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Microbe : Escherichia coli

Microbe Description

NBRC No. 13500
Scientific name Escherichia coli
Synonymous name Not assigned
History IFO 13500 <- ATCC 9637 <- S.A. Waksman, W
Other culture collection No. ATCC 9637=NCIB 8666
Other No.
Reference
21208457
The genome sequence of E. coli W (ATCC 9637): comparative genome analysis and an improved genome-scale reconstruction of E. coli. (BMC Genomics. 2011)

Functional Potential >>Details

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TypePattern Component Gene CDS
Acid resistance (by GABA antiporter)(NFUNC_0071)
RequireA
GAD
(NRULE_0231)
Glutamate decarboxylaseWFL_18460 WFL_07935
GADC
(NRULE_0234)
Glutamate/gamma-aminobutyrate antiporterWFL_07930
Alanine racemization(NFUNC_0063)
RequireA
ALR
(NRULE_0228)
Alanine racemaseWFL_21485 WFL_06245
Anthranilate biosynthesis(NFUNC_0038)
RequireA
GLAT
(NRULE_0142)
Glutamine amidotransferaseWFL_06605 WFL_17660
TRPE
(NRULE_0143)
Anthranilate synthase component IWFL_06610
Aromatic azo compounds degradation(NFUNC_0073)
RequireA
AZOR
(NRULE_0236)
FMN-dependent NADH-azoreductaseWFL_07530
Arsenical resistance(NFUNC_0004)
RequireA
ARSB1
(NRULE_0015)
Arsenical pump membrane proteinWFL_18375
ARSC1
(NRULE_0017)
Arsenate reductaseWFL_13315 WFL_18380
Bacitracin resistance(NFUNC_0022)
RequireA
UPPP
(NRULE_0097)
Undecaprenyl-diphosphataseWFL_16240
Beta-lactam antibiotic resistance(NFUNC_0033)
RequireC
BLAC
(NRULE_0124)
Beta-lactamase class CWFL_21965
Betaine biosynthesis (from choline)(NFUNC_0049)
RequireA
BETA
(NRULE_0175)
Choline dehydrogenaseWFL_01890
Biotin biosynthesis(NFUNC_0051)
RequireA
BIOF
(NRULE_0182)
8-amino-7-oxononanoate synthaseWFL_04030
BIOA
(NRULE_0183)
Adenosylmethionine-8-amino-7-oxononanoate aminotransferaseWFL_04020
BIOD
(NRULE_0184)
ATP-dependent dethiobiotin synthetase BioDWFL_04040 WFL_08610
BIOB
(NRULE_0185)
Biotin synthaseWFL_04025
Cephalosporin resistance(NFUNC_0048)
RequireA
BLAC
(NRULE_0124)
Beta-lactamase class CWFL_21965
Dihydroxy aromatic compounds degradation (via meta-cleavage pathway)(NFUNC_0011)
RequireA
EDIO
(NRULE_0058)
extradiol dioxygenaseWFL_02095 WFL_16155 WFL_22950
METAH
(NRULE_0059)
meta-cleavage compound hydrolaseWFL_02100
HPDH
(NRULE_0063)
2-hydroxypent-2,4-dienoate hydrataseWFL_02105
HOA
(NRULE_0064)
4-hydroxy-2-oxovalerate aldolaseWFL_02115
ACDH
(NRULE_0065)
Acetaldehyde dehydrogenaseWFL_02110
Folate biosynthesis(NFUNC_0044)
RequireA
GLAT
(NRULE_0142)
Glutamine amidotransferaseWFL_06605 WFL_17660
DHPS
(NRULE_0144)
Dihydropteroate synthaseWFL_16870
FOLM
(NRULE_0146)
Dihydrofolate reductase FolMWFL_08675
FOLB
(NRULE_0158)
Dihydroneopterin aldolaseWFL_12200 WFL_16245
FOLK
(NRULE_0159)
2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinaseWFL_00685
FOLC
(NRULE_0160)
Bifunctional protein FolCWFL_12260
PABB
(NRULE_0161)
Para-aminobenzoate synthase component IWFL_09735
PABC
(NRULE_0162)
Aminodeoxychorismate lyaseWFL_05880
B
GLAT
(NRULE_0142)
Glutamine amidotransferaseWFL_06605 WFL_17660
DHPS
(NRULE_0144)
Dihydropteroate synthaseWFL_16870
FOLA
(NRULE_0147)
