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 pittii WC-136, 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_AMST0100007029728836316,908RefSeq:NZ_AMST01000070
NZ_AMST0100004126425383275,134RefSeq:NZ_AMST01000041
NZ_AMST0100001725424662274,217RefSeq:NZ_AMST01000017
NZ_AMST010000452572341013248,342RefSeq:NZ_AMST01000045
NZ_AMST0100000922522005233,802RefSeq:NZ_AMST01000009
NZ_AMST0100000220920108214,898RefSeq:NZ_AMST01000002
NZ_AMST0100005915414824162,301RefSeq:NZ_AMST01000059
NZ_AMST0100012410610204122,917RefSeq:NZ_AMST01000124
NZ_AMST0100011011110902117,029RefSeq:NZ_AMST01000110
NZ_AMST0100004811511104115,354RefSeq:NZ_AMST01000048
NZ_AMST0100008689850499,961RefSeq:NZ_AMST01000086
NZ_AMST0100009896877294,981RefSeq:NZ_AMST01000098
NZ_AMST0100007391862392,830RefSeq:NZ_AMST01000073
NZ_AMST01000097927301989,491RefSeq:NZ_AMST01000097
NZ_AMST0100006479694683,873RefSeq:NZ_AMST01000064
NZ_AMST0100003178761181,156RefSeq:NZ_AMST01000031
NZ_AMST0100010870662275,532RefSeq:NZ_AMST01000108
NZ_AMST0100011178724274,910RefSeq:NZ_AMST01000111
NZ_AMST0100006263570671,758RefSeq:NZ_AMST01000062
NZ_AMST0100013086801571,620RefSeq:NZ_AMST01000130
NZ_AMST0100011674730167,988RefSeq:NZ_AMST01000116
NZ_AMST0100011859560361,650RefSeq:NZ_AMST01000118
NZ_AMST0100002956468256,743RefSeq:NZ_AMST01000029
NZ_AMST0100010051471355,869RefSeq:NZ_AMST01000100
NZ_AMST0100012149461254,455RefSeq:NZ_AMST01000121
NZ_AMST0100003456494352,815RefSeq:NZ_AMST01000034
NZ_AMST0100006341380351,044RefSeq:NZ_AMST01000063
NZ_AMST0100000857496248,898RefSeq:NZ_AMST01000008
NZ_AMST0100002456484448,570RefSeq:NZ_AMST01000024
NZ_AMST0100005343391344,090RefSeq:NZ_AMST01000053
NZ_AMST0100003038333243,308RefSeq:NZ_AMST01000030
NZ_AMST0100001843400341,767RefSeq:NZ_AMST01000018
NZ_AMST0100009041381238,730RefSeq:NZ_AMST01000090
NZ_AMST0100002537350238,325RefSeq:NZ_AMST01000025
NZ_AMST0100012840360438,204RefSeq:NZ_AMST01000128
NZ_AMST0100009437340337,668RefSeq:NZ_AMST01000094
NZ_AMST0100006034312132,181RefSeq:NZ_AMST01000060
NZ_AMST0100007933280528,632RefSeq:NZ_AMST01000079
NZ_AMST0100003326230327,035RefSeq:NZ_AMST01000033
NZ_AMST0100008524211221,927RefSeq:NZ_AMST01000085
NZ_AMST0100007617150219,833RefSeq:NZ_AMST01000076
NZ_AMST0100008917150218,888RefSeq:NZ_AMST01000089
NZ_AMST0100004418160218,821RefSeq:NZ_AMST01000044
NZ_AMST0100011920162218,737RefSeq:NZ_AMST01000119
NZ_AMST0100007217160118,214RefSeq:NZ_AMST01000072
NZ_AMST0100003816131216,752RefSeq:NZ_AMST01000038
NZ_AMST0100002016130316,322RefSeq:NZ_AMST01000020
NZ_AMST0100006518180012,898RefSeq:NZ_AMST01000065
NZ_AMST0100013115101410,994RefSeq:NZ_AMST01000131
NZ_AMST0100008713100310,003RefSeq:NZ_AMST01000087
NZ_AMST010000041511049,342RefSeq:NZ_AMST01000004
NZ_AMST010000131312019,166RefSeq:NZ_AMST01000013
NZ_AMST01000117119027,942RefSeq:NZ_AMST01000117
NZ_AMST010001151212006,174RefSeq:NZ_AMST01000115
79 Undisplayed Contigs/Replicons133133091165,245
Total:4,1513,792862734,166,244
Ortholog data available?Yes
Database Contents
Genes4,144
Pathways281
Enzymatic Reactions1,539
Transport Reactions90
Polypeptides3,823
Protein Complexes45
Enzymes805
Transporters366
Compounds1,213
Transcription Units2,933
tRNAs67
GO Terms15,050
Database Version29.0
Synonyms Acinetobacter genomosp. 3
Acinetobacter genosp. 3
Acinetobacter sp. LC510
Acinetobacter sp. NF108343
Acinetobacter sp. WC-136
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter pittii
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN00761240
NCBI BioProjectPRJNA224116
NCBI-Taxonomy48296
Environmenthealth care equipment surface
Geographic LocationIraq
Collection Date2008-01-4
Annotation ProviderNCBI
Annotation Date2018-05-11
Annotation PipelineNCBI Prokaryotic Genome Annotation Pipeline
Annotation Pipeline Version4.5
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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