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 Acetobacter aceti NBRC 14818, 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
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_AP0234103,2913,14763813,596,270RefSeq:NZ_AP023410
pAACEN168650363,279RefSeq:NZ_AP023411
pAACEN238340425,755RefSeq:NZ_AP023412
pAACEN388004,858RefSeq:NZ_AP023413
pAACEN455002,964RefSeq:NZ_AP023414
Total:3,4103,25963883,693,126
Ortholog data available?No
Database Contents
Genes3,410
Pathways246
Enzymatic Reactions1,293
Transport Reactions45
Polypeptides3,259
Protein Complexes6
Enzymes739
Transporters346
Compounds940
Transcription Units2,284
tRNAs50
Protein Features3,892
GO Terms230
Database Version29.0
Sequence SourceGCF_000193495.2
Synonyms Acetobacter aceti DSM 3508
Acetobacter aceti JCM 7461
Acetobacter aceti LMG 1261
Acetobacter aceti LMG 1504
Acetobacter aceti NCIB 8621
Acetobacter aceti strain NBRC 14818
Acetobacter aceti str. NBRC 14818
Acetobacter aceti NBRC 14818
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Alphaproteobacteria
Rhodospirillales
Acetobacteraceae
Acetobacter
Acetobacter subgen. Acetobacter
Acetobacter aceti
Acetobacter aceti NBRC 14818
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMD00036545
NCBI BioProjectPRJNA224116
NCBI-Taxonomy887700
Annotation ProviderNCBI RefSeq
Annotation Date2021-12-17
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, BIOCYC17.