Dihydrofolate reductaseWFL_00240
FOLB
(NRULE_0158)
Dihydroneopterin aldolaseWFL_16245 WFL_12200
FOLK
(NRULE_0159)
2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinaseWFL_00685
FOLC
(NRULE_0160)
Bifunctional protein FolCWFL_12260
PABB
(NRULE_0161)
Para-aminobenzoate synthase component IWFL_09735
PABC
(NRULE_0162)
Aminodeoxychorismate lyaseWFL_05880
GABA biosynthesis(NFUNC_0066)
RequireA
GAD
(NRULE_0231)
Glutamate decarboxylaseWFL_07935 WFL_18460
4-hydroxyphenylacetate degradation(NFUNC_0068)
RequireA
HPAB1
(NRULE_0085)
4-hydroxyphenylacetate 3-monooxygenase oxygenase componentWFL_22920
HPAC
(NRULE_0102)
4-hydroxyphenylacetate 3-monooxygenase reductase componentWFL_22915
HPAD1
(NRULE_0193)
Homoprotocatechuate 2,3-dioxygenaseWFL_22950
HPAE
(NRULE_0195)
5-carboxymethyl-2-hydroxymuconic-semialdehyde dehydrogenaseWFL_22955
HPAF
(NRULE_0196)
5-carboxymethyl-2-hydroxymuconate Delta-isomeraseWFL_22945
HPAG
(NRULE_0197)
5-oxopent-3-ene-1,2,5-tricarboxylate decarboxylase/2-hydroxyhepta-2,4-diene-1,7-dioate Delta-isomeraseWFL_22960
HPAH
(NRULE_0198)
2-oxo-hepta-3-ene-1,7-dioate hydrataseWFL_22940
HPAI
(NRULE_0199)
2,4-dihydroxyhept-2-ene-1,7-dioate aldolaseWFL_22935
C
HPAB1
(NRULE_0085)
4-hydroxyphenylacetate 3-monooxygenase oxygenase componentWFL_22920
FADR1
(NRULE_0101)
NADH-dependent flavin reductaseWFL_07780 WFL_05450 WFL_22915
HPAD1
(NRULE_0193)
Homoprotocatechuate 2,3-dioxygenaseWFL_22950
HPAE
(NRULE_0195)
5-carboxymethyl-2-hydroxymuconic-semialdehyde dehydrogenaseWFL_22955
HPAF
(NRULE_0196)
5-carboxymethyl-2-hydroxymuconate Delta-isomeraseWFL_22945
HPAG
(NRULE_0197)
5-oxopent-3-ene-1,2,5-tricarboxylate decarboxylase/2-hydroxyhepta-2,4-diene-1,7-dioate Delta-isomeraseWFL_22960
HPAH
(NRULE_0198)
2-oxo-hepta-3-ene-1,7-dioate hydrataseWFL_22940
HPAI
(NRULE_0199)
2,4-dihydroxyhept-2-ene-1,7-dioate aldolaseWFL_22935
Macrolide antibiotic resistance(NFUNC_0045)
RequireB
RLMA
(NRULE_0165)
23S rRNA (guanine-N(1))-methyltransferaseWFL_09785
C
MACA
(NRULE_0166)
Macrolide-specific efflux protein MacAWFL_04805
MACB
(NRULE_0167)
Macrolide export ATP-binding/permease protein MacBWFL_04810
Metal-binding protein(NFUNC_0105)
RequireA
MOP
(NRULE_0322)
Putative molybdenum-binding proteinWFL_03975 WFL_03955 WFL_06895
B
MODE
(NRULE_0323)
Putative molybdate-dependent transcriptional regulatorWFL_03955
C
MODA
(NRULE_0324)
Molybdate ABC transporter substrate-binding proteinWFL_03965 WFL_21385 WFL_12990 WFL_20815
E
CUER
(NRULE_0328)
Copper-responsive transcriptional regulator CueRWFL_02775
F
SOXR
(NRULE_0329)
Redox-sensitive transcriptional activator SoxRWFL_21535
G
ZNTR
(NRULE_0330)
Zinc-responsive transcriptional regulator ZntRWFL_17385
H
NIKR
(NRULE_0331)
Nickel-responsive transcriptional regulator NikRWFL_18280
I
ISCR
(NRULE_0332)
Rrf2 family transcriptional regulator IscRWFL_13500
Molybdate transport (ABC transporter)(NFUNC_0097)
RequireA
MODA
(NRULE_0324)
Molybdate ABC transporter substrate-binding proteinWFL_20815 WFL_21385 WFL_12990 WFL_03965
Participant 
MODE
(NRULE_0323)
Putative molybdate-dependent transcriptional regulatorWFL_03955
 
