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 ABNIH2, 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_AFTA0100005323222426261,062RefSeq:NZ_AFTA01000053
NZ_AFTA0100004417917504188,251RefSeq:NZ_AFTA01000044
NZ_AFTA0100008816315922179,340RefSeq:NZ_AFTA01000088
NZ_AFTA0100010116415653173,202RefSeq:NZ_AFTA01000101
NZ_AFTA0100003914514104152,193RefSeq:NZ_AFTA01000039
NZ_AFTA0100008513813332129,375RefSeq:NZ_AFTA01000085
NZ_AFTA0100004711811152118,682RefSeq:NZ_AFTA01000047
NZ_AFTA01000110989323100,940RefSeq:NZ_AFTA01000110
NZ_AFTA0100000491880394,200RefSeq:NZ_AFTA01000004
NZ_AFTA0100002384781587,263RefSeq:NZ_AFTA01000023
NZ_AFTA0100003286820485,658RefSeq:NZ_AFTA01000032
NZ_AFTA0100004187801685,097RefSeq:NZ_AFTA01000041
NZ_AFTA0100002682800284,769RefSeq:NZ_AFTA01000026
NZ_AFTA010001231061040283,989RefSeq:NZ_AFTA01000123
NZ_AFTA0100005561554281,613RefSeq:NZ_AFTA01000055
NZ_AFTA0100000172624678,659RefSeq:NZ_AFTA01000001
NZ_AFTA0100001175720378,610RefSeq:NZ_AFTA01000011
NZ_AFTA0100010669680171,972RefSeq:NZ_AFTA01000106
NZ_AFTA0100003569690070,032RefSeq:NZ_AFTA01000035
NZ_AFTA0100009867624165,407RefSeq:NZ_AFTA01000098
NZ_AFTA0100011159590063,420RefSeq:NZ_AFTA01000111
NZ_AFTA0100005657540362,028RefSeq:NZ_AFTA01000056
NZ_AFTA0100003054521158,464RefSeq:NZ_AFTA01000030
NZ_AFTA0100005754503157,647RefSeq:NZ_AFTA01000057
NZ_AFTA0100001646423152,125RefSeq:NZ_AFTA01000016
NZ_AFTA0100002854520249,903RefSeq:NZ_AFTA01000028
NZ_AFTA0100001047460149,521RefSeq:NZ_AFTA01000010
NZ_AFTA0100005944430148,470RefSeq:NZ_AFTA01000059
NZ_AFTA0100008054530147,949RefSeq:NZ_AFTA01000080
NZ_AFTA0100008754466247,561RefSeq:NZ_AFTA01000087
NZ_AFTA0100003739390042,611RefSeq:NZ_AFTA01000037
NZ_AFTA0100006035350040,094RefSeq:NZ_AFTA01000060
NZ_AFTA0100008146431239,491RefSeq:NZ_AFTA01000081
NZ_AFTA0100000836331236,727RefSeq:NZ_AFTA01000008
NZ_AFTA0100010535330236,277RefSeq:NZ_AFTA01000105
NZ_AFTA0100008936350134,921RefSeq:NZ_AFTA01000089
NZ_AFTA0100004834291434,830RefSeq:NZ_AFTA01000048
NZ_AFTA0100008627240333,493RefSeq:NZ_AFTA01000086
NZ_AFTA0100001354540032,642RefSeq:NZ_AFTA01000013
NZ_AFTA0100006428280031,719RefSeq:NZ_AFTA01000064
NZ_AFTA0100003428260231,594RefSeq:NZ_AFTA01000034
NZ_AFTA0100002234331030,956RefSeq:NZ_AFTA01000022
NZ_AFTA0100002724230128,897RefSeq:NZ_AFTA01000027
NZ_AFTA0100000628243127,583RefSeq:NZ_AFTA01000006
NZ_AFTA0100004335340126,479RefSeq:NZ_AFTA01000043
NZ_AFTA0100010322220026,187RefSeq:NZ_AFTA01000103
NZ_AFTA0100003126260025,885RefSeq:NZ_AFTA01000031
NZ_AFTA0100005233320125,863RefSeq:NZ_AFTA01000052
NZ_AFTA0100006724240025,580RefSeq:NZ_AFTA01000067
NZ_AFTA0100001923220125,056RefSeq:NZ_AFTA01000019
NZ_AFTA0100006624230124,481RefSeq:NZ_AFTA01000066
NZ_AFTA0100004522210123,875RefSeq:NZ_AFTA01000045
NZ_AFTA0100008425231123,704RefSeq:NZ_AFTA01000084
NZ_AFTA0100010220190122,016RefSeq:NZ_AFTA01000102
NZ_AFTA0100006222191218,641RefSeq:NZ_AFTA01000062
NZ_AFTA0100011421200118,000RefSeq:NZ_AFTA01000114
NZ_AFTA0100002917170016,778RefSeq:NZ_AFTA01000029
NZ_AFTA0100007922210116,612RefSeq:NZ_AFTA01000079
NZ_AFTA0100012420200016,507RefSeq:NZ_AFTA01000124
NZ_AFTA0100002014140016,506RefSeq:NZ_AFTA01000020
NZ_AFTA0100006115140116,437RefSeq:NZ_AFTA01000061
NZ_AFTA0100009911101013,775RefSeq:NZ_AFTA01000099
NZ_AFTA0100009013120113,549RefSeq:NZ_AFTA01000090
NZ_AFTA0100010012120013,150RefSeq:NZ_AFTA01000100
NZ_AFTA0100005118180012,874RefSeq:NZ_AFTA01000051
NZ_AFTA0100005814113012,705RefSeq:NZ_AFTA01000058
NZ_AFTA0100004016160011,438RefSeq:NZ_AFTA01000040
NZ_AFTA010000701310039,384RefSeq:NZ_AFTA01000070
57 Undisplayed Contigs/Replicons155150631193,367
Total:3,8623,658651393,938,086
Ortholog data available?Yes
Database Contents
Genes3,861
Pathways262
Enzymatic Reactions1,275
Transport Reactions111
Polypeptides3,702
Protein Complexes54
Enzymes794
Transporters348
Compounds1,029
Transcription Units2,692
tRNAs57
GO Terms2,232
Database Version29.0
Synonyms Acinetobacter baumannii str. ABNIH2
Acinetobacter baumannii strain ABNIH2
Acinetobacter baumannii ABNIH2
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter baumannii
Acinetobacter baumannii ABNIH2
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN00857848
NCBI BioProjectPRJNA224116
NCBI-Taxonomy992403
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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