Database Authors
Pallavi Subhraveti1, Anamika Kothari1, Peter Midford1, Ron Caspi1, Lisa Moore1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 30-Oct-2024 from the annotated genome of Acetobacter pasteurianus SRCM101468, as obtained from RefSeq (annotation date: 07-MAY-2024). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 28.5) [Karp11, Karp16] using MetaCyc version 28.1 [Caspi20]. It has not undergone any manual curation or review, and may contain errors.
Genome
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_CP0219222,8432,660761072,996,610RefSeq:NZ_CP021922
pAP1468-2176143033184,348RefSeq:NZ_CP021924
pAP1468-1162119043177,959RefSeq:NZ_CP021923
pAP1468-362560649,900RefSeq:NZ_CP021925
Total:3,2432,978761893,408,817
Ortholog data available?No
Database Contents
Genes3,243
Pathways275
Enzymatic Reactions1,500
Transport Reactions58
Polypeptides2,980
Protein Complexes68
Enzymes684
Transporters245
Compounds1,298
Transcription Units2,216
tRNAs57
Protein Features3,621
GO Terms3,926
Database Version29.0
Sequence SourceGCF_002202135.1
Synonyms Acetobacter pasteurianus subsp. pasteurianus
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Alphaproteobacteria
Rhodospirillales
Acetobacteraceae
Acetobacter
Acetobacter pasteurianus
Acetobacter pasteurianus pasteurianus
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN07211335
NCBI BioProjectPRJNA224116
NCBI-Taxonomy481145
Environmentfood
Geographic LocationSouth Korea
Collection Date2017-01-9
Annotation ProviderNCBI RefSeq
Annotation Date2024-05-6
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version6.7
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

Report Errors or Provide Feedback
Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC17.