MODB
(NRULE_0325)
Molybdate ABC transporter permease proteinWFL_03970
 
MODC
(NRULE_0326)
Molybdate ABC transporter ATP-binding proteinWFL_03975
(R)-pantothenate biosynthesis(NFUNC_0030)
RequireA
PAND
(NRULE_0115)
Aspartate 1-decarboxylaseWFL_00630
PANB
(NRULE_0116)
3-methyl-2-oxobutanoate hydroxymethyltransferaseWFL_00645
PANE
(NRULE_0117)
2-dehydropantoate 2-reductaseWFL_02445
PANC
(NRULE_0118)
Pantothenate synthetaseWFL_00640
Phenol degradation(NFUNC_0028)
RequireB
PHEA1
(NRULE_0083)
Aromatic ring hydroxylaseWFL_22920
C
PHEA2
(NRULE_0084)
Aromatic ring hydroxylaseWFL_02090
Participant 
FDR2
(NRULE_0057)
Ferredoxin reductaseWFL_13555
 
FDR1
(NRULE_0032)
Oxygenase electron transfer componentWFL_04775 WFL_07455 WFL_09690
 
FDX1
(NRULE_0034)
Putative Rieske-type ferredoxinWFL_13535 WFL_09685 WFL_13545
 
FADR1
(NRULE_0101)
NADH-dependent flavin reductaseWFL_07780 WFL_22915 WFL_05450
Phytic acid hydrolysis(NFUNC_0085)
RequireB
APPA
(NRULE_0259)
Periplasmic AppA proteinWFL_05315
Polymyxin resistance(NFUNC_0036)
RequireA
ARNA
(NRULE_0132)
Bifunctional polymyxin resistance protein ArnAWFL_11970
ARNB
(NRULE_0133)
UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate aminotransferaseWFL_11960
ARNC
(NRULE_0134)
Undecaprenyl-phosphate 4-deoxy-4-formamido-L-arabinose transferaseWFL_11965
ARND
(NRULE_0135)
Probable 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnDWFL_11975
ARNE
(NRULE_0136)
Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnEWFL_11985
ARNF
(NRULE_0137)
Probable 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnFWFL_11990
ARNT
(NRULE_0138)
Undecaprenyl phosphate-alpha-4-amino-4-deoxy-L-arabinose arabinosyl transferaseWFL_11980
Riboflavin biosynthesis(NFUNC_0058)
RequireA
RIBB
(NRULE_0200)
3,4-dihydroxy-2-butanone 4-phosphate synthaseWFL_16170
RIBA
(NRULE_0201)
GTP cyclohydrolase-2WFL_06680
RIBD
(NRULE_0202)
Riboflavin biosynthesis protein RibDWFL_02390
RIBH
(NRULE_0203)
6,7-dimethyl-8-ribityllumazine synthaseWFL_02395
RIBE
(NRULE_0204)
Riboflavin synthaseWFL_08970
Participant 
RIBF
(NRULE_0205)
Riboflavin biosynthesis protein RibFWFL_00125
Trehalose biosynthesis (from NDP-glucose and glucose-6-phosphate)(NFUNC_0031)
RequireA
TPS
(NRULE_0119)
Trehalose-phosphate synthaseWFL_10160
TPP
(NRULE_0120)
Trehalose-6-phosphate phosphataseWFL_10165
Uptake of osmoprotectant(NFUNC_0061)
RequireA
OPUAC
(NRULE_0213)
Osmoprotectant ABC transporter substrate-binding proteinWFL_14055
OPUAB
(NRULE_0214)
Osmoprotectant ABC transporter permease proteinWFL_14050
OPUAA
(NRULE_0215)
Osmoprotectant ABC transporter ATP-binding proteinWFL_14045
C
BCCT
(NRULE_0220)
BCCT family transporterWFL_09680 WFL_00200 WFL_01905
D
PROP
(NRULE_0221)
Osmoprotectant transporterWFL_21750
E
OPUE
(NRULE_0222)
Sodium/proline symporterWFL_05495
Vitamin B6 biosynthesis (PdxA/PdxJ pathway)(NFUNC_0060)
RequireA
EPD
(NRULE_0208)
D-erythrose-4-phosphate dehydrogenaseWFL_15535
PDXB
(NRULE_0209)
Erythronate-4-phosphate dehydrogenaseWFL_12285
SERC
(NRULE_0210)
Phosphoserine aminotransferaseWFL_04945
PDXA
(NRULE_0211)
4-hydroxythreonine-4-phosphate dehydrogenaseWFL_00260
PDXJ
(NRULE_0212)
Pyridoxine 5'-phosphate synthaseWFL_13665

Genomic Overview

BioProject IDPRJNA62301
Locus_tagWFL
INSDC entriesCP002967
Sequence statusComplete
Current status
Contig number3
Size(bp) 5,005,347
Gene 4,731
Finishing goal
Assembly method
Coverage
Technology
Reference
  • Optical mapping and sequencing of the Escherichia coli KO11 genome reveal extensive chromosomal rearrangements, and multiple tandem copies of the Zymomonas mobilis pdc and adhB genes. (J Ind Microbiol Biotechnol. 2012) PMID: 22075923

Data Download

Genomic nucleotide sequence Nucleotide sequence of the coding regions Translation of the coding sequneces List of genes / ORFs
FASTA
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FASTA
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FASTA
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TSV
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1.5 MB 1.3 MB 958.1 KB 383.9 KB