosphate to the 3'-hydroxyl group to form cyclic AMP; adenylate cyclase 4201203 cyaA 7128898 cyaA Escherichia coli S88 adenylate cyclase YP_002393782.1 4198657 D 585035 CDS YP_002393783.1 218560870 7130519 complement(4201243..4201563) 1 NC_011742.1 defects in the mitochondrial frataxin protein cause Friedreich ataxis which is an autosomal recessive neurodegenerative disease; based on phylogenomic distribution this protein may have a role in iron-sulfur cluster protein assembly; frataxin-like protein 4201563 cyaY 7130519 cyaY Escherichia coli S88 frataxin-like protein YP_002393783.1 4201243 R 585035 CDS YP_002393784.1 218560871 7130520 complement(4201611..4202927) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 4202927 7130520 ECS88_4231 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002393784.1 4201611 R 585035 CDS YP_002393785.1 218560872 7130986 4204582..4204785 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; putative lipoprotein 4204785 yifL 7130986 yifL Escherichia coli S88 putative lipoprotein YP_002393785.1 4204582 D 585035 CDS YP_002393786.1 218560873 7130859 4204822..4205646 1 NC_011742.1 involved in lysine biosynthesis; DAP epimerase; produces DL-diaminopimelate from LL-diaminopimelate; diaminopimelate epimerase 4205646 dapF 7130859 dapF Escherichia coli S88 diaminopimelate epimerase YP_002393786.1 4204822 D 585035 CDS YP_002393787.1 218560874 7130568 4205643..4206350 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4206350 yigA 7130568 yigA Escherichia coli S88 hypothetical protein YP_002393787.1 4205643 D 585035 CDS YP_002393788.1 218560875 7130860 4206347..4207243 1 NC_011742.1 site-specific tyrosine recombinase which cuts and rejoins DNA molecules; binds cooperatively to specific DNA consensus sites; forms a heterotetrameric complex with XerC; XerCD exhibit similar sequences; essential to convert chromosome dimers to monomers during cell division and functions during plasmid segregation; cell division protein FtsK may regulate the XerCD complex; enzyme from Streptococcus group has unusual active site motifs; site-specific tyrosine recombinase XerC 4207243 xerC 7130860 xerC Escherichia coli S88 site-specific tyrosine recombinase XerC YP_002393788.1 4206347 D 585035 CDS YP_002393789.1 218560876 7132520 4207243..4207959 1 NC_011742.1 YigB; member of the haloacid dehalogenase (HAD)-like hydrolases superfamily of protein; unknown function; flavin mononucleotide phosphatase 4207959 yigB 7132520 yigB Escherichia coli S88 flavin mononucleotide phosphatase YP_002393789.1 4207243 D 585035 CDS YP_002393790.1 218560877 7130861 4208043..4210205 1 NC_011742.1 unwinds DNA duplexes with 3' to 5' polarity with respect to the bound strand and initiates unwinding most effectively when a single-stranded region is present; involved in the post-incision events of nucleotide excision repair and methyl-directed mismatch repair.; DNA-dependent helicase II 4210205 uvrD 7130861 uvrD Escherichia coli S88 DNA-dependent helicase II YP_002393790.1 4208043 D 585035 CDS YP_002393791.1 218560878 7132461 complement(4210250..4211152) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 4211152 7132461 ECS88_4240 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002393791.1 4210250 R 585035 CDS YP_002393792.1 218560879 7130987 complement(4211235..4211999) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4211999 yigE 7130987 yigE Escherichia coli S88 hypothetical protein YP_002393792.1 4211235 R 585035 CDS YP_002393793.1 218560880 7130862 4212369..4213319 1 NC_011742.1 responsible for the influx of magnesium ions; magnesium/nickel/cobalt transporter CorA 4213319 corA 7130862 corA Escherichia coli S88 magnesium/nickel/cobalt transporter CorA YP_002393793.1 4212369 D 585035 CDS YP_002393794.1 218560881 7131949 complement(4213355..4213852) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4213852 7131949 ECS88_4243 Escherichia coli S88 hypothetical protein YP_002393794.1 4213355 R 585035 CDS YP_002393795.1 218560882 7130988 complement(4213849..4214697) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4214697 7130988 ECS88_4244 Escherichia coli S88 hypothetical protein YP_002393795.1 4213849 R 585035 CDS YP_002393796.1 218560883 7130989 complement(4215008..4215898) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative chloramphenicol resistance permease 4215898 rarD 7130989 rarD Escherichia coli S88 putative chloramphenicol resistance permease YP_002393796.1 4215008 R 585035 CDS YP_002393797.1 218560884 7131783 complement(4215950..4216417) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4216417 yigI 7131783 yigI Escherichia coli S88 hypothetical protein YP_002393797.1 4215950 R 585035 CDS YP_002393798.1 218560885 7130863 4216582..4217451 1 NC_011742.1 catalyzes the hydrolysis of phosphatidylcholine; phospholipase A 4217451 pldA 7130863 pldA Escherichia coli S88 phospholipase A YP_002393798.1 4216582 D 585035 CDS YP_002393799.1 218560886 7131813 4219320..4219940 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 99313167, 10386596, 3027506; Product type t : transporter; threonine efflux system 4219940 rhtC 7131813 rhtC Escherichia coli S88 threonine efflux system YP_002393799.1 4219320 D 585035 CDS YP_002393800.1 218560887 7132713 complement(4220001..4220621) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 99313167, 10386596; Product type t : transporter; homoserine/homoserine lactone efflux protein 4220621 rhtB 7132713 rhtB Escherichia coli S88 homoserine/homoserine lactone efflux protein YP_002393800.1 4220001 R 585035 CDS YP_002393801.1 218560888 7132712 4220732..4221754 1 NC_011742.1 lecithinase B; catalyzes the conversion of 1-lysophosphatidylcholine to glycerophosphocholine; can also hydrolyze 2-acyl glycerophosphoethanolamine and other substrates; lysophospholipase L2 4221754 pldB 7132712 pldB Escherichia coli S88 lysophospholipase L2 YP_002393801.1 4220732 D 585035 CDS YP_002393802.1 218560889 7133739 4221762..4222562 1 NC_011742.1 purine and pyrimidine nucleotides are secondary substrates; yigL expression is regulated by heat shock, osmotic shock and starvation of glucose, phosphate or ammonium; putative sugar phosphatase 4222562 yigL 7133739 yigL Escherichia coli S88 putative sugar phosphatase YP_002393802.1 4221762 D 585035 CDS YP_002393803.1 218560890 7130864 4222638..4223537 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4223537 yigM 7130864 yigM Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393803.1 4222638 D 585035 CDS YP_002393804.1 218560891 7130865 complement(4223425..4224378) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90384950, 96303520, 2205852, 2643109; Product type r : regulator; DNA-binding transcriptional activator, homocysteine-binding 4224378 metR 7130865 metR Escherichia coli S88 DNA-binding transcriptional activator, homocysteine-binding YP_002393804.1 4223425 R 585035 CDS YP_002393805.1 218560892 7128824 4224496..4226757 1 NC_011742.1 catalyzes the transfer of a methyl group from 5-methyltetrahydrofolate to homocysteine to form methionine; 5-methyltetrahydropteroyltriglutamate-- homocysteine S-methyltransferase 4226757 metE 7128824 metE Escherichia coli S88 5-methyltetrahydropteroyltriglutamate-- homocysteine S-methyltransferase YP_002393805.1 4224496 D 585035 CDS YP_002393806.1 218560893 7128813 complement(4226926..4227186) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4227186 7128813 ECS88_4258 Escherichia coli S88 hypothetical protein YP_002393806.1 4226926 R 585035 CDS YP_002393807.1 218560894 7130990 complement(4227246..4227503) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4227503 7130990 ECS88_4259 Escherichia coli S88 hypothetical protein YP_002393807.1 4227246 R 585035 CDS YP_002393808.1 218560895 7130993 4229085..4229675 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4229675 7130993 ECS88_4262 Escherichia coli S88 hypothetical protein YP_002393808.1 4229085 D 585035 CDS YP_002393809.1 218560896 7130994 4229717..4231225 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 9200688; Product type t : transporter; fused glucose-specific PTS enzymes: IIBcomponent and IIC component 4231225 ptsG 7130994 ptsG Escherichia coli S88 fused glucose-specific PTS enzymes: IIBcomponent and IIC component YP_002393809.1 4229717 D 585035 CDS YP_002393810.1 218560897 7131739 4231276..4233273 1 NC_011742.1 catalyzes the formation of ribose 5-phosphate and xylulose 5-phosphate from sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate; can transfer ketol groups between several groups; in Escherichia coli there are two tkt genes, tktA expressed during exponential growth and the tktB during stationary phase; transketolase 4233273 7131739 ECS88_4264 Escherichia coli S88 transketolase YP_002393810.1 4231276 D 585035 CDS YP_002393811.1 218560898 7130995 complement(4233303..4234148) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4234148 7130995 ECS88_4265 Escherichia coli S88 hypothetical protein YP_002393811.1 4233303 R 585035 CDS YP_002393812.1 218560899 7130996 complement(4234349..4235254) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcritional regulator 4235254 7130996 ECS88_4266 Escherichia coli S88 putative transcritional regulator YP_002393812.1 4234349 R 585035 CDS YP_002393813.1 218560900 7130997 complement(4235332..4236555) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative permease; putative Purine-cytosine permease and related proteins 4236555 7130997 ECS88_4267 Escherichia coli S88 putative permease; putative Purine-cytosine permease and related proteins YP_002393813.1 4235332 R 585035 CDS YP_002393814.1 218560901 7130998 complement(4236581..4236970) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4236970 7130998 ECS88_4268 Escherichia coli S88 hypothetical protein YP_002393814.1 4236581 R 585035 CDS YP_002393815.1 218560902 7130999 complement(4236987..4238030) 1 NC_011742.1 catalyzes the reversible synthesis of carbamate and ATP from carbamoyl phosphate and ADP; carbamate kinase 4238030 7130999 ECS88_4269 Escherichia coli S88 carbamate kinase YP_002393815.1 4236987 R 585035 CDS YP_002393816.1 218560903 7131000 complement(4237936..4239411) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4239411 7131000 ECS88_4270 Escherichia coli S88 hypothetical protein YP_002393816.1 4237936 R 585035 CDS YP_002393817.1 218560904 7131001 complement(4239357..4240916) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative enzyme, Putative Succinyl-CoA synthetase, alpha subunit 4240916 7131001 ECS88_4271 Escherichia coli S88 Putative enzyme, Putative Succinyl-CoA synthetase, alpha subunit YP_002393817.1 4239357 R 585035 CDS YP_002393818.1 218560905 7131002 complement(4241011..4241871) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4241871 7131002 ECS88_4272 Escherichia coli S88 hypothetical protein YP_002393818.1 4241011 R 585035 CDS YP_002393819.1 218560906 7131003 complement(4241877..4242545) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative Isochorismate hydrolase 4242545 7131003 ECS88_4273 Escherichia coli S88 conserved hypothetical protein; putative Isochorismate hydrolase YP_002393819.1 4241877 R 585035 CDS YP_002393820.1 218560907 7131004 complement(4242802..4243611) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12676709; Product type pe : putative enzyme; putative hydrolase 4243611 ysgA 7131004 ysgA Escherichia coli S88 putative hydrolase YP_002393820.1 4242802 R 585035 CDS YP_002393821.1 218560908 7131864 4243873..4244637 1 NC_011742.1 catalyzes the reversible phosphorylytic cleavage of uridine and deoxyuridine to uracil and ribose- or deoxyribose-1-phosphate; involved in the pyrimidine salvage pathway; uridine phosphorylase 4244637 udp 7131864 udp Escherichia coli S88 uridine phosphorylase YP_002393821.1 4243873 D 585035 CDS YP_002393822.1 218560909 7130391 complement(4244672..4246162) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4246162 7130391 ECS88_4276 Escherichia coli S88 hypothetical protein YP_002393822.1 4244672 R 585035 CDS YP_002393823.1 218560910 7131005 complement(4246175..4246684) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative permease subunit 4246684 7131005 ECS88_4277 Escherichia coli S88 putative permease subunit YP_002393823.1 4246175 R 585035 CDS YP_002393824.1 218560911 7131006 complement(4246698..4247672) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative periplasmic binding protein 4247672 7131006 ECS88_4278 Escherichia coli S88 putative periplasmic binding protein YP_002393824.1 4246698 R 585035 CDS YP_002393825.1 218560912 7131007 complement(4247697..4248401) 1 NC_011742.1 catalyzes the formation of D-glyceraldehyde 3-phosphate and pyruvate from 2-dehydro-3-deoxy-D-galactonate 6-phosphate; functions in galactonate metabolism; 2-dehydro-3-deoxy-6-phosphogalactonate aldolase 4248401 7131007 ECS88_4279 Escherichia coli S88 2-dehydro-3-deoxy-6-phosphogalactonate aldolase YP_002393825.1 4247697 R 585035 CDS YP_002393826.1 218560913 7131008 complement(4248316..4249320) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme; acidic carbohydrate kinase 4249320 7131008 ECS88_4280 Escherichia coli S88 acidic carbohydrate kinase YP_002393826.1 4248316 R 585035 CDS YP_002393827.1 218560914 7131009 complement(4249344..4250198) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 4250198 7131009 ECS88_4281 Escherichia coli S88 putative transcriptional regulator YP_002393827.1 4249344 R 585035 CDS YP_002393828.1 218560915 7131010 4250328..4251755 1 NC_011742.1 YigN; nuclease that may cleave DNA structures arising during the recombination of short-inverted repeats and thereby prevents the inversion of the internal sequence; transcription is induced by DNA-damaging agents such as nalidixic acid or mitomycin C in a LexA-dependent manner; DNA recombination protein RmuC 4251755 rmuC 7131010 rmuC Escherichia coli S88 DNA recombination protein RmuC YP_002393828.1 4250328 D 585035 CDS YP_002393829.1 218560916 7132739 4251850..4252605 1 NC_011742.1 Catalyzes the carbon methylation reaction in the biosynthesis of ubiquinone; ubiquinone/menaquinone biosynthesis methyltransferase 4252605 ubiE 7132739 ubiE Escherichia coli S88 ubiquinone/menaquinone biosynthesis methyltransferase YP_002393829.1 4251850 D 585035 CDS YP_002393830.1 218560917 7130384 4252619..4253224 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4253224 yigP 7130384 yigP Escherichia coli S88 hypothetical protein YP_002393830.1 4252619 D 585035 CDS YP_002393831.1 218560918 7130866 4253221..4254861 1 NC_011742.1 an Escherichia coli mutant results in accumulation of octaprenylphenol and no ubiquinone; functions in the formation of 2-octaprenyl-6-hydroxy-phenol from 2-octaprenylphenol in ubiquinone (coenzyme Q) biosynthesis; similar to eukaryotic proteins that exhibit kinase functions; putative ubiquinone biosynthesis protein UbiB 4254861 ubiB 7130866 ubiB Escherichia coli S88 putative ubiquinone biosynthesis protein UbiB YP_002393831.1 4253221 D 585035 CDS YP_002393832.1 218560919 7130381 4254940..4255209 1 NC_011742.1 TatA; similar to TatE that is found in some proteobacteria; part of system that translocates proteins with a conserved twin arginine motif across the inner membrane; capable of translocating folded substrates typically those with bound cofactors; similar to a protein import system in thylakoid membranes; twin arginine translocase protein A 4255209 tatA 7130381 tatA Escherichia coli S88 twin arginine translocase protein A YP_002393832.1 4254940 D 585035 CDS YP_002393833.1 218560920 7131262 4255213..4255728 1 NC_011742.1 mediates the export of protein precursors bearing twin-arginine signal peptides; sec-independent translocase 4255728 tatB 7131262 tatB Escherichia coli S88 sec-independent translocase YP_002393833.1 4255213 D 585035 CDS YP_002393834.1 218560921 7131263 4255731..4256507 1 NC_011742.1 with TatABE forms the twin-arginine translocation complex which is involved in the transport of proteins across the cytoplasmic membrane; twin-arginine protein translocation system subunit TatC 4256507 tatC 7131263 tatC Escherichia coli S88 twin-arginine protein translocation system subunit TatC YP_002393834.1 4255731 D 585035 CDS YP_002393835.1 218560922 7131264 4256549..4257331 1 NC_011742.1 magnesium dependent; not involved in the Sec-independent protein export system; DNase TatD 4257331 tatD 7131264 tatD Escherichia coli S88 DNase TatD YP_002393835.1 4256549 D 585035 CDS YP_002393836.1 218560923 7131265 complement(4257328..4257816) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92011415, 92250420, 92261317, 1584020, 12007406; Product type r : regulator; transcriptional activator RfaH 4257816 rfaH 7131265 rfaH Escherichia coli S88 transcriptional activator RfaH YP_002393836.1 4257328 R 585035 CDS YP_002393837.1 218560924 7131819 4257983..4259476 1 NC_011742.1 catalyzes the decarboxylation of 3-octaprenyl-4-hydroxy benzoate to 2-octaprenylphenol; 3-octaprenyl-4-hydroxybenzoate decarboxylase 4259476 ubiD 7131819 ubiD Escherichia coli S88 3-octaprenyl-4-hydroxybenzoate decarboxylase YP_002393837.1 4257983 D 585035 CDS YP_002393838.1 218560925 7130383 4259522..4260223 1 NC_011742.1 NAD(P)H-flavin reductase; catalyzes the reversible oxidation/reduction of NAD(P) and flavine mononucleotide; in Salmonella and E. coli this protein also reduces aquacob(III)alamin to cob(II)alamin; FMN reductase 4260223 fre 7130383 fre Escherichia coli S88 FMN reductase YP_002393838.1 4259522 D 585035 CDS YP_002393839.1 218560926 7132828 complement(4260506..4261669) 1 NC_011742.1 FadA; fatty acid oxidation complex component beta; functions in a heterotetramer with FadB; similar to FadI2J2 complex; functions in beta-oxidation of fatty acids; 3-ketoacyl-CoA thiolase 4261669 fadA 7132828 fadA Escherichia coli S88 3-ketoacyl-CoA thiolase YP_002393839.1 4260506 R 585035 CDS YP_002393840.1 218560927 7129440 complement(4261679..4263868) 1 NC_011742.1 includes enoyl-CoA hydratase, delta(3)-cis-delta(2)-trans-enoyl-CoA isomerase, 3-hydroxyacyl-CoA dehydrogenase, and 3-hydroxybutyryl-CoA epimerase; catalyzes the formation of an hydroxyacyl-CoA by addition of water on enoyl-CoA; also exhibits 3-hydroxyacyl-CoA epimerase and 3-hydroxyacyl-CoA dehydrogenase activities; forms a heterotetramer with FadA; similar to FadI2J2 complex; functions in beta-oxidation of fatty acids; multifunctional fatty acid oxidation complex subunit alpha 4263868 fadB 7129440 fadB Escherichia coli S88 multifunctional fatty acid oxidation complex subunit alpha YP_002393840.1 4261679 R 585035 CDS YP_002393841.1 218560928 7129441 4264058..4265389 1 NC_011742.1 catalyzes the hydrolysis of dipeptides with a proline at the C-terminal; also catalyzes the low efficiency hydrolysis of organophosphate di- and tri-esters; proline dipeptidase 4265389 pepQ 7129441 pepQ Escherichia coli S88 proline dipeptidase YP_002393841.1 4264058 D 585035 CDS YP_002393842.1 218560929 7133675 4265389..4266003 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 15103642; Product type pf : putative factor; hypothetical protein 4266003 yigZ 7133675 yigZ Escherichia coli S88 hypothetical protein YP_002393842.1 4265389 D 585035 CDS YP_002393843.1 218560930 7130867 4266042..4267493 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91100357, 2243799, 7896723; Product type t : transporter; potassium transporter 4267493 trkH 7130867 trkH Escherichia coli S88 potassium transporter YP_002393843.1 4266042 D 585035 CDS YP_002393844.1 218560931 7130336 4267505..4268050 1 NC_011742.1 catalyzes the oxidation of protoporphyrinogen IX to form protoporphyrin IX; protoporphyrinogen oxidase 4268050 hemG 7130336 hemG Escherichia coli S88 protoporphyrinogen oxidase YP_002393844.1 4267505 D 585035 CDS YP_002393845.1 218560932 7129851 complement(4273630..4274142) 1 NC_011742.1 in Escherichia coli the MobB protein is not essential but has been found to interact with multiple proteins involved in the molybdopterin guanine dinucleotide cofactor biosynthesis pathway; molybdopterin-guanine dinucleotide biosynthesis protein B 4274142 mobB 7129851 mobB Escherichia coli S88 molybdopterin-guanine dinucleotide biosynthesis protein B YP_002393845.1 4273630 R 585035 CDS YP_002393846.1 218560933 7128854 complement(4274139..4274723) 1 NC_011742.1 in Escherichia coli MobA links a guanosine 5'-phosphate to molydopterin to form molybdopterin guanine dinucleotide during molybdenum cofactor biosynthesis; molybdopterin-guanine dinucleotide biosynthesis protein MobA 4274723 mobA 7128854 mobA Escherichia coli S88 molybdopterin-guanine dinucleotide biosynthesis protein MobA YP_002393846.1 4274139 R 585035 CDS YP_002393847.1 218560934 7128853 4274793..4275062 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4275062 yihD 7128853 yihD Escherichia coli S88 hypothetical protein YP_002393847.1 4274793 D 585035 CDS YP_002393848.1 218560935 7130869 4275139..4276125 1 NC_011742.1 catalyzes the phosphorylation of protein substrates at serine and threonine residues in vitro; specific substrate in vivo has not been identified yet; plays a role in long-term cell survival and expression of surface appendages; serine/threonine protein kinase 4276125 yihE 7130869 yihE Escherichia coli S88 serine/threonine protein kinase YP_002393848.1 4275139 D 585035 CDS YP_002393849.1 218560936 7130870 4276142..4276768 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12498799, 93264419, 94016574, 94206930, 99298180, 10210188, 1429594, 1740115, 1934062, 8413591, 8494885, 8521518, 9194175, 9298646, 9300489, 9572841, 9600841, 9655827; Product type e : enzyme; periplasmic protein disulfide isomerase I 4276768 dsbA 7130870 dsbA Escherichia coli S88 periplasmic protein disulfide isomerase I YP_002393849.1 4276142 D 585035 CDS YP_002393850.1 218560937 7130239 4276923..4278353 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4278353 yihF 7130239 yihF Escherichia coli S88 hypothetical protein YP_002393850.1 4276923 D 585035 CDS YP_002393851.1 218560938 7130871 complement(4278394..4279326) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acyltransferase 4279326 yihG 7130871 yihG Escherichia coli S88 putative acyltransferase YP_002393851.1 4278394 R 585035 CDS YP_002393852.1 218560939 7130872 4279690..4282476 1 NC_011742.1 has 3'-5' exonuclease, 5'-3' exonuclease and 5'-3'polymerase activities, primarily functions to fill gaps during DNA replication and repair; DNA polymerase I 4282476 polA 7130872 polA Escherichia coli S88 DNA polymerase I YP_002393852.1 4279690 D 585035 CDS YP_002393853.1 218560940 7130631 complement(4282858..4283454) 1 NC_011742.1 binds guanine nucleotides; in Escherichia coli depletion results in defective cell division and filamentation; in Bacillus subtilis this gene is essential; ribosome biogenesis GTP-binding protein YsxC 4283454 engB 7130631 engB Escherichia coli S88 ribosome biogenesis GTP-binding protein YsxC YP_002393853.1 4282858 R 585035 CDS YP_002393854.1 218560941 7130504 4284072..4284581 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4284581 yihI 7130504 yihI Escherichia coli S88 hypothetical protein YP_002393854.1 4284072 D 585035 CDS YP_002393855.1 218560942 7130873 4284770..4286143 1 NC_011742.1 catalyzes the oxygen-independent formation of protoporphyrinogen-IX from coproporphyrinogen-III; coproporphyrinogen III oxidase 4286143 hemN 7130873 hemN Escherichia coli S88 coproporphyrinogen III oxidase YP_002393855.1 4284770 D 585035 CDS YP_002393856.1 218560943 7128905 complement(4286503..4287912) 1 NC_011742.1 response regulator of a two-component regulatory system involved in the activation of nitrogen assimilation genes; interacts with sigma-54; nitrogen regulation protein NR(I) 4287912 glnG 7128905 glnG Escherichia coli S88 nitrogen regulation protein NR(I) YP_002393856.1 4286503 R 585035 CDS YP_002393857.1 218560944 7130008 complement(4287924..4288973) 1 NC_011742.1 sensory histidine kinase in two-component regulatory system with GlnG; acts as a signal transducer which responds to the nitrogen level of cell and modulates the activity of ntrC by phosphorylation/dephosphorylation; nitrogen regulation protein NR(II) 4288973 glnL 7130008 glnL Escherichia coli S88 nitrogen regulation protein NR(II) YP_002393857.1 4287924 R 585035 CDS YP_002393858.1 218560945 7130011 complement(4289147..4290556) 1 NC_011742.1 forms a homododecamer; forms glutamine from ammonia and glutamate with the conversion of ATP to ADP and phosphate; also functions in the assimilation of ammonia; highly regulated protein controlled by the addition/removal of adenylyl groups by adenylyltransferase from specific tyrosine residues; addition of adenylyl groups results in inactivation of the enzyme; glutamine synthetase 4290556 glnA 7130011 glnA Escherichia coli S88 glutamine synthetase YP_002393858.1 4289147 R 585035 CDS YP_002393859.1 218560946 7130004 4290929..4292752 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9642082, 7783627, 9298646, 9622352; Product type f : factor; GTP-binding protein 4292752 bipA 7130004 bipA Escherichia coli S88 GTP-binding protein YP_002393859.1 4290929 D 585035 CDS YP_002393860.1 218560947 7129126 complement(4292859..4293647) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; Putative DEOR-type transcriptional regulator 4293647 7129126 ECS88_4322 Escherichia coli S88 Putative DEOR-type transcriptional regulator YP_002393860.1 4292859 R 585035 CDS YP_002393861.1 218560948 7131011 complement(4293687..4294634) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative sugar kinase 4294634 7131011 ECS88_4323 Escherichia coli S88 putative sugar kinase YP_002393861.1 4293687 R 585035 CDS YP_002393862.1 218560949 7131012 4294686..4295633 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase with NAD(P)-binding Rossmann-fold domain, putative 3-hydroxyisobutyrate dehydrogenase 4295633 7131012 ECS88_4324 Escherichia coli S88 putative oxidoreductase with NAD(P)-binding Rossmann-fold domain, putative 3-hydroxyisobutyrate dehydrogenase YP_002393862.1 4294686 D 585035 CDS YP_002393863.1 218560950 7131013 4295658..4296545 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative aldolase yihT 4296545 7131013 ECS88_4325 Escherichia coli S88 putative aldolase yihT YP_002393863.1 4295658 D 585035 CDS YP_002393864.1 218560951 7131014 4296578..4297588 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Conserved hypothetical protein, putative dehydrogenase, putative GroES-like protein 4297588 7131014 ECS88_4326 Escherichia coli S88 Conserved hypothetical protein, putative dehydrogenase, putative GroES-like protein YP_002393864.1 4296578 D 585035 CDS YP_002393865.1 218560952 7131015 4297658..4299091 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 4299091 7131015 ECS88_4327 Escherichia coli S88 putative transporter YP_002393865.1 4297658 D 585035 CDS YP_002393866.1 218560953 7131016 4299190..4300539 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transport protein (shikimate homolog) 4300539 7131016 ECS88_4328 Escherichia coli S88 putative transport protein (shikimate homolog) YP_002393866.1 4299190 D 585035 CDS YP_002393867.1 218560954 7131017 4300472..4301416 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative Galactose mutarotase and related enzymes 4301416 7131017 ECS88_4329 Escherichia coli S88 conserved hypothetical protein, putative Galactose mutarotase and related enzymes YP_002393867.1 4300472 D 585035 CDS YP_002393868.1 218560955 7131018 4301557..4302156 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; phosphatase 4302156 yihX 7131018 yihX Escherichia coli S88 phosphatase YP_002393868.1 4301557 D 585035 CDS YP_002393869.1 218560956 7130874 4302150..4303022 1 NC_011742.1 RNase BN; required for 3' maturation of certain phage T4-encoded tRNAs; forms a dimer; specific for immature tRNA substrates containing incorrect residues within the universal CCA sequence; 3' to 5' exoribonuclease; ribonuclease BN 4303022 rbn 7130874 rbn Escherichia coli S88 ribonuclease BN YP_002393869.1 4302150 D 585035 CDS YP_002393870.1 218560957 7131787 4303019..4303456 1 NC_011742.1 hydrolyzes D-tyrosyl-tRNA(Tyr) into D-tyrosine and free tRNA(Tyr); possible defense mechanism against a harmful effect of D-tyrosine; D-tyrosyl-tRNA(Tyr) deacylase 4303456 dtd 7131787 dtd Escherichia coli S88 D-tyrosyl-tRNA(Tyr) deacylase YP_002393870.1 4303019 D 585035 CDS YP_002393871.1 218560958 7132365 4303453..4304442 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acetyltransferase 4304442 yiiD 7132365 yiiD Escherichia coli S88 putative acetyltransferase YP_002393871.1 4303453 D 585035 CDS YP_002393872.1 218560959 7130875 complement(4304506..4305489) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative lipase 4305489 7130875 ECS88_4334 Escherichia coli S88 putative lipase YP_002393872.1 4304506 R 585035 CDS YP_002393873.1 218560960 7131019 4305643..4305954 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4305954 7131019 ECS88_4335 Escherichia coli S88 hypothetical protein YP_002393873.1 4305643 D 585035 CDS YP_002393874.1 218560961 7131020 4305955..4306245 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative transcriptional regulator 4306245 7131020 ECS88_4336 Escherichia coli S88 conserved hypothetical protein, putative transcriptional regulator YP_002393874.1 4305955 D 585035 CDS YP_002393875.1 218560962 7131021 4306604..4306882 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4306882 7131021 ECS88_4337 Escherichia coli S88 hypothetical protein YP_002393875.1 4306604 D 585035 CDS YP_002393876.1 218560963 7131022 4307278..4307496 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 4307496 yiiE 7131022 yiiE Escherichia coli S88 putative transcriptional regulator YP_002393876.1 4307278 D 585035 CDS YP_002393877.1 218560964 7130876 complement(4307712..4308641) 1 NC_011742.1 required for the formation of active formate dehydrogenase; formate dehydrogenase accessory protein FdhE 4308641 fdhE 7130876 fdhE Escherichia coli S88 formate dehydrogenase accessory protein FdhE YP_002393877.1 4307712 R 585035 CDS YP_002393878.1 218560965 7129452 complement(4308638..4309273) 1 NC_011742.1 cytochrome b556(FDO) component; heme containing; formate dehydrogenase-O subunit gamma 4309273 fdoI 7129452 fdoI Escherichia coli S88 formate dehydrogenase-O subunit gamma YP_002393878.1 4308638 R 585035 CDS YP_002393879.1 218560966 7129459 complement(4309270..4310172) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91317715, 8522521, 9852007; Product type c : carrier; formate dehydrogenase-O, Fe-S subunit 4310172 fdoH 7129459 fdoH Escherichia coli S88 formate dehydrogenase-O, Fe-S subunit YP_002393879.1 4309270 R 585035 CDS YP_002393880.1 218560967 7129458 complement(4310185..4313235) 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type e : enzyme; formate dehydrogenase-O, large subunit 4313235 fdoG 7129458 fdoG Escherichia coli S88 formate dehydrogenase-O, large subunit YP_002393880.1 4310185 R 585035 CDS YP_002393881.1 218560968 7129457 4313429..4314262 1 NC_011742.1 involved in the production or activity of formate dehydrogenase-H which is active when nitrate is not present during anaerobic growth; formate dehydrogenase accessory protein 4314262 fdhD 7129457 fdhD Escherichia coli S88 formate dehydrogenase accessory protein YP_002393881.1 4313429 D 585035 CDS YP_002393882.1 218560969 7130878 4315392..4316786 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative glycoporin 4316786 7130878 ECS88_4347 Escherichia coli S88 putative glycoporin YP_002393882.1 4315392 D 585035 CDS YP_002393883.1 218560970 7131023 complement(4316827..4317141) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15060078; Product type e : enzyme; L-rhamnose mutarotase 4317141 yiiL 7131023 yiiL Escherichia coli S88 L-rhamnose mutarotase YP_002393883.1 4316827 R 585035 CDS YP_002393884.1 218560971 7130879 complement(4317151..4317975) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90128204, 93374854, 8396120; Product type e : enzyme; rhamnulose-1-phosphate aldolase 4317975 rhaD 7130879 rhaD Escherichia coli S88 rhamnulose-1-phosphate aldolase YP_002393884.1 4317151 R 585035 CDS YP_002393885.1 218560972 7132702 complement(4318252..4319511) 1 NC_011742.1 catalyzes the formation of L-rhamnulose from L-rhamnose; L-rhamnose isomerase 4319511 rhaA 7132702 rhaA Escherichia coli S88 L-rhamnose isomerase YP_002393885.1 4318252 R 585035 CDS YP_002393886.1 218560973 7132700 complement(4319508..4320977) 1 NC_011742.1 catalyzes the ATP-dependent phosphorylation of rhamnulose; rhamnulokinase 4320977 rhaB 7132700 rhaB Escherichia coli S88 rhamnulokinase YP_002393886.1 4319508 R 585035 CDS YP_002393887.1 218560974 7132701 4321265..4322101 1 NC_011742.1 activates the expression of the rhaBAD operon and rhaT gene; transcriptional activator RhaS 4322101 rhaS 7132701 rhaS Escherichia coli S88 transcriptional activator RhaS YP_002393887.1 4321265 D 585035 CDS YP_002393888.1 218560975 7132704 complement(4323117..4324151) 1 NC_011742.1 transports L-rhamnose and L-lyxose into the cell; rhamnose-proton symporter 4324151 rhaT 7132704 rhaT Escherichia coli S88 rhamnose-proton symporter YP_002393888.1 4323117 R 585035 CDS YP_002393889.1 218560976 7132706 4324436..4325056 1 NC_011742.1 SodA; manganese binding; only present under aerobic conditions; destroys free radicals; superoxide dismutase 4325056 sodA 7132706 sodA Escherichia coli S88 superoxide dismutase YP_002393889.1 4324436 D 585035 CDS YP_002393890.1 218560977 7130616 4325316..4326299 1 NC_011742.1 transports degraded pectin products into the bacterial cell; 2-keto-3-deoxygluconate permease 4326299 kdgT 7130616 kdgT Escherichia coli S88 2-keto-3-deoxygluconate permease YP_002393890.1 4325316 D 585035 CDS YP_002393891.1 218560978 7130439 4326448..4327122 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4327122 yiiM 7130439 yiiM Escherichia coli S88 hypothetical protein YP_002393891.1 4326448 D 585035 CDS YP_002393892.1 218560979 