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 baumannii KAB08, 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
RepliconTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_CP0176563,8423,597951503,973,763RefSeq:NZ_CP017656
unnamed12011406101,406RefSeq:NZ_CP017657
Total:3,9623,711951564,075,169
Ortholog data available?Yes
Database Contents
Genes3,963
Pathways264
Enzymatic Reactions1,332
Transport Reactions120
Polypeptides3,712
Protein Complexes51
Enzymes866
Transporters364
Compounds1,039
Transcription Units2,675
tRNAs73
Protein Features4,367
GO Terms2,520
Database Version29.0
Synonyms ATCC 19606
Acinetobacter genomosp. 2
Acinetobacter genomospecies 2
Bacterium anitratum
CCUG 19096
CIP 70.34
DSM 30007
JCM 6841
LMG 1041
NCCB 85021
NCTC 12156
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter baumannii
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN05601673
NCBI BioProjectPRJNA224116
NCBI-Taxonomy470
EnvironmentWound
Geographic LocationSouth Korea
Collection Date2015-09-10
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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