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 sp. SH024 SH024, 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_GG7536001,3911,33619361,447,123RefSeq:NZ_GG753600
NZ_GG7536018037751513870,269RefSeq:NZ_GG753601
NZ_GG753602462447114485,133RefSeq:NZ_GG753602
NZ_GG7536034654421310472,110RefSeq:NZ_GG753603
NZ_GG75360426024794274,712RefSeq:NZ_GG753604
NZ_GG75360516215723175,005RefSeq:NZ_GG753605
NZ_GG753606947302198,367RefSeq:NZ_GG753606
NZ_GG75360760546068,339RefSeq:NZ_GG753607
NZ_GG75360833321029,892RefSeq:NZ_GG753608
NZ_GG75360925220320,111RefSeq:NZ_GG753609
NZ_GG7536101111009,868RefSeq:NZ_GG753610
15 Undisplayed Contigs/Replicons16151419,912
Total:3,7863,61177983,970,841
Ortholog data available?Yes
Database Contents
Genes3,784
Pathways290
Enzymatic Reactions1,414
Transport Reactions73
Polypeptides3,671
Protein Complexes75
Enzymes805
Transporters364
Compounds1,058
Transcription Units2,667
tRNAs63
Protein Features4,447
GO Terms472
Database Version29.0
Sequence SourceGCF_000163635.1
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
unclassified Acinetobacter
Acinetobacter sp. SH024
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN02463817
NCBI BioProjectPRJNA224116
NCBI-Taxonomy575565
Environmentbiological product [ENVO:02000043]
HostHomo sapiens
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.