7130880 complement(4327228..4328601) 1 NC_011742.1 part of two-component CpxA/CpxR system; senses envelope stress; upregulates a number of periplasmic folding and trafficking factors; two-component sensor protein 4328601 cpxA 7130880 cpxA Escherichia coli S88 two-component sensor protein YP_002393892.1 4327228 R 585035 CDS YP_002393893.1 218560980 7131955 complement(4328598..4329296) 1 NC_011742.1 response regulator in two-component regulatory system with CpxA; part of the envelope stress response system; DNA-binding transcriptional regulator CpxR 4329296 cpxR 7131955 cpxR Escherichia coli S88 DNA-binding transcriptional regulator CpxR YP_002393893.1 4328598 R 585035 CDS YP_002393894.1 218560981 7131957 4329446..4329946 1 NC_011742.1 repressor of the Cpx envelope stress response pathway which occurs via periplasmic interactions with CpxA; CpxP is degraded by DegP protease especially in the presence of misfolded substrates; periplasmic repressor CpxP 4329946 cpxP 7131957 cpxP Escherichia coli S88 periplasmic repressor CpxP YP_002393894.1 4329446 D 585035 CDS YP_002393895.1 218560982 7131956 4330095..4330997 1 NC_011742.1 member of cation diffusion facilitator family; CDF; membrane-bound; induced by both zinc and iron, but does not induce resistance to zinc; can transport zinc(II) in a proton-dependent manner; instead this protein induces iron resistance; forms dimers; ferrous iron efflux protein F 4330997 fieF 7131956 fieF Escherichia coli S88 ferrous iron efflux protein F YP_002393895.1 4330095 D 585035 CDS YP_002393896.1 218560983 7129490 4331178..4332140 1 NC_011742.1 catalyzes the formation of D-fructose 1,6-bisphosphate from D-fructose 6-phosphate in glycolysis; 6-phosphofructokinase 4332140 pfkA 7129490 pfkA Escherichia coli S88 6-phosphofructokinase YP_002393896.1 4331178 D 585035 CDS YP_002393897.1 218560984 7133678 4332460..4333449 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91161616, 2002055, 3158524, 8774726, 9298646; Product type t : transporter; sulfate transporter subunit 4333449 sbp 7133678 sbp Escherichia coli S88 sulfate transporter subunit YP_002393897.1 4332460 D 585035 CDS YP_002393898.1 218560985 7131369 4333556..4334311 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86008270, 2995360, 3158524; Product type e : enzyme; CDP-diacylglycerol pyrophosphatase 4334311 cdh 7131369 cdh Escherichia coli S88 CDP-diacylglycerol pyrophosphatase YP_002393898.1 4333556 D 585035 CDS YP_002393899.1 218560986 7129177 complement(4334366..4335133) 1 NC_011742.1 Reversibly isomerizes the ketone sugar dihydroxyacetone phosphate to the aldehyde sugar glyceraldehyde-3-phosphate; triosephosphate isomerase 4335133 tpiA 7129177 tpiA Escherichia coli S88 triosephosphate isomerase YP_002393899.1 4334366 R 585035 CDS YP_002393900.1 218560987 7133502 complement(4335241..4335840) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4335840 yiiQ 7133502 yiiQ Escherichia coli S88 hypothetical protein YP_002393900.1 4335241 R 585035 CDS YP_002393901.1 218560988 7130881 4335941..4336381 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4336381 yiiR 7130881 yiiR Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002393901.1 4335941 D 585035 CDS YP_002393902.1 218560989 7130882 4336593..4336892 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4336892 yiiS 7130882 yiiS Escherichia coli S88 hypothetical protein YP_002393902.1 4336593 D 585035 CDS YP_002393903.1 218560990 7130883 4336919..4337347 1 NC_011742.1 with UspC and Usp E is involved in resistance to UV radiation; universal stress protein UspD 4337347 yiiT 7130883 yiiT Escherichia coli S88 universal stress protein UspD YP_002393903.1 4336919 D 585035 CDS YP_002393904.1 218560991 7130884 complement(4337352..4338098) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93194782, 94092163, 95050480, 95362685, 1400248, 2834327, 7961651, 8449868, 9149148; Product type e : enzyme; ferredoxin-NADP reductase 4338098 fpr 7130884 fpr Escherichia coli S88 ferredoxin-NADP reductase YP_002393904.1 4337352 R 585035 CDS YP_002393905.1 218560992 7132822 complement(4338195..4339205) 1 NC_011742.1 type II fructose 1,6-bisphosphatae; in Escherichia coli this protein forms a dimer and binds manganese; fructose 1,6-bisphosphatase II 4339205 glpX 7132822 glpX Escherichia coli S88 fructose 1,6-bisphosphatase II YP_002393905.1 4338195 R 585035 CDS YP_002393906.1 218560993 7130028 complement(4339376..4340884) 1 NC_011742.1 Converts glycerol and ADP to glycerol-3-phosphate and ADP; glycerol kinase 4340884 glpK 7130028 glpK Escherichia coli S88 glycerol kinase YP_002393906.1 4339376 R 585035 CDS YP_002393907.1 218560994 7130024 complement(4340907..4341752) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12629974, 12948772, 14646142, 15004242, 90094250, 92210584, 11039922, 11101882, 11226336, 11964478, 1372899, 2544860, 6998951; Product type t : transporter; glycerol facilitator 4341752 glpF 7130024 glpF Escherichia coli S88 glycerol facilitator YP_002393907.1 4340907 R 585035 CDS YP_002393908.1 218560995 7130022 4342177..4342422 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4342422 yiiU 7130022 yiiU Escherichia coli S88 hypothetical protein YP_002393908.1 4342177 D 585035 CDS YP_002393909.1 218560996 7130885 complement(4342507..4342992) 1 NC_011742.1 regulator of RNase E; increases half-life and abundance of RNAs; interacts with RNase E possibly inhibiting catalytic activity; ribonuclease activity regulator protein RraA 4342992 rraA 7130885 rraA Escherichia coli S88 ribonuclease activity regulator protein RraA YP_002393909.1 4342507 R 585035 CDS YP_002393910.1 218560997 7133805 complement(4343085..4344011) 1 NC_011742.1 catalyzes the formation of dimethylmenaquinone from 1,4-dihydroxy-2-naphthoate and octaprenyl diphosphate; 1,4-dihydroxy-2-naphthoate octaprenyltransferase 4344011 menA 7133805 menA Escherichia coli S88 1,4-dihydroxy-2-naphthoate octaprenyltransferase YP_002393910.1 4343085 R 585035 CDS YP_002393911.1 218560998 7128803 complement(4344078..4345409) 1 NC_011742.1 heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease ATP-binding subunit HslU 4345409 hslU 7128803 hslU Escherichia coli S88 ATP-dependent protease ATP-binding subunit HslU YP_002393911.1 4344078 R 585035 CDS YP_002393912.1 218560999 7131396 complement(4345419..4345949) 1 NC_011742.1 heat shock protein involved in degradation of misfolded proteins; ATP-dependent protease peptidase subunit 4345949 hslV 7131396 hslV Escherichia coli S88 ATP-dependent protease peptidase subunit YP_002393912.1 4345419 R 585035 CDS YP_002393913.1 218561000 7131397 complement(4346042..4347001) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9282742, 93285993, 8509333; Product type cp : cell process; essential cell division protein FtsN 4347001 ftsN 7131397 ftsN Escherichia coli S88 essential cell division protein FtsN YP_002393913.1 4346042 R 585035 CDS YP_002393914.1 218561001 7132853 complement(4347093..4348118) 1 NC_011742.1 negatively controls the transcription initiation of genes such as deoCABD, udp, and cdd encoding catabolizing enzymes and nupC, nupG, and tsx encoding transporting and pore-forming proteins; DNA-binding transcriptional regulator CytR 4348118 cytR 7132853 cytR Escherichia coli S88 DNA-binding transcriptional regulator CytR YP_002393914.1 4347093 R 585035 CDS YP_002393915.1 218561002 7130551 complement(4348274..4350472) 1 NC_011742.1 binding of PriA to forked DNA starts the assembly of the primosome, also possesses 3'-5' helicase activity; primosome assembly protein PriA 4350472 priA 7130551 priA Escherichia coli S88 primosome assembly protein PriA YP_002393915.1 4348274 R 585035 CDS YP_002393916.1 218561003 7130776 4350675..4350887 1 NC_011742.1 RpmE; there appears to be two types of ribosomal proteins L31 in bacterial genomes; some contain a CxxC motif while others do not; Bacillus subtilis has both types; the proteins in this cluster have the CXXC motif; RpmE is found in exponentially growing Bacilli while YtiA was found after exponential growth; expression of ytiA is controlled by a zinc-specific transcriptional repressor; RpmE contains one zinc ion and a CxxC motif is responsible for this binding; forms an RNP particle along with proteins L5, L18, and L25 and 5S rRNA; found crosslinked to L2 and L25 and EF-G; may be near the peptidyltransferase site of the 50S ribosome; 50S ribosomal protein L31 4350887 rpmE 7130776 rpmE Escherichia coli S88 50S ribosomal protein L31 YP_002393916.1 4350675 D 585035 CDS YP_002393917.1 218561004 7133769 complement(4350948..4351556) 1 NC_011742.1 member of the NlpC/P60 superfamily of peptidases; putative peptidoglycan peptidase 4351556 yiiX 7133769 yiiX Escherichia coli S88 putative peptidoglycan peptidase YP_002393917.1 4350948 R 585035 CDS YP_002393918.1 218561005 7130886 complement(4351616..4352071) 1 NC_011742.1 when combined with S-adenosylmethionine represses the expression of the methionine regulon and of proteins involved in S-adenosylmethionine synthesis; transcriptional repressor protein MetJ 4352071 metJ 7130886 metJ Escherichia coli S88 transcriptional repressor protein MetJ YP_002393918.1 4351616 R 585035 CDS YP_002393919.1 218561006 7128818 4352210..4353370 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87326410, 90148970, 3307782, 6361020, 9843488; Product type e : enzyme; cystathionine gamma-synthase, PLP-dependent 4353370 metB 7128818 metB Escherichia coli S88 cystathionine gamma-synthase, PLP-dependent YP_002393919.1 4352210 D 585035 CDS YP_002393920.1 218561007 7128811 4353373..4355805 1 NC_011742.1 multifunctional homodimeric enzyme that catalyzes the phosphorylation of aspartate to form aspartyl-4-phosphate as well as conversion of aspartate semialdehyde to homoserine; functions in a number of amino acid biosynthetic pathways; bifunctional aspartate kinase II/homoserine dehydrogenase II 4355805 metL 7128811 metL Escherichia coli S88 bifunctional aspartate kinase II/homoserine dehydrogenase II YP_002393920.1 4353373 D 585035 CDS YP_002393921.1 218561008 7128821 complement(4356023..4356883) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type m : membrane component; nucleoside channel phage T6/colicin K receptor 4356883 tsx 7128821 tsx Escherichia coli S88 nucleoside channel phage T6/colicin K receptor YP_002393921.1 4356023 R 585035 CDS YP_002393922.1 218561009 7130362 complement(4356960..4358585) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases 4358585 7130362 ECS88_4393 Escherichia coli S88 putative 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases YP_002393922.1 4356960 R 585035 CDS YP_002393923.1 218561010 7131024 complement(4358620..4360173) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative 5'-nucleotidase 4360173 7131024 ECS88_4394 Escherichia coli S88 putative 5'-nucleotidase YP_002393923.1 4358620 R 585035 CDS YP_002393924.1 218561011 7131025 complement(4360403..4361527) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4361527 7131025 ECS88_4395 Escherichia coli S88 hypothetical protein YP_002393924.1 4360403 R 585035 CDS YP_002393925.1 218561012 7131026 4361654..4363213 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative phosphoesterase 4363213 7131026 ECS88_4396 Escherichia coli S88 putative phosphoesterase YP_002393925.1 4361654 D 585035 CDS YP_002393926.1 218561013 7131027 4363595..4364485 1 NC_011742.1 MTHFR; catalyzes NADH-linked reduction of 5,10-methylenetetrahydrofolate to 5-methyltetrahydrofolate using FAD as a cofactor; 5,10-methylenetetrahydrofolate reductase 4364485 metF 7131027 metF Escherichia coli S88 5,10-methylenetetrahydrofolate reductase YP_002393926.1 4363595 D 585035 CDS YP_002393927.1 218561014 7128814 4364814..4366994 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90292022, 94209230, 3045098; Product type e : enzyme; catalase/hydroperoxidase HPI(I) 4366994 katG 7128814 katG Escherichia coli S88 catalase/hydroperoxidase HPI(I) YP_002393927.1 4364814 D 585035 CDS YP_002393928.1 218561015 7130432 4367088..4367993 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative permease 4367993 yijE 7130432 yijE Escherichia coli S88 putative permease YP_002393928.1 4367088 D 585035 CDS YP_002393929.1 218561016 7130888 complement(4368020..4368637) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4368637 yijF 7130888 yijF Escherichia coli S88 hypothetical protein YP_002393929.1 4368020 R 585035 CDS YP_002393930.1 218561017 7130889 complement(4368913..4370016) 1 NC_011742.1 forms dimers and octamers; involved in conversion of glycerol to dihydroxy-acetone; glycerol dehydrogenase 4370016 gldA 7130889 gldA Escherichia coli S88 glycerol dehydrogenase YP_002393930.1 4368913 R 585035 CDS YP_002393931.1 218561018 7132212 complement(4370027..4370689) 1 NC_011742.1 similar to transaldolase from Escherichia coli; many organisms have multiple copies; fructose-6-phosphate aldolase 4370689 fsaB 7132212 fsaB Escherichia coli S88 fructose-6-phosphate aldolase YP_002393931.1 4370027 R 585035 CDS YP_002393932.1 218561019 7132843 complement(4370701..4373202) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 95291446, 7773398; Product type t : transporter; fused putative PTS enzymes: Hpr component ; enzyme I component ; enzyme IIA component 4373202 ptsA 7132843 ptsA Escherichia coli S88 fused putative PTS enzymes: Hpr component ; enzyme I component ; enzyme IIA component YP_002393932.1 4370701 R 585035 CDS YP_002393933.1 218561020 7130818 4373511..4374590 1 NC_011742.1 FrwC with FrwB, FrwD and PtsA forms a PEP-dependent sugar phosphotransferase system permease which may phosphorylate and transport sugars into the cell; forms translocation channel and contains the specific substrate-binding site; putative fructose-like permease EIIC subunit 2 4374590 frwC 7130818 frwC Escherichia coli S88 putative fructose-like permease EIIC subunit 2 YP_002393933.1 4373511 D 585035 CDS YP_002393934.1 218561021 7132840 4374605..4374925 1 NC_011742.1 FrwB with FrwC, FrwD and PtsA forms a PEP-dependent sugar phosphotransferase system (PTS) permease which may phosphorylate and transport sugars into the cell; cytoplasmic protein that interacts with complex EIIA; contains the second phosphorylation site of the PTS; putative PTS system fructose-like transporter subunit EIIB 4374925 frwB 7132840 frwB Escherichia coli S88 putative PTS system fructose-like transporter subunit EIIB YP_002393934.1 4374605 D 585035 CDS YP_002393935.1 218561022 7132839 4374976..4377273 1 NC_011742.1 involved in production of D-lactate from glucose under microaerobic conditions; cytoplasmic protein; putative formate acetyltransferase 2 4377273 pflD 7132839 pflD Escherichia coli S88 putative formate acetyltransferase 2 YP_002393935.1 4374976 D 585035 CDS YP_002393936.1 218561023 7133683 4377239..4378117 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95291446, 14673546, 7773398; Product type e : enzyme; pyruvate formate lyase II activase 4378117 pflC 7133683 pflC Escherichia coli S88 pyruvate formate lyase II activase YP_002393936.1 4377239 D 585035 CDS YP_002393937.1 218561024 7133682 4378119..4378460 1 NC_011742.1 FrwD with FrwB, FrwC and PtsA forms a PEP-dependent sugar phosphotransferase system permease which may phosphorylate and transport sugars into the cell; phosphorylated by EIIA; FrwB homolog; putative fructose-like phosphotransferase EIIB subunit 3 4378460 frwD 7133682 frwD Escherichia coli S88 putative fructose-like phosphotransferase EIIB subunit 3 YP_002393937.1 4378119 D 585035 CDS YP_002393938.1 218561025 7132841 complement(4378447..4379298) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 4379298 yijO 7132841 yijO Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002393938.1 4378447 R 585035 CDS YP_002393939.1 218561026 7130890 complement(4379524..4381257) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 10456927; Product type pm : putative membrane component; hypothetical protein 4381257 yijP 7130890 yijP Escherichia coli S88 hypothetical protein YP_002393939.1 4379524 R 585035 CDS YP_002393940.1 218561027 7130891 complement(4381440..4384091) 1 NC_011742.1 catalyzes the formation of oxaloacetate from phosphoenolpyruvate; phosphoenolpyruvate carboxylase 4384091 ppc 7130891 ppc Escherichia coli S88 phosphoenolpyruvate carboxylase YP_002393940.1 4381440 R 585035 CDS YP_002393941.1 218561028 7130753 complement(4384393..4385544) 1 NC_011742.1 catalyzes the formation of L-ornithine from N(2)-acetyl-L-ornithine in arginine biosynthesis; acetylornithine deacetylase 4385544 argE 7130753 argE Escherichia coli S88 acetylornithine deacetylase YP_002393941.1 4384393 R 585035 CDS YP_002393942.1 218561029 7133095 4385698..4386702 1 NC_011742.1 catalyzes the reduction of N-acetyl-5-glutamyl phosphate to N-acetyl-L-glutamate 5-semialdehyde in arginine biosynthesis and the reduction of N-acetyl-gamma-aminoadipyl-phosphate to N-acetyl-L-aminoadipate-semialdehyde in lysine biosynthesis; involved in both the arginine and lysine biosynthetic pathways; lysine is produced via the AAA pathway, lysine from alpha-aminoadipate; N-acetyl-gamma-glutamyl-phosphate reductase 4386702 argC 7133095 argC Escherichia coli S88 N-acetyl-gamma-glutamyl-phosphate reductase YP_002393942.1 4385698 D 585035 CDS YP_002393943.1 218561030 7133093 4386713..4387486 1 NC_011742.1 catalyzes the phosphorylation of N-acetyl-L-glutamate to form N-acetyl-L-glutamate 5-phosphate; acetylglutamate kinase 4387486 argB 7133093 argB Escherichia coli S88 acetylglutamate kinase YP_002393943.1 4386713 D 585035 CDS YP_002393944.1 218561031 7133092 4387547..4388920 1 NC_011742.1 catalyzes the formation of arginine from (N-L-arginino)succinate; argininosuccinate lyase 4388920 argH 7133092 argH Escherichia coli S88 argininosuccinate lyase YP_002393944.1 4387547 D 585035 CDS YP_002393945.1 218561032 7133097 4389418..4390632 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 93341455, 94310441; Product type pe : putative enzyme; putative enolase/dehydratase 4390632 rspA 7133097 rspA Escherichia coli S88 putative enolase/dehydratase YP_002393945.1 4389418 D 585035 CDS YP_002393946.1 218561033 7133817 4390699..4391982 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; Putative transporter 4391982 7133817 ECS88_4417 Escherichia coli S88 Putative transporter YP_002393946.1 4390699 D 585035 CDS YP_002393947.1 218561034 7133151 4392234..4393151 1 NC_011742.1 Activates the expression of a regulon of hydrogen peroxide-inducible genes such as katG, gor, ahpC, ahpF, oxyS, dps, fur and grxA; DNA-binding transcriptional regulator OxyR 4393151 oxyR 7133151 oxyR Escherichia coli S88 DNA-binding transcriptional regulator OxyR YP_002393947.1 4392234 D 585035 CDS YP_002393948.1 218561035 7133150 complement(4393134..4394534) 1 NC_011742.1 catalyzes the conversion of NADPH to NADH; soluble pyridine nucleotide transhydrogenase 4394534 sthA 7133150 sthA Escherichia coli S88 soluble pyridine nucleotide transhydrogenase YP_002393948.1 4393134 R 585035 CDS YP_002393949.1 218561036 7131231 4394864..4396030 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 7730270; Product type e : enzyme; Hippurate hydrolase (Benzoylglycine amidohydrolase) (Hippuricase) 4396030 7131231 ECS88_4420 Escherichia coli S88 Hippurate hydrolase (Benzoylglycine amidohydrolase) (Hippuricase) YP_002393949.1 4394864 D 585035 CDS YP_002393950.1 218561037 7131029 4396073..4397389 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative proton/ carboxylic acid permease 4397389 7131029 ECS88_4421 Escherichia coli S88 putative proton/ carboxylic acid permease YP_002393950.1 4396073 D 585035 CDS YP_002393951.1 218561038 7131030 4397439..4398143 1 NC_011742.1 negatively controls the expression of fabA and fabB, genes involved in the unsaturated fatty acid biosynthesis; DNA-binding transcriptional repressor FabR 4398143 fabR 7131030 fabR Escherichia coli S88 DNA-binding transcriptional repressor FabR YP_002393951.1 4397439 D 585035 CDS YP_002393952.1 218561039 7129438 4398143..4398502 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 4398502 yijD 7129438 yijD Escherichia coli S88 hypothetical protein YP_002393952.1 4398143 D 585035 CDS YP_002393953.1 218561040 7130887 complement(4398542..4399642) 1 NC_011742.1 catalyzes the formation of 5-methyl-uridine at position 54 in all tRNAs; tRNA (uracil-5-)-methyltransferase 4399642 trmA 7130887 trmA Escherichia coli S88 tRNA (uracil-5-)-methyltransferase YP_002393953.1 4398542 R 585035 CDS YP_002393954.1 218561041 7129862 4400011..4401855 1 NC_011742.1 involved in the active translocation of vitamin B12 (cyanocobalamin) across the outer membrane to the periplasmic space; vitamin B12/cobalamin outer membrane transporter 4401855 btuB 7129862 btuB Escherichia coli S88 vitamin B12/cobalamin outer membrane transporter YP_002393954.1 4400011 D 585035 CDS YP_002393955.1 218561042 7129136 4401800..4402657 1 NC_011742.1 converts L-glutamate to D-glutamate, a component of peptidoglycan; glutamate racemase 4402657 murI 7129136 murI Escherichia coli S88 glutamate racemase YP_002393955.1 4401800 D 585035 CDS YP_002393956.1 218561043 7129852 4408180..4409208 1 NC_011742.1 catalyzes the reduction of UDP-N-acetylglucosamine enolpyruvate to form UDP-N-acetylmuramate in peptidoglycan biosynthesis; UDP-N-acetylenolpyruvoylglucosamine reductase 4409208 murB 7129852 murB Escherichia coli S88 UDP-N-acetylenolpyruvoylglucosamine reductase YP_002393956.1 4408180 D 585035 CDS YP_002393957.1 218561044 7129631 4409205..4410170 1 NC_011742.1 catalyzes the formation of biotinyl-5'-AMP, also acts as a transcriptional repressor of the biotin operon; biotin--protein ligase 4410170 birA 7129631 birA Escherichia coli S88 biotin--protein ligase YP_002393957.1 4409205 D 585035 CDS YP_002393958.1 218561045 7129127 complement(4410199..4411149) 1 NC_011742.1 catalyzes the formation of (R)-4'-phosphopantothenate in coenzyme A biosynthesis; pantothenate kinase 4411149 coaA 7129127 coaA Escherichia coli S88 pantothenate kinase YP_002393958.1 4410199 R 585035 CDS YP_002393959.1 218561046 7129911 4412067..4413251 1 NC_011742.1 EF-Tu; promotes GTP-dependent binding of aminoacyl-tRNA to the A-site of ribosomes during protein biosynthesis; when the tRNA anticodon matches the mRNA codon, GTP hydrolysis results; the inactive EF-Tu-GDP leaves the ribosome and release of GDP is promoted by elongation factor Ts; many prokaryotes have two copies of the gene encoding EF-Tu; elongation factor Tu 4413251 tufB 7129911 tufB Escherichia coli S88 elongation factor Tu YP_002393959.1 4412067 D 585035 CDS YP_002393960.1 218561047 7130367 4413481..4413864 1 NC_011742.1 forms a complex with SecY and SecG; SecYEG forms a putative protein-conducting channel to which secA binds and translocates targeted polypeptides across the cytoplasmic membrane, a process driven by ATP and a proton-motive force; preprotein translocase subunit SecE 4413864 secE 7130367 secE Escherichia coli S88 preprotein translocase subunit SecE YP_002393960.1 4413481 D 585035 CDS YP_002393961.1 218561048 7131381 4413866..4414411 1 NC_011742.1 Modulates Rho-dependent transcription termination; transcription antitermination protein NusG 4414411 nusG 7131381 nusG Escherichia coli S88 transcription antitermination protein NusG YP_002393961.1 4413866 D 585035 CDS YP_002393962.1 218561049 7133118 4414570..4414998 1 NC_011742.1 binds directly to 23S ribosomal RNA; 50S ribosomal protein L11 4414998 rplK 7133118 rplK Escherichia coli S88 50S ribosomal protein L11 YP_002393962.1 4414570 D 585035 CDS YP_002393963.1 218561050 7132771 4415002..4415706 1 NC_011742.1 in Escherichia coli and Methanococcus, this protein autoregulates expression; the binding site in the mRNA mimics the binding site in the 23S rRNA; 50S ribosomal protein L1 4415706 rplA 7132771 rplA Escherichia coli S88 50S ribosomal protein L1 YP_002393963.1 4415002 D 585035 CDS YP_002393964.1 218561051 7132763 4415998..4416495 1 NC_011742.1 binds the two ribosomal protein L7/L12 dimers and anchors them to the large ribosomal subunit; 50S ribosomal protein L10 4416495 rplJ 7132763 rplJ Escherichia coli S88 50S ribosomal protein L10 YP_002393964.1 4415998 D 585035 CDS YP_002393965.1 218561052 7132770 4416562..4416927 1 NC_011742.1 present in two forms; L12 is normal, while L7 is aminoacylated at the N-terminal serine; the only multicopy ribosomal protein; 4:1 ratio of L7/L12 per ribosome; two L12 dimers bind L10; critically important for translation efficiency and fidelity; stimulates GTPase activity of translation factors; 50S ribosomal protein L7/L12 4416927 rplL 7132770 rplL Escherichia coli S88 50S ribosomal protein L7/L12 YP_002393965.1 4416562 D 585035 CDS YP_002393966.1 218561053 7133751 4417247..4421275 1 NC_011742.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates; beta subunit is part of the catalytic core which binds with a sigma factor to produce the holoenzyme; DNA-directed RNA polymerase subunit beta 4421275 rpoB 7133751 rpoB Escherichia coli S88 DNA-directed RNA polymerase subunit beta YP_002393966.1 4417247 D 585035 CDS YP_002393967.1 218561054 7133775 4421352..4425575 1 NC_011742.1 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Subunit beta' binds to sigma factor allowing it to bind to the -10 region of the promoter; DNA-directed RNA polymerase subunit beta' 4425575 rpoC 7133775 rpoC Escherichia coli S88 DNA-directed RNA polymerase subunit beta' YP_002393967.1 4421352 D 585035 CDS YP_002393968.1 218561055 7133776 complement(4425815..4426948) 1 NC_011742.1 in Escherichia coli this enzyme functions in thiamine biosynthesis along with thiFSGI and iscS; with ThiFSG catalyzes the formation of thiazole phosphate from tyrosine, cysteine and 1-deoxy-D-xylulose-5-phosphate; forms a complex with ThiG; contains an iron-sulfur center; thiamine biosynthesis protein ThiH 4426948 thiH 7133776 thiH Escherichia coli S88 thiamine biosynthesis protein ThiH YP_002393968.1 4425815 R 585035 CDS YP_002393969.1 218561056 7131296 complement(4426945..4427715) 1 NC_011742.1 functions in thiamine (vitamin B1) biosynthesis; in Bacillus subtilis this enzyme catalyzes the formation of thiazole from dehydroxyglycine and 1-deoxy-D-xylulose-5-phosphate and ThiS-thiocarboxylate; thiazole synthase 4427715 thiG 7131296 thiG Escherichia coli S88 thiazole synthase YP_002393969.1 4426945 R 585035 CDS YP_002393970.1 218561057 7131295 complement(4427717..4427917) 1 NC_011742.1 with ThiF, ThiG, and ThiO catalyzes the formation of the thiazole moiety of thiamine pyrophosphate; sulfur carrier protein ThiS 4427917 thiS 7131295 thiS Escherichia coli S88 sulfur carrier protein ThiS YP_002393970.1 4427717 R 585035 CDS YP_002393971.1 218561058 7131302 complement(4427901..4428656) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8432721, 94089392, 98298179, 10082377, 9632726; Product type e : enzyme; thiamin (thiazole moiety) biosynthesis protein 4428656 thiF 7131302 thiF Escherichia coli S88 thiamin (thiazole moiety) biosynthesis protein YP_002393971.1 4427901 R 585035 CDS YP_002393972.1 218561059 7131294 complement(4428649..4429284) 1 NC_011742.1 catalyzes the formation of thiamine monophosphate from 4-methyl-5-(beta-hydroxyethyl)-thiazole monophosphate and 4-amino-5-hydroxymethyl pyrimidine pyrophosphate; thiamine-phosphate pyrophosphorylase 4429284 thiE 7131294 thiE Escherichia coli S88 thiamine-phosphate pyrophosphorylase YP_002393972.1 4428649 R 585035 CDS YP_002393973.1 218561060 7131293 complement(4429284..4431179) 1 NC_011742.1 required for the synthesis of the hydromethylpyrimidine moiety of thiamine; thiamine biosynthesis protein ThiC 4431179 thiC 7131293 thiC Escherichia coli S88 thiamine biosynthesis protein ThiC YP_002393973.1 4429284 R 585035 CDS YP_002393974.1 218561061 7129863 complement(4431412..4431888) 1 NC_011742.1 binds specifically to the major sigma factor sigma 70; active in stationary phase; anti-RNA polymerase sigma 70 factor 4431888 rsd 7129863 rsd Escherichia coli S88 anti-RNA polymerase sigma 70 factor YP_002393974.1 4431412 R 585035 CDS YP_002393975.1 218561062 7133808 4431983..4432756 1 NC_011742.1 can catalyze hydrolysis of broad range of dinucleotide pyrophosphates but prefers reduced form of NADH; requires divalent metal ions such as magnesium and manganese and produces two mononucleoside 5'-phosphates; NADH pyrophosphatase 4432756 nudC 7133808 nudC Escherichia coli S88 NADH pyrophosphatase YP_002393975.1 4431983 D 585035 CDS YP_002393976.1 218561063 7129751 4432796..4433860 1 NC_011742.1 catalyzes the formation of coproporphyrinogen from uroporphyrinogen III; uroporphyrinogen decarboxylase 4433860 hemE 7129751 hemE Escherichia coli S88 uroporphyrinogen decarboxylase YP_002393976.1 4432796 D 585035 CDS YP_002393977.1 218561064 7128900 4433870..4434541 1 NC_011742.1 Selectively cleaves double-stranded DNA at the second phosphodiester bond 3' to a deoxyinosine leaving behind the intact lesion on the nicked DNA; cleaves DNA containing urea residues, AP sites, base mismatches, insertion/deletion mismatches, flaps, and pseudo-Y structures; endonuclease V 4434541 nfi 7128900 nfi Escherichia coli S88 endonuclease V YP_002393977.1 4433870 D 585035 CDS YP_002393978.1 218561065 7129700 4434584..4435174 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4435174 yjaG 7129700 yjaG Escherichia coli S88 hypothetical protein YP_002393978.1 4434584 D 585035 CDS YP_002393979.1 218561066 7130894 4435361..4435633 1 NC_011742.1 histone-like DNA-binding protein; transcriptional regulator HU subunit alpha 4435633 hupA 7130894 hupA Escherichia coli S88 transcriptional regulator HU subunit alpha YP_002393979.1 4435361 D 585035 CDS YP_002393980.1 218561067 7131404 4435646..4436341 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4436341 yjaH 7131404 yjaH Escherichia coli S88 hypothetical protein YP_002393980.1 4435646 D 585035 CDS YP_002393981.1 218561068 7130895 complement(4436343..4436762) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 98362023, 9694902; Product type pf : putative factor; zinc resistance protein 4436762 zraP 7130895 zraP Escherichia coli S88 zinc resistance protein YP_002393981.1 4436343 R 585035 CDS YP_002393982.1 218561069 7131891 4437000..4438376 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21140164, 89327164, 92255260, 11243806, 2666400; Product type r : regulator; sensor protein ZraS 4438376 zraS 7131891 zraS Escherichia coli S88 sensor protein ZraS YP_002393982.1 4437000 D 585035 CDS YP_002393983.1 218561070 7131893 4438373..4439698 1 NC_011742.1 DNA-binding response regulator in two-component regulatory system with ZraS; response regulator/sigma54 interaction protein; transcriptional regulatory protein ZraR 4439698 zraR 7131893 zraR Escherichia coli S88 transcriptional regulatory protein ZraR YP_002393983.1 4438373 D 585035 CDS YP_002393984.1 218561071 7131892 complement(4439695..4440984) 1 NC_011742.1 catalyzes the formation of N(1)-(5-phospho-D-ribosyl)glycinamide from 5-phospho-D-ribosylamine and glycine in purine biosynthesis; phosphoribosylamine--glycine ligase 4440984 purD 7131892 purD Escherichia coli S88 phosphoribosylamine--glycine ligase YP_002393984.1 4439695 R 585035 CDS YP_002393985.1 218561072 7131747 complement(4440996..4442585) 1 NC_011742.1 involved in de novo purine biosynthesis; bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase 4442585 purH 7131747 purH Escherichia coli S88 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase YP_002393985.1 4440996 R 585035 CDS YP_002393986.1 218561073 7129853 4448289..4448672 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 2412207; hypothetical protein 4448672 yjaA 7129853 yjaA Escherichia coli S88 hypothetical protein YP_002393986.1 4448289 D 585035 CDS YP_002393987.1 218561074 7130892 complement(4448736..4449179) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; hypothetical protein 4449179 yjaB 7130892 yjaB Escherichia coli S88 hypothetical protein YP_002393987.1 4448736 R 585035 CDS YP_002393988.1 218561075 7130893 4449336..4450265 1 NC_011742.1 catalyzes the formation of O-succinyl-L-homoserine from succinyl-CoA and L-homoserine in methionine biosynthesis; homoserine O-succinyltransferase 4450265 metA 7130893 metA Escherichia coli S88 homoserine O-succinyltransferase YP_002393988.1 4449336 D 585035 CDS YP_002393989.1 218561076 7128810 4450534..4452135 1 NC_011742.1 Catalyzes the aldol condensation of glyoxylate with acetyl-CoA to form malate as part of the second step of the glyoxylate bypass and an alternative to the tricarboxylic acid cycle; malate synthase 4452135 aceB 7128810 aceB Escherichia coli S88 malate synthase YP_002393989.1 4450534 D 585035 CDS YP_002393990.1 218561077 7132031 4452165..4453469 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91295197, 92112731, 92353108, 2836370, 3049537, 3060852, 3276689, 3290857, 3291954, 7826335; Product type e : enzyme; isocitrate lyase 4453469 aceA 7132031 aceA Escherichia coli S88 isocitrate lyase YP_002393990.1 4452165 D 585035 CDS YP_002393991.1 218561078 7132030 4453518..4455242 1 NC_011742.1 catalyzes the phosphorylation/dephosphorylation of the enzyme isocitrate dehydrogenase on a specific serine which regulates activity; unphosphorylated IDH is fully active when cells are grown on glucose while the enzyme becomes phosphorylated and inactive in the presence of acetate or ethanol; bifunctional isocitrate dehydrogenase kinase/phosphatase protein 4455242 aceK 7132030 aceK Escherichia coli S88 bifunctional isocitrate dehydrogenase kinase/phosphatase protein YP_002393991.1 4453518 D 585035 CDS YP_002393992.1 218561079 7132034 complement(4455259..4456083) 1 NC_011742.1 regulates the glyoxylate bypass operon (aceBAK), which encodes isocitrate lyase, malate synthase and isocitrate dehydrogenase kinase/phosphorylase; transcriptional repressor IclR 4456083 iclR 7132034 iclR Escherichia coli S88 transcriptional repressor IclR YP_002393992.1 4455259 R 585035 CDS