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 ABNIH3, 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_AFTB0100022213613303141,872RefSeq:NZ_AFTB01000222
NZ_AFTB0100020412111605133,176RefSeq:NZ_AFTB01000204
NZ_AFTB0100016813613006122,540RefSeq:NZ_AFTB01000168
NZ_AFTB0100002312712601104,098RefSeq:NZ_AFTB01000023
NZ_AFTB0100024875682576,814RefSeq:NZ_AFTB01000248
NZ_AFTB0100016068650375,409RefSeq:NZ_AFTB01000160
NZ_AFTB0100022763601272,839RefSeq:NZ_AFTB01000227
NZ_AFTB0100014166611462,328RefSeq:NZ_AFTB01000141
NZ_AFTB0100022083830061,862RefSeq:NZ_AFTB01000220
NZ_AFTB0100024357540361,398RefSeq:NZ_AFTB01000243
NZ_AFTB0100009746440256,006RefSeq:NZ_AFTB01000097
NZ_AFTB0100005251490253,146RefSeq:NZ_AFTB01000052
NZ_AFTB0100017056491651,603RefSeq:NZ_AFTB01000170
NZ_AFTB0100000149460350,328RefSeq:NZ_AFTB01000001
NZ_AFTB0100001647461050,299RefSeq:NZ_AFTB01000016
NZ_AFTB0100004543410250,216RefSeq:NZ_AFTB01000045
NZ_AFTB0100022450490148,280RefSeq:NZ_AFTB01000224
NZ_AFTB0100020745430247,672RefSeq:NZ_AFTB01000207
NZ_AFTB0100019249460345,987RefSeq:NZ_AFTB01000192
NZ_AFTB0100023144394144,362RefSeq:NZ_AFTB01000231
NZ_AFTB0100018535330244,156RefSeq:NZ_AFTB01000185
NZ_AFTB0100003039380142,418RefSeq:NZ_AFTB01000030
NZ_AFTB0100019351490241,440RefSeq:NZ_AFTB01000193
NZ_AFTB0100018244390540,934RefSeq:NZ_AFTB01000182
NZ_AFTB0100024255530240,824RefSeq:NZ_AFTB01000242
NZ_AFTB0100016735320340,548RefSeq:NZ_AFTB01000167
NZ_AFTB0100000935340140,098RefSeq:NZ_AFTB01000009
NZ_AFTB0100008433310238,791RefSeq:NZ_AFTB01000084
NZ_AFTB0100020536350138,462RefSeq:NZ_AFTB01000205
NZ_AFTB0100005540400038,132RefSeq:NZ_AFTB01000055
NZ_AFTB0100002831300137,989RefSeq:NZ_AFTB01000028
NZ_AFTB0100020643374237,910RefSeq:NZ_AFTB01000206
NZ_AFTB0100024532282236,864RefSeq:NZ_AFTB01000245
NZ_AFTB0100009331290236,288RefSeq:NZ_AFTB01000093
NZ_AFTB0100024136324036,060RefSeq:NZ_AFTB01000241
NZ_AFTB0100025332290335,493RefSeq:NZ_AFTB01000253
NZ_AFTB0100004330300035,290RefSeq:NZ_AFTB01000043
NZ_AFTB0100024634283334,907RefSeq:NZ_AFTB01000246
NZ_AFTB0100001233300334,700RefSeq:NZ_AFTB01000012
NZ_AFTB0100001330263134,438RefSeq:NZ_AFTB01000013
NZ_AFTB0100016534330133,883RefSeq:NZ_AFTB01000165
NZ_AFTB0100020833301233,395RefSeq:NZ_AFTB01000208
NZ_AFTB0100006627222333,048RefSeq:NZ_AFTB01000066
NZ_AFTB0100001728250332,948RefSeq:NZ_AFTB01000017
NZ_AFTB0100005332290332,512RefSeq:NZ_AFTB01000053
NZ_AFTB0100009126260032,120RefSeq:NZ_AFTB01000091
NZ_AFTB0100018430260431,560RefSeq:NZ_AFTB01000184
NZ_AFTB0100017433320131,171RefSeq:NZ_AFTB01000174
NZ_AFTB0100025426250130,626RefSeq:NZ_AFTB01000254
NZ_AFTB0100005426212330,602RefSeq:NZ_AFTB01000054
NZ_AFTB0100003833280530,397RefSeq:NZ_AFTB01000038
NZ_AFTB0100003125220329,551RefSeq:NZ_AFTB01000031
NZ_AFTB0100003233311129,453RefSeq:NZ_AFTB01000032
NZ_AFTB0100022829270228,607RefSeq:NZ_AFTB01000228
NZ_AFTB0100015321200127,304RefSeq:NZ_AFTB01000153
NZ_AFTB0100018124230127,110RefSeq:NZ_AFTB01000181
NZ_AFTB0100014424220225,331RefSeq:NZ_AFTB01000144
NZ_AFTB0100004426240224,692RefSeq:NZ_AFTB01000044
NZ_AFTB0100015927250224,643RefSeq:NZ_AFTB01000159
