Database Authors
Pallavi Subhraveti1, Peter Midford1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 20-Mar-2023 from the annotated genome of Acinetobacter baumannii 17978UN, as obtained from RefSeq (annotation date: 02-DEC-2022). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 27.0) [Karp16, Karp11] using MetaCyc version 27.0 [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
NZ_CP0799313,7333,58395553,902,119RefSeq:NZ_CP079931
pAB315114407148,955RefSeq:NZ_CP079932
pAB117160113,409RefSeq:NZ_CP079933
pAB214140011,302RefSeq:NZ_CP079934
Total:3,9153,75795634,075,785
Ortholog data available?Yes
Database Contents
Genes3,915
Pathways317
Enzymatic Reactions1,527
Transport Reactions96
Polypeptides3,757
Protein Complexes63
Enzymes831
Transporters397
Compounds1,141
tRNAs73
GO Terms5,926
Database Version29.0
Synonyms Acinetobacter genomosp. 2
Acinetobacter genomospecies 2
Acinetobacter sp. NCTC 7422
Bacterium anitratum
bacterium SPL81
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)
BIOSAMPLESAMN20326334
NCBI BioProjectPRJNA224116
NCBI-Taxonomy470
Geographic LocationFrance
Collection Date1951
HostHomo sapiens
Human Microbiome Body Sitenot-specified
Annotation ProviderNCBI RefSeq
Annotation Date2022-12-2
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version6.3
Annotation CommentBest-placed reference protein set; GeneMarkS-2+

References

Caspi20: Caspi R, Billington R, Keseler IM, Kothari A, Krummenacker M, Midford PE, Ong WK, Paley S, Subhraveti P, Karp PD (2020). "The MetaCyc database of metabolic pathways and enzymes - a 2019 update." Nucleic Acids Res 48(D1);D445-D453. 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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