YP_002393993.1 218561080 7131613 4456283..4459966 1 NC_011742.1 one of two methionine synthases in Escherichia coli; MetH catalyzes a methyl transfer reaction from methyltetrahydrofolate to homocysteine to create methionine; requires zinc for activity; B12-dependent methionine synthase 4459966 metH 7131613 metH Escherichia coli S88 B12-dependent methionine synthase YP_002393993.1 4456283 D 585035 CDS YP_002393994.1 218561081 7128816 4460020..4460346 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4460346 7128816 ECS88_4484 Escherichia coli S88 hypothetical protein YP_002393994.1 4460020 D 585035 CDS YP_002393995.1 218561082 7131031 4460389..4460838 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4460838 7131031 ECS88_4485 Escherichia coli S88 hypothetical protein YP_002393995.1 4460389 D 585035 CDS YP_002393996.1 218561083 7131032 4461009..4462640 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 4462640 yjbB 7131032 yjbB Escherichia coli S88 putative transporter YP_002393996.1 4461009 D 585035 CDS YP_002393997.1 218561084 7130897 complement(4462730..4463419) 1 NC_011742.1 alpha-aspartyl dipeptidase; catalyzes the hydrolysis of dipeptides with an N-terminal aspartate residue; belongs to peptidase S51 family; peptidase E 4463419 pepE 7130897 pepE Escherichia coli S88 peptidase E YP_002393997.1 4462730 R 585035 CDS YP_002393998.1 218561085 7133672 complement(4463801..4465042) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 7947968, 7652212; Product type e : enzyme; L-sorbose 1-phosphate reductase 4465042 7133672 ECS88_4488 Escherichia coli S88 L-sorbose 1-phosphate reductase YP_002393998.1 4463801 R 585035 CDS YP_002393999.1 218561086 7131033 complement(4465082..4465936) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 7947968, 7700234; Product type t : transporter; sorbose permease IID component 4465936 7131033 ECS88_4489 Escherichia coli S88 sorbose permease IID component YP_002393999.1 4465082 R 585035 CDS YP_002394000.1 218561087 7131034 complement(4465917..4466714) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 7947968, 7700234; Product type t : transporter; sorbose permease IIC component (PTS system) 4466714 7131034 ECS88_4490 Escherichia coli S88 sorbose permease IIC component (PTS system) YP_002394000.1 4465917 R 585035 CDS YP_002394001.1 218561088 7131035 complement(4466780..4467274) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 7947968, 7700234, 12662934; Product type t : transporter; sorbose-specific phosphotransferase enzyme IIB component (PTS system) 4467274 7131035 ECS88_4491 Escherichia coli S88 sorbose-specific phosphotransferase enzyme IIB component (PTS system) YP_002394001.1 4466780 R 585035 CDS YP_002394002.1 218561089 7131036 complement(4467274..4467681) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 7947968; Product type t : transporter; sorbose-specific phosphotransferase enzyme IIA component (PTS system) 4467681 7131036 ECS88_4492 Escherichia coli S88 sorbose-specific phosphotransferase enzyme IIA component (PTS system) YP_002394002.1 4467274 R 585035 CDS YP_002394003.1 218561090 7131037 complement(4467691..4468497) 1 NC_011742.1 Converts D-sorbitol-dphosphate to D-fructose-6-phosphate; sorbitol-6-phosphate 2-dehydrogenase 4468497 7131037 ECS88_4493 Escherichia coli S88 sorbitol-6-phosphate 2-dehydrogenase YP_002394003.1 4467691 R 585035 CDS YP_002394004.1 218561091 7131038 complement(4468567..4469598) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 7947968; Product type r : regulator; sorbitol/sorbose operon activator 4469598 7131038 ECS88_4494 Escherichia coli S88 sorbitol/sorbose operon activator YP_002394004.1 4468567 R 585035 CDS YP_002394005.1 218561092 7131039 4469862..4470734 1 NC_011742.1 catalyzes the synthesis of pseudouridine from U-2604 in the 23S ribosomal RNA; 23S rRNA pseudouridine synthase F 4470734 yjbC 7131039 yjbC Escherichia coli S88 23S rRNA pseudouridine synthase F YP_002394005.1 4469862 D 585035 CDS YP_002394006.1 218561093 7130898 complement(4470735..4471007) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4471007 yjbD 7130898 yjbD Escherichia coli S88 hypothetical protein YP_002394006.1 4470735 R 585035 CDS YP_002394007.1 218561094 7130899 complement(4471260..4472609) 1 NC_011742.1 catalyzes the formation of 4-phospho-L-aspartate from L-aspartate and ATP; functions in amino acid biosynthesis; lysine sensitive; aspartate kinase III 4472609 lysC 7130899 lysC Escherichia coli S88 aspartate kinase III YP_002394007.1 4471260 R 585035 CDS YP_002394008.1 218561095 7129864 4473134..4474783 1 NC_011742.1 functions in sugar metabolism in glycolysis and the Embden-Meyerhof pathways (EMP) and in gluconeogenesis; catalyzes reversible isomerization of glucose-6-phosphate to fructose-6-phosphate; member of PGI family; glucose-6-phosphate isomerase 4474783 pgi 7129864 pgi Escherichia coli S88 glucose-6-phosphate isomerase YP_002394008.1 4473134 D 585035 CDS YP_002394009.1 218561096 7133690 complement(4475262..4475510) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4475510 7133690 ECS88_4499 Escherichia coli S88 hypothetical protein YP_002394009.1 4475262 R 585035 CDS YP_002394010.1 218561097 7131040 4475638..4476276 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type lp : lipoprotein; putative lipoprotein 4476276 yjbF 7131040 yjbF Escherichia coli S88 putative lipoprotein YP_002394010.1 4475638 D 585035 CDS YP_002394011.1 218561098 7130900 4476273..4477010 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4477010 yjbG 7130900 yjbG Escherichia coli S88 hypothetical protein YP_002394011.1 4476273 D 585035 CDS YP_002394012.1 218561099 7130901 4477010..4479106 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative porin 4479106 yjbH 7130901 yjbH Escherichia coli S88 putative porin YP_002394012.1 4477010 D 585035 CDS YP_002394013.1 218561100 7131581 complement(4479153..4479431) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 4479431 7131581 ECS88_4503 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002394013.1 4479153 R 585035 CDS YP_002394014.1 218561101 7131041 4479491..4479649 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 4479649 7131041 ECS88_4504 Escherichia coli S88 hypothetical protein YP_002394014.1 4479491 D 585035 CDS YP_002394015.1 218561102 7131042 4479646..4480056 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10986267; Product type pm : putative membrane component; phosphate-starvation-inducible protein PsiE 4480056 yjbA 7131042 yjbA Escherichia coli S88 phosphate-starvation-inducible protein PsiE YP_002394015.1 4479646 D 585035 CDS YP_002394016.1 218561103 7130896 complement(4480150..4481040) 1 NC_011742.1 with MalKFE is involved in the transport of maltose into the cell; maltose transporter permease 4481040 malG 7130896 malG Escherichia coli S88 maltose transporter permease YP_002394016.1 4480150 R 585035 CDS YP_002394017.1 218561104 7129408 complement(4481055..4482599) 1 NC_011742.1 with MalKGE is involved in maltose transport into the cell; maltose transporter membrane protein 4482599 malF 7129408 malF Escherichia coli S88 maltose transporter membrane protein YP_002394017.1 4481055 R 585035 CDS YP_002394018.1 218561105 7129407 complement(4482753..4483943) 1 NC_011742.1 functions in the MalKFGE ABC transporter complex to transport maltose into the cell by using ATP hydrolysis; maltose ABC transporter periplasmic protein 4483943 malE 7129407 malE Escherichia coli S88 maltose ABC transporter periplasmic protein YP_002394018.1 4482753 R 585035 CDS YP_002394019.1 218561106 7129406 4484308..4485423 1 NC_011742.1 with malEFG is involved in import of maltose/maltodextrin; maltose/maltodextrin transporter ATP-binding protein 4485423 malK 7129406 malK Escherichia coli S88 maltose/maltodextrin transporter ATP-binding protein YP_002394019.1 4484308 D 585035 CDS YP_002394020.1 218561107 7129410 4485495..4486835 1 NC_011742.1 porin involved in the transport of maltose and maltodextrins; maltoporin 4486835 lamB 7129410 lamB Escherichia coli S88 maltoporin YP_002394020.1 4485495 D 585035 CDS YP_002394021.1 218561108 7130474 4487158..4488078 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87141162, 2434655, 6086106; Product type pt : putative transporter; maltose regulon periplasmic protein 4488078 malM 7130474 malM Escherichia coli S88 maltose regulon periplasmic protein YP_002394021.1 4487158 D 585035 CDS YP_002394022.1 218561109 7129411 4488257..4488754 1 NC_011742.1 catalyzes the formation of 4-hydroxybenzoate from chorismate; chorismate pyruvate lyase 4488754 ubiC 7129411 ubiC Escherichia coli S88 chorismate pyruvate lyase YP_002394022.1 4488257 D 585035 CDS YP_002394023.1 218561110 7130382 4488767..4489639 1 NC_011742.1 catalyzes the conversion of 4-Hydroxybenzoate into 3-octaprenyl-4-hydroxybenzoate, as part of the ubiquinone biosynthesis pathway; 4-hydroxybenzoate octaprenyltransferase 4489639 ubiA 7130382 ubiA Escherichia coli S88 4-hydroxybenzoate octaprenyltransferase YP_002394023.1 4488767 D 585035 CDS YP_002394024.1 218561111 7130380 complement(4489792..4492215) 1 NC_011742.1 PlsB; catalyzes the formation of 1-acyl-sn-glycerol 3-phosphate by transfering the acyl moiety from acyl-CoA; glycerol-3-phosphate acyltransferase 4492215 plsB 7130380 plsB Escherichia coli S88 glycerol-3-phosphate acyltransferase YP_002394024.1 4489792 R 585035 CDS YP_002394025.1 218561112 7133740 4492386..4492754 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10220339, 6257698, 86278195, 88111690, 2984194, 6309817, 8071224; Product type e : enzyme; diacylglycerol kinase 4492754 dgkA 7133740 dgkA Escherichia coli S88 diacylglycerol kinase YP_002394025.1 4492386 D 585035 CDS YP_002394026.1 218561113 7130192 4492864..4493472 1 NC_011742.1 Represses a number of genes involved in the response to DNA damage; LexA repressor 4493472 lexA 7130192 lexA Escherichia coli S88 LexA repressor YP_002394026.1 4492864 D 585035 CDS YP_002394027.1 218561114 7130491 4493491..4494870 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87165788; Product type cp : cell process; DNA-damage-inducible SOS response protein 4494870 dinF 7130491 dinF Escherichia coli S88 DNA-damage-inducible SOS response protein YP_002394027.1 4493491 D 585035 CDS YP_002394028.1 218561115 7130207 4494986..4495195 1 NC_011742.1 unknown function; highly abundant protein in vivo; overexpressed under high NaCl concentrations; part of the sigma S regulon; non-essential; putative stress-response protein 4495195 yjbJ 7130207 yjbJ Escherichia coli S88 putative stress-response protein YP_002394028.1 4494986 D 585035 CDS YP_002394029.1 218561116 7131663 complement(4495237..4495752) 1 NC_011742.1 Acts as a negative controlling element, employing Zn(2+) as a cofactor to bind the operator of the repressed genes znuACB; zinc uptake transcriptional repressor 4495752 zur 7131663 zur Escherichia coli S88 zinc uptake transcriptional repressor YP_002394029.1 4495237 R 585035 CDS YP_002394030.1 218561117 7131895 4495908..4496903 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 22095566; Product type e : enzyme; tRNA-dihydrouridine synthase A 4496903 yjbN 7131895 yjbN Escherichia coli S88 tRNA-dihydrouridine synthase A YP_002394030.1 4495908 D 585035 CDS YP_002394031.1 218561118 7131664 4496827..4497279 1 NC_011742.1 coordinately regulated along with pspA; PspF-dependent induction in response to secretin overexpression in Yersinia; phage shock protein G 4497279 pspG 7131664 pspG Escherichia coli S88 phage shock protein G YP_002394031.1 4496827 D 585035 CDS YP_002394032.1 218561119 7131665 complement(4497444..4498427) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94089392, 7602590; Product type e : enzyme; quinone oxidoreductase, NADPH-dependent 4498427 qor 7131665 qor Escherichia coli S88 quinone oxidoreductase, NADPH-dependent YP_002394032.1 4497444 R 585035 CDS YP_002394033.1 218561120 7131772 complement(4498533..4500698) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase 4500698 7131772 ECS88_4524 Escherichia coli S88 putative oxidoreductase YP_002394033.1 4498533 R 585035 CDS YP_002394034.1 218561121 7131043 complement(4500571..4501971) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transmembrane transport protein 4501971 7131043 ECS88_4525 Escherichia coli S88 putative transmembrane transport protein YP_002394034.1 4500571 R 585035 CDS YP_002394035.1 218561122 7131044 complement(4502062..4502841) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative Enoyl-CoA hydratase/carnithine racemase 4502841 7131044 ECS88_4526 Escherichia coli S88 putative Enoyl-CoA hydratase/carnithine racemase YP_002394035.1 4502062 R 585035 CDS YP_002394036.1 218561123 7131045 complement(4502834..4504405) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative Acyl CoA:acetate/3-ketoacid CoA transferase, alpha and beta subunits 4504405 7131045 ECS88_4527 Escherichia coli S88 putative Acyl CoA:acetate/3-ketoacid CoA transferase, alpha and beta subunits YP_002394036.1 4502834 R 585035 CDS YP_002394037.1 218561124 7131046 4504634..4505695 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 4505695 7131046 ECS88_4528 Escherichia coli S88 putative transcriptional regulator YP_002394037.1 4504634 D 585035 CDS YP_002394038.1 218561125 7131047 4505768..4507183 1 NC_011742.1 unwinds double stranded DNA; replicative DNA helicase 4507183 dnaB 7131047 dnaB Escherichia coli S88 replicative DNA helicase YP_002394038.1 4505768 D 585035 CDS YP_002394039.1 218561126 7130221 4507236..4508315 1 NC_011742.1 converts L-alanine to D-alanine which is used in cell wall biosynthesis; binds one pyridoxal phosphate per monomer; forms a homodimer; alanine racemase 4508315 alr 7130221 alr Escherichia coli S88 alanine racemase YP_002394039.1 4507236 D 585035 CDS YP_002394040.1 218561127 7133049 4508338..4508895 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 4508895 7133049 ECS88_4531 Escherichia coli S88 putative transporter YP_002394040.1 4508338 D 585035 CDS YP_002394041.1 218561128 7131048 4508868..4509890 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 4509890 7131048 ECS88_4532 Escherichia coli S88 putative transcriptional regulator YP_002394041.1 4508868 D 585035 CDS YP_002394042.1 218561129 7131049 4509972..4511165 1 NC_011742.1 catalyzes the formation of L-glutamate and an aromatic oxo acid from an aromatic amino acid and 2-oxoglutarate; aromatic amino acid aminotransferase 4511165 tyrB 7131049 tyrB Escherichia coli S88 aromatic amino acid aminotransferase YP_002394042.1 4509972 D 585035 CDS YP_002394043.1 218561130 7130375 4511272..4514091 1 NC_011742.1 SucA; E1 component of the oxoglutarate dehydrogenase complex which catalyzes the formation of succinyl-CoA from 2-oxoglutarate; SucA catalyzes the reaction of 2-oxoglutarate with dihydrolipoamide succinyltransferase-lipoate to form dihydrolipoamide succinyltransferase-succinyldihydrolipoate and carbon dioxide; 2-oxoglutarate dehydrogenase E1 component 4514091 sucA 7130375 sucA Escherichia coli S88 2-oxoglutarate dehydrogenase E1 component YP_002394043.1 4511272 D 585035 CDS YP_002394044.1 218561131 7131234 4514124..4515278 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 10739245, 6376124; Product type e : enzyme; dihydrolipoamide succinyltransferase (E2 component) 4515278 sucB 7131234 sucB Escherichia coli S88 dihydrolipoamide succinyltransferase (E2 component) YP_002394044.1 4514124 D 585035 CDS YP_002394045.1 218561132 7131236 4515290..4516708 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative dihydrolipoyl dehydrogenase, E3 component (lpd-like) 4516708 7131236 ECS88_4536 Escherichia coli S88 putative dihydrolipoyl dehydrogenase, E3 component (lpd-like) YP_002394045.1 4515290 D 585035 CDS YP_002394046.1 218561133 7131050 4516730..4517899 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type e : enzyme; Succinyl-CoA synthetase beta chain (SCS-beta) 4517899 sucC 7131050 sucC Escherichia coli S88 Succinyl-CoA synthetase beta chain (SCS-beta) YP_002394046.1 4516730 D 585035 CDS YP_002394047.1 218561134 7131238 4517912..4518784 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; Product type e : enzyme; Succinyl-CoA synthetase alpha chain (SCS-alpha) 4518784 sucD 7131238 sucD Escherichia coli S88 Succinyl-CoA synthetase alpha chain (SCS-alpha) YP_002394047.1 4517912 D 585035 CDS YP_002394048.1 218561135 7131240 4518990..4520495 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative membrane protein; putative transporter 4520495 7131240 ECS88_4539 Escherichia coli S88 putative membrane protein; putative transporter YP_002394048.1 4518990 D 585035 CDS YP_002394049.1 218561136 7131051 4520369..4521580 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative malate/L-lactate dehydrogenases 4521580 7131051 ECS88_4540 Escherichia coli S88 Putative malate/L-lactate dehydrogenases YP_002394049.1 4520369 D 585035 CDS YP_002394050.1 218561137 7130168 complement(4522920..4524740) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2134335; Product type prc : putative receptor; putative C4-dicarboxylate transport sensor protein (dctB-like) 4524740 7130168 ECS88_4543 Escherichia coli S88 putative C4-dicarboxylate transport sensor protein (dctB-like) YP_002394050.1 4522920 R 585035 CDS YP_002394051.1 218561138 7131053 4525017..4525730 1 NC_011742.1 Class B; non-specific; catalyzes the dephosphorylation of organic phosphomonoesters; also has phosphotransferase activity; acid phosphatase/phosphotransferase 4525730 aphA 7131053 aphA Escherichia coli S88 acid phosphatase/phosphotransferase YP_002394051.1 4525017 D 585035 CDS YP_002394052.1 218561139 7133074 4525841..4526257 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11972052; hypothetical protein 4526257 yjbQ 7133074 yjbQ Escherichia coli S88 hypothetical protein YP_002394052.1 4525841 D 585035 CDS YP_002394053.1 218561140 7131666 4526261..4526617 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4526617 yjbR 7131666 yjbR Escherichia coli S88 hypothetical protein YP_002394053.1 4526261 D 585035 CDS YP_002394054.1 218561141 7131667 complement(4526652..4529474) 1 NC_011742.1 The UvrABC repair system catalyzes the recognition and processing of DNA lesions. UvrA is an ATPase and a DNA-binding protein. A damage recognition complex composed of 2 uvrA and 2 uvrB subunits scans DNA for abnormalities. When the presence of a lesion has been verified by uvrB, the uvrA molecules dissociate; excinuclease ABC subunit A 4529474 uvrA 7131667 uvrA Escherichia coli S88 excinuclease ABC subunit A YP_002394054.1 4526652 R 585035 CDS YP_002394055.1 218561142 7132458 4529728..4530264 1 NC_011742.1 binds to single stranded DNA and PriA helcase facilitate replication restart; single-stranded DNA-binding protein 4530264 ssb 7132458 ssb Escherichia coli S88 single-stranded DNA-binding protein YP_002394055.1 4529728 D 585035 CDS YP_002394056.1 218561143 7130648 complement(4530363..4530644) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4530644 yjcB 7130648 yjcB Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394056.1 4530363 R 585035 CDS YP_002394057.1 218561144 7131668 4531073..4532659 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative signal transduction protein (EAL domain containing protein) 4532659 yjcC 7131668 yjcC Escherichia coli S88 putative signal transduction protein (EAL domain containing protein) YP_002394057.1 4531073 D 585035 CDS YP_002394058.1 218561145 7131669 complement(4532662..4532985) 1 NC_011742.1 regulates genes involved in response to oxidative stress; DNA-binding transcriptional regulator SoxS 4532985 soxS 7131669 soxS Escherichia coli S88 DNA-binding transcriptional regulator SoxS YP_002394058.1 4532662 R 585035 CDS YP_002394059.1 218561146 7130623 4533071..4533535 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91210176, 91360349, 94139656, 9564045, 10207625, 12670967, 1653416, 1708380, 7673113, 8065907, 8306957, 8631739, 8969171, 9019397, 9092651, 9204707; Product type r : regulator; DNA-binding transcriptional dual regulator, Fe-S center for redox-sensing 4533535 soxR 7130623 soxR Escherichia coli S88 DNA-binding transcriptional dual regulator, Fe-S center for redox-sensing YP_002394059.1 4533071 D 585035 CDS YP_002394060.1 218561147 7131351 4534082..4535431 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative permease 4535431 yjcD 7131351 yjcD Escherichia coli S88 putative permease YP_002394060.1 4534082 D 585035 CDS YP_002394061.1 218561148 7131670 4535582..4537231 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 21557160, 11479290; Product type pt : putative transporter; putative cation/proton antiporter 4537231 yjcE 7131670 yjcE Escherichia coli S88 putative cation/proton antiporter YP_002394061.1 4535582 D 585035 CDS YP_002394062.1 218561149 7131671 complement(4537267..4538151) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator (LysR family) 4538151 7131671 ECS88_4557 Escherichia coli S88 putative transcriptional regulator (LysR family) YP_002394062.1 4537267 R 585035 CDS YP_002394063.1 218561150 7131054 4538255..4538665 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4538665 7131054 ECS88_4558 Escherichia coli S88 hypothetical protein YP_002394063.1 4538255 D 585035 CDS YP_002394064.1 218561151 7131055 4538658..4539347 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4539347 7131055 ECS88_4559 Escherichia coli S88 hypothetical protein YP_002394064.1 4538658 D 585035 CDS YP_002394065.1 218561152 7131056 complement(4539386..4541035) 1 NC_011742.1 member of the sodium:solute symporter family; cotranscribed with the acs gene which encodes acetyl coenzyme A synthase; mutations affect acetate uptake; acetate permease 4541035 actP 7131056 actP Escherichia coli S88 acetate permease YP_002394065.1 4539386 R 585035 CDS YP_002394066.1 218561153 7132049 complement(4541032..4541346) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 14563880; Product type pm : putative membrane component; hypothetical protein 4541346 yjcH 7132049 yjcH Escherichia coli S88 hypothetical protein YP_002394066.1 4541032 R 585035 CDS YP_002394067.1 218561154 7131672 complement(4541638..4543596) 1 NC_011742.1 Acs; catalyzes the conversion of acetate and CoA to acetyl-CoA; acetyl-CoA synthetase 4543596 acs 7131672 acs Escherichia coli S88 acetyl-CoA synthetase YP_002394067.1 4541638 R 585035 CDS YP_002394068.1 218561155 7132048 4543988..4545424 1 NC_011742.1 catalyzes the formate-dependent reduction of nitrite to ammonia; cytochrome C552; cytochrome c552 4545424 nrfA 7132048 nrfA Escherichia coli S88 cytochrome c552 YP_002394068.1 4543988 D 585035 CDS YP_002394069.1 218561156 7129741 4545469..4546035 1 NC_011742.1 part of nitrite reductase complex; NrfB is active at high nitrate conditions; NrfA, B, C, and D are essential for the formate-dependent nitrite reduction to ammonia; cytochrome c nitrite reductase pentaheme subunit 4546035 nrfB 7129741 nrfB Escherichia coli S88 cytochrome c nitrite reductase pentaheme subunit YP_002394069.1 4545469 D 585035 CDS YP_002394070.1 218561157 7129742 4546032..4546703 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94335626, 8057835; Product type c : carrier; formate-dependent nitrite reductase, 4Fe4S subunit 4546703 nrfC 7129742 nrfC Escherichia coli S88 formate-dependent nitrite reductase, 4Fe4S subunit YP_002394070.1 4546032 D 585035 CDS YP_002394071.1 218561158 7129743 4546700..4547656 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91058381, 94335626, 8057835; Product type e : enzyme; formate-dependent nitrite reductase, membrane subunit 4547656 nrfD 7129743 nrfD Escherichia coli S88 formate-dependent nitrite reductase, membrane subunit YP_002394071.1 4546700 D 585035 CDS YP_002394072.1 218561159 7129744 4547736..4549394 1 NC_011742.1 with NrfF and NrfG catalyzes the insertion of heme into cytochrome c552; heme lyase subunit NrfE 4549394 nrfE 7129744 nrfE Escherichia coli S88 heme lyase subunit NrfE YP_002394072.1 4547736 D 585035 CDS YP_002394073.1 218561160 7129745 4549387..4549770 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91058381, 94335626, 9593308, 8057835, 8842153; Product type f : factor; formate-dependent nitrite reductase complex subunit NrfF 4549770 nrfF 7129745 nrfF Escherichia coli S88 formate-dependent nitrite reductase complex subunit NrfF YP_002394073.1 4549387 D 585035 CDS YP_002394074.1 218561161 7129746 4549767..4550363 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91058381, 94335626, 9593308, 8057835, 8842153; Product type f : factor; formate-dependent nitrite reductase complex subunit NrfG 4550363 nrfG 7129746 nrfG Escherichia coli S88 formate-dependent nitrite reductase complex subunit NrfG YP_002394074.1 4549767 D 585035 CDS YP_002394075.1 218561162 7129747 4550706..4552019 1 NC_011742.1 carrier protein part of the Na(+)-independent, binding-protein-independent glutamate-aspartate transport system; glutamate/aspartate:proton symporter 4552019 gltP 7129747 gltP Escherichia coli S88 glutamate/aspartate:proton symporter YP_002394075.1 4550706 D 585035 CDS YP_002394076.1 218561163 7130036 complement(4552167..4552856) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4552856 yjcO 7130036 yjcO Escherichia coli S88 hypothetical protein YP_002394076.1 4552167 R 585035 CDS YP_002394077.1 218561164 7131673 complement(4552967..4553671) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC transporter ATP-binding protein (yddO) 4553671 7131673 ECS88_4572 Escherichia coli S88 putative ABC transporter ATP-binding protein (yddO) YP_002394077.1 4552967 R 585035 CDS YP_002394078.1 218561165 7131057 complement(4553658..4554554) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative dipeptide/oligopeptide/nickel transport system, ATPase component 4554554 7131057 ECS88_4573 Escherichia coli S88 putative dipeptide/oligopeptide/nickel transport system, ATPase component YP_002394078.1 4553658 R 585035 CDS YP_002394079.1 218561166 7131058 complement(4554487..4555320) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative dipeptide/nickel transporter, Inner membrane permease subunit (yddQ) 4555320 7131058 ECS88_4574 Escherichia coli S88 putative dipeptide/nickel transporter, Inner membrane permease subunit (yddQ) YP_002394079.1 4554487 R 585035 CDS YP_002394080.1 218561167 7131059 complement(4555320..4556462) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative dipeptide/nickel transporter, Inner membrane permease subunit precursor (yddR) 4556462 7131059 ECS88_4575 Escherichia coli S88 putative dipeptide/nickel transporter, Inner membrane permease subunit precursor (yddR) YP_002394080.1 4555320 R 585035 CDS YP_002394081.1 218561168 7131060 complement(4556469..4558037) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative ABC-type dipeptide transport system, periplasmic component 4558037 7131060 ECS88_4576 Escherichia coli S88 putative ABC-type dipeptide transport system, periplasmic component YP_002394081.1 4556469 R 585035 CDS YP_002394082.1 218561169 7131061 complement(4558412..4560559) 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type e : enzyme; formate dehydrogenase-H, selenopolypeptide subunit 4560559 fdhF 7131061 fdhF Escherichia coli S88 formate dehydrogenase-H, selenopolypeptide subunit YP_002394082.1 4558412 R 585035 CDS YP_002394083.1 218561170 7129453 complement(4560757..4562223) 1 NC_011742.1 part of a multidrug efflux system involved in resistance to acriflavin, puromycin, erytjhromycin and tetraphenylarsonium chloride; member of the outer membrane factor (OMF) family; putative outer membrane efflux protein MdtP 4562223 yjcP 7129453 yjcP Escherichia coli S88 putative outer membrane efflux protein MdtP YP_002394083.1 4560757 R 585035 CDS YP_002394084.1 218561171 7131674 complement(4562220..4564271) 1 NC_011742.1 possibly part of a tripartite efflux system composed of MdtN, MdtO and MdtP which could be involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride; multidrug efflux system protein MdtO 4564271 yjcQ 7131674 yjcQ Escherichia coli S88 multidrug efflux system protein MdtO YP_002394084.1 4562220 R 585035 CDS YP_002394085.1 218561172 7131675 complement(4564271..4565302) 1 NC_011742.1 with MdtO and MdtP is involved in resistance to puromycin, acriflavine and tetraphenylarsonium chloride; multidrug resistance protein MdtN 4565302 yjcR 7131675 yjcR Escherichia coli S88 multidrug resistance protein MdtN YP_002394085.1 4564271 R 585035 CDS YP_002394086.1 218561173 7131676 complement(4565321..4565644) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative membrane protein; putative Formate dehydrogenase H 4565644 7131676 ECS88_4582 Escherichia coli S88 conserved hypothetical protein; putative membrane protein; putative Formate dehydrogenase H YP_002394086.1 4565321 R 585035 CDS YP_002394087.1 218561174 7131062 complement(4565804..4567789) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1587481; Product type pe : putative enzyme; putative alkyl sulfatase 4567789 yjcS 7131062 yjcS Escherichia coli S88 putative alkyl sulfatase YP_002394087.1 4565804 R 585035 CDS YP_002394088.1 218561175 7131677 complement(4568064..4568993) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20026827, 9401019; Product type e : enzyme; D-allose kinase 4568993 alsK 7131677 alsK Escherichia coli S88 D-allose kinase YP_002394088.1 4568064 R 585035 CDS YP_002394089.1 218561176 7133055 complement(4568977..4569672) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20026827, 9401019; Product type e : enzyme; allulose-6-phosphate 3-epimerase 4569672 alsE 7133055 alsE Escherichia coli S88 allulose-6-phosphate 3-epimerase YP_002394089.1 4568977 R 585035 CDS YP_002394090.1 218561177 7133053 complement(4570642..4572174) 1 NC_011742.1 with AlsBC acts to import allose into the cell; AlsA contain 2 ATP-binding domains; D-allose transporter ATP-binding protein 4572174 alsA 7133053 alsA Escherichia coli S88 D-allose transporter ATP-binding protein YP_002394090.1 4570642 R 585035 CDS YP_002394091.1 218561178 7133050 complement(4572301..4573236) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20026827, 9401019, 10064713, 8576032; Product type t : transporter; D-allose transporter subunit 4573236 alsB 7133050 alsB Escherichia coli S88 D-allose transporter subunit YP_002394091.1 4572301 R 585035 CDS YP_002394092.1 218561179 7133051 complement(4573295..4574185) 1 NC_011742.1 involved in rpiB and als operon repression; DNA-binding transcriptional repressor RpiR 4574185 rpiR 7133051 rpiR Escherichia coli S88 DNA-binding transcriptional repressor RpiR YP_002394092.1 4573295 R 585035 CDS YP_002394093.1 218561180 7132762 4574544..4574993 1 NC_011742.1 catalyzes the interconversion of ribose 5-phosphate to ribulose 5-phosphate; enzyme from E. coli shows allose 6-phosphate isomerase activity; ribose-5-phosphate isomerase B 4574993 rpiB 7132762 rpiB Escherichia coli S88 ribose-5-phosphate isomerase B YP_002394093.1 4574544 D 585035 CDS YP_002394094.1 218561181 7132761 4575062..4575391 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4575391 yjdP 7132761 yjdP Escherichia coli S88 hypothetical protein YP_002394094.1 4575062 D 585035 CDS YP_002394095.1 218561182 7131686 complement(4575419..4576177) 1 NC_011742.1 required for the use of phosphonates and phosphite as phosphorus sources; carbon-phosphorus lyase complex accessory protein 4576177 phnP 7131686 phnP Escherichia coli S88 carbon-phosphorus lyase complex accessory protein YP_002394095.1 4575419 R 585035 CDS YP_002394096.1 218561183 7133721 complement(4576179..4576613) 1 NC_011742.1 PhnO in Salmonella enterica catalyzes the acetylation of a range of aminoalkylphosphonic acids; part of the biochemical pathway that enables the cell to use phosphonates as a phosphorus source; Escherichia coli uses a different mechanism of phosphonate catabolism where PhnO is not essential and seems to play a regulatory role; aminoalkylphosphonic acid N-acetyltransferase 4576613 phnO 7133721 phnO Escherichia coli S88 aminoalkylphosphonic acid N-acetyltransferase YP_002394096.1 4576179 R 585035 CDS YP_002394097.1 218561184 7133720 complement(4576600..4577157) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12700258, 91100346, 93273711, 93328121, 9650256, 1840580, 2155230; Product type e : enzyme; ribose 1,5-bisphosphokinase 4577157 phnN 7133720 phnN Escherichia coli S88 ribose 1,5-bisphosphokinase YP_002394097.1 4576600 R 585035 CDS YP_002394098.1 218561185 7133719 complement(4577157..4578293) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 91100346, 93273711, 93328121, 9650256, 1840580, 2155230; Product type e : enzyme; carbon-phosphorus lyase complex subunit 4578293 phnM 7133719 phnM Escherichia coli S88 carbon-phosphorus lyase complex subunit YP_002394098.1 4577157 R 585035 CDS YP_002394099.1 218561186 7133718 complement(4578290..4578970) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93122525, 93273711, 93328121, 9650256, 1840580, 2155230; Product type e : enzyme; carbon-phosphorus lyase complex subunit 4578970 phnL 7133718 phnL Escherichia coli S88 carbon-phosphorus lyase complex subunit YP_002394099.1 4578290 R 585035 CDS YP_002394100.1 218561187 7133717 complement(4579081..4579839) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93122525, 93273711, 93328121, 9650256, 1840580, 2155230; Product type e : enzyme; phosphonate C-P lyase system protein PhnK 4579839 phnK 7133717 phnK Escherichia coli S88 phosphonate C-P lyase system protein PhnK YP_002394100.1 4579081 R 585035 CDS YP_002394101.1 218561188 7133716 complement(4579836..4580681) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93122525, 93273711, 93328121, 9650256, 1840580, 2155230; Product type e : enzyme; carbon-phosphorus lyase complex subunit 4580681 phnJ 7133716 phnJ Escherichia coli S88 carbon-phosphorus lyase complex subunit YP_002394101.1 4579836 R 585035 CDS YP_002394102.1 218561189 7133715 complement(4580674..4581738) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93122525, 