Database Authors
Pallavi Subhraveti1, Peter Midford1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 8-Mar-2022 from the annotated genome of Acinetobacter baylyi CIP 107474, 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 26.0) [Karp16, Karp11] using MetaCyc version 26.0 [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
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_KB8496281,2031,16220211,293,522RefSeq:NZ_KB849628
NZ_KB8496265685421610619,423RefSeq:NZ_KB849626
NZ_KB849627466448810511,189RefSeq:NZ_KB849627
NZ_KB849625460443143499,440RefSeq:NZ_KB849625
NZ_KB849623398378200431,586RefSeq:NZ_KB849623
NZ_KB84963118717872194,702RefSeq:NZ_KB849631
NZ_KB84963049444156,783RefSeq:NZ_KB849630
NZ_KB84962911001,792RefSeq:NZ_KB849629
NZ_KB84962400001,630RefSeq:NZ_KB849624
NZ_KB84962200001,582RefSeq:NZ_KB849622
Total:3,3323,19689473,611,649
Ortholog data available?Yes
Database Contents
Genes3,325
Pathways280
Enzymatic Reactions1,379
Transport Reactions63
Polypeptides3,207
Protein Complexes5
Enzymes804
Transporters389
Compounds1,017
Transcription Units2,215
tRNAs66
Protein Features4,126
GO Terms285
Database Version29.0
Sequence SourceGCF_000368685.1
Synonyms Acinetobacter baylyi B2
Acinetobacter baylyi CCM 7195
Acinetobacter baylyi CCUG 50765
Acinetobacter baylyi CIP 107474 = DSM 14961
Acinetobacter baylyi CIP 107474
Acinetobacter baylyi DSM 14961
Acinetobacter baylyi DSM 14961 = CIP 107474
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter baylyi
Acinetobacter baylyi DSM 14961 = CIP 107474
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN01087846
NCBI BioProjectPRJNA224116
NCBI-Taxonomy1120924
Annotation ProviderNCBI RefSeq
Annotation Date2021-11-14
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version5.3
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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Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC18A.