Database Authors
Pallavi Subhraveti1, Peter Midford1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 01-June-2022 from the annotated genome of Acinetobacter calcoaceticus RUH2202, 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_GG7049492,1862,11129462,313,757RefSeq:NZ_GG704949
NZ_GG704950467448127483,494RefSeq:NZ_GG704950
NZ_GG704951442423109464,613RefSeq:NZ_GG704951
NZ_GG70495225624682266,918RefSeq:NZ_GG704952
NZ_GG70495315715322171,314RefSeq:NZ_GG704953
NZ_GG70495481754286,213RefSeq:NZ_GG704954
NZ_GG70495547470051,478RefSeq:NZ_GG704955
NZ_GG70495633310229,728RefSeq:NZ_GG704956
7 Undisplayed Contigs/Replicons1385014,275
Total:3,6823,54270703,881,790
Ortholog data available?Yes
Database Contents
Genes3,682
Pathways285
Enzymatic Reactions1,408
Transport Reactions63
Polypeptides3,563
Protein Complexes72
Enzymes781
Transporters361
Compounds1,034
Transcription Units2,548
tRNAs63
Protein Features4,419
GO Terms338
Database Version29.0
Sequence SourceGCF_000162035.1
Synonyms Acinetobacter calcoaceticus strain RUH2202
Acinetobacter calcoaceticus str. RUH2202
Acinetobacter calcoaceticus RUH2202
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter calcoaceticus
Acinetobacter calcoaceticus RUH2202
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN02463728
NCBI BioProjectPRJNA224116
NCBI-Taxonomy575585
Environmentbiological product [ENVO:02000043]
HostHomo sapiens
Annotation ProviderNCBI RefSeq
Annotation Date2021-11-7
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.