93273711, 93328121, 9650256, 1840580, 2155230; Product type e : enzyme; carbon-phosphorus lyase complex subunit 4581738 phnI 7133715 phnI Escherichia coli S88 carbon-phosphorus lyase complex subunit YP_002394102.1 4580674 R 585035 CDS YP_002394103.1 218561190 7133714 complement(4581738..4582322) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93122525, 93273711, 93328121, 9650256, 1840580, 2155230; Product type e : enzyme; carbon-phosphorus lyase complex subunit 4582322 phnH 7133714 phnH Escherichia coli S88 carbon-phosphorus lyase complex subunit YP_002394103.1 4581738 R 585035 CDS YP_002394104.1 218561191 7133713 complement(4582319..4582771) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93122525, 93273711, 93328121, 9650256, 1840580, 2155230; Product type e : enzyme; carbon-phosphorus lyase complex subunit 4582771 phnG 7133713 phnG Escherichia coli S88 carbon-phosphorus lyase complex subunit YP_002394104.1 4582319 R 585035 CDS YP_002394105.1 218561192 7133712 complement(4582772..4583497) 1 NC_011742.1 may be involved in phosphonate uptake and biodegradation; phosphonate metabolism transcriptional regulator PhnF 4583497 phnF 7133712 phnF Escherichia coli S88 phosphonate metabolism transcriptional regulator PhnF YP_002394105.1 4582772 R 585035 CDS YP_002394106.1 218561193 7133711 complement(4583518..4584360) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type t : transporter; phosphonates transport system, permease protein 4584360 phnE 7133711 phnE Escherichia coli S88 phosphonates transport system, permease protein YP_002394106.1 4583518 R 585035 CDS YP_002394107.1 218561194 7133710 complement(4584403..4585419) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93122525, 93273711, 93328121, 9650256, 1840580, 2155230; Product type t : transporter; phosphonate/organophosphate ester transporter subunit ; periplasmic binding component of ABC superfamily 4585419 phnD 7133710 phnD Escherichia coli S88 phosphonate/organophosphate ester transporter subunit ; periplasmic binding component of ABC superfamily YP_002394107.1 4584403 R 585035 CDS YP_002394108.1 218561195 7133709 complement(4585444..4586232) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93122525, 93273711, 93328121, 9650256, 1840580, 2155230; Product type t : transporter; phosphonate/organophosphate ester transporter subunit 4586232 phnC 7133709 phnC Escherichia coli S88 phosphonate/organophosphate ester transporter subunit YP_002394108.1 4585444 R 585035 CDS YP_002394109.1 218561196 7133708 complement(4586365..4586808) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 93328121, 9650256, 2155230; hypothetical protein 4586808 phnB 7133708 phnB Escherichia coli S88 hypothetical protein YP_002394109.1 4586365 R 585035 CDS YP_002394110.1 218561197 7133707 complement(4586968..4587450) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9650256, 2155230; Product type pt : putative transporter; putative alkylphosphonate uptake protein in phosphonate metabolism 4587450 7133707 ECS88_4609 Escherichia coli S88 putative alkylphosphonate uptake protein in phosphonate metabolism YP_002394110.1 4586968 R 585035 CDS YP_002394111.1 218561198 7131063 4587706..4589934 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4589934 yjdA 7131063 yjdA Escherichia coli S88 hypothetical protein YP_002394111.1 4587706 D 585035 CDS YP_002394112.1 218561199 7131679 4589931..4590809 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4590809 yjcZ 7131679 yjcZ Escherichia coli S88 hypothetical protein YP_002394112.1 4589931 D 585035 CDS YP_002394113.1 218561200 7131678 4591073..4592575 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10049386, 12525168, 92165733, 93132799, 9871325, 99376621, 8421314; Product type t : transporter; proline/glycine betaine transporter 4592575 proP 7131678 proP Escherichia coli S88 proline/glycine betaine transporter YP_002394113.1 4591073 D 585035 CDS YP_002394114.1 218561201 7130787 complement(4592752..4593843) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94110256, 8282725; Product type r : regulator; sensor protein BasS/PmrB 4593843 basS 7130787 basS Escherichia coli S88 sensor protein BasS/PmrB YP_002394114.1 4592752 R 585035 CDS YP_002394115.1 218561202 7129989 complement(4593853..4594521) 1 NC_011742.1 response regulator in two-component regulatory system with BasS; DNA-binding transcriptional regulator BasR 4594521 basR 7129989 basR Escherichia coli S88 DNA-binding transcriptional regulator BasR YP_002394115.1 4593853 R 585035 CDS YP_002394116.1 218561203 7129988 complement(4594518..4596161) 1 NC_011742.1 with ZipA and an unidentified 24 kDa protein forms a complex involved in cell division; putative cell division protein 4596161 eptA 7129988 eptA Escherichia coli S88 putative cell division protein YP_002394116.1 4594518 R 585035 CDS YP_002394117.1 218561204 7132413 complement(4596265..4597602) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12867448; Product type t : transporter; arginine:agmatin antiporter 4597602 adiC 7132413 adiC Escherichia coli S88 arginine:agmatin antiporter YP_002394117.1 4596265 R 585035 CDS YP_002394118.1 218561205 7132056 complement(4597739..4598500) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : c; Product type r : regulator; DNA-binding transcriptional activator 4598500 adiY 7132056 adiY Escherichia coli S88 DNA-binding transcriptional activator YP_002394118.1 4597739 R 585035 CDS YP_002394119.1 218561206 7132057 complement(4598836..4601106) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 93186686, 2830169, 4204273, 8383109; Product type e : enzyme; biodegradative arginine decarboxylase 4601106 adiA 7132057 adiA Escherichia coli S88 biodegradative arginine decarboxylase YP_002394119.1 4598836 R 585035 CDS YP_002394120.1 218561207 7132055 complement(4601302..4602210) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90060832, 9108148, 1445207, 2684786, 2830169; Product type r : regulator; DNA-binding transcriptional regulator MelR 4602210 melR 7132055 melR Escherichia coli S88 DNA-binding transcriptional regulator MelR YP_002394120.1 4601302 R 585035 CDS YP_002394121.1 218561208 7128802 4602493..4603848 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 87174747, 88162811, 90248411, 2831880, 3031590, 6329200; Product type e : enzyme; alpha-galactosidase, NAD(P)-binding 4603848 melA 7128802 melA Escherichia coli S88 alpha-galactosidase, NAD(P)-binding YP_002394121.1 4602493 D 585035 CDS YP_002394122.1 218561209 7128801 complement(4603845..4604495) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 4604495 yjdF 7128801 yjdF Escherichia coli S88 hypothetical protein YP_002394122.1 4603845 R 585035 CDS YP_002394123.1 218561210 7131681 complement(4604618..4606264) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 86142617, 88193096, 89255123, 2656658; Product type e : enzyme; anaerobic class I fumarate hydratase (fumarase B) 4606264 fumB 7131681 fumB Escherichia coli S88 anaerobic class I fumarate hydratase (fumarase B) YP_002394123.1 4604618 R 585035 CDS YP_002394124.1 218561211 7132154 complement(4606342..4607682) 1 NC_011742.1 functions in anaerobic transport of C4-dicarboxylate compounds such as fumarate; similar to DcuA; DcuA and DcuB function as independent and mutually redundant C4-dicarboxylate (aspartate, malate, fumarate and succinate) transporters; anaerobic C4-dicarboxylate transporter 4607682 dcuB 7132154 dcuB Escherichia coli S88 anaerobic C4-dicarboxylate transporter YP_002394124.1 4606342 R 585035 CDS YP_002394125.1 218561212 7130170 complement(4608253..4608972) 1 NC_011742.1 response regulator in two-component regulatory system with DcuS; phosphorylated DcuR activates transcription of genes involved in anaerobic fumarate respiration; DNA-binding transcriptional activator DcuR 4608972 dcuR 7130170 dcuR Escherichia coli S88 DNA-binding transcriptional activator DcuR YP_002394125.1 4608253 R 585035 CDS YP_002394126.1 218561213 7130172 complement(4608969..4610600) 1 NC_011742.1 C4-dicarboxylate-sensing histidine kinase; part of two-component regulatory system with DcuR; regulates anaerobic fumarate respiration; sensory histidine kinase DcuS 4610600 dcuS 7130172 dcuS Escherichia coli S88 sensory histidine kinase DcuS YP_002394126.1 4608969 R 585035 CDS YP_002394127.1 218561214 7130173 4610781..4611011 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4611011 yjdI 7130173 yjdI Escherichia coli S88 hypothetical protein YP_002394127.1 4610781 D 585035 CDS YP_002394128.1 218561215 7131682 4611023..4611295 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acyltransferase with acyl-CoA N-acyltransferase domain 4611295 yjdJ 7131682 yjdJ Escherichia coli S88 putative acyltransferase with acyl-CoA N-acyltransferase domain YP_002394128.1 4611023 D 585035 CDS YP_002394129.1 218561216 7131683 4611523..4611819 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4611819 yjdK 7131683 yjdK Escherichia coli S88 hypothetical protein YP_002394129.1 4611523 D 585035 CDS YP_002394130.1 218561217 7131684 complement(4612139..4613656) 1 NC_011742.1 class II; inducible; catalyzes a two-step reaction, first charging a lysine molecule by linking its carboxyl group to the alpha-phosphate of ATP, followed by transfer of the aminoacyl-adenylate to its tRNA; induced by high temperature, anaerobiosis, and low pH; in Methanosarcina barkeri, LysRS2 charges both tRNA molecules for lysine that exist in this organism and in addition can charge the tRNAPyl with lysine in the presence of LysRS1; lysyl-tRNA synthetase 4613656 lysU 7131684 lysU Escherichia coli S88 lysyl-tRNA synthetase YP_002394130.1 4612139 R 585035 CDS YP_002394131.1 218561218 7129398 complement(4613893..4615350) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 4615350 yjdL 7129398 yjdL Escherichia coli S88 putative transporter YP_002394131.1 4613893 R 585035 CDS YP_002394132.1 218561219 7131685 complement(4615409..4617556) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92105022, 92210511, 1370290, 1556085, 4204273; Product type e : enzyme; lysine decarboxylase 1 4617556 cadA 7131685 cadA Escherichia coli S88 lysine decarboxylase 1 YP_002394132.1 4615409 R 585035 CDS YP_002394133.1 218561220 7129148 complement(4617636..4618970) 1 NC_011742.1 antiporter protein responsible for lysine import and cadaverine export; member of the lysine-dependent acid resistance system 4 (AR4); inner membrane protein; lysine/cadaverine antiporter 4618970 cadB 7129148 cadB Escherichia coli S88 lysine/cadaverine antiporter YP_002394133.1 4617636 R 585035 CDS YP_002394134.1 218561221 7129149 complement(4619336..4620874) 1 NC_011742.1 regulates the cadBA operon; DNA-binding transcriptional activator CadC 4620874 cadC 7129149 cadC Escherichia coli S88 DNA-binding transcriptional activator CadC YP_002394134.1 4619336 R 585035 CDS YP_002394135.1 218561222 7129150 4621161..4621379 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4621379 7129150 ECS88_4638 Escherichia coli S88 hypothetical protein YP_002394135.1 4621161 D 585035 CDS YP_002394136.1 218561223 7131064 complement(4621706..4622269) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4622269 7131064 ECS88_4639 Escherichia coli S88 hypothetical protein YP_002394136.1 4621706 R 585035 CDS YP_002394137.1 218561224 7131146 complement(4622354..4622776) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4622776 yeeW 7131146 yeeW Escherichia coli S88 hypothetical protein YP_002394137.1 4622354 R 585035 CDS YP_002394138.1 218561225 7132973 complement(4622773..4623150) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14594833; Product type h : extrachromosomal origin; toxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage 4623150 yeeV 7132973 yeeV Escherichia coli S88 toxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage YP_002394138.1 4622773 R 585035 CDS YP_002394139.1 218561226 7132970 complement(4623239..4623607) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14594833; Product type h : extrachromosomal origin; antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage 4623607 yeeU 7132970 yeeU Escherichia coli S88 antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage YP_002394139.1 4623239 R 585035 CDS YP_002394140.1 218561227 7132966 complement(4623687..4623908) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CP4-44 prophage 4623908 yeeT 7132966 yeeT Escherichia coli S88 conserved hypothetical protein; CP4-44 prophage YP_002394140.1 4623687 R 585035 CDS YP_002394141.1 218561228 7132962 complement(4623995..4624441) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11053371; Product type pf : putative factor; putative DNA repair protein; CP4-44 prophage 4624441 yeeS 7132962 yeeS Escherichia coli S88 putative DNA repair protein; CP4-44 prophage YP_002394141.1 4623995 R 585035 CDS YP_002394142.1 218561229 7132958 complement(4624486..4625037) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; Putative antirestriction protein 4625037 7132958 ECS88_4645 Escherichia coli S88 conserved hypothetical protein; Putative antirestriction protein YP_002394142.1 4624486 R 585035 CDS YP_002394143.1 218561230 7130329 complement(4625231..4626049) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4626049 7130329 ECS88_4646 Escherichia coli S88 hypothetical protein YP_002394143.1 4625231 R 585035 CDS YP_002394144.1 218561231 7132608 complement(4626139..4626372) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4626372 7132608 ECS88_4647 Escherichia coli S88 hypothetical protein YP_002394144.1 4626139 R 585035 CDS YP_002394145.1 218561232 7132609 complement(4626378..4627163) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 4627163 7132609 ECS88_4648 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002394145.1 4626378 R 585035 CDS YP_002394146.1 218561233 7132610 complement(4627206..4627886) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative HTH-type transcriptional regulator yfjR 4627886 7132610 ECS88_4649 Escherichia coli S88 putative HTH-type transcriptional regulator yfjR YP_002394146.1 4627206 R 585035 CDS YP_002394147.1 218561234 7132611 complement(4628089..4628973) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putataive GTPase 4628973 7132611 ECS88_4650 Escherichia coli S88 conserved hypothetical protein; putataive GTPase YP_002394147.1 4628089 R 585035 CDS YP_002394148.1 218561235 7132612 4629074..4630297 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4630297 7132612 ECS88_4651 Escherichia coli S88 hypothetical protein YP_002394148.1 4629074 D 585035 CDS YP_002394149.1 218561236 7132613 4631750..4632481 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4632481 7132613 ECS88_4652 Escherichia coli S88 hypothetical protein YP_002394149.1 4631750 D 585035 CDS YP_002394150.1 218561237 7132614 4632639..4633403 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4633403 7132614 ECS88_4653 Escherichia coli S88 hypothetical protein YP_002394150.1 4632639 D 585035 CDS YP_002394151.1 218561238 7132615 4633472..4633705 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4633705 7132615 ECS88_4654 Escherichia coli S88 hypothetical protein YP_002394151.1 4633472 D 585035 CDS YP_002394152.1 218561239 7132616 complement(4633741..4633932) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4633932 7132616 ECS88_4655 Escherichia coli S88 hypothetical protein YP_002394152.1 4633741 R 585035 CDS YP_002394153.1 218561240 7131643 4634454..4635518 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4635518 7131643 ECS88_4657 Escherichia coli S88 hypothetical protein YP_002394153.1 4634454 D 585035 CDS YP_002394154.1 218561241 7132618 4635618..4635989 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4635989 7132618 ECS88_4658 Escherichia coli S88 hypothetical protein YP_002394154.1 4635618 D 585035 CDS YP_002394155.1 218561242 7132619 4636261..4636470 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4636470 7132619 ECS88_4659 Escherichia coli S88 hypothetical protein YP_002394155.1 4636261 D 585035 CDS YP_002394156.1 218561243 7132621 complement(4636963..4637604) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein with microcompartments protein domain 4637604 7132621 ECS88_4661 Escherichia coli S88 conserved hypothetical protein with microcompartments protein domain YP_002394156.1 4636963 R 585035 CDS YP_002394157.1 218561244 7132622 complement(4637553..4638704) 1 NC_011742.1 catalyzes the formation of S-adenosylmethionine from methionine and ATP; methionine adenosyltransferase; S-adenosylmethionine synthetase 4638704 metK 7132622 metK Escherichia coli S88 S-adenosylmethionine synthetase YP_002394157.1 4637553 R 585035 CDS YP_002394158.1 218561245 7128820 complement(4638833..4639888) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4639888 7128820 ECS88_4664 Escherichia coli S88 hypothetical protein YP_002394158.1 4638833 R 585035 CDS YP_002394159.1 218561246 7132623 complement(4639905..4641167) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein with histidine kinase domain 4641167 7132623 ECS88_4665 Escherichia coli S88 conserved hypothetical protein with histidine kinase domain YP_002394159.1 4639905 R 585035 CDS YP_002394160.1 218561247 7129865 complement(4641717..4642238) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative maturase-related protein 4642238 7129865 ECS88_4667 Escherichia coli S88 putative maturase-related protein YP_002394160.1 4641717 R 585035 CDS YP_002394161.1 218561248 7132625 complement(4642266..4642805) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative maturase-related protein 4642805 7132625 ECS88_4669 Escherichia coli S88 putative maturase-related protein YP_002394161.1 4642266 R 585035 CDS YP_002394162.1 218561249 7132626 complement(4643291..4644196) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative membrane protein; putative permease 4644196 7132626 ECS88_4670 Escherichia coli S88 conserved hypothetical protein; putative membrane protein; putative permease YP_002394162.1 4643291 R 585035 CDS YP_002394163.1 218561250 7132627 complement(4644333..4645250) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 3053170; Product type pe : putative enzyme; putative pyruvate formate-lyase 3-activating enzyme 4645250 7132627 ECS88_4671 Escherichia coli S88 putative pyruvate formate-lyase 3-activating enzyme YP_002394163.1 4644333 R 585035 CDS YP_002394164.1 218561251 7132628 complement(4645359..4647911) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative Formate C-acetyltransferase 4647911 7132628 ECS88_4672 Escherichia coli S88 putative Formate C-acetyltransferase YP_002394164.1 4645359 R 585035 CDS YP_002394165.1 218561252 7132629 complement(4647960..4648670) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 8626329; conserved hypothetical protein with intracelllular protease 1 domain 4648670 7132629 ECS88_4673 Escherichia coli S88 conserved hypothetical protein with intracelllular protease 1 domain YP_002394165.1 4647960 R 585035 CDS YP_002394166.1 218561253 7132630 complement(4648546..4648845) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4648845 7132630 ECS88_4674 Escherichia coli S88 hypothetical protein YP_002394166.1 4648546 R 585035 CDS YP_002394167.1 218561254 7132631 complement(4648869..4650386) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 7868611, 10464203; Product type pe : putative enzyme; putative acetaldehyde/propionaldehyde dehydrogenase (eutE-like) 4650386 7132631 ECS88_4675 Escherichia coli S88 putative acetaldehyde/propionaldehyde dehydrogenase (eutE-like) YP_002394167.1 4648869 R 585035 CDS YP_002394168.1 218561255 7132632 complement(4650447..4651232) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative propanediol utilization protein, polyhedral bodies (pduB-like) 4651232 7132632 ECS88_4676 Escherichia coli S88 putative propanediol utilization protein, polyhedral bodies (pduB-like) YP_002394168.1 4650447 R 585035 CDS YP_002394169.1 218561256 7132633 complement(4651254..4651586) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10498708; Product type ps : putative structure; putative propanediol utilization protein, polyhedral bodies (pduA-like) 4651586 7132633 ECS88_4677 Escherichia coli S88 putative propanediol utilization protein, polyhedral bodies (pduA-like) YP_002394169.1 4651254 R 585035 CDS YP_002394170.1 218561257 7132634 complement(4651820..4653127) 1 NC_011742.1 catalyzes the formation of propanoyl phosphate from propanoate and ATP; TdcD also has acetate kinase activities and functions in anaerobic threonine catabolism; propionate/acetate kinase 4653127 7132634 ECS88_4678 Escherichia coli S88 propionate/acetate kinase YP_002394170.1 4651820 R 585035 CDS YP_002394171.1 218561258 7132635 complement(4653045..4653542) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4653542 7132635 ECS88_4680 Escherichia coli S88 hypothetical protein YP_002394171.1 4653045 R 585035 CDS YP_002394172.1 218561259 7132636 complement(4653570..4653839) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure; putative Ethanolamine utilization protein (eutN-like) 4653839 7132636 ECS88_4681 Escherichia coli S88 putative Ethanolamine utilization protein (eutN-like) YP_002394172.1 4653570 R 585035 CDS YP_002394173.1 218561260 7132637 complement(4653851..4654576) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4654576 7132637 ECS88_4682 Escherichia coli S88 hypothetical protein YP_002394173.1 4653851 R 585035 CDS YP_002394174.1 218561261 7132638 complement(4654560..4655318) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative ethanolamine utilization protein (eutJ-like) 4655318 7132638 ECS88_4683 Escherichia coli S88 putative ethanolamine utilization protein (eutJ-like) YP_002394174.1 4654560 R 585035 CDS YP_002394175.1 218561262 7132639 complement(4655373..4656059) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 10498708; hypothetical protein 4656059 7132639 ECS88_4684 Escherichia coli S88 hypothetical protein YP_002394175.1 4655373 R 585035 CDS YP_002394176.1 218561263 7132640 complement(4656199..4657317) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative propanol dehydrogenase 4657317 7132640 ECS88_4685 Escherichia coli S88 putative propanol dehydrogenase YP_002394176.1 4656199 R 585035 CDS YP_002394177.1 218561264 7132641 4657766..4658167 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4658167 7132641 ECS88_4686 Escherichia coli S88 hypothetical protein YP_002394177.1 4657766 D 585035 CDS YP_002394178.1 218561265 7132642 4658188..4658496 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4658496 7132642 ECS88_4687 Escherichia coli S88 hypothetical protein YP_002394178.1 4658188 D 585035 CDS YP_002394179.1 218561266 7132643 complement(4658549..4658740) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4658740 7132643 ECS88_4688 Escherichia coli S88 hypothetical protein YP_002394179.1 4658549 R 585035 CDS YP_002394180.1 218561267 7132644 4659188..4659316 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 4659316 7132644 ECS88_4689 Escherichia coli S88 hypothetical protein YP_002394180.1 4659188 D 585035 CDS YP_002394181.1 218561268 7132645 4659333..4659770 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 4659770 7132645 ECS88_4690 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002394181.1 4659333 D 585035 CDS YP_002394182.1 218561269 7132646 4659842..4660240 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4660240 7132646 ECS88_4691 Escherichia coli S88 hypothetical protein YP_002394182.1 4659842 D 585035 CDS YP_002394183.1 218561270 7132647 4660254..4660355 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 4660355 7132647 ECS88_4692 Escherichia coli S88 hypothetical protein YP_002394183.1 4660254 D 585035 CDS YP_002394184.1 218561271 7132648 4660479..4662077 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4662077 7132648 ECS88_4693 Escherichia coli S88 hypothetical protein YP_002394184.1 4660479 D 585035 CDS YP_002394185.1 218561272 7132649 4662209..4663993 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4663993 7132649 ECS88_4694 Escherichia coli S88 hypothetical protein YP_002394185.1 4662209 D 585035 CDS YP_002394186.1 218561273 7132650 4663993..4664745 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4664745 7132650 ECS88_4695 Escherichia coli S88 hypothetical protein YP_002394186.1 4663993 D 585035 CDS YP_002394187.1 218561274 7132651 4664727..4666046 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4666046 7132651 ECS88_4696 Escherichia coli S88 hypothetical protein YP_002394187.1 4664727 D 585035 CDS YP_002394188.1 218561275 7132652 4666043..4666768 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative DNAse 4666768 7132652 ECS88_4697 Escherichia coli S88 conserved hypothetical protein; putative DNAse YP_002394188.1 4666043 D 585035 CDS YP_002394189.1 218561276 7132653 4666990..4667187 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4667187 7132653 ECS88_4698 Escherichia coli S88 hypothetical protein YP_002394189.1 4666990 D 585035 CDS YP_002394190.1 218561277 7132654 complement(4667321..4667896) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4667896 7132654 ECS88_4699 Escherichia coli S88 hypothetical protein YP_002394190.1 4667321 R 585035 CDS YP_002394191.1 218561278 7132655 complement(4667904..4669232) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4669232 7132655 ECS88_4700 Escherichia coli S88 hypothetical protein YP_002394191.1 4667904 R 585035 CDS YP_002394192.1 218561279 7132657 complement(4669573..4670385) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; Transposase insF for insertion sequence IS3A/B/C/D/E/fA 4670385 7132657 ECS88_4702 Escherichia coli S88 Transposase insF for insertion sequence IS3A/B/C/D/E/fA YP_002394192.1 4669573 R 585035 CDS YP_002394193.1 218561280 7132658 complement(4670442..4670765) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF A, IS3 family 4670765 7132658 ECS88_4703 Escherichia coli S88 transposase ORF A, IS3 family YP_002394193.1 4670442 R 585035 CDS YP_002394194.1 218561281 7132659 complement(4670799..4671176) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative Zn-dependent alcohol dehydrogenases 4671176 7132659 ECS88_4704 Escherichia coli S88 conserved hypothetical protein; putative Zn-dependent alcohol dehydrogenases YP_002394194.1 4670799 R 585035 CDS YP_002394195.1 218561282 7132660 complement(4671539..4671763) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4671763 7132660 ECS88_4705 Escherichia coli S88 hypothetical protein YP_002394195.1 4671539 R 585035 CDS YP_002394196.1 218561283 7132661 complement(4671799..4672158) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase InsB (ORF2) IS1 4672158 7132661 ECS88_4706 Escherichia coli S88 transposase InsB (ORF2) IS1 YP_002394196.1 4671799 R 585035 CDS YP_002394197.1 218561284 7132662 complement(4672185..4672457) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase InsA (ORF1) IS1 4672457 7132662 ECS88_4707 Escherichia coli S88 transposase InsA (ORF1) IS1 YP_002394197.1 4672185 R 585035 CDS YP_002394198.1 218561285 7132663 4672710..4674179 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative membrane protein of unknown function 4674179 7132663 ECS88_4708 Escherichia coli S88 putative membrane protein of unknown function YP_002394198.1 4672710 D 585035 CDS YP_002394199.1 218561286 7132664 4674284..4676653 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative Orn/Lys/Arg decarboxylase 4676653 7132664 ECS88_4709 Escherichia coli S88 putative Orn/Lys/Arg decarboxylase YP_002394199.1 4674284 D 585035 CDS YP_002394200.1 218561287 7132665 4676728..4678227 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative membrane protein; putative Amino acid transporters 4678227 7132665 ECS88_4710 Escherichia coli S88 putative membrane protein; putative Amino acid transporters YP_002394200.1 4676728 D 585035 CDS YP_002394201.1 218561288 7132666 4678370..4678645 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9689094; Product type h : extrachromosomal origin; IS1 repressor protein InsA 4678645 insA 7132666 insA Escherichia coli S88 IS1 repressor protein InsA YP_002394201.1 4678370 D 585035 CDS YP_002394202.1 218561289 7131636 4678564..4679067 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9689094; Product type h : extrachromosomal origin; IS1 transposase InsAB' 4679067 insB 7131636 insB Escherichia coli S88 IS1 transposase InsAB' YP_002394202.1 4678564 D 585035 CDS YP_002394203.1 218561290 7131639 complement(4679534..4680085) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; Putative HTH-type transcriptional regulator 4680085 7131639 ECS88_4713 Escherichia coli S88 Putative HTH-type transcriptional regulator YP_002394203.1 4679534 R 585035 CDS YP_002394204.1 218561291 7132669 complement(4681060..4681563) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9689094; Product type h : extrachromosomal origin; IS1 transposase InsAB' 4681563 insB 7132669 insB Escherichia coli S88 IS1 transposase InsAB' YP_002394204.1 4681060 R 585035 CDS YP_002394205.1 218561292 7131640 complement(4681482..4681757) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9689094; Product type h : extrachromosomal origin; IS1 repressor protein InsA 4681757 insA 7131640 insA Escherichia coli S88 IS1 repressor protein InsA YP_002394205.1 4681482 R 585035 CDS YP_002394206.1 218561293 7131637 complement(4682287..4683360) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 10411725; Product type pe : putative enzyme; SHI-2 pathogenicity island protein 4683360 7131637 ECS88_4719 Escherichia coli S88 SHI-2 pathogenicity island protein YP_002394206.1 4682287 R 585035 CDS YP_002394207.1 218561294 7132670 complement(4683586..4684851) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; integrase 4684851 7132670 ECS88_4720 Escherichia coli S88 integrase YP_002394207.1 4683586 R 585035 CDS YP_002394208.1 218561295 7129920 complement(4685231..4685806) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 1370290; Product type pr : putative regulator; putative transcriptional regulator 4685806 yjdC 7129920 yjdC Escherichia coli S88 putative transcriptional regulator YP_002394208.1 4685231 R 585035 CDS YP_002394209.1 218561296 7131680 complement(4685843..4687540) 1 NC_011742.1 two electrons are transferred from cytoplasmic NADPH to thioredoxin and then to the inner membrane protein DsbD which keeps the disulfide isomerase DsbC in a reduced state in the oxidizing periplasm; DsbC in turns rearranges incorrectly made disulfide bonds in the periplasm; thiol:disulfide interchange protein precursor 4687540 dipZ 7131680 dipZ Escherichia coli S88 thiol:disulfide interchange protein precursor YP_002394209.1 4685843 R 585035 CDS YP_002394210.1 218561297 7130210 complement(4687516..4687854) 1 NC_011742.1 copper binding protein required for copper tolerance; involved in resistance toward heavy metals; divalent-cation tolerance protein CutA 4687854 cutA 7130210 cutA Escherichia coli S88 divalent-cation tolerance protein CutA YP_002394210.1 4687516 R 585035 CDS YP_002394211.1 218561298 7130515 complement(4687970..4689271) 1 NC_011742.1 functions in anaerobic transport of C4-dicarboxylate compounds such as fumarate; similar to dcuB; anaerobic C4-dicarboxylate transporter 4689271 dcuA 7130515 dcuA Escherichia coli S88 anaerobic C4-dicarboxylate transporter YP_002394211.1 4687970 R 585035 CDS YP_002394212.1 218561299 7130169 complement(4689389..4690825) 1 NC_011742.1 catalyzes the formation of fumarate from aspartate; aspartate ammonia-lyase 4690825 aspA 7130169 aspA Escherichia coli S88 aspartate ammonia-lyase YP_002394212.1 4689389 R 585035 CDS YP_002394213.1 218561300 7129950 4691162..4691638 1 NC_011742.1 F exclusion of bacteriophage T7; overproduction of this protein in Escherichia coli inhibits the F plasmid-mediated exclusion of bacteriophage T7; interacts with the F plasmid-encoded PifA protein; inner membrane protein; FxsA 4691638 fxsA 7129950 fxsA Escherichia coli S88 FxsA YP_002394213.1 4691162 D 585035 CDS YP_002394214.1 218561301 7132158 complement(4691654..4692910) 1 NC_011742.1 uncharacterized member of the APC superfamily of amino acid transporters; unknown function; inner membrane protein YjeH 4692910 yjeH 7132158 yjeH Escherichia coli S88 inner membrane protein YjeH YP_002394214.1 4691654 R 585035 CDS YP_002394215.1 218561302 7131689 4693186..4693479 1 NC_011742.1 10 kDa chaperonin; Cpn10; GroES; forms homoheptameric ring; binds to one or both ends of the GroEL double barrel in the presence of adenine nucleotides capping it; folding of unfolded substrates initiates in a GroEL-substrate bound and capped by GroES; release of the folded substrate is dependent on ATP binding and hydrolysis in the trans ring; co-chaperonin GroES 4693479 groES 7131689 groES Escherichia coli S88 co-chaperonin GroES YP_002394215.1 4693186 D 585035 CDS YP_002394216.1 218561303 7130071 4693523..4695169 1 NC_011742.1 60 kDa chaperone family; promotes refolding of misfolded polypeptides especially under stressful conditions; forms two stacked rings of heptamers to form a barrel-shaped 14mer; ends can be capped by GroES; misfolded proteins enter the barrel where they are refolded when GroES binds; many bacteria have multiple copies of the groEL gene which are active under different environmental conditions; the B.japonicum protein in this cluster is expressed constitutively; in Rhodobacter, Corynebacterium and Rhizobium this protein is essential for growth; chaperonin GroEL 4695169 groEL 7130071 groEL Escherichia coli S88 chaperonin GroEL YP_002394216.1 4693523 D 585035 CDS YP_002394217.1 218561304 7130070 4695307..4695660 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4695660 yjeI 7130070 yjeI Escherichia coli S88 hypothetical protein YP_002394217.1 4695307 D 585035 CDS YP_002394218.1 218561305 7131690 complement(4695710..4696579) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4696579 