Database Authors
Pallavi Subhraveti1, Peter Midford1, Ingrid Keseler1, Anamika Kothari1, Ron Caspi1, Peter D Karp1
1SRI International
Summary This Pathway/Genome Database (PGDB) was generated on 13-Mar-2021 from the annotated genome of Acinetobacter bohemicus ANC 5076, 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 25.0) [Karp16, Karp11] using MetaCyc version 24.5 [Caspi20]. 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 Institutes of Health.
Genome
ContigTotal GenesProtein GenesRNA GenesPseudogenesSize (bp)NCBI Link
NZ_FOZU010000012912641512301,207RefSeq:NZ_FOZU01000001
NZ_FOZU0100000226225336285,874RefSeq:NZ_FOZU01000002
NZ_FOZU0100000317416095195,679RefSeq:NZ_FOZU01000003
NZ_FOZU01000004157145111177,538RefSeq:NZ_FOZU01000004
NZ_FOZU0100000513313111139,278RefSeq:NZ_FOZU01000005
NZ_FOZU0100000612712331138,662RefSeq:NZ_FOZU01000006
NZ_FOZU0100000713112533133,901RefSeq:NZ_FOZU01000007
NZ_FOZU0100000812211282128,326RefSeq:NZ_FOZU01000008
NZ_FOZU0100000911411202119,368RefSeq:NZ_FOZU01000009
NZ_FOZU010000101029408115,323RefSeq:NZ_FOZU01000010
NZ_FOZU0100001196931293,315RefSeq:NZ_FOZU01000011
NZ_FOZU0100001287840385,922RefSeq:NZ_FOZU01000012
NZ_FOZU0100001395894282,328RefSeq:NZ_FOZU01000013
NZ_FOZU0100001476760082,321RefSeq:NZ_FOZU01000014
NZ_FOZU01000015100971282,320RefSeq:NZ_FOZU01000015
NZ_FOZU0100001689778480,190RefSeq:NZ_FOZU01000016
NZ_FOZU0100001774685177,960RefSeq:NZ_FOZU01000017
NZ_FOZU0100001870700074,230RefSeq:NZ_FOZU01000018
NZ_FOZU0100001970664070,407RefSeq:NZ_FOZU01000019
NZ_FOZU0100002064561756,447RefSeq:NZ_FOZU01000020
NZ_FOZU0100002140390156,157RefSeq:NZ_FOZU01000021
NZ_FOZU0100002250490154,283RefSeq:NZ_FOZU01000022
NZ_FOZU0100002346431252,786RefSeq:NZ_FOZU01000023
NZ_FOZU0100002446420448,627RefSeq:NZ_FOZU01000024
NZ_FOZU0100002554480647,708RefSeq:NZ_FOZU01000025
NZ_FOZU0100002634320246,265RefSeq:NZ_FOZU01000026
NZ_FOZU0100002717160145,034RefSeq:NZ_FOZU01000027
NZ_FOZU0100002840352343,805RefSeq:NZ_FOZU01000028
NZ_FOZU01000029433001343,044RefSeq:NZ_FOZU01000029
NZ_FOZU0100003025200541,683RefSeq:NZ_FOZU01000030
NZ_FOZU0100003138380039,355RefSeq:NZ_FOZU01000031
NZ_FOZU0100003233281437,328RefSeq:NZ_FOZU01000032
NZ_FOZU0100003343420133,565RefSeq:NZ_FOZU01000033
NZ_FOZU0100003425231132,077RefSeq:NZ_FOZU01000034
NZ_FOZU0100003533300329,784RefSeq:NZ_FOZU01000035
NZ_FOZU0100003634300429,508RefSeq:NZ_FOZU01000036
NZ_FOZU0100003735330229,368RefSeq:NZ_FOZU01000037
NZ_FOZU0100003820200025,102RefSeq:NZ_FOZU01000038
NZ_FOZU0100003920190125,075RefSeq:NZ_FOZU01000039
NZ_FOZU0100004023220124,753RefSeq:NZ_FOZU01000040
NZ_FOZU0100004119150420,645RefSeq:NZ_FOZU01000041
NZ_FOZU0100004222220020,310RefSeq:NZ_FOZU01000042
NZ_FOZU0100004316140220,203RefSeq:NZ_FOZU01000043
NZ_FOZU0100004419160320,014RefSeq:NZ_FOZU01000044
NZ_FOZU0100004515130218,813RefSeq:NZ_FOZU01000045
NZ_FOZU0100004617160117,678RefSeq:NZ_FOZU01000046
NZ_FOZU0100004715120316,164RefSeq:NZ_FOZU01000047
NZ_FOZU0100004815150014,773RefSeq:NZ_FOZU01000048
NZ_FOZU0100004923210214,743RefSeq:NZ_FOZU01000049
NZ_FOZU0100005015140114,523RefSeq:NZ_FOZU01000050
NZ_FOZU0100005112110112,887RefSeq:NZ_FOZU01000051
NZ_FOZU0100005214120212,701RefSeq:NZ_FOZU01000052
NZ_FOZU0100005416150111,580RefSeq:NZ_FOZU01000054
NZ_FOZU0100005524221111,344RefSeq:NZ_FOZU01000055
NZ_FOZU010000621111007,084RefSeq:NZ_FOZU01000062
49 Undisplayed Contigs/Replicons167161648188,992
Total:3,6013,324791983,728,357
Ortholog data available?Yes
Database Contents
Genes3,601
Pathways252
Enzymatic Reactions1,246
Transport Reactions73
Polypeptides3,339
Protein Complexes40
Enzymes741
Transporters293
Compounds933
Transcription Units2,512
tRNAs72
Protein Features3,906
GO Terms8
Database Version29.0
Sequence SourceGCF_900116265.1
Synonyms Acinetobacter pakistanensis
Acinetobacter sp. ANC 4253
Acinetobacter sp. ANC 4278
Acinetobacter sp. NCCP-644
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter bohemicus
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN05444586
NCBI BioProjectPRJNA224116
NCBI-Taxonomy1435036
Annotation ProviderNCBI RefSeq
Annotation Date2020-05-18
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version4.11
Annotation CommentBest-placed reference protein set; GeneMarkS-2+

References

Caspi20: Caspi R, Billington R, Keseler IM, Kothari A, Krummenacker M, Midford PE, Ong WK, Paley S, Subhraveti P, Karp PD (2020). "The MetaCyc database of metabolic pathways and enzymes - a 2019 update." Nucleic Acids Res 48(D1);D445-D453. PMID: 31586394

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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