Summary of Acinetobacter sp. OIFC021, version 29.0

Tier 3 Uncurated Organism Database

Database Authors

Pallavi Subhraveti¹, Peter Midford, Ingrid Keseler¹, Anamika Kothari¹, Ron Caspi¹, Peter D Karp¹

Summary

This Pathway/Genome Database (PGDB) was generated on 15-Feb-2019 from the annotated genome of Acinetobacter sp. OIFC021 OIFC021, 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

Contig	Total Genes	Protein Genes	RNA Genes	Pseudogenes	Size (bp)	NCBI Link
NZ_AMFR01000043	350	344	1	5	376,844	RefSeq:NZ_AMFR01000043
NZ_AMFR01000082	302	293	5	4	296,688	RefSeq:NZ_AMFR01000082
NZ_AMFR01000059	248	234	10	4	258,002	RefSeq:NZ_AMFR01000059
NZ_AMFR01000029	233	219	5	9	247,314	RefSeq:NZ_AMFR01000029
NZ_AMFR01000099	184	180	2	2	200,041	RefSeq:NZ_AMFR01000099
NZ_AMFR01000045	198	180	13	5	196,204	RefSeq:NZ_AMFR01000045
NZ_AMFR01000088	172	167	2	3	179,433	RefSeq:NZ_AMFR01000088
NZ_AMFR01000104	129	123	0	6	141,588	RefSeq:NZ_AMFR01000104
NZ_AMFR01000001	122	115	0	7	135,538	RefSeq:NZ_AMFR01000001
NZ_AMFR01000089	99	93	4	2	112,265	RefSeq:NZ_AMFR01000089
NZ_AMFR01000004	99	92	4	3	110,358	RefSeq:NZ_AMFR01000004
NZ_AMFR01000046	98	93	2	3	100,105	RefSeq:NZ_AMFR01000046
NZ_AMFR01000107	88	87	1	0	92,397	RefSeq:NZ_AMFR01000107
NZ_AMFR01000058	73	72	0	1	92,250	RefSeq:NZ_AMFR01000058
NZ_AMFR01000020	82	77	2	3	78,360	RefSeq:NZ_AMFR01000020
NZ_AMFR01000064	75	71	4	0	77,965	RefSeq:NZ_AMFR01000064
NZ_AMFR01000077	75	69	4	2	70,977	RefSeq:NZ_AMFR01000077
NZ_AMFR01000049	68	66	0	2	70,775	RefSeq:NZ_AMFR01000049
NZ_AMFR01000032	65	52	0	13	67,688	RefSeq:NZ_AMFR01000032
NZ_AMFR01000039	72	66	1	5	67,119	RefSeq:NZ_AMFR01000039
NZ_AMFR01000072	74	72	1	1	63,497	RefSeq:NZ_AMFR01000072
NZ_AMFR01000103	61	55	3	3	61,635	RefSeq:NZ_AMFR01000103
NZ_AMFR01000030	63	62	0	1	58,878	RefSeq:NZ_AMFR01000030
NZ_AMFR01000041	66	63	3	0	53,951	RefSeq:NZ_AMFR01000041
NZ_AMFR01000021	50	50	0	0	53,577	RefSeq:NZ_AMFR01000021
NZ_AMFR01000070	51	48	1	2	51,658	RefSeq:NZ_AMFR01000070
NZ_AMFR01000035	48	45	3	0	51,241	RefSeq:NZ_AMFR01000035
NZ_AMFR01000051	52	47	0	5	49,001	RefSeq:NZ_AMFR01000051
NZ_AMFR01000055	45	41	0	4	46,985	RefSeq:NZ_AMFR01000055
NZ_AMFR01000002	51	46	0	5	45,149	RefSeq:NZ_AMFR01000002
NZ_AMFR01000017	41	38	0	3	42,081	RefSeq:NZ_AMFR01000017
NZ_AMFR01000086	59	58	0	1	39,381	RefSeq:NZ_AMFR01000086
NZ_AMFR01000078	32	31	0	1	35,804	RefSeq:NZ_AMFR01000078
NZ_AMFR01000087	39	34	4	1	34,892	RefSeq:NZ_AMFR01000087
NZ_AMFR01000013	40	38	1	1	34,590	RefSeq:NZ_AMFR01000013
NZ_AMFR01000057	35	30	1	4	34,131	RefSeq:NZ_AMFR01000057
NZ_AMFR01000094	29	26	0	3	33,775	RefSeq:NZ_AMFR01000094
NZ_AMFR01000010	34	32	2	0	30,307	RefSeq:NZ_AMFR01000010
NZ_AMFR01000005	22	21	0	1	24,434	RefSeq:NZ_AMFR01000005
NZ_AMFR01000050	25	22	1	2	23,607	RefSeq:NZ_AMFR01000050
NZ_AMFR01000008	21	17	0	4	20,537	RefSeq:NZ_AMFR01000008
NZ_AMFR01000079	17	15	0	2	16,126	RefSeq:NZ_AMFR01000079
NZ_AMFR01000098	12	8	0	4	15,535	RefSeq:NZ_AMFR01000098
NZ_AMFR01000108	13	12	0	1	14,405	RefSeq:NZ_AMFR01000108
NZ_AMFR01000092	15	13	0	2	14,213	RefSeq:NZ_AMFR01000092
NZ_AMFR01000015	11	11	0	0	13,804	RefSeq:NZ_AMFR01000015
NZ_AMFR01000105	16	15	0	1	13,358	RefSeq:NZ_AMFR01000105
NZ_AMFR01000073	14	13	0	1	12,752	RefSeq:NZ_AMFR01000073
NZ_AMFR01000093	12	10	0	2	11,475	RefSeq:NZ_AMFR01000093
NZ_AMFR01000016	12	9	0	3	9,862	RefSeq:NZ_AMFR01000016
58 Undisplayed Contigs/Replicons	53	53	1	57	101,513

Total:	4,003	3,728	81	194	4,084,065

Ortholog data available?	Yes

Database Contents

Genes	3,993
Pathways	272
Enzymatic Reactions	1,601
Transport Reactions	9
Polypeptides	3,763
Protein Complexes	33
Enzymes	748
Transporters	377
Compounds	1,271
Transcription Units	2,818
tRNAs	61
GO Terms	790

Database Version

29.0

Taxonomic Lineage	cellular organisms Bacteria <bacteria> Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter calcoaceticus/baumannii complex Acinetobacter sp. OIFC021
Genetic Code Number	11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLE	SAMN00761218
NCBI BioProject	PRJNA224116
NCBI-Taxonomy	903928
Environment	trachea
Geographic Location	USA
Collection Date	2003-07-10
Host	Homo sapiens
Annotation Provider	NCBI
Annotation Date	2017-04-6
Annotation Pipeline	NCBI Prokaryotic Genome Annotation Pipeline
Annotation Pipeline Version	4.1
Annotation Comment	Best-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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Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC18A.

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