yjeJ 7131690 yjeJ Escherichia coli S88 hypothetical protein YP_002394218.1 4695710 R 585035 CDS YP_002394219.1 218561306 7131691 complement(4696814..4697842) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2019591, 10629195; Product type pe : putative enzyme; putative lysine aminomutase 4697842 yjeK 7131691 yjeK Escherichia coli S88 putative lysine aminomutase YP_002394219.1 4696814 R 585035 CDS YP_002394220.1 218561307 7131692 4697884..4698450 1 NC_011742.1 Involved in peptide bond synthesis; alters the affinity of the ribosome for aminoacyl-tRNA; elongation factor P 4698450 efp 7131692 efp Escherichia coli S88 elongation factor P YP_002394220.1 4697884 D 585035 CDS YP_002394221.1 218561308 7132386 4698502..4698627 1 NC_011742.1 acts as and antidote to the bacteriolytic entericidin B in the EcnAB toxin-antitoxin complex; entericidin A 4698627 ecnA 7132386 ecnA Escherichia coli S88 entericidin A YP_002394221.1 4698502 D 585035 CDS YP_002394222.1 218561309 7132376 4698738..4698884 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 98344100, 9677290; Product type lp : lipoprotein; entericidin B membrane lipoprotein 4698884 ecnB 7132376 ecnB Escherichia coli S88 entericidin B membrane lipoprotein YP_002394222.1 4698738 D 585035 CDS YP_002394223.1 218561310 7132377 4699060..4699377 1 NC_011742.1 member of the SMR family of proton-dependent drug efflux transporters; quaternary ammonium compound efflux pump; confers resistance to cetylpyridinium, cetyldimethylethyl ammonium and cetrimide cations; quaternary ammonium compound-resistance protein SugE 4699377 sugE 7132377 sugE Escherichia coli S88 quaternary ammonium compound-resistance protein SugE YP_002394223.1 4699060 D 585035 CDS YP_002394224.1 218561311 7131248 complement(4699374..4699907) 1 NC_011742.1 lipocalin; globomycin-sensitive outer membrane lipoprotein; outer membrane lipoprotein Blc 4699907 blc 7131248 blc Escherichia coli S88 outer membrane lipoprotein Blc YP_002394224.1 4699374 R 585035 CDS YP_002394225.1 218561312 7129129 complement(4699996..4701129) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 92212899, 97464439, 99421326, 10595535, 6795623, 7041115, 9819201; Product type e : enzyme; beta-lactamase 4701129 ampC 7129129 ampC Escherichia coli S88 beta-lactamase YP_002394225.1 4699996 R 585035 CDS YP_002394226.1 218561313 7133061 complement(4701192..4701551) 1 NC_011742.1 in conjunction with FrdC acts to anchor the catalytic components of the fumarate reductase to the cytoplasmic membrane; fumarate reductase subunit D 4701551 frdD 7133061 frdD Escherichia coli S88 fumarate reductase subunit D YP_002394226.1 4701192 R 585035 CDS YP_002394227.1 218561314 7132827 complement(4701562..4701957) 1 NC_011742.1 part of four member fumarate reductase enzyme complex FrdABCD which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdCD are the membrane components which interact with quinone and are involved in electron transfer; the catalytic subunits are similar to succinate dehydrogenase SdhAB; fumarate reductase subunit C 4701957 frdC 7132827 frdC Escherichia coli S88 fumarate reductase subunit C YP_002394227.1 4701562 R 585035 CDS YP_002394228.1 218561315 7132826 complement(4701968..4702702) 1 NC_011742.1 part of four member fumarate reductase enzyme complex FrdABCD which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdCD are the membrane components which interact with quinone and are involved in electron transfer; the catalytic subunits are similar to succinate dehydrogenase SdhAB; fumarate reductase iron-sulfur subunit 4702702 frdB 7132826 frdB Escherichia coli S88 fumarate reductase iron-sulfur subunit YP_002394228.1 4701968 R 585035 CDS YP_002394229.1 218561316 7132825 complement(4702695..4704503) 1 NC_011742.1 part of four member fumarate reductase enzyme complex FrdABCD which catalyzes the reduction of fumarate to succinate during anaerobic respiration; FrdAB are the catalytic subcomplex consisting of a flavoprotein subunit and an iron-sulfur subunit, respectively; FrdCD are the membrane components which interact with quinone and are involved in electron transfer; the catalytic subunits are similar to succinate dehydrogenase SdhAB; fumarate reductase flavoprotein subunit 4704503 frdA 7132825 frdA Escherichia coli S88 fumarate reductase flavoprotein subunit YP_002394229.1 4702695 R 585035 CDS YP_002394230.1 218561317 7132824 4704828..4705805 1 NC_011742.1 lysine--tRNA ligase beta chain; poxA; class II aminoacyl tRNA synthetase; catalyzes a two-step reaction; first charging a lysine molecule by linking the carboxyl group to the alpha-phosphate of ATP; second by transfer of the aminoacyl-adenylate to its tRNA; lysyl-tRNA synthetase 4705805 poxA 7132824 poxA Escherichia coli S88 lysyl-tRNA synthetase YP_002394230.1 4704828 D 585035 CDS YP_002394231.1 218561318 7130750 4706024..4707526 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 4707526 yjeM 7130750 yjeM Escherichia coli S88 putative transporter YP_002394231.1 4706024 D 585035 CDS YP_002394232.1 218561319 7131693 4707589..4707903 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4707903 yjeN 7131693 yjeN Escherichia coli S88 hypothetical protein YP_002394232.1 4707589 D 585035 CDS YP_002394233.1 218561320 7131694 4707900..4708214 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4708214 yjeO 7131694 yjeO Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394233.1 4707900 D 585035 CDS YP_002394234.1 218561321 7131695 complement(4708245..4711568) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; hypothetical protein 4711568 yjeP 7131695 yjeP Escherichia coli S88 hypothetical protein YP_002394234.1 4708245 R 585035 CDS YP_002394235.1 218561322 7131696 complement(4711590..4712558) 1 NC_011742.1 catalyzes the decarboxylation of phosphatidyl-L-serine to phosphatidylethanoleamine; phosphatidylserine decarboxylase 4712558 psd 7131696 psd Escherichia coli S88 phosphatidylserine decarboxylase YP_002394235.1 4711590 R 585035 CDS YP_002394236.1 218561323 7130801 complement(4712655..4713707) 1 NC_011742.1 EngC; RsgA; CpgA; circularly permuted GTPase; ribosome small subunit-dependent GTPase A; has the pattern G4-G1-G3 as opposed to other GTPases; interacts strongly with 30S ribosome which stimulates GTPase activity; ribosome-associated GTPase 4713707 rsgA 7130801 rsgA Escherichia coli S88 ribosome-associated GTPase YP_002394236.1 4712655 R 585035 CDS YP_002394237.1 218561324 7133813 4713802..4714347 1 NC_011742.1 3'-5' exoribonuclease specific for small oligoribonuclotides; oligoribonuclease 4714347 orn 7133813 orn Escherichia coli S88 oligoribonuclease YP_002394237.1 4713802 D 585035 CDS YP_002394238.1 218561325 7129915 complement(4715126..4716265) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pc : putative carrier; putative Fe-S electron transport protein 4716265 yjeS 7129915 yjeS Escherichia coli S88 putative Fe-S electron transport protein YP_002394238.1 4715126 R 585035 CDS YP_002394239.1 218561326 7131697 4716264..4717811 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 4717811 yjeF 7131697 yjeF Escherichia coli S88 hypothetical protein YP_002394239.1 4716264 D 585035 CDS YP_002394240.1 218561327 7131688 4717783..4718244 1 NC_011742.1 possibly involved in cell wall synthesis; putative ATPase 4718244 yjeE 7131688 yjeE Escherichia coli S88 putative ATPase YP_002394240.1 4717783 D 585035 CDS YP_002394241.1 218561328 7131687 4718263..4719600 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21348478, 87242501, 1594459, 7511774; Product type e : enzyme; N-acetylmuramoyl-l-alanine amidase II 4719600 amiB 7131687 amiB Escherichia coli S88 N-acetylmuramoyl-l-alanine amidase II YP_002394241.1 4718263 D 585035 CDS YP_002394242.1 218561329 7133058 4719610..4721457 1 NC_011742.1 This protein is involved in the repair of mismatches in DNA. It is required for dam-dependent methyl-directed DNA mismatch repair. Promotes the formation of a stable complex between two or more DNA-binding proteins in an ATP-dependent manner without itself being part of a final effector complex; DNA mismatch repair protein 4721457 mutL 7133058 mutL Escherichia coli S88 DNA mismatch repair protein YP_002394242.1 4719610 D 585035 CDS YP_002394243.1 218561330 7129640 4721450..4722400 1 NC_011742.1 IPP transferase; isopentenyltransferase; involved in tRNA modification; in Escherichia coli this enzyme catalyzes the addition of a delta2-isopentenyl group from dimethylallyl diphosphate to the N6-nitrogen of adenosine adjacent to the anticodon of tRNA species that read codons starting with uracil; further tRNA modifications may occur; mutations in miaA result in defects in translation efficiency and fidelity; tRNA delta(2)-isopentenylpyrophosphate transferase 4722400 miaA 7129640 miaA Escherichia coli S88 tRNA delta(2)-isopentenylpyrophosphate transferase YP_002394243.1 4721450 D 585035 CDS YP_002394244.1 218561331 7128831 4722486..4722794 1 NC_011742.1 Stimulates the elongation of poly(A) tails; RNA-binding protein Hfq 4722794 hfq 7128831 hfq Escherichia coli S88 RNA-binding protein Hfq YP_002394244.1 4722486 D 585035 CDS YP_002394245.1 218561332 7128913 4722870..4724150 1 NC_011742.1 involved in modulation of proteins HflK and HflC; part of the hflA locus (high frequency of lysogenization) which governs the lysis-lysogeny decision of bacteriophage lambda by controlling stability of the phage cII protein; putative GTPase HflX 4724150 hflX 7128913 hflX Escherichia coli S88 putative GTPase HflX YP_002394245.1 4722870 D 585035 CDS YP_002394246.1 218561333 7128912 4724236..4725495 1 NC_011742.1 with HflC inhibits proteolysis of lambda cII protein by FtsH; FtsH protease regulator HflK 4725495 hflK 7128912 hflK Escherichia coli S88 FtsH protease regulator HflK YP_002394246.1 4724236 D 585035 CDS YP_002394247.1 218561334 7128911 4725498..4726502 1 NC_011742.1 with HflK inhibits proteolysis of lambda cII protein by FtsH; FtsH protease regulator HflC 4726502 hflC 7128911 hflC Escherichia coli S88 FtsH protease regulator HflC YP_002394247.1 4725498 D 585035 CDS YP_002394248.1 218561335 7128909 4726584..4726781 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4726781 yjeT 7128909 yjeT Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394248.1 4726584 D 585035 CDS YP_002394249.1 218561336 7131698 4726885..4728183 1 NC_011742.1 catalyzes the formation of N6-(1,2,-dicarboxyethyl)-AMP from L-aspartate, inosine monophosphate and GTP in AMP biosynthesis; adenylosuccinate synthetase 4728183 purA 7131698 purA Escherichia coli S88 adenylosuccinate synthetase YP_002394249.1 4726885 D 585035 CDS YP_002394250.1 218561337 7131744 4728388..4728813 1 NC_011742.1 negatively regulates the transcription of genes upregulated by nitrosative stress; transcriptional repressor NsrR 4728813 nsrR 7131744 nsrR Escherichia coli S88 transcriptional repressor NsrR YP_002394250.1 4728388 D 585035 CDS YP_002394251.1 218561338 7129748 4728852..4731293 1 NC_011742.1 3'-5'exoribonuclease that acts nonspecifically on poly(A), poly(U) and ribosomal RNAs; exoribonuclease R 4731293 rnr 7129748 rnr Escherichia coli S88 exoribonuclease R YP_002394251.1 4728852 D 585035 CDS YP_002394252.1 218561339 7132753 4731385..4732116 1 NC_011742.1 Specifically methylates the ribose of guanosine 2251 in 23S rRNA; 23S rRNA (guanosine-2'-O-)-methyltransferase 4732116 rlmB 7132753 rlmB Escherichia coli S88 23S rRNA (guanosine-2'-O-)-methyltransferase YP_002394252.1 4731385 D 585035 CDS YP_002394253.1 218561340 7132728 4732243..4732644 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4732644 yjfI 7132728 yjfI Escherichia coli S88 hypothetical protein YP_002394253.1 4732243 D 585035 CDS YP_002394254.1 218561341 7131701 4732663..4733361 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator effector protein 4733361 yjfJ 7131701 yjfJ Escherichia coli S88 putative transcriptional regulator effector protein YP_002394254.1 4732663 D 585035 CDS YP_002394255.1 218561342 7131702 4733411..4734070 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4734070 yjfK 7131702 yjfK Escherichia coli S88 hypothetical protein YP_002394255.1 4733411 D 585035 CDS YP_002394256.1 218561343 7131703 4734088..4734486 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4734486 yjfL 7131703 yjfL Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394256.1 4734088 D 585035 CDS YP_002394257.1 218561344 7131704 4734496..4735134 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4735134 yjfM 7131704 yjfM Escherichia coli S88 hypothetical protein YP_002394257.1 4734496 D 585035 CDS YP_002394258.1 218561345 7131705 4735137..4736300 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative synthetase/amidase 4736300 yjfC 7131705 yjfC Escherichia coli S88 putative synthetase/amidase YP_002394258.1 4735137 D 585035 CDS YP_002394259.1 218561346 7131699 4736384..4738009 1 NC_011742.1 catalyzes the formation of 3-methylcrotonyl-CoA from isovaleryl-CoA; isovaleryl CoA dehydrogenase 4738009 aidB 7131699 aidB Escherichia coli S88 isovaleryl CoA dehydrogenase YP_002394259.1 4736384 D 585035 CDS YP_002394260.1 218561347 7133037 complement(4738126..4738401) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4738401 yjfN 7133037 yjfN Escherichia coli S88 hypothetical protein YP_002394260.1 4738126 R 585035 CDS YP_002394261.1 218561348 7131706 complement(4738550..4738879) 1 NC_011742.1 in Escherichia coli, mutation of this gene affects biofilm maturation, stress response, and motility; putative biofilm stress and motility protein A 4738879 yjfO 7131706 yjfO Escherichia coli S88 putative biofilm stress and motility protein A YP_002394261.1 4738550 R 585035 CDS YP_002394262.1 218561349 7131707 4739061..4739810 1 NC_011742.1 YjfP; esterase activity towards palmitoyl-CoA and pNP-butyrate in vitro; unknown function and substrate in vivo; esterase 4739810 yjfP 7131707 yjfP Escherichia coli S88 esterase YP_002394262.1 4739061 D 585035 CDS YP_002394263.1 218561350 7131708 complement(4739807..4740562) 1 NC_011742.1 negative regulator of ulaG and ulaABCDEF; transcriptional repressor UlaR 4740562 ulaR 7131708 ulaR Escherichia coli S88 transcriptional repressor UlaR YP_002394263.1 4739807 R 585035 CDS YP_002394264.1 218561351 7132061 complement(4740670..4741734) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12644495, 15808744; Product type pe : putative enzyme; putative L-ascorbate 6-phosphate lactonase 4741734 ulaG 7132061 ulaG Escherichia coli S88 putative L-ascorbate 6-phosphate lactonase YP_002394264.1 4740670 R 585035 CDS YP_002394265.1 218561352 7130412 4742089..4743486 1 NC_011742.1 membrane component; functions with enzymes IIB (sgaB; ulaB) and IIA (sgaA; ulaC) enzyme I and HPr for anaerobic utilization and uptake of L-ascorbate; sgaTBA are regulated by yifQ as well as Crp and Fnr; PTS system ascorbate-specific transporter subunit IIC 4743486 ulaA 7130412 ulaA Escherichia coli S88 PTS system ascorbate-specific transporter subunit IIC YP_002394265.1 4742089 D 585035 CDS YP_002394266.1 218561353 7130406 4743502..4743807 1 NC_011742.1 involved in the phosphorylation and transport of sugars across the cell membrane; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system L-ascorbate-specific transporter subunit IIB 4743807 ulaB 7130406 ulaB Escherichia coli S88 PTS system L-ascorbate-specific transporter subunit IIB YP_002394266.1 4743502 D 585035 CDS YP_002394267.1 218561354 7130407 4743817..4744281 1 NC_011742.1 involved in the phosphorylation and transport of sugars across the cell membrane; protein IIA transfers a phosphoryl group to IIB which then transfers the phosphoryl group to the sugar; IIC forms the translocation channel for the sugar uptake; PTS system L-ascorbate-specific transporter subunit IIA 4744281 ulaC 7130407 ulaC Escherichia coli S88 PTS system L-ascorbate-specific transporter subunit IIA YP_002394267.1 4743817 D 585035 CDS YP_002394268.1 218561355 7130408 4744295..4744945 1 NC_011742.1 catalyzes the formation of L-xylulose-5-phosphate from 3-keto-L-gulonate-6-phosphate in anaerobic L-ascorbate utilization; 3-keto-L-gulonate-6-phosphate decarboxylase 4744945 ulaD 7130408 ulaD Escherichia coli S88 3-keto-L-gulonate-6-phosphate decarboxylase YP_002394268.1 4744295 D 585035 CDS YP_002394269.1 218561356 7130409 4744955..4745809 1 NC_011742.1 UlaE; catalyzes the epimerization of L-ribulose-5-phosphate into L-xylulose-5-phosphate; part of the anaerobic L-ascorbate degradation pathway; L-xylulose 5-phosphate 3-epimerase 4745809 ulaE 7130409 ulaE Escherichia coli S88 L-xylulose 5-phosphate 3-epimerase YP_002394269.1 4744955 D 585035 CDS YP_002394270.1 218561357 7130410 4745809..4746495 1 NC_011742.1 catalyzes the isomerization of L-ribulose 5-phosphate to D-xylulose 5-phosphate in the anaerobic catabolism of L-ascorbate; links the arabinose metabolic pathway to the pentose phosphate pathway and allows the bacteria to use arabinose as an energy source; L-ribulose-5-phosphate 4-epimerase 4746495 sgaE 7130410 sgaE Escherichia coli S88 L-ribulose-5-phosphate 4-epimerase YP_002394270.1 4745809 D 585035 CDS YP_002394271.1 218561358 7130411 complement(4746624..4746899) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4746899 yjfY 7130411 yjfY Escherichia coli S88 hypothetical protein YP_002394271.1 4746624 R 585035 CDS YP_002394272.1 218561359 7131709 4747227..4747622 1 NC_011742.1 binds cooperatively with S18 to the S15-16S complex, allowing platform assembly to continue with S11 and S21; 30S ribosomal protein S6 4747622 rpsF 7131709 rpsF Escherichia coli S88 30S ribosomal protein S6 YP_002394272.1 4747227 D 585035 CDS YP_002394273.1 218561360 7133789 4747629..4747943 1 NC_011742.1 binds single-stranded DNA at the primosome assembly site; primosomal replication protein N 4747943 priB 7133789 priB Escherichia coli S88 primosomal replication protein N YP_002394273.1 4747629 D 585035 CDS YP_002394274.1 218561361 7130777 4747948..4748175 1 NC_011742.1 binds as a heterodimer with protein S6 to the central domain of the 16S rRNA; helps stabilize the platform of the 30S subunit; 30S ribosomal protein S18 4748175 rpsR 7130777 rpsR Escherichia coli S88 30S ribosomal protein S18 YP_002394274.1 4747948 D 585035 CDS YP_002394275.1 218561362 7133801 4748217..4748666 1 NC_011742.1 in Escherichia coli this protein is wrapped around the base of the L1 stalk; 50S ribosomal protein L9 4748666 rplI 7133801 rplI Escherichia coli S88 50S ribosomal protein L9 YP_002394275.1 4748217 D 585035 CDS YP_002394276.1 218561363 7132769 4749068..4749559 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4749559 7132769 ECS88_4790 Escherichia coli S88 hypothetical protein YP_002394276.1 4749068 D 585035 CDS YP_002394277.1 218561364 7132672 4749562..4750830 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4750830 7132672 ECS88_4791 Escherichia coli S88 hypothetical protein YP_002394277.1 4749562 D 585035 CDS YP_002394278.1 218561365 7132673 complement(4750973..4752250) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative Hexuronate transporter 4752250 7132673 ECS88_4792 Escherichia coli S88 putative Hexuronate transporter YP_002394278.1 4750973 R 585035 CDS YP_002394279.1 218561366 7132676 complement(4754412..4755953) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative CoA transferase 4755953 7132676 ECS88_4795 Escherichia coli S88 putative CoA transferase YP_002394279.1 4754412 R 585035 CDS YP_002394280.1 218561367 7132677 complement(4755963..4756745) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acyl-CoA hydratase 4756745 7132677 ECS88_4796 Escherichia coli S88 putative acyl-CoA hydratase YP_002394280.1 4755963 R 585035 CDS YP_002394281.1 218561368 7132678 complement(4756749..4757591) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative enzyme 4757591 7132678 ECS88_4797 Escherichia coli S88 putative enzyme YP_002394281.1 4756749 R 585035 CDS YP_002394282.1 218561369 7132679 complement(4757601..4758434) 1 NC_011742.1 catalyzes the first of the two reduction steps in the elongation cycle of fatty acid synthesis; 3-ketoacyl-(acyl-carrier-protein) reductase 4758434 7132679 ECS88_4798 Escherichia coli S88 3-ketoacyl-(acyl-carrier-protein) reductase YP_002394282.1 4757601 R 585035 CDS YP_002394283.1 218561370 7132680 4758581..4759252 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 4759252 ytfA 7132680 ytfA Escherichia coli S88 putative transcriptional regulator YP_002394283.1 4758581 D 585035 CDS YP_002394284.1 218561371 7131865 complement(4759236..4759874) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8559074; Product type ps : putative structure; putative cell envelope opacity-associated protein 4759874 ytfB 7131865 ytfB Escherichia coli S88 putative cell envelope opacity-associated protein YP_002394284.1 4759236 R 585035 CDS YP_002394285.1 218561372 7131866 4760093..4760713 1 NC_011742.1 FKBP-type; rotamase; catalyzes the cis-trans isomerization of proline imidic peptide bonds in oligopeptides; peptidyl-prolyl cis-trans isomerase 4760713 fklB 7131866 fklB Escherichia coli S88 peptidyl-prolyl cis-trans isomerase YP_002394285.1 4760093 D 585035 CDS YP_002394286.1 218561373 7129508 4761022..4762434 1 NC_011742.1 involved in the transport across the cytoplasmic membrane of D-alanine, D-serine and glycine; D-alanine/D-serine/glycine permease 4762434 cycA 7129508 cycA Escherichia coli S88 D-alanine/D-serine/glycine permease YP_002394286.1 4761022 D 585035 CDS YP_002394287.1 218561374 7130523 complement(4762479..4763141) 1 NC_011742.1 Involved in anaerobic NO protection and iron metabolism; iron-sulfur cluster repair di-iron protein 4763141 ytfE 7130523 ytfE Escherichia coli S88 iron-sulfur cluster repair di-iron protein YP_002394287.1 4762479 R 585035 CDS YP_002394288.1 218561375 7131867 complement(4763249..4764223) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4764223 ytfF 7131867 ytfF Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394288.1 4763249 R 585035 CDS YP_002394289.1 218561376 7131868 complement(4764323..4765183) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14747727; Product type e : enzyme; NAD(P)H:quinone oxidoreductase 4765183 ytfG 7131868 ytfG Escherichia coli S88 NAD(P)H:quinone oxidoreductase YP_002394289.1 4764323 R 585035 CDS YP_002394290.1 218561377 7131869 4765272..4765652 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 20088838; Product type pr : putative regulator; putative transcriptional regulator 4765652 ytfH 7131869 ytfH Escherichia coli S88 putative transcriptional regulator YP_002394290.1 4765272 D 585035 CDS YP_002394291.1 218561378 7131870 complement(4765775..4767718) 1 NC_011742.1 periplasmic enzyme; functions during ribonucleic acid degradation; 2',3'-cyclic nucleotides are first converted to 3'-nucleotide and then cleaved to yield a ribonucleotide and a phosphate; bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein 4767718 cpdB 7131870 cpdB Escherichia coli S88 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein YP_002394291.1 4765775 R 585035 CDS YP_002394292.1 218561379 7131952 4767908..4768648 1 NC_011742.1 catalyzes the formation of AMP from adenosine-3',5'-bisphosphate; adenosine-3'(2'),5'-bisphosphate nucleotidase 4768648 cysQ 7131952 cysQ Escherichia coli S88 adenosine-3'(2'),5'-bisphosphate nucleotidase YP_002394292.1 4767908 D 585035 CDS YP_002394293.1 218561380 7130546 complement(4768638..4769195) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9298646; Product type pr : putative regulator; putative transcriptional regulator 4769195 ytfJ 7130546 ytfJ Escherichia coli S88 putative transcriptional regulator YP_002394293.1 4768638 R 585035 CDS YP_002394294.1 218561381 7131871 4769520..4769726 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4769726 ytfK 7131871 ytfK Escherichia coli S88 hypothetical protein YP_002394294.1 4769520 D 585035 CDS YP_002394295.1 218561382 7131872 complement(4769788..4771131) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4771131 ytfL 7131872 ytfL Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394295.1 4769788 R 585035 CDS YP_002394296.1 218561383 7131873 complement(4771454..4772092) 1 NC_011742.1 this stereospecific enzymes reduces the S isomer of methionine sulfoxide while MsrB reduces the R form; provides protection against oxidative stress; methionine sulfoxide reductase A 4772092 msrA 7131873 msrA Escherichia coli S88 methionine sulfoxide reductase A YP_002394296.1 4771454 R 585035 CDS YP_002394297.1 218561384 7129616 4772298..4774031 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative outer membrane protein and surface antigen 4774031 ytfM 7129616 ytfM Escherichia coli S88 conserved hypothetical protein; putative outer membrane protein and surface antigen YP_002394297.1 4772298 D 585035 CDS YP_002394298.1 218561385 7131874 4774028..4777807 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4777807 ytfN 7131874 ytfN Escherichia coli S88 hypothetical protein YP_002394298.1 4774028 D 585035 CDS YP_002394299.1 218561386 7131875 4777810..4778151 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4778151 ytfP 7131875 ytfP Escherichia coli S88 hypothetical protein YP_002394299.1 4777810 D 585035 CDS YP_002394300.1 218561387 7131876 complement(4778531..4779061) 1 NC_011742.1 catalyzes the hydrolysis of pyrophosphate to phosphate; inorganic pyrophosphatase 4779061 ppa 7131876 ppa Escherichia coli S88 inorganic pyrophosphatase YP_002394300.1 4778531 R 585035 CDS YP_002394301.1 218561388 7130752 4779371..4780327 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 9298646; Product type pt : putative transporter; putative sugar transporter subunit: periplasmic-binding component of ABC superfamily 4780327 ytfQ 7130752 ytfQ Escherichia coli S88 putative sugar transporter subunit: periplasmic-binding component of ABC superfamily YP_002394301.1 4779371 D 585035 CDS YP_002394302.1 218561389 7131877 4780467..4781969 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: ATP-binding component of ABC superfamily 4781969 ytfR 7131877 ytfR Escherichia coli S88 putative sugar transporter subunit: ATP-binding component of ABC superfamily YP_002394302.1 4780467 D 585035 CDS YP_002394303.1 218561390 7131878 4781983..4783005 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative sugar transporter subunit: membrane component of ABC superfamily 4783005 ytfT 7131878 ytfT Escherichia coli S88 putative sugar transporter subunit: membrane component of ABC superfamily YP_002394303.1 4781983 D 585035 CDS YP_002394304.1 218561391 7131879 4782992..4783987 1 NC_011742.1 membrane component of a putative sugar ABC transporter system; inner membrane ABC transporter permease protein YjfF 4783987 yjfF 7131879 yjfF Escherichia coli S88 inner membrane ABC transporter permease protein YjfF YP_002394304.1 4782992 D 585035 CDS YP_002394305.1 218561392 7131700 complement(4784020..4785018) 1 NC_011742.1 catalyzes the formation of D-fructose 6-phosphate from fructose-1,6-bisphosphate; fructose-1,6-bisphosphatase 4785018 fbp 7131700 fbp Escherichia coli S88 fructose-1,6-bisphosphatase YP_002394305.1 4784020 R 585035 CDS YP_002394306.1 218561393 7129449 4785194..4786567 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96404780, 2843822, 7984428, 8808921; Product type e : enzyme; UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase 4786567 mpl 7129449 mpl Escherichia coli S88 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase YP_002394306.1 4785194 D 585035 CDS YP_002394307.1 218561394 7129598 complement(4786723..4787274) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4787274 yjgA 7129598 yjgA Escherichia coli S88 hypothetical protein YP_002394307.1 4786723 R 585035 CDS YP_002394308.1 218561395 7131710 4787368..4788720 1 NC_011742.1 protease involved in proteolytic processing of the antibiotic Microcin B17 and in sensitivity to the DNA gyrase inhibitor LetD; peptidase PmbA 4788720 pmbA 7131710 pmbA Escherichia coli S88 peptidase PmbA YP_002394308.1 4787368 D 585035 CDS YP_002394309.1 218561396 7133744 4788903..4789289 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1761034, 8499452, 10393541; Product type c : carrier; soluble cytochrome b562 4789289 cybC 7133744 cybC Escherichia coli S88 soluble cytochrome b562 YP_002394309.1 4788903 D 585035 CDS YP_002394310.1 218561397 7130522 complement(4789334..4789798) 1 NC_011742.1 activates anaerobic ribonucleoside-triphosphate reductase under anaerobic conditions; anaerobic ribonucleotide reductase-activating protein 4789798 nrdG 7130522 nrdG Escherichia coli S88 anaerobic ribonucleotide reductase-activating protein YP_002394310.1 4789334 R 585035 CDS YP_002394311.1 218561398 7129737 complement(4789956..4792094) 1 NC_011742.1 Catalyzes the reduction of nucleoside 5'-triphosphates to 2'-deoxynucleoside 5'-triphosphates; anaerobic ribonucleoside triphosphate reductase 4792094 nrdD 7129737 nrdD Escherichia coli S88 anaerobic ribonucleoside triphosphate reductase YP_002394311.1 4789956 R 585035 CDS YP_002394312.1 218561399 7129734 complement(4792488..4794143) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90264345, 93302496, 8083158, 8421692; Product type e : enzyme; trehalose-6-phosphate hydrolase 4794143 treC 7129734 treC Escherichia coli S88 trehalose-6-phosphate hydrolase YP_002394312.1 4792488 R 585035 CDS YP_002394313.1 218561400 7133508 complement(4794193..4795614) 1 NC_011742.1 phosphoenolpyruvate-dependent sugar phosphotransferase system; catalyzes the phosphorylation of incoming sugar substrates concomitant with their translocation across the cell membrane; IIB is phosphorylated by IIA and then transfers the phosphoryl group to the sugar; IIC forms the translocation channel; PTS system trehalose(maltose)-specific transporter subunits IIBC 4795614 treB 7133508 treB Escherichia coli S88 PTS system trehalose(maltose)-specific transporter subunits IIBC YP_002394313.1 4794193 R 585035 CDS YP_002394314.1 218561401 7133507 complement(4795733..4796680) 1 NC_011742.1 regulates genes involved in trehalose metabolism; binds the intermediate trehalose-6-phosphate; binds a dimer; regulates treBC operon; trehalose repressor 4796680 treR 7133507 treR Escherichia coli S88 trehalose repressor YP_002394314.1 4795733 R 585035 CDS YP_002394315.1 218561402 7130332 4797059..4799755 1 NC_011742.1 P-type ATPase involved in magnesium influx; magnesium-transporting ATPase MgtA 4799755 mgtA 7130332 mgtA Escherichia coli S88 magnesium-transporting ATPase MgtA YP_002394315.1 4797059 D 585035 CDS YP_002394316.1 218561403 7128830 complement(4799961..4800347) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12515541, 10493123, 10595546, 9298646; Product type pe : putative enzyme; ketoacid-binding protein 4800347 yjgF 7128830 yjgF Escherichia coli S88 ketoacid-binding protein YP_002394316.1 4799961 R 585035 CDS YP_002394317.1 218561404 7131713 complement(4800420..4800881) 1 NC_011742.1 involved in the allosteric regulation of aspartate carbamoyltransferase; aspartate carbamoyltransferase regulatory subunit 4800881 pyrI 7131713 pyrI Escherichia coli S88 aspartate carbamoyltransferase regulatory subunit YP_002394317.1 4800420 R 585035 CDS YP_002394318.1 218561405 7131770 complement(4800894..4801829) 1 NC_011742.1 catalyzes the transfer of the carbamoyl moiety from carbamoyl phosphate to L- aspartate in pyrimidine biosynthesis; aspartate carbamoyltransferase catalytic subunit 4801829 pyrB 7131770 pyrB Escherichia coli S88 aspartate carbamoyltransferase catalytic subunit YP_002394318.1 4800894 R 585035 CDS YP_002394319.1 218561406 7131763 complement(4801833..4801967) 1 NC_011742.1 Evidence 1c : Function experimentally demonstrated in the studied genus; Product type l : leader peptide; pyrBI operon leader peptide 4801967 pyrL 7131763 pyrL Escherichia coli S88 pyrBI operon leader peptide YP_002394319.1 4801833 R 585035 CDS YP_002394320.1 218561407 7131771 complement(4802248..4802643) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative mRNA endoribonuclease 4802643 yjgH 7131771 yjgH Escherichia coli S88 putative mRNA endoribonuclease YP_002394320.1 4802248 R 585035 CDS YP_002394321.1 218561408 7131714 complement(4802774..4803487) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; oxidoreductase 4803487 yjgI 7131714 yjgI Escherichia coli S88 oxidoreductase YP_002394321.1 4802774 R 585035 CDS YP_002394322.1 218561409 7131715 4803558..4804151 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 4804151 yjgJ 7131715 yjgJ Escherichia coli S88 putative transcriptional regulator YP_002394322.1 4803558 D 585035 CDS YP_002394323.1 218561410 7131716 4804296..4804748 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 11115104; hypothetical protein 4804748 yjgK 7131716 yjgK Escherichia coli S88 hypothetical protein YP_002394323.1 4804296 D 585035 CDS YP_002394324.1 218561411 7131717 4804871..4806454 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; length varies in various strains; absent from some 4806454 7131717 ECS88_4840 Escherichia coli S88 conserved hypothetical protein; length varies in various strains; absent from some YP_002394324.1 4804871 D 585035 CDS YP_002394325.1 218561412 7132681 complement(4806627..4807631) 1 NC_011742.1 catalyzes the formation of L-citrulline from carbamoyl phosphate and L-ornithine in arginine biosynthesis and degradation; E. coli K12 has two genes, argF and argI, capable of producing functional ornithine carbamoyltransferase. When both are active in the same cell, the two gene products form a family of four hybrid trimeric isoenzymes designated, FFF, FFI, FII, and III.; ornithine carbamoyltransferase subunit I 4807631 argI 7132681 argI Escherichia coli S88 ornithine carbamoyltransferase subunit I YP_002394325.1 4806627 R 585035 CDS YP_002394326.1 218561413 7133098 4807793..4808209 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4808209 yjgD 7133098 yjgD Escherichia coli S88 hypothetical protein YP_002394326.1 4807793 D 585035 CDS YP_002394327.1 