Database Authors
Pallavi Subhraveti1, Peter Midford, Ingrid Keseler1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 15-Feb-2019 from the annotated genome of Acinetobacter baumannii AB210, 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 23.0) [Karp16, Karp11] using MetaCyc version 23.0 [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_AEOX0100000130329265351,410RefSeq:NZ_AEOX01000001
NZ_AEOX01000002210194124220,761RefSeq:NZ_AEOX01000002
NZ_AEOX0100000319719205201,248RefSeq:NZ_AEOX01000003
NZ_AEOX0100000421420914196,977RefSeq:NZ_AEOX01000004
NZ_AEOX0100000518617916182,229RefSeq:NZ_AEOX01000005
NZ_AEOX0100000615515032161,941RefSeq:NZ_AEOX01000006
NZ_AEOX0100000715014703158,826RefSeq:NZ_AEOX01000007
NZ_AEOX0100000816315940153,536RefSeq:NZ_AEOX01000008
NZ_AEOX0100000914113254151,248RefSeq:NZ_AEOX01000009
NZ_AEOX0100001014513456144,722RefSeq:NZ_AEOX01000010
NZ_AEOX0100001112011802134,928RefSeq:NZ_AEOX01000011
NZ_AEOX0100001212412004133,829RefSeq:NZ_AEOX01000012
NZ_AEOX01000013979403104,165RefSeq:NZ_AEOX01000013
NZ_AEOX01000014908703100,019RefSeq:NZ_AEOX01000014
NZ_AEOX0100001586850194,447RefSeq:NZ_AEOX01000015
NZ_AEOX0100001698922493,509RefSeq:NZ_AEOX01000016
NZ_AEOX0100001786831285,062RefSeq:NZ_AEOX01000017
NZ_AEOX0100001881727283,370RefSeq:NZ_AEOX01000018
NZ_AEOX0100001980746081,074RefSeq:NZ_AEOX01000019
NZ_AEOX0100002073690473,207RefSeq:NZ_AEOX01000020
NZ_AEOX0100002164593270,386RefSeq:NZ_AEOX01000021
NZ_AEOX0100002268634165,940RefSeq:NZ_AEOX01000022
NZ_AEOX0100002361580364,352RefSeq:NZ_AEOX01000023
NZ_AEOX0100002453500360,746RefSeq:NZ_AEOX01000024
NZ_AEOX0100002548480054,732RefSeq:NZ_AEOX01000025
NZ_AEOX0100002646450149,154RefSeq:NZ_AEOX01000026
NZ_AEOX0100002748471048,080RefSeq:NZ_AEOX01000027
NZ_AEOX0100002845412243,620RefSeq:NZ_AEOX01000028
NZ_AEOX0100002941390243,068RefSeq:NZ_AEOX01000029
NZ_AEOX0100003040350542,641RefSeq:NZ_AEOX01000030
NZ_AEOX0100003158540441,522RefSeq:NZ_AEOX01000031
NZ_AEOX0100003242391240,338RefSeq:NZ_AEOX01000032
NZ_AEOX0100003349471134,805RefSeq:NZ_AEOX01000033
NZ_AEOX0100003432300233,361RefSeq:NZ_AEOX01000034
NZ_AEOX0100003530291032,230RefSeq:NZ_AEOX01000035
NZ_AEOX0100003625213128,382RefSeq:NZ_AEOX01000036
NZ_AEOX0100003726241127,205RefSeq:NZ_AEOX01000037
NZ_AEOX0100003829281027,100RefSeq:NZ_AEOX01000038
NZ_AEOX0100003925220325,531RefSeq:NZ_AEOX01000039
NZ_AEOX0100004025240122,516RefSeq:NZ_AEOX01000040
NZ_AEOX0100004120180221,294RefSeq:NZ_AEOX01000041
NZ_AEOX0100004233330019,431RefSeq:NZ_AEOX01000042
NZ_AEOX0100004329290018,591RefSeq:NZ_AEOX01000043
NZ_AEOX0100004423160717,895RefSeq:NZ_AEOX01000044
NZ_AEOX0100004519181016,659RefSeq:NZ_AEOX01000045
NZ_AEOX0100004621180313,764RefSeq:NZ_AEOX01000046
NZ_AEOX0100004716160011,450RefSeq:NZ_AEOX01000047
NZ_AEOX010000511212009,288RefSeq:NZ_AEOX01000051
NZ_AEOX010000551210028,105RefSeq:NZ_AEOX01000055
NZ_AEOX010000571311027,529RefSeq:NZ_AEOX01000057
56 Undisplayed Contigs/Replicons125118947155,217
Total:4,0263,784811614,061,440
Ortholog data available?Yes
Database Contents
Genes4,023
Pathways260
Enzymatic Reactions1,298
Transport Reactions106
Polypeptides3,812
Protein Complexes52
Enzymes799
Transporters360
Compounds1,053
Transcription Units2,776
tRNAs65
GO Terms2,326
Database Version29.0
Synonyms Acinetobacter baumannii str. AB210
Acinetobacter baumannii strain AB210
Acinetobacter baumannii AB210
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter baumannii
Acinetobacter baumannii AB210
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN02471594
NCBI BioProjectPRJNA224116
NCBI-Taxonomy886886
Annotation ProviderNCBI
Annotation Date2017-11-22
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline
Annotation Pipeline Version4.3
Annotation CommentBest-placed reference protein set; GeneMarkS+

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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