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 OIFC180, 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_AMDQ0100009229528816308,749RefSeq:NZ_AMDQ01000092
NZ_AMDQ0100010622821954239,330RefSeq:NZ_AMDQ01000106
NZ_AMDQ01000021212195134222,052RefSeq:NZ_AMDQ01000021
NZ_AMDQ0100011817717412182,927RefSeq:NZ_AMDQ01000118
NZ_AMDQ0100000217817305181,837RefSeq:NZ_AMDQ01000002
NZ_AMDQ0100009915315201162,917RefSeq:NZ_AMDQ01000099
NZ_AMDQ0100004114813882144,192RefSeq:NZ_AMDQ01000041
NZ_AMDQ0100002214714511137,714RefSeq:NZ_AMDQ01000022
NZ_AMDQ0100002413612781135,978RefSeq:NZ_AMDQ01000024
NZ_AMDQ0100007512912414126,551RefSeq:NZ_AMDQ01000075
NZ_AMDQ0100005311710962123,738RefSeq:NZ_AMDQ01000053
NZ_AMDQ0100009410910612121,754RefSeq:NZ_AMDQ01000094
NZ_AMDQ0100005712011550110,862RefSeq:NZ_AMDQ01000057
NZ_AMDQ0100013895932098,023RefSeq:NZ_AMDQ01000138
NZ_AMDQ0100011791900195,096RefSeq:NZ_AMDQ01000117
NZ_AMDQ0100001076740287,935RefSeq:NZ_AMDQ01000010
NZ_AMDQ0100010486840287,736RefSeq:NZ_AMDQ01000104
NZ_AMDQ0100012181772286,369RefSeq:NZ_AMDQ01000121
NZ_AMDQ0100006781762375,610RefSeq:NZ_AMDQ01000067
NZ_AMDQ0100001151434470,267RefSeq:NZ_AMDQ01000011
NZ_AMDQ0100010259560366,242RefSeq:NZ_AMDQ01000102
NZ_AMDQ0100011055523059,415RefSeq:NZ_AMDQ01000110
NZ_AMDQ0100008158560258,966RefSeq:NZ_AMDQ01000081
NZ_AMDQ0100004361564158,486RefSeq:NZ_AMDQ01000043
NZ_AMDQ0100003949471152,264RefSeq:NZ_AMDQ01000039
NZ_AMDQ0100007046430348,753RefSeq:NZ_AMDQ01000070
NZ_AMDQ0100007941390244,976RefSeq:NZ_AMDQ01000079
NZ_AMDQ0100006439380143,527RefSeq:NZ_AMDQ01000064
NZ_AMDQ0100009547440340,149RefSeq:NZ_AMDQ01000095
NZ_AMDQ0100009035330240,118RefSeq:NZ_AMDQ01000090
NZ_AMDQ0100012530290139,027RefSeq:NZ_AMDQ01000125
NZ_AMDQ0100000536321336,447RefSeq:NZ_AMDQ01000005
NZ_AMDQ0100013233290435,801RefSeq:NZ_AMDQ01000132
NZ_AMDQ0100006932310135,663RefSeq:NZ_AMDQ01000069
NZ_AMDQ0100014034321134,271RefSeq:NZ_AMDQ01000140
NZ_AMDQ0100004029281027,353RefSeq:NZ_AMDQ01000040
NZ_AMDQ0100012225241027,027RefSeq:NZ_AMDQ01000122
NZ_AMDQ0100007324230126,849RefSeq:NZ_AMDQ01000073
NZ_AMDQ0100007125230226,554RefSeq:NZ_AMDQ01000071
NZ_AMDQ0100009734340025,782RefSeq:NZ_AMDQ01000097
NZ_AMDQ0100008519170221,750RefSeq:NZ_AMDQ01000085
NZ_AMDQ0100003720190121,478RefSeq:NZ_AMDQ01000037
NZ_AMDQ0100011316160019,612RefSeq:NZ_AMDQ01000113
NZ_AMDQ0100013328271016,260RefSeq:NZ_AMDQ01000133
NZ_AMDQ0100013914121114,995RefSeq:NZ_AMDQ01000139
NZ_AMDQ0100009821190213,222RefSeq:NZ_AMDQ01000098
NZ_AMDQ0100007415122112,844RefSeq:NZ_AMDQ01000074
NZ_AMDQ0100003213120112,509RefSeq:NZ_AMDQ01000032
NZ_AMDQ0100002921180311,924RefSeq:NZ_AMDQ01000029
NZ_AMDQ0100002319180111,720RefSeq:NZ_AMDQ01000023
NZ_AMDQ010001191714039,905RefSeq:NZ_AMDQ01000119
NZ_AMDQ010000471210028,664RefSeq:NZ_AMDQ01000047
89 Undisplayed Contigs/Replicons148146581184,633
Total:3,9493,691811773,986,823
Ortholog data available?Yes
Database Contents
Genes3,939
Pathways261
Enzymatic Reactions1,281
Transport Reactions111
Polypeptides3,738
Protein Complexes52
Enzymes791
Transporters360
Compounds1,039
Transcription Units2,790
tRNAs64
GO Terms2,235
Database Version29.0
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter baumannii
Acinetobacter baumannii OIFC180
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN00761237
NCBI BioProjectPRJNA224116
NCBI-Taxonomy903903
Geographic LocationUSA
Collection Date2003
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

Report Errors or Provide Feedback
Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC18A.