218561414 7131712 complement(4808255..4808758) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acetyltransferase 4808758 yjgM 7131712 yjgM Escherichia coli S88 putative acetyltransferase YP_002394327.1 4808255 R 585035 CDS YP_002394328.1 218561415 7131718 4808951..4810147 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4810147 yjgN 7131718 yjgN Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394328.1 4808951 D 585035 CDS YP_002394329.1 218561416 7131719 complement(4810201..4813056) 1 NC_011742.1 valine--tRNA ligase; ValRS; converts valine ATP and tRNA(Val) to AMP PPi and valyl-tRNA(Val); class-I aminoacyl-tRNA synthetase type 1 subfamily; has a posttransfer editing process to hydrolyze mischarged Thr-tRNA(Val) which is done by the editing domain; valyl-tRNA synthetase 4813056 valS 7131719 valS Escherichia coli S88 valyl-tRNA synthetase YP_002394329.1 4810201 R 585035 CDS YP_002394330.1 218561417 7132471 complement(4813056..4813499) 1 NC_011742.1 binds to single-strand binding (SSB) protein and acts as a bridge between the DnaX clamp loader complex and the SSB; DNA polymerase III subunit chi 4813499 holC 7132471 holC Escherichia coli S88 DNA polymerase III subunit chi YP_002394330.1 4813056 R 585035 CDS YP_002394331.1 218561418 7128943 complement(4813853..4815364) 1 NC_011742.1 catalyzes the removal of N-terminal amino acids preferably leucine from various peptides; leucyl aminopeptidase 4815364 pepA 7128943 pepA Escherichia coli S88 leucyl aminopeptidase YP_002394331.1 4813853 R 585035 CDS YP_002394332.1 218561419 7132938 4815631..4816731 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4816731 yjgP 7132938 yjgP Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394332.1 4815631 D 585035 CDS YP_002394333.1 218561420 7131720 4816731..4817813 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4817813 yjgQ 7131720 yjgQ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394333.1 4816731 D 585035 CDS YP_002394334.1 218561421 7131721 complement(4817932..4819434) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative ATPase 4819434 yjgR 7131721 yjgR Escherichia coli S88 putative ATPase YP_002394334.1 4817932 R 585035 CDS YP_002394335.1 218561422 7131722 complement(4819564..4820583) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 12147722; Product type pe : putative enzyme; putative alcohol dehydrogenase, Zn-dependent and NAD(P)-binding 4820583 yjgB 7131722 yjgB Escherichia coli S88 putative alcohol dehydrogenase, Zn-dependent and NAD(P)-binding YP_002394335.1 4819564 R 585035 CDS YP_002394336.1 218561423 7131711 complement(4820658..4820864) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4820864 7131711 ECS88_4852 Escherichia coli S88 hypothetical protein YP_002394336.1 4820658 R 585035 CDS YP_002394337.1 218561424 7129916 4821397..4822221 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Conserved hypothetical protein, putative phage-related protein 4822221 7129916 ECS88_4853 Escherichia coli S88 Conserved hypothetical protein, putative phage-related protein YP_002394337.1 4821397 D 585035 CDS YP_002394338.1 218561425 7132683 complement(4822270..4822896) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative lysogenic conversion protein from Bacteriophage P2-EC53 4822896 7132683 ECS88_4854 Escherichia coli S88 putative lysogenic conversion protein from Bacteriophage P2-EC53 YP_002394338.1 4822270 R 585035 CDS YP_002394339.1 218561426 7132684 4822907..4823293 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF A, IS3 family 4823293 7132684 ECS88_4855 Escherichia coli S88 transposase ORF A, IS3 family YP_002394339.1 4822907 D 585035 CDS YP_002394340.1 218561427 7132685 complement(4823213..4824364) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9689094, 6092059; Product type e : enzyme; IS30 transposase; KpLE2 phage-like element 4824364 insI 7132685 insI Escherichia coli S88 IS30 transposase; KpLE2 phage-like element YP_002394340.1 4823213 R 585035 CDS YP_002394341.1 218561428 7132741 4824495..4825094 1 NC_011742.1 Evidence 7 : Gene remnant; Product type pe : putative enzyme; transposase ORF B (fragment), IS911 4825094 insO 7132741 insO Escherichia coli S88 transposase ORF B (fragment), IS911 YP_002394341.1 4824495 D 585035 CDS YP_002394342.1 218561429 7132686 4825260..4825673 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; KpLE2 phage-like element 4825673 yjhV 7132686 yjhV Escherichia coli S88 conserved hypothetical protein; KpLE2 phage-like element YP_002394342.1 4825260 D 585035 CDS YP_002394343.1 218561430 7131734 complement(4826231..4826998) 1 NC_011742.1 Part of the FecBCDE citrate-dependent iron (III) transport system; iron-dicitrate transporter ATP-binding subunit 4826998 fecE 7131734 fecE Escherichia coli S88 iron-dicitrate transporter ATP-binding subunit YP_002394343.1 4826231 R 585035 CDS YP_002394344.1 218561431 7129466 complement(4826999..4828465) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 2651410; Product type t : transporter; iron-dicitrate transporter subunit ; membrane component of ABC superfamily 4828465 fecD 7129466 fecD Escherichia coli S88 iron-dicitrate transporter subunit ; membrane component of ABC superfamily YP_002394344.1 4826999 R 585035 CDS YP_002394345.1 218561432 7129465 complement(4827952..4828950) 1 NC_011742.1 part of the FecBCDE citrate-dependent iron (III) transport system; iron-dicitrate transporter permease subunit 4828950 fecC 7129465 fecC Escherichia coli S88 iron-dicitrate transporter permease subunit YP_002394345.1 4827952 R 585035 CDS YP_002394346.1 218561433 7129464 complement(4828947..4829849) 1 NC_011742.1 part of the ABC transporter involved in the uptake of citrate-dependent Fe(3+); iron-dicitrate transporter substrate-binding subunit 4829849 fecB 7129464 fecB Escherichia coli S88 iron-dicitrate transporter substrate-binding subunit YP_002394346.1 4828947 R 585035 CDS YP_002394347.1 218561434 7129463 complement(4829894..4832218) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 90105402, 91072220, 92269759, 2836368; Product type t : transporter; ferric citrate outer membrane transporter; KpLE2 phage-like element 4832218 fecA 7129463 fecA Escherichia coli S88 ferric citrate outer membrane transporter; KpLE2 phage-like element YP_002394347.1 4829894 R 585035 CDS YP_002394348.1 218561435 7129462 complement(4832305..4833258) 1 NC_011742.1 with FecA forms the FecAR signal transduction system; ferric citrate binds FecA and transmits a signal across the outer membrane to FecR. FecR transmits a signal across the cytoplasmic membrane and activates the sigma 70 protein FecI that directs the RNA polymerase to express the fecABCDE operon; fec operon regulator FecR 4833258 fecR 7129462 fecR Escherichia coli S88 fec operon regulator FecR YP_002394348.1 4832305 R 585035 CDS YP_002394349.1 218561436 7129468 complement(4833255..4833776) 1 NC_011742.1 Member of the extracytoplasmic function sigma factors which are active under specific conditions; binds with the catalytic core of RNA polymerase to produce the holoenzyme and directs bacterial core RNA polymerase to specific promoter elements to initiate transcription; this sigma factor regulates the genes for iron dicitrate transport; RNA polymerase sigma factor FecI 4833776 fecI 7129468 fecI Escherichia coli S88 RNA polymerase sigma factor FecI YP_002394349.1 4833255 R 585035 CDS YP_002394350.1 218561437 7129467 4834068..4834346 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1849492; Product type r : regulator; IS1 repressor protein InsA; KpLE2 phage-like element 4834346 insA 7129467 insA Escherichia coli S88 IS1 repressor protein InsA; KpLE2 phage-like element YP_002394350.1 4834068 D 585035 CDS YP_002394351.1 218561438 7132687 4836504..4837877 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative exported protein 4837877 7132687 ECS88_4873 Escherichia coli S88 conserved hypothetical protein; putative exported protein YP_002394351.1 4836504 D 585035 CDS YP_002394352.1 218561439 7132528 complement(4839561..4839908) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative transposase ORF2, IS66 family 4839908 7132528 ECS88_4877 Escherichia coli S88 conserved hypothetical protein, putative transposase ORF2, IS66 family YP_002394352.1 4839561 R 585035 CDS YP_002394353.1 218561440 7132529 complement(4839905..4840306) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative transposase, IS3 family 4840306 7132529 ECS88_4878 Escherichia coli S88 conserved hypothetical protein, putative transposase, IS3 family YP_002394353.1 4839905 R 585035 CDS YP_002394354.1 218561441 7132530 complement(4840640..4841161) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4841161 7132530 ECS88_4879 Escherichia coli S88 hypothetical protein YP_002394354.1 4840640 R 585035 CDS YP_002394355.1 218561442 7132531 complement(4841062..4841469) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4841469 7132531 ECS88_4880 Escherichia coli S88 hypothetical protein YP_002394355.1 4841062 R 585035 CDS YP_002394356.1 218561443 7132532 complement(4841723..4842328) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4842328 7132532 ECS88_4881 Escherichia coli S88 hypothetical protein YP_002394356.1 4841723 R 585035 CDS YP_002394357.1 218561444 7132533 complement(4842869..4843033) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4843033 7132533 ECS88_4883 Escherichia coli S88 hypothetical protein YP_002394357.1 4842869 R 585035 CDS YP_002394358.1 218561445 7132534 complement(4843037..4843213) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative transcriptional regulator 4843213 7132534 ECS88_4884 Escherichia coli S88 putative transcriptional regulator YP_002394358.1 4843037 R 585035 CDS YP_002394359.1 218561446 7132535 complement(4843514..4843780) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4843780 7132535 ECS88_4885 Escherichia coli S88 hypothetical protein YP_002394359.1 4843514 R 585035 CDS YP_002394360.1 218561447 7132536 4843726..4844127 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4844127 7132536 ECS88_4886 Escherichia coli S88 hypothetical protein YP_002394360.1 4843726 D 585035 CDS YP_002394361.1 218561448 7132537 4844207..4844824 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4844824 7132537 ECS88_4887 Escherichia coli S88 hypothetical protein YP_002394361.1 4844207 D 585035 CDS YP_002394362.1 218561449 7132538 4844996..4845193 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4845193 7132538 ECS88_4888 Escherichia coli S88 hypothetical protein YP_002394362.1 4844996 D 585035 CDS YP_002394363.1 218561450 7132539 4846228..4846941 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4846941 7132539 ECS88_4889 Escherichia coli S88 hypothetical protein YP_002394363.1 4846228 D 585035 CDS YP_002394364.1 218561451 7132540 4846963..4847898 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein with GTPase domain 4847898 7132540 ECS88_4890 Escherichia coli S88 conserved hypothetical protein with GTPase domain YP_002394364.1 4846963 D 585035 CDS YP_002394365.1 218561452 7132541 4848195..4851116 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 9103983, 2661530, 10931336, 10094691; Product type m : membrane component; antigen 43 precursor (AG43) (Fluffing protein) 4851116 7132541 ECS88_4891 Escherichia coli S88 antigen 43 precursor (AG43) (Fluffing protein) YP_002394365.1 4848195 D 585035 CDS YP_002394366.1 218561453 7132542 4851151..4851345 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4851345 7132542 ECS88_4892 Escherichia coli S88 hypothetical protein YP_002394366.1 4851151 D 585035 CDS YP_002394367.1 218561454 7132543 4851500..4852318 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4852318 7132543 ECS88_4893 Escherichia coli S88 hypothetical protein YP_002394367.1 4851500 D 585035 CDS YP_002394368.1 218561455 7132544 4852279..4853133 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative antirestriction protein 4853133 7132544 ECS88_4894 Escherichia coli S88 conserved hypothetical protein; putative antirestriction protein YP_002394368.1 4852279 D 585035 CDS YP_002394369.1 218561456 7132545 4853179..4853625 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11053371; Product type pf : putative factor; putative DNA repair protein; CP4-44 prophage 4853625 yeeS 7132545 yeeS Escherichia coli S88 putative DNA repair protein; CP4-44 prophage YP_002394369.1 4853179 D 585035 CDS YP_002394370.1 218561457 7132959 4853688..4853909 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CP4-44 prophage 4853909 yeeT 7132959 yeeT Escherichia coli S88 conserved hypothetical protein; CP4-44 prophage YP_002394370.1 4853688 D 585035 CDS YP_002394371.1 218561458 7132963 4853909..4854022 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 4854022 7132963 ECS88_4897 Escherichia coli S88 hypothetical protein YP_002394371.1 4853909 D 585035 CDS YP_002394372.1 218561459 7132546 complement(4854113..4854862) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative transposase ORF2, IS21 family 4854862 7132546 ECS88_4898 Escherichia coli S88 putative transposase ORF2, IS21 family YP_002394372.1 4854113 R 585035 CDS YP_002394373.1 218561460 7132547 complement(4854874..4856415) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative transposase ORF1, IS21 family 4856415 7132547 ECS88_4899 Escherichia coli S88 putative transposase ORF1, IS21 family YP_002394373.1 4854874 R 585035 CDS YP_002394374.1 218561461 7132548 4856658..4857026 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 14594833; Product type h : extrachromosomal origin; antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage 4857026 yeeU 7132548 yeeU Escherichia coli S88 antitoxin of the YeeV-YeeU toxin-antitoxin system; CP4-44 prophage YP_002394374.1 4856658 D 585035 CDS YP_002394375.1 218561462 7132967 4857954..4859213 1 NC_011742.1 phosphorylates methylthioribose to form methylthioribose-1-phosphate; involved in methionine salvage pathway; methylthioribose kinase 4859213 mtnK 7132967 mtnK Escherichia coli S88 methylthioribose kinase YP_002394375.1 4857954 D 585035 CDS YP_002394376.1 218561463 7129625 4859223..4860338 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 15102328; Product type e : enzyme; methyl-thioribose-1-phosphate isomerase 4860338 mtnA 7129625 mtnA Escherichia coli S88 methyl-thioribose-1-phosphate isomerase YP_002394376.1 4859223 D 585035 CDS YP_002394377.1 218561464 7129623 4860369..4861010 1 NC_011742.1 catalyzes the formation of glycerone phosphate and (S)-lactaldehyde from L-fuculose 1-phosphate; L-fuculose phosphate aldolase 4861010 mtnB 7129623 mtnB Escherichia coli S88 L-fuculose phosphate aldolase YP_002394377.1 4860369 D 585035 CDS YP_002394378.1 218561465 7129624 4861114..4862118 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative integral membrane protein; putative sugar permease 4862118 7129624 ECS88_4904 Escherichia coli S88 putative integral membrane protein; putative sugar permease YP_002394378.1 4861114 D 585035 CDS YP_002394379.1 218561466 7132549 complement(4862159..4863145) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator; KpLE2 phage-like element 4863145 yjhU 7132549 yjhU Escherichia coli S88 putative DNA-binding transcriptional regulator; KpLE2 phage-like element YP_002394379.1 4862159 R 585035 CDS YP_002394380.1 218561467 7131733 complement(4863245..4863436) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4863436 7131733 ECS88_4906 Escherichia coli S88 hypothetical protein YP_002394380.1 4863245 R 585035 CDS YP_002394381.1 218561468 7132550 complement(4863492..4864841) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter; KpLE2 phage-like element 4864841 yjhF 7132550 yjhF Escherichia coli S88 putative transporter; KpLE2 phage-like element YP_002394381.1 4863492 R 585035 CDS YP_002394382.1 218561469 7131724 complement(4864948..4866915) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; hypothetical protein 4866915 yjhG 7131724 yjhG Escherichia coli S88 hypothetical protein YP_002394382.1 4864948 R 585035 CDS YP_002394383.1 218561470 7131725 complement(4866926..4867831) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 11425723; Product type pe : putative enzyme; putative lyase/synthase (dapA-like); KpLE2 phage-like element 4867831 yjhH 7131725 yjhH Escherichia coli S88 putative lyase/synthase (dapA-like); KpLE2 phage-like element YP_002394383.1 4866926 R 585035 CDS YP_002394384.1 218561471 7131726 complement(4867836..4868624) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator; KpLE2 phage-like element 4868624 yjhI 7131726 yjhI Escherichia coli S88 putative DNA-binding transcriptional regulator; KpLE2 phage-like element YP_002394384.1 4867836 R 585035 CDS YP_002394385.1 218561472 7131727 complement(4868927..4869709) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator; KpLE2 phage-like element 4869709 sgcR 7131727 sgcR Escherichia coli S88 putative DNA-binding transcriptional regulator; KpLE2 phage-like element YP_002394385.1 4868927 R 585035 CDS YP_002394386.1 218561473 7130595 complement(4869726..4870358) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; epimerase 4870358 sgcE 7130595 sgcE Escherichia coli S88 epimerase YP_002394386.1 4869726 R 585035 CDS YP_002394387.1 218561474 7130593 complement(4870370..4870801) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative phosphotransferase enzyme IIA component; KpLE2 phage-like element 4870801 sgcA 7130593 sgcA Escherichia coli S88 putative phosphotransferase enzyme IIA component; KpLE2 phage-like element YP_002394387.1 4870370 R 585035 CDS YP_002394388.1 218561475 7131352 complement(4870932..4871738) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative nucleoside triphosphatase; KpLE2 phage-like element 4871738 sgcQ 7131352 sgcQ Escherichia coli S88 putative nucleoside triphosphatase; KpLE2 phage-like element YP_002394388.1 4870932 R 585035 CDS YP_002394389.1 218561476 7130594 complement(4871751..4873064) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative phosphotransferase enzyme IIC component; KpLE2 phage-like element 4873064 sgcC 7130594 sgcC Escherichia coli S88 putative phosphotransferase enzyme IIC component; KpLE2 phage-like element YP_002394389.1 4871751 R 585035 CDS YP_002394390.1 218561477 7130592 complement(4873076..4873354) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative enzyme IIB component of PTS; KpLE2 phage-like element 4873354 sgcB 7130592 sgcB Escherichia coli S88 putative enzyme IIB component of PTS; KpLE2 phage-like element YP_002394390.1 4873076 R 585035 CDS YP_002394391.1 218561478 7130591 complement(4873351..4874472) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative endoglucanase with Zn-dependent exopeptidase domain; KpLE2 phage-like element 4874472 sgcX 7130591 sgcX Escherichia coli S88 putative endoglucanase with Zn-dependent exopeptidase domain; KpLE2 phage-like element YP_002394391.1 4873351 R 585035 CDS YP_002394392.1 218561479 7130596 complement(4875258..4876004) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative methyltransferase; KpLE2 phage-like element 4876004 yjhP 7130596 yjhP Escherichia coli S88 putative methyltransferase; KpLE2 phage-like element YP_002394392.1 4875258 R 585035 CDS YP_002394393.1 218561480 7131728 complement(4876060..4876605) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative acetyltransferase; KpLE2 phage-like element 4876605 yjhQ 7131728 yjhQ Escherichia coli S88 putative acetyltransferase; KpLE2 phage-like element YP_002394393.1 4876060 R 585035 CDS YP_002394394.1 218561481 7131729 complement(4876617..4876874) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4876874 yjhX 7131729 yjhX Escherichia coli S88 hypothetical protein YP_002394394.1 4876617 R 585035 CDS YP_002394395.1 218561482 7131735 complement(4877365..4877496) 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 4877496 7131735 ECS88_4923 Escherichia coli S88 hypothetical protein YP_002394395.1 4877365 R 585035 CDS YP_002394396.1 218561483 7132552 4877836..4878852 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 96367099; Product type pf : putative factor; putative frameshift suppressor; KpLE2 phage-like element 4878852 yjhR 7132552 yjhR Escherichia coli S88 putative frameshift suppressor; KpLE2 phage-like element YP_002394396.1 4877836 D 585035 CDS YP_002394397.1 218561484 7131730 complement(4879435..4880415) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4880415 yjhS 7131730 yjhS Escherichia coli S88 hypothetical protein YP_002394397.1 4879435 R 585035 CDS YP_002394398.1 218561485 7131731 complement(4880480..4881586) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; N-acetylneuraminic acid mutarotase 4881586 yjhT 7131731 yjhT Escherichia coli S88 N-acetylneuraminic acid mutarotase YP_002394398.1 4880480 R 585035 CDS YP_002394399.1 218561486 7131732 complement(4881606..4882322) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15743943; Product type t : transporter; N-acetylnuraminic acid outer membrane channel protein 4882322 yjhA 7131732 yjhA Escherichia coli S88 N-acetylnuraminic acid outer membrane channel protein YP_002394399.1 4881606 R 585035 CDS YP_002394400.1 218561487 7131723 complement(4883121..4883516) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4883516 7131723 ECS88_4929 Escherichia coli S88 hypothetical protein YP_002394400.1 4883121 R 585035 CDS YP_002394401.1 218561488 7132553 4883776..4884378 1 NC_011742.1 inversion of on/off regulator of fimA; tyrosine recombinase 4884378 fimB 7132553 fimB Escherichia coli S88 tyrosine recombinase YP_002394401.1 4883776 D 585035 CDS YP_002394402.1 218561489 7129494 4884855..4885451 1 NC_011742.1 inversion of on/off regulator of fimA; tyrosine recombinase 4885451 fimE 7129494 fimE Escherichia coli S88 tyrosine recombinase YP_002394402.1 4884855 D 585035 CDS YP_002394403.1 218561490 7129497 4885932..4886486 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6146599, 6147250, 90220509, 93106965, 2858471, 6123483; Product type s : structure; major type 1 subunit fimbrin (pilin) 4886486 fimA 7129497 fimA Escherichia coli S88 major type 1 subunit fimbrin (pilin) YP_002394403.1 4885932 D 585035 CDS YP_002394404.1 218561491 7129493 4886551..4887090 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12897022, 11673421, 6147250; Product type s : structure; type 1 pilus biosynthesis fimbrial protein 4887090 fimI 7129493 fimI Escherichia coli S88 type 1 pilus biosynthesis fimbrial protein YP_002394404.1 4886551 D 585035 CDS YP_002394405.1 218561492 7129501 4887127..4887852 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20450729, 90220509, 93155127, 93391362, 1363735, 8104335, 8636962, 9783748; Product type f : factor; chaperone, periplasmic 4887852 fimC 7129501 fimC Escherichia coli S88 chaperone, periplasmic YP_002394405.1 4887127 D 585035 CDS YP_002394406.1 218561493 7129495 4887919..4890555 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12842468, 90220509, 1970114; Product type f : factor; outer membrane usher protein, type 1 fimbrial synthesis 4890555 fimD 7129495 fimD Escherichia coli S88 outer membrane usher protein, type 1 fimbrial synthesis YP_002394406.1 4887919 D 585035 CDS YP_002394407.1 218561494 7129496 4890565..4891095 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89056689, 92394896, 1970114, 2890081; Product type s : structure; minor component of type 1 fimbriae 4891095 fimF 7129496 fimF Escherichia coli S88 minor component of type 1 fimbriae YP_002394407.1 4890565 D 585035 CDS YP_002394408.1 218561495 7129498 4891108..4891611 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89056689, 92394896, 2890081; Product type s : structure; minor component of type 1 fimbriae 4891611 fimG 7129498 fimG Escherichia coli S88 minor component of type 1 fimbriae YP_002394408.1 4891108 D 585035 CDS YP_002394409.1 218561496 7129499 4891631..4892533 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 89056689, 93155127, 93391362, 1971261, 2890081, 2900235; Product type s : structure; minor component of type 1 fimbriae 4892533 fimH 7129499 fimH Escherichia coli S88 minor component of type 1 fimbriae YP_002394409.1 4891631 D 585035 CDS YP_002394410.1 218561497 7129500 complement(4892706..4894049) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 96125229, 15516583, 8550444; Product type t : transporter; fructuronate transporter 4894049 gntP 7129500 gntP Escherichia coli S88 fructuronate transporter YP_002394410.1 4892706 R 585035 CDS YP_002394411.1 218561498 7130051 4894389..4895573 1 NC_011742.1 catalyzes the formation of 2-dehydro-3-deoxy-D-gluconate from mannonate; mannonate dehydratase 4895573 uxuA 7130051 uxuA Escherichia coli S88 mannonate dehydratase YP_002394411.1 4894389 D 585035 CDS YP_002394412.1 218561499 7132466 4895654..4897114 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 73203083, 77222076, 14401695; Product type e : enzyme; D-mannonate oxidoreductase, NAD-binding 4897114 uxuB 7132466 uxuB Escherichia coli S88 D-mannonate oxidoreductase, NAD-binding YP_002394412.1 4895654 D 585035 CDS YP_002394413.1 218561500 7132467 4897329..4898102 1 NC_011742.1 regulates the expression of uxuBA; DNA-binding transcriptional repressor UxuR 4898102 uxuR 7132467 uxuR Escherichia coli S88 DNA-binding transcriptional repressor UxuR YP_002394413.1 4897329 D 585035 CDS YP_002394414.1 218561501 7132468 complement(4898243..4899073) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4899073 yjiC 7132468 yjiC Escherichia coli S88 hypothetical protein YP_002394414.1 4898243 R 585035 CDS YP_002394415.1 218561502 7131737 4899636..4899779 1 NC_011742.1 Evidence 6 : Doubtful CDS; hypothetical protein 4899779 7131737 ECS88_4944 Escherichia coli S88 hypothetical protein YP_002394415.1 4899636 D 585035 CDS YP_002394416.1 218561503 7132554 4899745..4900137 1 NC_011742.1 inhibitor of RssB activity in response to DNA damage; blocks degradation of stationary phase sigma factor RpoS; DNA replication/recombination/repair protein 4900137 iraD 7132554 iraD Escherichia coli S88 DNA replication/recombination/repair protein YP_002394416.1 4899745 D 585035 CDS YP_002394417.1 218561504 7131738 complement(4900130..4901041) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 4901041 yjiE 7131738 yjiE Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002394417.1 4900130 R 585035 CDS YP_002394418.1 218561505 7130902 complement(4901106..4902278) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 95181377, 7876157; Product type e : enzyme; isoaspartyl dipeptidase 4902278 iadA 7130902 iadA Escherichia coli S88 isoaspartyl dipeptidase YP_002394418.1 4901106 R 585035 CDS YP_002394419.1 218561506 7131602 complement(4902291..4902752) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 4902752 yjiG 7131602 yjiG Escherichia coli S88 hypothetical protein YP_002394419.1 4902291 R 585035 CDS YP_002394420.1 218561507 7131065 complement(4902749..4903432) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4903432 yjiH 7131065 yjiH Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394420.1 4902749 R 585035 CDS YP_002394421.1 218561508 7131066 4903682..4904266 1 NC_011742.1 in yeast cells this enzyme removes the 2'-phosphate from RNA via an intermediate in which the phosphate is ADP-ribosylated by NAD followed by a presumed transesterification to release the RNA and generate ADP-ribose 1''-2''-cyclic phosphate; functions in tRNA splicing; the function and substrate of bacterial enzymes in organisms that do not perform splicing is unknown; RNA 2'-phosphotransferase-like protein 4904266 kptA 7131066 kptA Escherichia coli S88 RNA 2'-phosphotransferase-like protein YP_002394421.1 4903682 D 585035 CDS YP_002394422.1 218561509 7130467 complement(4904387..4909627) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; putative invasin/intimin protein 4909627 7130467 ECS88_4952 Escherichia coli S88 putative invasin/intimin protein YP_002394422.1 4904387 R 585035 CDS YP_002394423.1 218561510 7132555 complement(4909838..4911016) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4911016 yjiJ 7132555 yjiJ Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394423.1 4909838 R 585035 CDS YP_002394424.1 218561511 7131067 complement(4911087..4911962) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; hypothetical protein 4911962 yjiK 7131067 yjiK Escherichia coli S88 hypothetical protein YP_002394424.1 4911087 R 585035 CDS YP_002394425.1 218561512 7131068 complement(4912183..4914276) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4914276 7131068 ECS88_4955 Escherichia coli S88 hypothetical protein YP_002394425.1 4912183 R 585035 CDS YP_002394426.1 218561513 7132556 complement(4914472..4914726) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4914726 7132556 ECS88_4956 Escherichia coli S88 hypothetical protein YP_002394426.1 4914472 R 585035 CDS YP_002394427.1 218561514 7132557 complement(4914588..4914854) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4914854 7132557 ECS88_4957 Escherichia coli S88 hypothetical protein YP_002394427.1 4914588 R 585035 CDS YP_002394428.1 218561515 7132558 complement(4914851..4915618) 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 8365476, 7607244, 15654892; Product type e : enzyme; ATPase, activator of (R)-hydroxyglutaryl-CoA dehydratase 4915618 hgdC 7132558 hgdC Escherichia coli S88 ATPase, activator of (R)-hydroxyglutaryl-CoA dehydratase YP_002394428.1 4914851 R 585035 CDS YP_002394429.1 218561516 7128914 complement(4915628..4916779) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 3691501, 11106419; Product type pe : putative enzyme; putative 2-hydroxyglutaryl-CoA dehydratase (hgdB-like) 4916779 yjiM 7128914 yjiM Escherichia coli S88 putative 2-hydroxyglutaryl-CoA dehydratase (hgdB-like) YP_002394429.1 4915628 R 585035 CDS YP_002394430.1 218561517 7131069 complement(4916895..4918175) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4918175 yjiN 7131069 yjiN Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394430.1 4916895 R 585035 CDS YP_002394431.1 218561518 7131070 complement(4918216..4919448) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 21450803; Product type t : transporter; multidrug efflux system protein 4919448 yjiO 7131070 yjiO Escherichia coli S88 multidrug efflux system protein YP_002394431.1 4918216 R 585035 CDS YP_002394432.1 218561519 7131071 4919915..4920859 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Conserved hypothetical protein, putative transposase 4920859 7131071 ECS88_4962 Escherichia coli S88 Conserved hypothetical protein, putative transposase YP_002394432.1 4919915 D 585035 CDS YP_002394433.1 218561520 7132559 complement(4921102..4922514) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; fused putative DNA-binding transcriptional regulator ; putative aminotransferase 4922514 yjiR 7132559 yjiR Escherichia coli S88 fused putative DNA-binding transcriptional regulator ; putative aminotransferase YP_002394433.1 4921102 R 585035 CDS YP_002394434.1 218561521 7131072 4922691..4922855 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4922855 yjiS 7131072 yjiS Escherichia coli S88 hypothetical protein YP_002394434.1 4922691 D 585035 CDS YP_002394435.1 218561522 7131073 complement(4922897..4923292) 1 NC_011742.1 involved in the degradation of RNA; may be involved in the recycling of RNA during the SOS response; endoribonuclease SymE 4923292 yjiW 7131073 yjiW Escherichia coli S88 endoribonuclease SymE YP_002394435.1 4922897 R 585035 CDS YP_002394436.1 218561523 7131353 complement(4923450..4926725) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8939428; Product type e : enzyme; type I restriction-modification system (hsdR-like) 4926725 7131353 ECS88_4966 Escherichia coli S88 type I restriction-modification system (hsdR-like) YP_002394436.1 4923450 R 585035 CDS YP_002394437.1 218561524 7132560 complement(4926808..4928199) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11600708; Product type e : enzyme; type I restriction-modification system (hsdS-like) 4928199 7132560 ECS88_4967 Escherichia coli S88 type I restriction-modification system (hsdS-like) YP_002394437.1 4926808 R 585035 CDS YP_002394438.1 218561525 7132561 complement(4928189..4929808) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8939428; Product type e : enzyme; putative type I restriction-modification system methyltransferase subunit; (hsdM-like) 4929808 7132561 ECS88_4968 Escherichia coli S88 putative type I restriction-modification system methyltransferase subunit; (hsdM-like) YP_002394438.1 4928189 R 585035 CDS YP_002394439.1 218561526 7132563 complement(4930418..4931038) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 4931038 7132563 ECS88_4970 Escherichia coli S88 hypothetical protein YP_002394439.1 4930418 R 585035 CDS YP_002394440.1 218561527 7132564 4931208..4931522 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4931522 7132564 ECS88_4971 Escherichia coli S88 hypothetical protein YP_002394440.1 4931208 D 585035 CDS YP_002394441.1 218561528 7132565 4931368..4931811 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4931811 7132565 ECS88_4972 Escherichia coli S88 hypothetical protein YP_002394441.1 4931368 D 585035 CDS YP_002394442.1 218561529 7132566 complement(4931852..4932808) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 14696199; Product type pe : putative enzyme; putative GTP-binding protein YjiA 4932808 yjiA 7132566 yjiA Escherichia coli S88 putative GTP-binding protein YjiA YP_002394442.1 4931852 R 585035 CDS YP_002394443.1 218561530 7131736 complement(4932819..4933022) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4933022 yjiX 7131736 yjiX Escherichia coli S88 hypothetical protein YP_002394443.1 4932819 R 585035 CDS YP_002394444.1 218561531 7131075 complement(4933072..4935222) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4935222 yjiY 7131075 yjiY Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394444.1 4933072 R 585035 CDS YP_002394445.1 