Database Authors
Pallavi Subhraveti1, Quang Ong1, Ingrid Keseler1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 27-Feb-2018 from the annotated genome of Acinetobacter guillouiae NIPH 991, 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 22.0) [Karp16, Karp11] using MetaCyc version 21.5 [Caspi18]. 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 Institutess of Health.
Genome
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_KB8494563,5833,44856793,850,148RefSeq:NZ_KB849456
NZ_KB849455422401138451,272RefSeq:NZ_KB849455
NZ_KB84945441339995429,030RefSeq:NZ_KB849454
NZ_KB849457164150113175,322RefSeq:NZ_KB849457
Total:4,5824,39889954,905,772
Ortholog data available?Yes
Database Contents
Genes4,582
Pathways204
Enzymatic Reactions1,165
Transport Reactions75
Polypeptides4,403
Protein Complexes12
Enzymes667
Transporters314
Compounds947
Transcription Units3,281
tRNAs69
Protein Features4,866
GO Terms18,397
Database Version29.0
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter guillouiae
Acinetobacter guillouiae NIPH 991
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN01087917
NCBI BioProjectPRJNA224116
NCBI-Taxonomy1217656
EnvironmentEar swab (outpatient)
Geographic LocationCzech Republic
Collection Date1998
HostHomo sapiens

References

Caspi18: Caspi R, Billington R, Fulcher CA, Keseler IM, Kothari A, Krummenacker M, Latendresse M, Midford PE, Ong Q, Ong WK, Paley S, Subhraveti P, Karp PD (2018). "The MetaCyc database of metabolic pathways and enzymes." Nucleic Acids Res 46(D1);D633-D639. PMID: 29059334

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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