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 13-Mar-2021 from the annotated genome of Acinetobacter soli KCTC 22184, 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 25.0) [Karp16, Karp11] using MetaCyc version 24.5 [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_BBNM0100000146745962496,417RefSeq:NZ_BBNM01000001
NZ_BBNM01000002423410103450,743RefSeq:NZ_BBNM01000002
NZ_BBNM01000003290274610332,350RefSeq:NZ_BBNM01000003
NZ_BBNM0100000427026316298,562RefSeq:NZ_BBNM01000004
NZ_BBNM0100000523122272256,224RefSeq:NZ_BBNM01000005
NZ_BBNM0100000621120560220,908RefSeq:NZ_BBNM01000006
NZ_BBNM0100000716916270172,835RefSeq:NZ_BBNM01000007
NZ_BBNM0100000815515122157,725RefSeq:NZ_BBNM01000008
NZ_BBNM0100000914713980146,352RefSeq:NZ_BBNM01000009
NZ_BBNM0100001010510140115,660RefSeq:NZ_BBNM01000010
NZ_BBNM0100001111611114108,611RefSeq:NZ_BBNM01000011
NZ_BBNM0100001290890198,944RefSeq:NZ_BBNM01000012
NZ_BBNM0100001383830095,965RefSeq:NZ_BBNM01000013
NZ_BBNM0100001473644579,496RefSeq:NZ_BBNM01000014
NZ_BBNM0100001583791375,098RefSeq:NZ_BBNM01000015
NZ_BBNM0100001672711071,337RefSeq:NZ_BBNM01000016
NZ_BBNM0100001745450052,295RefSeq:NZ_BBNM01000017
NZ_BBNM0100001845441044,795RefSeq:NZ_BBNM01000018
NZ_BBNM0100001926250119,765RefSeq:NZ_BBNM01000019
14 Undisplayed Contigs/Replicons31274736,371
Total:3,1393,02469463,330,453
Ortholog data available?Yes
Database Contents
Genes3,139
Pathways261
Enzymatic Reactions1,282
Transport Reactions84
Polypeptides3,044
Protein Complexes46
Enzymes752
Transporters309
Compounds970
Transcription Units2,103
tRNAs62
Protein Features3,895
GO Terms19
Database Version29.0
Sequence SourceGCF_000760595.1
Synonyms Acinetobacter sp. Ba6
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter soli
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMD00019893
NCBI BioProjectPRJNA224116
NCBI-Taxonomy487316
Annotation ProviderNCBI RefSeq
Annotation Date2020-06-28
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version4.11
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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