218561532 7131076 4935600..4937255 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20015410, 89034150, 91317710, 10466731, 2033064, 6213619, 6402709, 8384293; Product type r : regulator; methyl-accepting chemotaxis protein I, serine sensor receptor 4937255 tsr 7131076 tsr Escherichia coli S88 methyl-accepting chemotaxis protein I, serine sensor receptor YP_002394445.1 4935600 D 585035 CDS YP_002394446.1 218561533 7130360 complement(4937304..4938665) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative transporter 4938665 yjiZ 7130360 yjiZ Escherichia coli S88 putative transporter YP_002394446.1 4937304 R 585035 CDS YP_002394447.1 218561534 7131077 complement(4938880..4939794) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 4939794 yjjM 7131077 yjjM Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002394447.1 4938880 R 585035 CDS YP_002394448.1 218561535 7131083 4939933..4940955 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative oxidoreductase, Zn-dependent and NAD(P)-binding 4940955 yjjN 7131083 yjjN Escherichia coli S88 putative oxidoreductase, Zn-dependent and NAD(P)-binding YP_002394448.1 4939933 D 585035 CDS YP_002394449.1 218561536 7131084 complement(4941093..4943384) 1 NC_011742.1 catalyzes the transfer of phosphoglycerol to the glucan backbone; phosphoglycerol transferase I 4943384 mdoB 7131084 mdoB Escherichia coli S88 phosphoglycerol transferase I YP_002394449.1 4941093 R 585035 CDS YP_002394450.1 218561537 7132689 complement(4943638..4944132) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4944132 yjjA 7132689 yjjA Escherichia coli S88 hypothetical protein YP_002394450.1 4943638 R 585035 CDS YP_002394451.1 218561538 7131078 complement(4944181..4944918) 1 NC_011742.1 acts to load the DnaB helicase onto the initiation site during DNA replication; DNA replication protein DnaC 4944918 dnaC 7131078 dnaC Escherichia coli S88 DNA replication protein DnaC YP_002394451.1 4944181 R 585035 CDS YP_002394452.1 218561539 7130222 complement(4944921..4945460) 1 NC_011742.1 This protein is required for primosome-dependent normal DNA replication; it is also involved in inducing stable DNA replication during SOS response. It forms, in concert with dnaB protein and other prepriming proteins dnaC, N, N', N'' a prepriming protein complex on the specific site of the template DNA recognized by protein N'; primosomal protein DnaI 4945460 dnaT 7130222 dnaT Escherichia coli S88 primosomal protein DnaI YP_002394452.1 4944921 R 585035 CDS YP_002394453.1 218561540 7130229 complement(4945567..4946055) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4946055 7130229 ECS88_4984 Escherichia coli S88 hypothetical protein YP_002394453.1 4945567 R 585035 CDS YP_002394454.1 218561541 7132567 complement(4946031..4946801) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type pm : putative membrane component; conserved hypothetical protein; putative inner membrane protein 4946801 yjjP 7132567 yjjP Escherichia coli S88 conserved hypothetical protein; putative inner membrane protein YP_002394454.1 4946031 R 585035 CDS YP_002394455.1 218561542 7131085 4947420..4948145 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; putative DNA-binding transcriptional regulator 4948145 yjjQ 7131085 yjjQ Escherichia coli S88 putative DNA-binding transcriptional regulator YP_002394455.1 4947420 D 585035 CDS YP_002394456.1 218561543 7131086 4948157..4948780 1 NC_011742.1 regulator for the transport and utilization of the aromatic beta-glucosides arbutin and silicin; DNA-binding transcriptional activator BglJ 4948780 bglJ 7131086 bglJ Escherichia coli S88 DNA-binding transcriptional activator BglJ YP_002394456.1 4948157 D 585035 CDS YP_002394457.1 218561544 7129118 complement(4948818..4949606) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 11931550, 14756576, 3323834, 9990318; Product type c : carrier; ferric iron reductase involved in ferric hydroximate transport 4949606 fhuF 7129118 fhuF Escherichia coli S88 ferric iron reductase involved in ferric hydroximate transport YP_002394457.1 4948818 R 585035 CDS YP_002394458.1 218561545 7129487 4949636..4949983 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4949983 7129487 ECS88_4990 Escherichia coli S88 hypothetical protein YP_002394458.1 4949636 D 585035 CDS YP_002394459.1 218561546 7129917 complement(4950612..4951643) 1 NC_011742.1 16S rRNA M2G1207 methyltransferase; one of many enzymes that modify bases of the ribosomal RNA; this enzyme methylates the G at position 1207 of the small ribosomal subunit; 16S ribosomal RNA m2G1207 methyltransferase 4951643 rsmC 7129917 rsmC Escherichia coli S88 16S ribosomal RNA m2G1207 methyltransferase YP_002394459.1 4950612 R 585035 CDS YP_002394460.1 218561547 7133815 4951746..4952159 1 NC_011742.1 with the chi subunit binds to single-strand binding (SSB) protein and acts as a bridge between the DnaX clamp loader complex and the SSB; DNA polymerase III subunit psi 4952159 holD 7133815 holD Escherichia coli S88 DNA polymerase III subunit psi YP_002394460.1 4951746 D 585035 CDS YP_002394461.1 218561548 7128944 4952128..4952574 1 NC_011742.1 alanine acetyltransferase that specifically acetylates ribosomal protein S18; ribosomal-protein-alanine N-acetyltransferase 4952574 rimI 7128944 rimI Escherichia coli S88 ribosomal-protein-alanine N-acetyltransferase YP_002394461.1 4952128 D 585035 CDS YP_002394462.1 218561549 7132723 4952589..4953266 1 NC_011742.1 manganese-dependent 5'-nucleotidase; specific for 5'-UMP, 5'-dUMP, and 5'-dTMP; member of haloacid dehalogenase (HAD)-like hydrolase superfamily; nucleotidase 4953266 yjjG 7132723 yjjG Escherichia coli S88 nucleotidase YP_002394462.1 4952589 D 585035 CDS YP_002394463.1 218561550 7131079 4953652..4954866 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative integrase 4954866 7131079 ECS88_4996 Escherichia coli S88 putative integrase YP_002394463.1 4953652 D 585035 CDS YP_002394464.1 218561551 7132569 complement(4955242..4956258) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4956258 7132569 ECS88_4997 Escherichia coli S88 hypothetical protein YP_002394464.1 4955242 R 585035 CDS YP_002394465.1 218561552 7132570 complement(4956805..4957425) 1 NC_011742.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein from phage origin 4957425 7132570 ECS88_4998 Escherichia coli S88 hypothetical protein from phage origin YP_002394465.1 4956805 R 585035 CDS YP_002394466.1 218561553 7132571 complement(4957425..4957787) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 4957787 yfdS 7132571 yfdS Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002394466.1 4957425 R 585035 CDS YP_002394467.1 218561554 7129839 complement(4957778..4958314) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 4958314 yfdR 7129839 yfdR Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002394467.1 4957778 R 585035 CDS YP_002394468.1 218561555 7129837 complement(4958442..4959266) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 4959266 yfdQ 7129837 yfdQ Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002394468.1 4958442 R 585035 CDS YP_002394469.1 218561556 7129834 complement(4959332..4959880) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 4959880 7129834 ECS88_5002 Escherichia coli S88 hypothetical protein YP_002394469.1 4959332 R 585035 CDS YP_002394470.1 218561557 7132572 complement(4960417..4961109) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative transcriptional regulator from phage origin 4961109 7132572 ECS88_5003 Escherichia coli S88 putative transcriptional regulator from phage origin YP_002394470.1 4960417 R 585035 CDS YP_002394471.1 218561558 7132573 4961207..4961467 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 4961467 7132573 ECS88_5004 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002394471.1 4961207 D 585035 CDS YP_002394472.1 218561559 7132574 4961460..4962011 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative nucleic acid-binding protein; e14 prophage 4962011 ymfL 7132574 ymfL Escherichia coli S88 putative nucleic acid-binding protein; e14 prophage YP_002394472.1 4961460 D 585035 CDS YP_002394473.1 218561560 7131129 4962008..4963159 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 4963159 7131129 ECS88_5007 Escherichia coli S88 hypothetical protein YP_002394473.1 4962008 D 585035 CDS YP_002394474.1 218561561 7132575 4963156..4963380 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 4963380 7132575 ECS88_5008 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002394474.1 4963156 D 585035 CDS YP_002394475.1 218561562 7132576 4963338..4964195 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; replication protein from phage origin 4964195 7132576 ECS88_5009 Escherichia coli S88 replication protein from phage origin YP_002394475.1 4963338 D 585035 CDS YP_002394476.1 218561563 7132577 4964198..4964686 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; CPS-53 (KpLE1) prophage 4964686 yfdN 7132577 yfdN Escherichia coli S88 conserved hypothetical protein; CPS-53 (KpLE1) prophage YP_002394476.1 4964198 D 585035 CDS YP_002394477.1 218561564 7129831 4964653..4965012 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin with LexA DNA binding domain 4965012 7129831 ECS88_5011 Escherichia coli S88 conserved hypothetical protein from phage origin with LexA DNA binding domain YP_002394477.1 4964653 D 585035 CDS YP_002394478.1 218561565 7132578 4965009..4965398 1 NC_011742.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 8648624; Product type h : extrachromosomal origin; Crossover junction endodeoxyribonuclease from phage origin 4965398 7132578 ECS88_5012 Escherichia coli S88 Crossover junction endodeoxyribonuclease from phage origin YP_002394478.1 4965009 D 585035 CDS YP_002394479.1 218561566 7132579 4965418..4966215 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from phage origin 4966215 7132579 ECS88_5013 Escherichia coli S88 conserved hypothetical protein from phage origin YP_002394479.1 4965418 D 585035 CDS YP_002394480.1 218561567 7132580 4966217..4967212 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4967212 7132580 ECS88_5014 Escherichia coli S88 hypothetical protein YP_002394480.1 4966217 D 585035 CDS YP_002394481.1 218561568 7132581 4967226..4967978 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative antitermination protein Q; Qin prophage 4967978 ydfT 7132581 ydfT Escherichia coli S88 putative antitermination protein Q; Qin prophage YP_002394481.1 4967226 D 585035 CDS YP_002394482.1 218561569 7129339 complement(4968394..4968606) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9484881, 8022261, 9439003; Product type h : extrachromosomal origin; cold shock protein; Qin prophage 4968606 cspF 7129339 cspF Escherichia coli S88 cold shock protein; Qin prophage YP_002394482.1 4968394 R 585035 CDS YP_002394483.1 218561570 7130498 4968907..4969122 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 94293754, 94293756, 9439003; Product type h : extrachromosomal origin; cold shock protein; Qin prophage 4969122 cspB 7130498 cspB Escherichia coli S88 cold shock protein; Qin prophage YP_002394483.1 4968907 D 585035 CDS YP_002394484.1 218561571 7130494 4969875..4970090 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor; putative S lysis protein; Qin prophage 4970090 essQ 7130494 essQ Escherichia coli S88 putative S lysis protein; Qin prophage YP_002394484.1 4969875 D 585035 CDS YP_002394485.1 218561572 7132420 4970074..4970646 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 4970646 7132420 ECS88_5019 Escherichia coli S88 hypothetical protein YP_002394485.1 4970074 D 585035 CDS YP_002394486.1 218561573 7132582 4970968..4971501 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative membrane-associated lysozyme; Qin prophage 4971501 ydfQ 7132582 ydfQ Escherichia coli S88 putative membrane-associated lysozyme; Qin prophage YP_002394486.1 4970968 D 585035 CDS YP_002394487.1 218561574 7129337 4971498..4971995 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein; Qin prophage 4971995 ydfP 7129337 ydfP Escherichia coli S88 conserved hypothetical protein; Qin prophage YP_002394487.1 4971498 D 585035 CDS YP_002394488.1 218561575 7129335 4972359..4972571 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9484881; Product type h : extrachromosomal origin; cold shock protein; Qin prophage 4972571 cspI 7129335 cspI Escherichia coli S88 cold shock protein; Qin prophage YP_002394488.1 4972359 D 585035 CDS YP_002394489.1 218561576 7130501 4972804..4973073 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4973073 7130501 ECS88_5023 Escherichia coli S88 hypothetical protein YP_002394489.1 4972804 D 585035 CDS YP_002394490.1 218561577 7132583 4973153..4973419 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4973419 7132583 ECS88_5024 Escherichia coli S88 hypothetical protein YP_002394490.1 4973153 D 585035 CDS YP_002394491.1 218561578 7132584 4973715..4973921 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; hypothetical protein 4973921 7132584 ECS88_5025 Escherichia coli S88 hypothetical protein YP_002394491.1 4973715 D 585035 CDS YP_002394492.1 218561579 7132585 4974474..4974965 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from putative prophage 4974965 7132585 ECS88_5026 Escherichia coli S88 conserved hypothetical protein from putative prophage YP_002394492.1 4974474 D 585035 CDS YP_002394493.1 218561580 7132586 4974965..4977067 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DNA packaging protein of putative prophage ( terminase large subunit) 4977067 7132586 ECS88_5027 Escherichia coli S88 putative DNA packaging protein of putative prophage ( terminase large subunit) YP_002394493.1 4974965 D 585035 CDS YP_002394494.1 218561581 7132587 4977058..4977276 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from putative prophage 4977276 7132587 ECS88_5028 Escherichia coli S88 conserved hypothetical protein from putative prophage YP_002394494.1 4977058 D 585035 CDS YP_002394495.1 218561582 7132588 4977204..4978784 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative portal protein (head-tail preconnector protein) from putative prophage 4978784 7132588 ECS88_5029 Escherichia coli S88 putative portal protein (head-tail preconnector protein) from putative prophage YP_002394495.1 4977204 D 585035 CDS YP_002394496.1 218561583 7132589 4978537..4980756 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative ATP-dependent Clp protease proteolytic subunit (Endopeptidase Clp) 4980756 7132589 ECS88_5030 Escherichia coli S88 putative ATP-dependent Clp protease proteolytic subunit (Endopeptidase Clp) YP_002394496.1 4978537 D 585035 CDS YP_002394497.1 218561584 7132590 4980798..4981166 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from putative prophage 4981166 7132590 ECS88_5031 Escherichia coli S88 conserved hypothetical protein from putative prophage YP_002394497.1 4980798 D 585035 CDS YP_002394498.1 218561585 7132591 4981159..4981434 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein from putative prophage 4981434 7132591 ECS88_5032 Escherichia coli S88 conserved hypothetical protein from putative prophage YP_002394498.1 4981159 D 585035 CDS YP_002394499.1 218561586 7132592 4981446..4982024 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein Z (GPZ) of prophage 4982024 7132592 ECS88_5033 Escherichia coli S88 Minor tail protein Z (GPZ) of prophage YP_002394499.1 4981446 D 585035 CDS YP_002394500.1 218561587 7132593 4982009..4982422 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein U 4982422 7132593 ECS88_5034 Escherichia coli S88 Minor tail protein U YP_002394500.1 4982009 D 585035 CDS YP_002394501.1 218561588 7132594 4982358..4983176 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Major tail protein V 4983176 7132594 ECS88_5035 Escherichia coli S88 Major tail protein V YP_002394501.1 4982358 D 585035 CDS YP_002394502.1 218561589 7132595 4983195..4983623 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative minor tail component of putative prophage 4983623 7132595 ECS88_5036 Escherichia coli S88 putative minor tail component of putative prophage YP_002394502.1 4983195 D 585035 CDS YP_002394503.1 218561590 7132596 4983632..4983961 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative minor tail protein T of putative prophage 4983961 7132596 ECS88_5037 Escherichia coli S88 putative minor tail protein T of putative prophage YP_002394503.1 4983632 D 585035 CDS YP_002394504.1 218561591 7132597 4983903..4986998 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tail length tape measure protein from putative prophage 4986998 7132597 ECS88_5038 Escherichia coli S88 putative tail length tape measure protein from putative prophage YP_002394504.1 4983903 D 585035 CDS YP_002394505.1 218561592 7132598 4986998..4987327 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein M 4987327 7132598 ECS88_5039 Escherichia coli S88 Minor tail protein M YP_002394505.1 4986998 D 585035 CDS YP_002394506.1 218561593 7132599 4987337..4988035 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Minor tail protein L 4988035 7132599 ECS88_5040 Escherichia coli S88 Minor tail protein L YP_002394506.1 4987337 D 585035 CDS YP_002394507.1 218561594 7132600 4987998..4988783 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative tail fiber component K of prophage 4988783 7132600 ECS88_5041 Escherichia coli S88 putative tail fiber component K of prophage YP_002394507.1 4987998 D 585035 CDS YP_002394508.1 218561595 7132601 4988681..4989328 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Tail assembly protein I from putative prophage 4989328 7132601 ECS88_5042 Escherichia coli S88 Tail assembly protein I from putative prophage YP_002394508.1 4988681 D 585035 CDS YP_002394509.1 218561596 7132602 4989344..4992784 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin; Host specificity protein J 4992784 7132602 ECS88_5043 Escherichia coli S88 Host specificity protein J YP_002394509.1 4989344 D 585035 CDS YP_002394510.1 218561597 7132603 4992852..4993451 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 2144037; Product type h : extrachromosomal origin; Putative Lom-like outer membrane protein of phage origin 4993451 7132603 ECS88_5044 Escherichia coli S88 Putative Lom-like outer membrane protein of phage origin YP_002394510.1 4992852 D 585035 CDS YP_002394511.1 218561598 7132604 4993510..4995894 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; Product type h : extrachromosomal origin; conserved hypothetical protein, putative side tail fiber protein homolog from prophage 4995894 7132604 ECS88_5045 Escherichia coli S88 conserved hypothetical protein, putative side tail fiber protein homolog from prophage YP_002394511.1 4993510 D 585035 CDS YP_002394512.1 218561599 7132605 4995894..4996175 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4996175 7132605 ECS88_5046 Escherichia coli S88 hypothetical protein YP_002394512.1 4995894 D 585035 CDS YP_002394513.1 218561600 7132606 4996185..4996889 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4996889 7132606 ECS88_5047 Escherichia coli S88 hypothetical protein YP_002394513.1 4996185 D 585035 CDS YP_002394514.1 218561601 7132607 4996900..4997193 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 4997193 7132607 ECS88_5048 Escherichia coli S88 hypothetical protein YP_002394514.1 4996900 D 585035 CDS YP_002394515.1 218561602 7131289 complement(4997421..4998011) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 14687564; Product type pe : putative enzyme; putative site-specific recombinase; DNA invertase; Rac prophage 4998011 pinR 7131289 pinR Escherichia coli S88 putative site-specific recombinase; DNA invertase; Rac prophage YP_002394515.1 4997421 R 585035 CDS YP_002394516.1 218561603 7133734 complement(4998328..4998594) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative DNA-binding transcriptional regulator; Qin prophage 4998594 ydfK 7133734 ydfK Escherichia coli S88 conserved hypothetical protein; putative DNA-binding transcriptional regulator; Qin prophage YP_002394516.1 4998328 R 585035 CDS YP_002394517.1 218561604 7129334 complement(4999170..4999418) 1 NC_011742.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 11230150; Product type f : factor; DNA damage-inducible protein in prophage (dinI-like) 4999418 7129334 ECS88_5053 Escherichia coli S88 DNA damage-inducible protein in prophage (dinI-like) YP_002394517.1 4999170 R 585035 CDS YP_002394518.1 218561605 7129843 4999611..5001224 1 NC_011742.1 stimulates the release of release factors 1 and 2 from the ribosome after hydrolysis of the ester bond in peptidyl-tRNA has occurred; GDP/GTP-binding protein; peptide chain release factor 3 5001224 prfC 7129843 prfC Escherichia coli S88 peptide chain release factor 3 YP_002394518.1 4999611 D 585035 CDS YP_002394519.1 218561606 7130774 5001617..5002222 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1317380, 8253679, 9298646, 9600841; Product type cp : cell process; periplasmic protein 5002222 osmY 7130774 osmY Escherichia coli S88 periplasmic protein YP_002394519.1 5001617 D 585035 CDS YP_002394520.1 218561607 7133146 5002331..5002510 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 5002510 ytjA 7133146 ytjA Escherichia coli S88 hypothetical protein YP_002394520.1 5002331 D 585035 CDS YP_002394521.1 218561608 7131880 5002632..5003705 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative esterase 5003705 yjjU 7131880 yjjU Escherichia coli S88 putative esterase YP_002394521.1 5002632 D 585035 CDS YP_002394522.1 218561609 7131087 5003702..5004481 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative deoxyribonuclease YjjV 5004481 yjjV 7131087 yjjV Escherichia coli S88 putative deoxyribonuclease YjjV YP_002394522.1 5003702 D 585035 CDS YP_002394523.1 218561610 7131088 complement(5004901..5005764) 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative pyruvate formate lyase activating enzyme 5005764 yjjW 7131088 yjjW Escherichia coli S88 putative pyruvate formate lyase activating enzyme YP_002394523.1 5004901 R 585035 CDS YP_002394524.1 218561611 7131089 complement(5005736..5007286) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 5007286 yjjI 7131089 yjjI Escherichia coli S88 hypothetical protein YP_002394524.1 5005736 R 585035 CDS YP_002394525.1 218561612 7131080 5007544..5008323 1 NC_011742.1 catalyzes the formation of D-glyceraldehyde 3-phosphate and acetaldehyde from 2-deoxy-D-ribose-5-phosphate; deoxyribose-phosphate aldolase 5008323 deoC 7131080 deoC Escherichia coli S88 deoxyribose-phosphate aldolase YP_002394525.1 5007544 D 585035 CDS YP_002394526.1 218561613 7130186 5008450..5009772 1 NC_011742.1 Catalyzes the reversible phosphorolysis of thymidine, deoxyuridine and their analogues to their respective bases and 2-deoxyribose 1-phosphate; thymidine phosphorylase 5009772 deoA 7130186 deoA Escherichia coli S88 thymidine phosphorylase YP_002394526.1 5008450 D 585035 CDS YP_002394527.1 218561614 7130184 5009824..5011047 1 NC_011742.1 catalyzes the transfer of phosphate between the C1 and C5 carbons of pentose; phosphopentomutase 5011047 deoB 7130184 deoB Escherichia coli S88 phosphopentomutase YP_002394527.1 5009824 D 585035 CDS YP_002394528.1 218561615 7130185 5011104..5011823 1 NC_011742.1 catalyzes the reversible phosphorolysis of ribonucleosides and 2'- deoxyribonucleosides to the free base and (2'-deoxy)ribose-1- phosphate; purine nucleoside phosphorylase 5011823 deoD 7130185 deoD Escherichia coli S88 purine nucleoside phosphorylase YP_002394528.1 5011104 D 585035 CDS YP_002394529.1 218561616 7130187 5011990..5013321 1 NC_011742.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator; hypothetical protein 5013321 yjjJ 7130187 yjjJ Escherichia coli S88 hypothetical protein YP_002394529.1 5011990 D 585035 CDS YP_002394530.1 218561617 7131081 complement(5013322..5014338) 1 NC_011742.1 Catalyzes both the ATP-dependent activation of exogenously supplied lipoate to lipoyl-AMP and the transfer of the activated lipoyl on the lipoate-dependent enzymes. Creates an amide linkage that joins the free carboxyl group of lipoic acid to the epsilon-amino group of a specific lysine residue in lipoyl domain of apoproteins; lipoate-protein ligase A 5014338 lplA 7131081 lplA Escherichia coli S88 lipoate-protein ligase A YP_002394530.1 5013322 R 585035 CDS YP_002394531.1 218561618 7129376 complement(5014366..5015010) 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 2684780; hypothetical protein 5015010 ytjB 7129376 ytjB Escherichia coli S88 hypothetical protein YP_002394531.1 5014366 R 585035 CDS YP_002394532.1 218561619 7131881 5015116..5016084 1 NC_011742.1 catalyzes the formation of serine from O-phosphoserine; phosphoserine phosphatase 5016084 serB 7131881 serB Escherichia coli S88 phosphoserine phosphatase YP_002394532.1 5015116 D 585035 CDS YP_002394533.1 218561620 7130580 5016133..5017515 1 NC_011742.1 Sms; stabilizes the strand-invasion intermediate during the DNA repair; involved in recombination of donor DNA and plays an important role in DNA damage repair after exposure to mutagenic agents; DNA repair protein RadA 5017515 radA 7130580 radA Escherichia coli S88 DNA repair protein RadA YP_002394533.1 5016133 D 585035 CDS YP_002394534.1 218561621 7131782 5017536..5018768 1 NC_011742.1 catalyzes the formation of NAD(+) from nicotinamide ribonucleotide; nicotinamide-nucleotide adenylyltransferase 5018768 nadR 7131782 nadR Escherichia coli S88 nicotinamide-nucleotide adenylyltransferase YP_002394534.1 5017536 D 585035 CDS YP_002394535.1 218561622 7129655 5018782..5019192 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 5019192 7129655 ECS88_5072 Escherichia coli S88 hypothetical protein YP_002394535.1 5018782 D 585035 CDS YP_002394536.1 218561623 7129844 5019194..5019478 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 5019478 7129844 ECS88_5073 Escherichia coli S88 hypothetical protein YP_002394536.1 5019194 D 585035 CDS YP_002394537.1 218561624 7129845 complement(5019534..5021201) 1 NC_011742.1 ChvD; in Agrobacterium tumefaciens, mutations in both Walker boxes were found to affect virulence; putative ABC transporter ATP-binding protein 5021201 yjjK 7129845 yjjK Escherichia coli S88 putative ABC transporter ATP-binding protein YP_002394537.1 5019534 R 585035 CDS YP_002394538.1 218561625 7131082 5021408..5023345 1 NC_011742.1 catalyzes the cleavage of the glycosidic bonds between N-acetylmuramic acid and N-acetylglucosamine residues in peptidoglycan; lytic murein transglycosylase 5023345 slt 7131082 slt Escherichia coli S88 lytic murein transglycosylase YP_002394538.1 5021408 D 585035 CDS YP_002394539.1 218561626 7130606 5023435..5023761 1 NC_011742.1 When complexed with L-tryptophan it binds the operator region of the trp operon and prevents the initiation of transcription; Trp operon repressor 5023761 trpR 7130606 trpR Escherichia coli S88 Trp operon repressor YP_002394539.1 5023435 D 585035 CDS YP_002394540.1 218561627 7130349 complement(5023834..5024361) 1 NC_011742.1 pyrophosphatase; has activity against dUTP and dITP; the crystal structure of the Vibrio protein showed similarity to Methanococcus janaschii Mj0226; in Vibrio cholerae this gene is part of the Mba operon that is involved in regulation and maintenance of biofilms; in Escherichia coli overexpression of this gene leads to resistance to an HMP analog; NTPase 5024361 yjjX 7130349 yjjX Escherichia coli S88 NTPase YP_002394540.1 5023834 R 585035 CDS YP_002394541.1 218561628 7131090 5024413..5025060 1 NC_011742.1 catalyzes reactions involving the transfer of phospho groups between the three carbon atoms of phosphoglycerate; phosphoglycerate mutase 5025060 ytjC 7131090 ytjC Escherichia coli S88 phosphoglycerate mutase YP_002394541.1 5024413 D 585035 CDS YP_002394542.1 218561629 7131882 complement(5025057..5025926) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 20264525, 20309711, 93194823, 96405618, 8449900; Product type r : regulator; DNA-binding transcriptional activator 5025926 rob 7131882 rob Escherichia coli S88 DNA-binding transcriptional activator YP_002394542.1 5025057 R 585035 CDS YP_002394543.1 218561630 7132755 5026137..5026610 1 NC_011742.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 3531171, 8449900; hypothetical protein 5026610 creA 7132755 creA Escherichia coli S88 hypothetical protein YP_002394543.1 5026137 D 585035 CDS YP_002394544.1 218561631 7131960 5026623..5027312 1 NC_011742.1 response regulator in two-component regulatory system with CreC; CreB protein is phosphorylated by sensor protein phospho-CreC; involved in catabolic regulation; DNA-binding response regulator CreB 5027312 creB 7131960 creB Escherichia coli S88 DNA-binding response regulator CreB YP_002394544.1 5026623 D 585035 CDS YP_002394545.1 218561632 7131961 5027312..5028736 1 NC_011742.1 part of a two-component regulatory system with CreB or PhoB; involved in catabolic regulation; sensory histidine kinase CreC 5028736 creC 7131961 creC Escherichia coli S88 sensory histidine kinase CreC YP_002394545.1 5027312 D 585035 CDS YP_002394546.1 218561633 7131962 5028794..5030146 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 88216172, 2835585, 2984198, 3531171; Product type m : membrane component; hypothetical protein 5030146 creD 7131962 creD Escherichia coli S88 hypothetical protein YP_002394546.1 5028794 D 585035 CDS YP_002394547.1 218561634 7131963 complement(5030206..5030922) 1 NC_011742.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15028693, 21167794, 21317451, 91008980, 91358353, 92380937, 9514749, 9632255, 2984198, 7565118, 9298646; Product type r : regulator; two-component response regulator 5030922 arcA 7131963 arcA Escherichia coli S88 two-component response regulator YP_002394547.1 5030206 R 585035 CDS YP_002394548.1 218561635 7133089 5031558..5032244 1 NC_011742.1 member of the SPOUT superfamily of methyltransferases; putative RNA methyltransferase 5032244 yjtD 7133089 yjtD Escherichia coli S88 putative RNA methyltransferase YP_002394548.1 5031558 D 585035 CDS YP_002401008.1 218534478 7119360 132..872 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative site-specific recombinase 872 int 7119360 int Escherichia coli S88 putative site-specific recombinase YP_002401008.1 132 D 585035 CDS YP_002401009.1 218534479 7119428 complement(1157..2134) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8356112, 2651415, 8320218; Product type e : enzyme; RepFIB replication protein RepA 2134 repA 7119428 repA Escherichia coli S88 RepFIB replication protein RepA YP_002401009.1 1157 R 585035 CDS YP_002401010.1 218534480 7119362 complement(2543..2839) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 2839 7119362 pECS88_0003 Escherichia coli S88 hypothetical protein YP_002401010.1 2543 R 585035 CDS YP_002401011.1 218534481 7119361 complement(2808..3029) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 3029 7119361 pECS88_0004 Escherichia coli S88 hypothetical protein YP_002401011.1 2808 R 585035 CDS YP_002401013.1 218534483 7119363 3494..3883 1 NC_011747.1 Evidence 7 : Gene remnant; conserved hypothetical protein, putative fragment of ImpB UV protection protein 3883 7119363 pECS88_0006 Escherichia coli S88 conserved hypothetical protein, putative fragment of ImpB UV protection protein YP_002401013.1 3494 D 585035 CDS YP_002401014.1 218534484 7119364 complement(4063..4566) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 375010, 1849492; Product type pe : putative enzyme; transposase InsB (ORF2) IS1 4566 7119364 pECS88_0007 Escherichia coli S88 transposase InsB (ORF2) IS1 YP_002401014.1 4063 R 585035 CDS YP_002401015.1 218534485 7119365 complement(4485..4709) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 375010, 1849492; Product type pe : putative enzyme; transposase InsA (ORF1) IS1 4709 7119365 pECS88_0008 Escherichia coli S88 transposase InsA (ORF1) IS1 YP_002401015.1 4485 R 585035 CDS YP_002401016.1 218534486 7119366 complement(5285..7486) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 4313071, 6456229, 7044820, 7042696, 6749806; Product type rc : receptor; Ferric aerobactin receptor precusor IutA 7486 iutA 7119366 iutA Escherichia coli S88 Ferric aerobactin receptor precusor IutA YP_002401016.1 5285 R 585035 CDS YP_002401017.1 218534487 7119439 complement(7568..8845) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3275632, 10064136; Product type e : enzyme; L-lysine 6-monooxigenase IucD 8845 iucD 7119439 iucD Escherichia coli S88 L-lysine 6-monooxigenase IucD YP_002401017.1 7568 R 585035 CDS YP_002401018.1 218534488 7119438 complement(8842..10584) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3087960; Product type e : enzyme; Aerobactin siderophore biosynthesis protein IucC 10584 iucC 7119438 iucC Escherichia coli S88 Aerobactin siderophore biosynthesis protein IucC YP_002401018.1 8842 R 585035 CDS YP_002401019.1 218534489 7119437 complement(10584..11531) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3087960; Product type e : enzyme; N(6)-hydroxylysine acetylase IucB 11531 iucB 7119437 iucB Escherichia coli S88 N(6)-hydroxylysine acetylase IucB YP_002401019.1 10584 R 585035 CDS YP_002401020.1 218534490 7119436 complement(11532..13319) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3087960; Product type e : enzyme; Aerobactin siderophore biosynthesis protein IucA 13319 iucA 7119436 iucA Escherichia coli S88 Aerobactin siderophore biosynthesis protein IucA YP_002401020.1 11532 R 585035 CDS YP_002401021.1 218534491 7119435 13392..14585 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative membrane transport protein ShiF 14585 shiF 7119435 shiF Escherichia coli S88 putative membrane transport protein ShiF YP_002401021.1 13392 D 585035 CDS YP_002401022.1 218534492 7119445 complement(14965..15345) 1 NC_011747.1 may be involved in chromosome condensation; overexpression in Escherichia coli protects against decondensation by camphor; overexpressing the protein results in an increase in supercoiling; camphor resistance protein CrcB 15345 7119445 pECS88_0015 Escherichia coli S88 camphor resistance protein CrcB YP_002401022.1 14965 R 585035 CDS YP_002401023.1 218534493 7119367 complement(15417..15689) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 15689 7119367 pECS88_0016 Escherichia coli S88 hypothetical protein YP_002401023.1 15417 R 585035 CDS YP_002401024.1 218534494 7119368 complement(15686..16120) 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative enolase 16120 7119368 pECS88_0017 Escherichia coli S88 putative enolase YP_002401024.1 15686 R 585035 CDS YP_002401025.1 218534495 7119369 complement(16588..17445) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6514154; Product type m : membrane component; SitD protein, Iron transport protein, inner membrane component 17445 sitD 7119369 sitD Escherichia coli S88 SitD protein, Iron transport protein, inner membrane component YP_002401025.1 16588 R 585035 CDS YP_002401026.1 218534496 7119449 complement(17442..18299) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6514154; Product type m : membrane component; SitC protein, iron transport protein, inner membrane component 18299 sitC 7119449 sitC Escherichia coli S88 SitC protein, iron transport protein, inner membrane component YP_002401026.1 17442 R 585035 CDS YP_002401027.1 218534497 7119448 complement(18296..19123) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 16514154; Product type t : transporter; SitB protein, iron transport protein, ATP-binding component 19123 sitB 7119448 sitB Escherichia coli S88 SitB protein, iron transport protein, ATP-binding component YP_002401027.1 18296 R 585035 CDS YP_002401028.1 218534498 7119447 complement(19123..20037) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 16514154; Product type t : transporter; SitA protein, iron transport protein, periplasmic-binding protein 20037 sitA 7119447 sitA Escherichia coli S88 SitA protein, iron transport protein, periplasmic-binding protein YP_002401028.1 19123 R 585035 CDS YP_002401029.1 218534499 7119446 complement(20160..20351) 1 NC_011747.1 Evidence 6 : Doubtful CDS; hypothetical protein 20351 7119446 pECS88_0023 Escherichia coli S88 hypothetical protein YP_002401029.1 20160 R 585035 CDS YP_002401030.1 218534500 7119370 20393..20668 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9689094; Product type h : extrachromosomal origin; IS1 repressor protein InsA 20668 insA 7119370 insA Escherichia coli S88 IS1 repressor protein InsA YP_002401030.1 20393 D 585035 CDS YP_002401031.1 218534501 7119426 complement(21101..21775) 1 NC_011747.