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 11-Mar-2025 from the annotated genome of Acinetobacter sp. Leaf130 Leaf130, as obtained from RefSeq (annotation date: 01-FEB-2025). The PGDB was created computationally by the PathoLogic component of the Pathway Tools software (version 29.0) [Karp11, Karp16] using MetaCyc version 29.0 [Caspi20]. It has not undergone any manual curation or review, and may contain errors.
Genome
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_LMOE010000012,1302,05722512,297,303RefSeq:NZ_LMOE01000001
NZ_LMOE01000005497472178505,942RefSeq:NZ_LMOE01000005
NZ_LMOE0100000635534465373,481RefSeq:NZ_LMOE01000006
NZ_LMOE0100000725323986267,990RefSeq:NZ_LMOE01000007
NZ_LMOE01000008213198114213,018RefSeq:NZ_LMOE01000008
NZ_LMOE0100000916916225174,094RefSeq:NZ_LMOE01000009
NZ_LMOE0100001089844187,356RefSeq:NZ_LMOE01000010
NZ_LMOE0100001148450351,381RefSeq:NZ_LMOE01000011
NZ_LMOE0100001248480039,251RefSeq:NZ_LMOE01000012
NZ_LMOE0100000231300128,091RefSeq:NZ_LMOE01000002
NZ_LMOE0100000366005,966RefSeq:NZ_LMOE01000003
NZ_LMOE0100000410011,990RefSeq:NZ_LMOE01000004
Total:3,8403,68570854,045,863
Ortholog data available?No
Database Contents
Genes3,840
Pathways337
Enzymatic Reactions1,703
Transport Reactions53
Polypeptides3,697
Protein Complexes0
Enzymes919
Transporters465
Compounds1,490
tRNAs63
Protein Features4,652
GO Terms5,505
Database Version29.0
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
unclassified Acinetobacter
Acinetobacter sp. Leaf130
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN04151649
NCBI BioProjectPRJNA224116
NCBI-Taxonomy1736269
Environmentnatural site
Geographic LocationSwitzerland
Latitude/Longitude47.48168 N 8.217547 E
Collection Date2013-06
HostArabidopsis thaliana
Annotation ProviderNCBI RefSeq
Annotation Date2025-02-1
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version6.9
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.