Database Authors
Pallavi Subhraveti1, Peter Midford1, Ingrid Keseler1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 15-Oct-2019 from the annotated genome of Acinetobacter baumannii A52, 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 [1]. 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
NZ_CP0340923,7153,53295883,864,628RefSeq:NZ_CP034092
pA52-111511212110,713RefSeq:NZ_CP034093
pA52-238340427,452RefSeq:NZ_CP034094
pA52-OXA-721111008,493RefSeq:NZ_CP034097
pA52-399008,420RefSeq:NZ_CP034095
pA52-433003,610RefSeq:NZ_CP034096
Total:3,8913,70196944,023,316
Ortholog data available?Yes
Database Contents
Genes3,891
Pathways261
Enzymatic Reactions1,290
Transport Reactions36
Polypeptides3,702
Protein Complexes39
Enzymes756
Transporters370
Compounds1,046
Transcription Units2,701
tRNAs74
Protein Features4,438
GO Terms2,076
Database Version29.0
Synonyms Acinetobacter genomosp. 2
Acinetobacter genomospecies 2
Bacterium anitratum
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter baumannii
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN10441121
NCBI BioProjectPRJNA224116
NCBI-Taxonomy470
Environmentsputum
Geographic LocationChina
Collection Date2015-08-2
HostHomo sapiens
Human Microbiome Body Siteoral
Annotation ProviderNCBI RefSeq
Annotation Date2019-01-18
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline
Annotation Pipeline Version4.7
Annotation CommentBest-placed reference protein set; GeneMarkS-2+

References

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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