NZ_AFTB0100012024220223,386RefSeq:NZ_AFTB01000120
NZ_AFTB0100017820190123,235RefSeq:NZ_AFTB01000178
NZ_AFTB0100022320190122,118RefSeq:NZ_AFTB01000223
NZ_AFTB0100002915150021,662RefSeq:NZ_AFTB01000029
NZ_AFTB0100000724211221,341RefSeq:NZ_AFTB01000007
NZ_AFTB0100023418160221,192RefSeq:NZ_AFTB01000234
NZ_AFTB0100004621200121,151RefSeq:NZ_AFTB01000046
NZ_AFTB0100002620180220,870RefSeq:NZ_AFTB01000026
NZ_AFTB0100014018160220,824RefSeq:NZ_AFTB01000140
NZ_AFTB0100008720200020,612RefSeq:NZ_AFTB01000087
NZ_AFTB0100023319180120,142RefSeq:NZ_AFTB01000233
NZ_AFTB0100018829261219,986RefSeq:NZ_AFTB01000188
NZ_AFTB0100014716130319,335RefSeq:NZ_AFTB01000147
NZ_AFTB0100008214101318,005RefSeq:NZ_AFTB01000082
NZ_AFTB0100016916160017,701RefSeq:NZ_AFTB01000169
NZ_AFTB0100018016130317,368RefSeq:NZ_AFTB01000180
NZ_AFTB0100009017170017,314RefSeq:NZ_AFTB01000090
NZ_AFTB0100015817160117,048RefSeq:NZ_AFTB01000158
NZ_AFTB0100022612100216,510RefSeq:NZ_AFTB01000226
NZ_AFTB0100017317170016,285RefSeq:NZ_AFTB01000173
NZ_AFTB0100014220200016,052RefSeq:NZ_AFTB01000142
NZ_AFTB0100014615140115,978RefSeq:NZ_AFTB01000146
NZ_AFTB0100025813120115,955RefSeq:NZ_AFTB01000258
NZ_AFTB0100025014140015,820RefSeq:NZ_AFTB01000250
NZ_AFTB0100018715141015,776RefSeq:NZ_AFTB01000187
NZ_AFTB0100023217160115,691RefSeq:NZ_AFTB01000232
NZ_AFTB0100023013121015,023RefSeq:NZ_AFTB01000230
NZ_AFTB0100009215130215,021RefSeq:NZ_AFTB01000092
NZ_AFTB0100024415150014,511RefSeq:NZ_AFTB01000244
NZ_AFTB0100000811110013,711RefSeq:NZ_AFTB01000008
NZ_AFTB0100008812120013,669RefSeq:NZ_AFTB01000088
NZ_AFTB0100025718170113,660RefSeq:NZ_AFTB01000257
NZ_AFTB0100020313110213,472RefSeq:NZ_AFTB01000203
NZ_AFTB0100021113121012,842RefSeq:NZ_AFTB01000211
NZ_AFTB0100008313110212,762RefSeq:NZ_AFTB01000083
NZ_AFTB0100017516120412,366RefSeq:NZ_AFTB01000175
NZ_AFTB0100002712120012,160RefSeq:NZ_AFTB01000027
NZ_AFTB0100022910100011,784RefSeq:NZ_AFTB01000229
NZ_AFTB0100006018180011,479RefSeq:NZ_AFTB01000060
NZ_AFTB0100025211110010,768RefSeq:NZ_AFTB01000252
NZ_AFTB010001661312019,584RefSeq:NZ_AFTB01000166
NZ_AFTB010001041212005,831RefSeq:NZ_AFTB01000104
184 Undisplayed Contigs/Replicons49948911128628,353
Total:3,9943,644493014,063,283
Ortholog data available?Yes
Database Contents
Genes3,993
Pathways262
Enzymatic Reactions1,302
Transport Reactions113
Polypeptides3,766
Protein Complexes46
Enzymes792
Transporters348
Compounds1,067
Transcription Units2,865
tRNAs42
GO Terms2,125
Database Version29.0
Synonyms Acinetobacter baumannii str. ABNIH3
Acinetobacter baumannii strain ABNIH3
Acinetobacter baumannii ABNIH3
Taxonomic Lineage cellular organisms
Bacteria <bacteria>
Pseudomonadota
Gammaproteobacteria
Moraxellales
Moraxellaceae
Acinetobacter
Acinetobacter calcoaceticus/baumannii complex
Acinetobacter baumannii
Acinetobacter baumannii ABNIH3
Genetic Code Number 11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLESAMN00857859
NCBI BioProjectPRJNA224116
NCBI-Taxonomy992404
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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