Database Authors
Jonathan Wagg, SRI
Summary The primary data source for this dataset was the annotated genome sequence of Escherichia coli O157:H7 str. EDL933 [Perna01]. This annotated genome has been deposited in public databases (accession number AE005174). This sequence contained gaps which have since been better characterized. The corresponding gap sequences were not utilized for generation of this dataset.

This dataset was derived computationally using the Pathologic program [Karp99]. The PGDB, which integrates the biochemical reaction network and metabolic pathways of the organism with its genome, was improved by limited manual curation.

Genome
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
Chromosome5,4755,34712805,528,445
Ortholog data available?Yes
Database Contents
Genes5,475
Pathways314
Enzymatic Reactions2,027
Transport Reactions452
Polypeptides5,359
Protein Complexes304
Enzymes1,410
Transporters482
Compounds1,298
Transcription Units3,531
tRNAs100
Transcriptional Regulation611
Protein Features7,144
GO Terms17,338
Database Version29.0 [History of Updates]
Synonyms Escherichia coli O157:H7 str. EDL 933
Escherichia coli O157:H7 strain EDL933
Escherichia coli O157:H7 str. EDL933
Escherichia coli O157:H7 EDL933
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Enterobacterales
Enterobacteriaceae
Escherichia
Escherichia coli
Escherichia coli O157:H7
Escherichia coli O157:H7 str. EDL933
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
GOLD0097270
NCBI-Taxonomy155864
Relationship to Oxygenfacultative
Trophic Levelheterotroph
Temperature Rangemesophile
Biotic Relationshipfree-living
Pathogenicityhuman
Copyright © 2014, SRI International. All Rights Reserved.

References

Karp99: Karp PD, Krummenacker M, Paley S, Wagg J (1999). "Integrated pathway-genome databases and their role in drug discovery." Trends Biotechnol 17(7);275-81. PMID: 10370234

Perna01: Perna NT, Plunkett G, Burland V, Mau B, Glasner JD, Rose DJ, Mayhew GF, Evans PS, Gregor J, Kirkpatrick HA, Posfai G, Hackett J, Klink S, Boutin A, Shao Y, Miller L, Grotbeck EJ, Davis NW, Lim A, Dimalanta ET, Potamousis KD, Apodaca J, Anantharaman TS, Lin J, Yen G, Schwartz DC, Welch RA, Blattner FR (2001). "Genome sequence of enterohaemorrhagic Escherichia coli O157:H7." Nature 409(6819);529-33. PMID: 11206551

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