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 21775 7119426 pECS88_0026 Escherichia coli S88 hypothetical protein YP_002401031.1 21101 R 585035 CDS YP_002401032.1 218534502 7119371 21933..22127 1 NC_011747.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein; putative exported protein 22127 7119371 pECS88_0027 Escherichia coli S88 hypothetical protein; putative exported protein YP_002401032.1 21933 D 585035 CDS YP_002401033.1 218534503 7119372 complement(22203..22682) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 22682 7119372 pECS88_0028 Escherichia coli S88 hypothetical protein YP_002401033.1 22203 R 585035 CDS YP_002401034.1 218534504 7119373 22800..23249 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 23249 7119373 pECS88_0029 Escherichia coli S88 hypothetical protein YP_002401034.1 22800 D 585035 CDS YP_002401035.1 218534505 7119374 23866..25368 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 25368 7119374 pECS88_0030 Escherichia coli S88 hypothetical protein YP_002401035.1 23866 D 585035 CDS YP_002401036.1 218534506 7119375 25594..25785 1 NC_011747.1 Evidence 6 : Doubtful CDS; hypothetical protein 25785 7119375 pECS88_0031 Escherichia coli S88 hypothetical protein YP_002401036.1 25594 D 585035 CDS YP_002401037.1 218534507 7119376 27444..27668 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 375010, 1849492; Product type pe : putative enzyme; transposase InsA (ORF1) IS1 27668 7119376 pECS88_0035 Escherichia coli S88 transposase InsA (ORF1) IS1 YP_002401037.1 27444 D 585035 CDS YP_002401038.1 218534508 7119377 27587..28090 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9689094; Product type h : extrachromosomal origin; transposase 28090 insB 7119377 insB Escherichia coli S88 transposase YP_002401038.1 27587 D 585035 CDS YP_002401039.1 218534509 7119427 28381..29556 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3029390, 2670941, 10564491; Product type h : extrachromosomal origin; plasmid-partitioning protein SopA 29556 sopA 7119427 sopA Escherichia coli S88 plasmid-partitioning protein SopA YP_002401039.1 28381 D 585035 CDS YP_002401040.1 218534510 7119450 29556..30527 1 NC_011747.1 SopB; plasmid-partitioning protein 30527 sopB 7119450 sopB Escherichia coli S88 plasmid-partitioning protein YP_002401040.1 29556 D 585035 CDS YP_002401041.1 218534511 7119451 complement(31055..31216) 1 NC_011747.1 Evidence 6 : Doubtful CDS; hypothetical protein 31216 7119451 pECS88_0039 Escherichia coli S88 hypothetical protein YP_002401041.1 31055 R 585035 CDS YP_002401042.1 218534512 7119378 31244..31591 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 31591 7119378 pECS88_0040 Escherichia coli S88 hypothetical protein YP_002401042.1 31244 D 585035 CDS YP_002401043.1 218534513 7119379 31654..32235 1 NC_011747.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 32235 7119379 pECS88_0041 Escherichia coli S88 hypothetical protein YP_002401043.1 31654 D 585035 CDS YP_002401044.1 218534514 7119380 complement(32721..33692) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, putative transposase IS110 family 33692 7119380 pECS88_0042 Escherichia coli S88 conserved hypothetical protein, putative transposase IS110 family YP_002401044.1 32721 R 585035 CDS YP_002401045.1 218534515 7119381 complement(33844..34014) 1 NC_011747.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 34014 7119381 pECS88_0043 Escherichia coli S88 hypothetical protein YP_002401045.1 33844 R 585035 CDS YP_002401046.1 218534516 7119382 34073..34519 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative antirestriction protein 34519 yubI 7119382 yubI Escherichia coli S88 putative antirestriction protein YP_002401046.1 34073 D 585035 CDS YP_002401047.1 218534517 7119500 34609..34980 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 34980 7119500 pECS88_0045 Escherichia coli S88 hypothetical protein YP_002401047.1 34609 D 585035 CDS YP_002401048.1 218534518 7119383 34980..35162 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 35162 7119383 pECS88_0046 Escherichia coli S88 hypothetical protein YP_002401048.1 34980 D 585035 CDS YP_002401049.1 218534519 7119384 36438..37799 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 37799 ydbA 7119384 ydbA Escherichia coli S88 hypothetical protein YP_002401049.1 36438 D 585035 CDS YP_002401050.1 218534520 7119492 37847..38410 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative adenine-specific DNA methylase 38410 ydcA 7119492 ydcA Escherichia coli S88 putative adenine-specific DNA methylase YP_002401050.1 37847 D 585035 CDS YP_002401051.1 218534521 7119493 39216..39848 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; Product type cp : cell process; single-stranded DNA-binding protein 39848 ssb 7119493 ssb Escherichia coli S88 single-stranded DNA-binding protein YP_002401051.1 39216 D 585035 CDS YP_002401052.1 218534522 7119452 39784..40044 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 40044 yubL 7119452 yubL Escherichia coli S88 hypothetical protein YP_002401052.1 39784 D 585035 CDS YP_002401053.1 218534523 7119501 40381..41922 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative transposase ORF1, IS21 family 41922 7119501 pECS88_0052 Escherichia coli S88 putative transposase ORF1, IS21 family YP_002401053.1 40381 D 585035 CDS YP_002401054.1 218534524 7119385 41934..42683 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative transposase ORF2, IS21 family 42683 7119385 pECS88_0053 Escherichia coli S88 Putative transposase ORF2, IS21 family YP_002401054.1 41934 D 585035 CDS YP_002401055.1 218534525 7119386 42799..44652 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin; putative DNA-binding protein involved in plasmid partitioning (ParB-like partition protein) 44652 ycjA 7119386 ycjA Escherichia coli S88 putative DNA-binding protein involved in plasmid partitioning (ParB-like partition protein) YP_002401055.1 42799 D 585035 CDS YP_002401056.1 218534526 7119491 44704..45141 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9987116, 10537187; Product type h : extrachromosomal origin; plasmid SOS inhibition protein B 45141 psiB 7119491 psiB Escherichia coli S88 plasmid SOS inhibition protein B YP_002401056.1 44704 D 585035 CDS YP_002401057.1 218534527 7119442 45138..45857 1 NC_011747.1 PsiA; plasmid SOS inhibition protein A 45857 psiA 7119442 psiA Escherichia coli S88 plasmid SOS inhibition protein A YP_002401057.1 45138 D 585035 CDS YP_002401058.1 218534528 7119421 45991..46290 1 NC_011747.1 Mok; similar to F leading maintenance protein C; modulator of post-segregation killing protein 46290 flmC 7119421 flmC Escherichia coli S88 modulator of post-segregation killing protein YP_002401058.1 45991 D 585035 CDS YP_002401059.1 218534529 7119422 complement(46532..46849) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein YubN 46849 yubN 7119422 yubN Escherichia coli S88 conserved hypothetical protein YubN YP_002401059.1 46532 R 585035 CDS YP_002401060.1 218534530 7119502 47193..47480 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 47480 yubO 7119502 yubO Escherichia coli S88 hypothetical protein YP_002401060.1 47193 D 585035 CDS YP_002401061.1 218534531 7119503 47518..48420 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 48420 yubP 7119503 yubP Escherichia coli S88 hypothetical protein YP_002401061.1 47518 D 585035 CDS YP_002401062.1 218534532 7119504 complement(48716..49225) 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; lytic transglycosylase 49225 yubQ 7119504 yubQ Escherichia coli S88 lytic transglycosylase YP_002401062.1 48716 R 585035 CDS YP_002401063.1 218534533 7119505 49640..50023 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15995191; Product type f : factor; conjugal transfer protein TraM 50023 traM 7119505 traM Escherichia coli S88 conjugal transfer protein TraM YP_002401063.1 49640 D 585035 CDS YP_002401064.1 218534534 7119465 50129..50899 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15388431; Product type r : regulator; conjugal transfer transcriptional regulator TraJ 50899 traJ 7119465 traJ Escherichia coli S88 conjugal transfer transcriptional regulator TraJ YP_002401064.1 50129 D 585035 CDS YP_002401065.1 218534535 7119420 50992..51393 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 7915817, 6368316, 8807284; Product type e : enzyme; conjugal transfer protein TraY 51393 traY 7119420 traY Escherichia coli S88 conjugal transfer protein TraY YP_002401065.1 50992 D 585035 CDS YP_002401066.1 218534536 7119476 51426..51791 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6090426, 7915817, 2999074; Product type s : structure; conjugal transfer pilin subunit TraA 51791 traA 7119476 traA Escherichia coli S88 conjugal transfer pilin subunit TraA YP_002401066.1 51426 D 585035 CDS YP_002401067.1 218534537 7119453 51806..52117 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6090426, 7915817, 2564189, 8655498; Product type m : membrane component; conjugal transfer pilus assembly protein TraL 52117 traL 7119453 traL Escherichia coli S88 conjugal transfer pilus assembly protein TraL YP_002401067.1 51806 D 585035 CDS YP_002401068.1 218534538 7119464 52139..52705 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6090426, 7915817; Product type m : membrane component; conjugal transfer pilus assembly protein TraE 52705 traE 7119464 traE Escherichia coli S88 conjugal transfer pilus assembly protein TraE YP_002401068.1 52139 D 585035 CDS YP_002401069.1 218534539 7119457 52692..53420 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8655498; Product type s : structure; conjugal transfer protein TraK 53420 traK 7119457 traK Escherichia coli S88 conjugal transfer protein TraK YP_002401069.1 52692 D 585035 CDS YP_002401070.1 218534540 7119463 53420..54847 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 7915817, 8655498; Product type s : structure; conjugal transfer pilus assembly protein TraB 54847 traB 7119463 traB Escherichia coli S88 conjugal transfer pilus assembly protein TraB YP_002401070.1 53420 D 585035 CDS YP_002401071.1 218534541 7119454 54837..55427 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component; conjugal transfer protein TraP 55427 traP 7119454 traP Escherichia coli S88 conjugal transfer protein TraP YP_002401071.1 54837 D 585035 CDS YP_002401072.1 218534542 7119467 55381..55611 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conjugal transfer protein TrbD 55611 trbD 7119467 trbD Escherichia coli S88 conjugal transfer protein TrbD YP_002401072.1 55381 D 585035 CDS YP_002401073.1 218534543 7119479 55623..55874 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conjugal transfer protein TrbG 55874 trbG 7119479 trbG Escherichia coli S88 conjugal transfer protein TrbG YP_002401073.1 55623 D 585035 CDS YP_002401074.1 218534544 7119481 55871..56386 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8021201, 7915817; Product type lp : lipoprotein; conjugal transfer protein TraV 56386 traV 7119481 traV Escherichia coli S88 conjugal transfer protein TraV YP_002401074.1 55871 D 585035 CDS YP_002401075.1 218534545 7119473 56521..56742 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 8021201; Product type pf : putative factor; conjugal transfer protein TraR 56742 traR 7119473 traR Escherichia coli S88 conjugal transfer protein TraR YP_002401075.1 56521 D 585035 CDS YP_002401076.1 218534546 7119469 56902..59529 1 NC_011747.1 similar to VirB4; conjugal transfer ATP-binding protein TraC 59529 traC 7119469 traC Escherichia coli S88 conjugal transfer ATP-binding protein TraC YP_002401076.1 56902 D 585035 CDS YP_002401077.1 218534547 7119455 59526..59912 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15292150; Product type m : membrane component; conjugal transfer protein TrbI 59912 trbI 7119455 trbI Escherichia coli S88 conjugal transfer protein TrbI YP_002401077.1 59526 D 585035 CDS YP_002401078.1 218534548 7119482 59909..60541 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15292150, 1355084, 7915817, 2198250; Product type s : structure; conjugal transfer pilus assembly protein TraW 60541 traW 7119482 traW Escherichia coli S88 conjugal transfer pilus assembly protein TraW YP_002401078.1 59909 D 585035 CDS YP_002401079.1 218534549 7119474 60538..61530 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2198250, 7915817, 2050638, 1355084; Product type s : structure; conjugal transfer pilus assembly protein TraU 61530 traU 7119474 traU Escherichia coli S88 conjugal transfer pilus assembly protein TraU YP_002401079.1 60538 D 585035 CDS YP_002401080.1 218534550 7119472 61536..62177 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2050638, 7915817, 2198250, 1593622; Product type s : structure; conjugal transfer pilus assembly protein TrbC 62177 trbC 7119472 trbC Escherichia coli S88 conjugal transfer pilus assembly protein TrbC YP_002401080.1 61536 D 585035 CDS YP_002401081.1 218534551 7119478 62174..63982 1 NC_011747.1 TraN; TrhN; involved in stabilizing mating pairs during plasmid conjugation; F plasmid TraN appears to recognize OmpA in the recipient cell; conjugal transfer mating pair stabilization protein TraN 63982 traN 7119478 traN Escherichia coli S88 conjugal transfer mating pair stabilization protein TraN YP_002401081.1 62174 D 585035 CDS YP_002401082.1 218534552 7119466 64006..64266 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 12533481, 1593622, 7915817; Product type m : membrane component; conjugal transfer protein TrbE 64266 trbE 7119466 trbE Escherichia coli S88 conjugal transfer protein TrbE YP_002401082.1 64006 D 585035 CDS YP_002401083.1 218534553 7119480 64229..65002 1 NC_011747.1 type IV secretion system pilus assembly protein; similar to F plasmid TraF; conjugal pilus assembly protein TraF 65002 traF 7119480 traF Escherichia coli S88 conjugal pilus assembly protein TraF YP_002401083.1 64229 D 585035 CDS YP_002401084.1 218534554 7119458 65484..65768 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2536655, 7915817; Product type m : membrane component; conjugal transfer pilin chaperone TraQ 65768 traQ 7119458 traQ Escherichia coli S88 conjugal transfer pilin chaperone TraQ YP_002401084.1 65484 D 585035 CDS YP_002401085.1 218534555 7119468 65755..66300 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; PubMedId : 16321931, 2536655, 7915817; Product type pe : putative enzyme; conjugal transfer protein TrbB 66300 trbB 7119468 trbB Escherichia coli S88 conjugal transfer protein TrbB YP_002401085.1 65755 D 585035 CDS YP_002401086.1 218534556 7119477 66230..66592 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 8444814, 7899511, 10438776; Product type m : membrane component; conjugal transfer protein TrbJ 66592 trbJ 7119477 trbJ Escherichia coli S88 conjugal transfer protein TrbJ YP_002401086.1 66230 D 585035 CDS YP_002401087.1 218534557 7119483 66589..67965 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1348105, 7915817, 2656408; Product type s : structure; conjugal transfer pilus assembly protein TraH 67965 traH 7119483 traH Escherichia coli S88 conjugal transfer pilus assembly protein TraH YP_002401087.1 66589 D 585035 CDS YP_002401088.1 218534558 7119460 67962..70472 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1348105, 7915817; Product type m : membrane component; conjugal transfer mating pair stabilization protein TraG 70472 traG 7119460 traG Escherichia coli S88 conjugal transfer mating pair stabilization protein TraG YP_002401088.1 67962 D 585035 CDS YP_002401089.1 218534559 7119459 70791..71306 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3323526; Product type m : membrane component; surface exclusion inner membrane protein TraS 71306 traS 7119459 traS Escherichia coli S88 surface exclusion inner membrane protein TraS YP_002401089.1 70791 D 585035 CDS YP_002401090.1 218534560 7119470 71239..72069 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 1359384, 3323526, 7915817, 2087219, 6995306, 9696748, 1730875, 6238226; Product type m : membrane component; conjugal transfer surface exclusion protein TraT 72069 traT 7119470 traT Escherichia coli S88 conjugal transfer surface exclusion protein TraT YP_002401090.1 71239 D 585035 CDS YP_002401091.1 218534561 7119471 72321..74474 1 NC_011747.1 type IV secretion system coupling protein; similar to F plasmid TraD; conjugal transfer protein TraD 74474 traD 7119471 traD Escherichia coli S88 conjugal transfer protein TraD YP_002401091.1 72321 D 585035 CDS YP_002401092.1 218534562 7119456 74474..79744 1 NC_011747.1 cleaves origin of transfer and unwinds; oriT relaxase; conjugal transfer nickase/helicase TraI 79744 traI 7119456 traI Escherichia coli S88 conjugal transfer nickase/helicase TraI YP_002401092.1 74474 D 585035 CDS YP_002401093.1 218534563 7119461 79764..80510 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 8444800, 7768788, 1916281, 7915817, 2164585; Product type e : enzyme; conjugal transfer pilus acetylation protein TraX 80510 traX 7119461 traX Escherichia coli S88 conjugal transfer pilus acetylation protein TraX YP_002401093.1 79764 D 585035 CDS YP_002401094.1 218534564 7119475 80514..81125 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2164585, 1916281, 7915817, 8807284, 1374147, 10876242, 3027040, 2951652; Product type r : regulator; conjugal transfer fertility inhibition protein FinO 81125 finO 7119475 finO Escherichia coli S88 conjugal transfer fertility inhibition protein FinO YP_002401094.1 80514 D 585035 CDS YP_002401095.1 218534565 7119419 81263..81475 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 81475 yigA 7119419 yigA Escherichia coli S88 hypothetical protein YP_002401095.1 81263 D 585035 CDS YP_002401096.1 218534566 7119496 81658..82119 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative nuclease YigB 82119 yigB 7119496 yigB Escherichia coli S88 putative nuclease YigB YP_002401096.1 81658 D 585035 CDS YP_002401097.1 218534567 7119497 82164..82424 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 6261081, 7003300, 3019092, 7029525, 2445727, 2580099, 1865183; Product type r : regulator; replication protein 82424 repA2 7119497 repA2 Escherichia coli S88 replication protein YP_002401097.1 82164 D 585035 CDS YP_002401098.1 218534568 7119411 82705..83574 1 NC_011747.1 RepA; replication protein 83574 repA1 7119411 repA1 Escherichia coli S88 replication protein YP_002401098.1 82705 D 585035 CDS YP_002401099.1 218534569 7119443 84490..84759 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein YacA, possible repressor 84759 yacA 7119443 yacA Escherichia coli S88 conserved hypothetical protein YacA, possible repressor YP_002401099.1 84490 D 585035 CDS YP_002401100.1 218534570 7119484 84756..85037 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative plasmid stabilisation system protein YacB 85037 yacB 7119484 yacB Escherichia coli S88 putative plasmid stabilisation system protein YacB YP_002401100.1 84756 D 585035 CDS YP_002401101.1 218534571 7119486 85083..85931 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; putative exoribonuclease YacC 85931 yacC 7119486 yacC Escherichia coli S88 putative exoribonuclease YacC YP_002401101.1 85083 D 585035 CDS YP_002401102.1 218534572 7119488 86117..87997 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 7972047, 9009197; Product type m : membrane component; Colicin-Ia 87997 cia 7119488 cia Escherichia coli S88 Colicin-Ia YP_002401102.1 86117 D 585035 CDS YP_002401103.1 218534573 7119410 complement(88019..88354) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 3531169, 7972047; Product type m : membrane component; Colicin-Ia immunity protein 88354 imm 7119410 imm Escherichia coli S88 Colicin-Ia immunity protein YP_002401103.1 88019 R 585035 CDS YP_002401104.1 218534574 7119424 88483..88740 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein YbaA 88740 ybaA 7119424 ybaA Escherichia coli S88 conserved hypothetical protein YbaA YP_002401104.1 88483 D 585035 CDS YP_002401105.1 218534575 7119489 complement(88760..89350) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein YdeA 89350 ydeA 7119489 ydeA Escherichia coli S88 conserved hypothetical protein YdeA YP_002401105.1 88760 R 585035 CDS YP_002401106.1 218534576 7119494 complement(89347..89607) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein YdfA 89607 ydfA 7119494 ydfA Escherichia coli S88 conserved hypothetical protein YdfA YP_002401106.1 89347 R 585035 CDS YP_002401107.1 218534577 7119495 89900..90352 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme; Putative acetyltransferase 90352 7119495 pECS88_0110 Escherichia coli S88 Putative acetyltransferase YP_002401107.1 89900 D 585035 CDS YP_002401108.1 218534578 7119387 complement(90408..90674) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein, predicted dehydrogenase 90674 7119387 pECS88_0111 Escherichia coli S88 conserved hypothetical protein, predicted dehydrogenase YP_002401108.1 90408 R 585035 CDS YP_002401109.1 218534579 7119388 complement(90942..91346) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; putative dehydrogenase 91346 7119388 pECS88_0112 Escherichia coli S88 putative dehydrogenase YP_002401109.1 90942 R 585035 CDS YP_002401110.1 218534580 7119389 complement(91318..91761) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; putative dehydrogenase 91761 7119389 pECS88_0113 Escherichia coli S88 putative dehydrogenase YP_002401110.1 91318 R 585035 CDS YP_002401111.1 218534581 7119390 91880..92116 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 3034857; Product type m : membrane component; colicin V immunity protein 92116 cvi 7119390 cvi Escherichia coli S88 colicin V immunity protein YP_002401111.1 91880 D 585035 CDS YP_002401112.1 218534582 7119415 92094..92405 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2249654, 9743528, 7952189, 8204625; Product type f : factor; Colicin V precursor (Microcin V bacteriocin) 92405 cvaC 7119415 cvaC Escherichia coli S88 Colicin V precursor (Microcin V bacteriocin) YP_002401112.1 92094 D 585035 CDS YP_002401113.1 218534583 7119414 complement(92575..94671) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 2249654, 9743528; Product type t : transporter; Colicin V secretion/processing ATP-binding protein CvaB 94671 cvaB 7119414 cvaB Escherichia coli S88 Colicin V secretion/processing ATP-binding protein CvaB YP_002401113.1 92575 R 585035 CDS YP_002401114.1 218534584 7119413 complement(94664..95938) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 2249654, 7592380; Product type t : transporter; Colicin V secretion protein CvaA 95938 cvaA 7119413 cvaA Escherichia coli S88 Colicin V secretion protein CvaA YP_002401114.1 94664 R 585035 CDS YP_002401115.1 218534585 7119412 complement(96346..96555) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 96555 7119412 pECS88_0118 Escherichia coli S88 hypothetical protein YP_002401115.1 96346 R 585035 CDS YP_002401116.1 218534586 7119391 96549..96818 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein YacA, possible repressor 96818 yacA 7119391 yacA Escherichia coli S88 conserved hypothetical protein YacA, possible repressor YP_002401116.1 96549 D 585035 CDS YP_002401117.1 218534587 7119490 97964..98998 1 NC_011747.1 catalyzes the formation of 3-deoxy-D-arabino-hept-2-ulosonate 7 phosphate from phosphoenolpyruvate and D-erythrose 4-phosphate, phenylalanine sensitive; phospho-2-dehydro-3-deoxyheptonate aldolase 98998 7119490 pECS88_0123 Escherichia coli S88 phospho-2-dehydro-3-deoxyheptonate aldolase YP_002401117.1 97964 D 585035 CDS YP_002401118.1 218534588 7119392 99851..102013 1 NC_011747.1 Fep; Cbt; Cbr; FeuB; FepA; PfeA; IroN; BfeA; outer membrane receptor of ferric enterobactin and colicins B and D; interacts with the TonB-ExbBD complex which catalyzes the translocation of the siderophore to the periplasmic space; outer membrane receptor FepA 102013 iroN 7119392 iroN Escherichia coli S88 outer membrane receptor FepA YP_002401118.1 99851 D 585035 CDS YP_002401119.1 218534589 7119433 complement(102058..103014) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12655053, 12761110; Product type e : enzyme; IroE, putative hydrolase 103014 iroE 7119433 iroE Escherichia coli S88 IroE, putative hydrolase YP_002401119.1 102058 R 585035 CDS YP_002401120.1 218534590 7119432 complement(103099..104328) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12655053, 12761110; Product type e : enzyme; IroD, putative ferric enterochelin esterase 104328 iroD 7119432 iroD Escherichia coli S88 IroD, putative ferric enterochelin esterase YP_002401120.1 103099 R 585035 CDS YP_002401121.1 218534591 7119431 complement(104432..108091) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 12655053, 12761110; Product type t : transporter; IroC, ATP binding cassette (ABC) transporter homolog 108091 iroC 7119431 iroC Escherichia coli S88 IroC, ATP binding cassette (ABC) transporter homolog YP_002401121.1 104432 R 585035 CDS YP_002401122.1 218534592 7119430 complement(108231..109346) 1 NC_011747.1 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 12655053, 12761110; Product type e : enzyme; IroB, putative glucosyltransferase 109346 iroB 7119430 iroB Escherichia coli S88 IroB, putative glucosyltransferase YP_002401122.1 108231 R 585035 CDS YP_002401123.1 218534593 7119429 complement(110582..111217) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 111217 7119429 pECS88_0130 Escherichia coli S88 hypothetical protein YP_002401123.1 110582 R 585035 CDS YP_002401124.1 218534594 7119393 complement(111327..111632) 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 111632 7119393 pECS88_0131 Escherichia coli S88 hypothetical protein YP_002401124.1 111327 R 585035 CDS YP_002401125.1 218534595 7119394 112196..112378 1 NC_011747.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 112378 7119394 pECS88_0132 Escherichia coli S88 hypothetical protein YP_002401125.1 112196 D 585035 CDS YP_002401126.1 218534596 7119395 complement(112492..112785) 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 10737659, 2144037, 7868598; Product type lp : lipoprotein; Iss (Increased serum survival) 112785 iss 7119395 iss Escherichia coli S88 Iss (Increased serum survival) YP_002401126.1 112492 R 585035 CDS YP_002401127.1 218534597 7119434 113412..113777 1 NC_011747.1 IS2 OrfA; forms an overlapping reading frame with orfB; may form a fusion protein OrfAB due to ribosomal frameshifting; both OrfA and OrfAB bind terminal inverted repeats; insertion sequence 2 OrfA protein 113777 yqiG 7119434 yqiG Escherichia coli S88 insertion sequence 2 OrfA protein YP_002401127.1 113412 D 585035 CDS YP_002401128.1 218534598 7119498 113735..114640 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF 2, IS2 114640 yqiG 7119498 yqiG Escherichia coli S88 transposase ORF 2, IS2 YP_002401128.1 113735 D 585035 CDS YP_002401129.1 218534599 7119499 115306..115449 1 NC_011747.1 Evidence 6 : Doubtful CDS; hypothetical protein 115449 7119499 pECS88_0136 Escherichia coli S88 hypothetical protein YP_002401129.1 115306 D 585035 CDS YP_002401130.1 218534600 7119396 115864..117057 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; conserved hypothetical protein; putative GTPase 117057 7119396 pECS88_0137 Escherichia coli S88 conserved hypothetical protein; putative GTPase YP_002401130.1 115864 D 585035 CDS YP_002401131.1 218534601 7119397 117190..117507 1 NC_011747.1 Evidence 7 : Gene remnant; Product type pe : putative enzyme; putative transposase ORF B (fragment), IS2 117507 7119397 pECS88_0138 Escherichia coli S88 putative transposase ORF B (fragment), IS2 YP_002401131.1 117190 D 585035 CDS YP_002401132.1 218534602 7119398 117694..118560 1 NC_011747.1 Evidence 7 : Gene remnant; Product type pe : putative enzyme; putative transposase (fragment) 118560 7119398 pECS88_0139 Escherichia coli S88 putative transposase (fragment) YP_002401132.1 117694 D 585035 CDS YP_002401133.1 218534603 7119401 119120..119308 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 119308 7119401 pECS88_0142 Escherichia coli S88 hypothetical protein YP_002401133.1 119120 D 585035 CDS YP_002401134.1 218534604 7119402 119318..120259 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; hypothetical protein 120259 7119402 pECS88_0143 Escherichia coli S88 hypothetical protein YP_002401134.1 119318 D 585035 CDS YP_002401135.1 218534605 7119403 complement(121056..122426) 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative type I secretion outer membrane protein EtsC 122426 etsC 7119403 etsC Escherichia coli S88 putative type I secretion outer membrane protein EtsC YP_002401135.1 121056 R 585035 CDS YP_002401136.1 218534606 7119418 complement(122430..124370) 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; putative type I secretion ATP binding protein EtsB 124370 etsB 7119418 etsB Escherichia coli S88 putative type I secretion ATP binding protein EtsB YP_002401136.1 122430 R 585035 CDS YP_002401137.1 218534607 7119417 complement(124367..125575) 1 NC_011747.1 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter; Putative type I secretion membrane-fusion protein EtsA 125575 etsA 7119417 etsA Escherichia coli S88 Putative type I secretion membrane-fusion protein EtsA YP_002401137.1 124367 R 585035 CDS YP_002401138.1 218534608 7119405 complement(127008..127898) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; PubMedId : 2832386; Product type pe : putative enzyme; transposase ORF B, IS3 family, IS51 group 127898 7119405 pECS88_0151 Escherichia coli S88 transposase ORF B, IS3 family, IS51 group YP_002401138.1 127008 R 585035 CDS YP_002401139.1 218534609 7119406 complement(127895..128221) 1 NC_011747.1 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme; transposase ORF A, IS3 family, IS51 group 128221 7119406 pECS88_0152 Escherichia coli S88 transposase ORF A, IS3 family, IS51 group YP_002401139.1 127895 R 585035 CDS YP_002401140.1 218534610 7119408 complement(129343..129732) 1 NC_011747.1 Evidence 5 : No homology to any previously reported sequences; hypothetical protein 129732 7119408 pECS88_0154 Escherichia coli S88 hypothetical protein YP_002401140.1 129343 R 585035 CDS YP_002401141.1 218534611 7119409 129836..130789 1 NC_011747.1 outer membrane protease; involved in virulence in many organisms; OmpT; IcsP; SopA; Pla; PgtE; omptin; in Escherichia coli OmpT can degrade antimicrobial peptides; in Yersinia Pla activates plasminogen during infection; in Shigella flexneria SopA cleaves the autotransporter IcsA; outer membrane protease 130789 ompT 7119409 ompT Escherichia coli S88 outer membrane protease YP_002401141.1 129836 D 585035 CDS YP_002401142.1 218534612 7119440 131222..132331 1 NC_011747.1 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 15992275; Product type e : enzyme; hemolysin HlyF 132331 hlyF 7119440 hlyF Escherichia coli S88 hemolysin HlyF YP_002401142.1 131222 D 585035 CDS YP_002401143.1 218534613 7119423 132394..133302 1 NC_011747.1 Evidence 4 : Homologs of previously reported genes of unknown function; PubMedId : 15992275; conserved hypothetical protein; putative Mig-14 protein 133302 7119423 pECS88_0157 Escherichia coli S88 conserved hypothetical protein; putative Mig-14 protein YP_002401143.1 132394 D 585035 CDS