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 AB_TG2028, 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_AMII0100011716015352180,406RefSeq:NZ_AMII01000117
NZ_AMII0100003315615222166,616RefSeq:NZ_AMII01000033
NZ_AMII0100003413913360150,851RefSeq:NZ_AMII01000034
NZ_AMII0100010410610321127,273RefSeq:NZ_AMII01000104
NZ_AMII0100009811811800118,590RefSeq:NZ_AMII01000098
NZ_AMII0100010910310102115,000RefSeq:NZ_AMII01000109
NZ_AMII0100006511711241112,603RefSeq:NZ_AMII01000065
NZ_AMII0100011911210363109,468RefSeq:NZ_AMII01000119
NZ_AMII0100007787824188,608RefSeq:NZ_AMII01000077
NZ_AMII0100005079770288,050RefSeq:NZ_AMII01000050
NZ_AMII0100001079790080,821RefSeq:NZ_AMII01000010
NZ_AMII0100006077760180,463RefSeq:NZ_AMII01000060
NZ_AMII0100007173702176,623RefSeq:NZ_AMII01000071
NZ_AMII0100003976750175,682RefSeq:NZ_AMII01000039
NZ_AMII0100008064630171,634RefSeq:NZ_AMII01000080
NZ_AMII0100006261601067,186RefSeq:NZ_AMII01000062
NZ_AMII0100004753503062,473RefSeq:NZ_AMII01000047
NZ_AMII0100010556550159,538RefSeq:NZ_AMII01000105
NZ_AMII0100005365623057,768RefSeq:NZ_AMII01000053
NZ_AMII0100007354520256,817RefSeq:NZ_AMII01000073
NZ_AMII0100004355540156,083RefSeq:NZ_AMII01000043
NZ_AMII0100005661551553,978RefSeq:NZ_AMII01000056
NZ_AMII0100010365631149,453RefSeq:NZ_AMII01000103
NZ_AMII0100001842411047,882RefSeq:NZ_AMII01000018
NZ_AMII0100010046440247,655RefSeq:NZ_AMII01000100
NZ_AMII0100008442400247,641RefSeq:NZ_AMII01000084
NZ_AMII0100005245404146,147RefSeq:NZ_AMII01000052
NZ_AMII0100009766633044,260RefSeq:NZ_AMII01000097
NZ_AMII0100009239390042,889RefSeq:NZ_AMII01000092
NZ_AMII0100008541400141,942RefSeq:NZ_AMII01000085
NZ_AMII0100012952511040,988RefSeq:NZ_AMII01000129
NZ_AMII0100007437370040,693RefSeq:NZ_AMII01000074
NZ_AMII0100004540361339,920RefSeq:NZ_AMII01000045
NZ_AMII0100009536350138,216RefSeq:NZ_AMII01000095
NZ_AMII0100005437360137,782RefSeq:NZ_AMII01000054
NZ_AMII0100009336350137,447RefSeq:NZ_AMII01000093
NZ_AMII0100003831310036,891RefSeq:NZ_AMII01000038
NZ_AMII0100009035340135,495RefSeq:NZ_AMII01000090
NZ_AMII0100004929290034,612RefSeq:NZ_AMII01000049
NZ_AMII0100007635350034,304RefSeq:NZ_AMII01000076
NZ_AMII0100006928280033,290RefSeq:NZ_AMII01000069
NZ_AMII0100003528280031,444RefSeq:NZ_AMII01000035
NZ_AMII0100008826251030,492RefSeq:NZ_AMII01000088
NZ_AMII0100005931310028,279RefSeq:NZ_AMII01000059
NZ_AMII0100002130270327,907RefSeq:NZ_AMII01000021
NZ_AMII0100002428270127,858RefSeq:NZ_AMII01000024
NZ_AMII0100006724240027,007RefSeq:NZ_AMII01000067
NZ_AMII0100002928280026,455RefSeq:NZ_AMII01000029
NZ_AMII0100007523230025,934RefSeq:NZ_AMII01000075
NZ_AMII0100011227251125,891RefSeq:NZ_AMII01000112
NZ_AMII0100007019190025,413RefSeq:NZ_AMII01000070
NZ_AMII0100011320200023,991RefSeq:NZ_AMII01000113
NZ_AMII0100010121200123,683RefSeq:NZ_AMII01000101
NZ_AMII0100006822211023,381RefSeq:NZ_AMII01000068
NZ_AMII0100005818180023,187RefSeq:NZ_AMII01000058
NZ_AMII0100005522220022,779RefSeq:NZ_AMII01000055
NZ_AMII0100008120200022,726RefSeq:NZ_AMII01000081
NZ_AMII0100003621183022,724RefSeq:NZ_AMII01000036
NZ_AMII0100011118170121,209RefSeq:NZ_AMII01000111
NZ_AMII0100011423220120,886RefSeq:NZ_AMII01000114
NZ_AMII0100005721210019,825RefSeq:NZ_AMII01000057
NZ_AMII0100010624220219,704RefSeq:NZ_AMII01000106
NZ_AMII0100003220200018,357RefSeq:NZ_AMII01000032
NZ_AMII0100004816150117,459RefSeq:NZ_AMII01000048
NZ_AMII0100004217160117,168RefSeq:NZ_AMII01000042
NZ_AMII0100011617170016,914RefSeq:NZ_AMII01000116
NZ_AMII0100008916160016,528RefSeq:NZ_AMII01000089
NZ_AMII0100007813121016,508RefSeq:NZ_AMII01000078
NZ_AMII0100009617170014,335RefSeq:NZ_AMII01000096
NZ_AMII0100012113121012,878RefSeq:NZ_AMII01000121
NZ_AMII0100012513130012,746RefSeq:NZ_AMII01000125
NZ_AMII0100000213110210,854RefSeq:NZ_AMII01000002
57 Undisplayed Contigs/Replicons2162061024262,182
Total:3,6223,47568793,770,742
Ortholog data available?Yes
Database Contents
Genes3,622
Pathways267
Enzymatic Reactions1,297
Transport Reactions98
Polypeptides3,513
Protein Complexes51
Enzymes759
Transporters350
Compounds1,047
Transcription Units2,548
tRNAs60
GO Terms1,359
Database Version29.0
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter baumannii
Acinetobacter baumannii AB_TG2028
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN02471284
NCBI BioProjectPRJNA224116
NCBI-Taxonomy1221278
Environmentsputum
HostHomo sapiens
Annotation ProviderNCBI
Annotation Date2017-11-23
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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