Database Authors
Summary This Pathway/Genome Database (PGDB) was generated on 15-Oct-2019 from the annotated genome of Actinobacillus equuli NCTC8529, as obtained from RefSeq (see the RefSeq entry for the authors of the original genome sequence). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 23.0) [Karp16, Karp11] using MetaCyc version 23.1 [Caspi20]. It has not undergone any manual curation or review, and may contain errors. Development of this PGDB was supported by grant GM080746 from the National Institutes of Health.
Genome
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
Chromosome 12,3092,19385312,451,991RefSeq:NZ_LR134310
Ortholog data available?Yes
Database Contents
Genes2,309
Pathways245
Enzymatic Reactions1,409
Transport Reactions109
Polypeptides2,194
Protein Complexes42
Enzymes626
Transporters262
Compounds1,077
Transcription Units1,536
tRNAs62
Protein Features3,065
GO Terms1,661
Database Version29.0
Synonyms Bacillus equirulis
Bacillus equuli
Bacillus nephritidis equi
Bacillus pyosepticus
Bacillus pyosepticus equi
Bacterium equi
Bacterium pyosepticum
Bacterium pyosepticum viscosum
Bacterium pyosepticum viscosum equi
Bacterium viscosum equi
Eberthella viscosa
Shigella equi
Shigella equirulis
Shigella equuli
Shigella viscosa
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Pasteurellales
Pasteurellaceae
Actinobacillus
Actinobacillus equuli
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMEA3861964
NCBI BioProjectPRJNA224116
NCBI-Taxonomy718
EnvironmentBlood
Collection Date1900/1953
HostEquus caballus
Health/Disease Statedisease
Annotation ProviderNCBI RefSeq
Annotation Date2019-02-8
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline
Annotation Pipeline Version4.7
Annotation CommentBest-placed reference protein set; GeneMarkS-2+
NCBI Genome Typerepresentative


References

Caspi20: Caspi R, Billington R, Keseler IM, Kothari A, Krummenacker M, Midford PE, Ong WK, Paley S, Subhraveti P, Karp PD (2019). "The MetaCyc database of metabolic pathways and enzymes-a 2019 update." Nucleic Acids Res. PMID: 31586394

Karp11: Karp PD, Latendresse M, Caspi R (2011). "The pathway tools pathway prediction algorithm." Stand Genomic Sci 5(3);424-9. PMID: 22675592

Karp16: Karp PD, Latendresse M, Paley SM, Krummenacker M, Ong QD, Billington R, Kothari A, Weaver D, Lee T, Subhraveti P, Spaulding A, Fulcher C, Keseler IM, Caspi R (2016). "Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology." Brief Bioinform 17(5);877-90. PMID: 26454094


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