Summary of Acinetobacter bereziniae LMG 1003, 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 bereziniae LMG 1003, 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_AIEI01000001	160	146	1	13	180,571	RefSeq:NZ_AIEI01000001
NZ_AIEI01000002	148	135	6	7	123,750	RefSeq:NZ_AIEI01000002
NZ_AIEI01000003	116	107	2	7	112,445	RefSeq:NZ_AIEI01000003
NZ_AIEI01000004	115	106	6	3	108,144	RefSeq:NZ_AIEI01000004
NZ_AIEI01000005	95	87	2	6	95,853	RefSeq:NZ_AIEI01000005
NZ_AIEI01000006	88	86	0	2	93,636	RefSeq:NZ_AIEI01000006
NZ_AIEI01000007	85	80	2	3	92,284	RefSeq:NZ_AIEI01000007
NZ_AIEI01000008	95	88	4	3	92,042	RefSeq:NZ_AIEI01000008
NZ_AIEI01000009	82	72	2	8	89,213	RefSeq:NZ_AIEI01000009
NZ_AIEI01000010	77	72	1	4	88,846	RefSeq:NZ_AIEI01000010
NZ_AIEI01000011	84	77	1	6	85,649	RefSeq:NZ_AIEI01000011
NZ_AIEI01000012	87	80	6	1	83,799	RefSeq:NZ_AIEI01000012
NZ_AIEI01000013	76	71	1	4	80,553	RefSeq:NZ_AIEI01000013
NZ_AIEI01000014	70	62	0	8	79,042	RefSeq:NZ_AIEI01000014
NZ_AIEI01000015	60	54	0	6	65,543	RefSeq:NZ_AIEI01000015
NZ_AIEI01000016	57	52	0	5	65,350	RefSeq:NZ_AIEI01000016
NZ_AIEI01000017	54	50	3	1	58,803	RefSeq:NZ_AIEI01000017
NZ_AIEI01000018	53	51	1	1	52,512	RefSeq:NZ_AIEI01000018
NZ_AIEI01000019	41	41	0	0	51,680	RefSeq:NZ_AIEI01000019
NZ_AIEI01000020	51	48	0	3	50,497	RefSeq:NZ_AIEI01000020
NZ_AIEI01000021	46	41	0	5	49,261	RefSeq:NZ_AIEI01000021
NZ_AIEI01000022	45	40	0	5	49,044	RefSeq:NZ_AIEI01000022
NZ_AIEI01000023	47	38	4	5	48,626	RefSeq:NZ_AIEI01000023
NZ_AIEI01000024	40	38	0	2	47,401	RefSeq:NZ_AIEI01000024
NZ_AIEI01000025	40	37	0	3	46,438	RefSeq:NZ_AIEI01000025
NZ_AIEI01000026	42	41	0	1	46,119	RefSeq:NZ_AIEI01000026
NZ_AIEI01000027	54	51	0	3	45,001	RefSeq:NZ_AIEI01000027
NZ_AIEI01000028	35	29	1	5	43,998	RefSeq:NZ_AIEI01000028
NZ_AIEI01000029	45	36	0	9	42,817	RefSeq:NZ_AIEI01000029
NZ_AIEI01000030	34	29	0	5	39,649	RefSeq:NZ_AIEI01000030
NZ_AIEI01000031	46	43	0	3	39,237	RefSeq:NZ_AIEI01000031
NZ_AIEI01000032	43	42	0	1	38,740	RefSeq:NZ_AIEI01000032
NZ_AIEI01000033	39	35	0	4	38,510	RefSeq:NZ_AIEI01000033
NZ_AIEI01000034	32	30	0	2	38,261	RefSeq:NZ_AIEI01000034
NZ_AIEI01000035	33	30	2	1	37,884	RefSeq:NZ_AIEI01000035
NZ_AIEI01000036	36	33	1	2	37,831	RefSeq:NZ_AIEI01000036
NZ_AIEI01000037	37	32	0	5	36,900	RefSeq:NZ_AIEI01000037
NZ_AIEI01000038	37	28	6	3	36,623	RefSeq:NZ_AIEI01000038
NZ_AIEI01000039	25	20	0	5	34,911	RefSeq:NZ_AIEI01000039
NZ_AIEI01000040	39	32	0	7	34,864	RefSeq:NZ_AIEI01000040
NZ_AIEI01000041	27	23	0	4	34,036	RefSeq:NZ_AIEI01000041
NZ_AIEI01000042	18	18	0	0	33,055	RefSeq:NZ_AIEI01000042
NZ_AIEI01000043	39	34	0	5	31,660	RefSeq:NZ_AIEI01000043
NZ_AIEI01000044	35	31	0	4	30,975	RefSeq:NZ_AIEI01000044
NZ_AIEI01000045	29	29	0	0	30,841	RefSeq:NZ_AIEI01000045
NZ_AIEI01000046	29	28	0	1	30,541	RefSeq:NZ_AIEI01000046
NZ_AIEI01000047	26	24	0	2	30,040	RefSeq:NZ_AIEI01000047
NZ_AIEI01000048	13	11	0	2	30,021	RefSeq:NZ_AIEI01000048
NZ_AIEI01000049	28	26	0	2	29,918	RefSeq:NZ_AIEI01000049
NZ_AIEI01000050	22	21	0	1	29,867	RefSeq:NZ_AIEI01000050
NZ_AIEI01000051	22	16	1	5	29,839	RefSeq:NZ_AIEI01000051
NZ_AIEI01000052	27	21	3	3	28,904	RefSeq:NZ_AIEI01000052
NZ_AIEI01000053	37	32	0	5	28,893	RefSeq:NZ_AIEI01000053
NZ_AIEI01000054	21	18	0	3	28,807	RefSeq:NZ_AIEI01000054
NZ_AIEI01000055	27	24	0	3	28,003	RefSeq:NZ_AIEI01000055
NZ_AIEI01000056	25	24	0	1	27,379	RefSeq:NZ_AIEI01000056
NZ_AIEI01000057	26	23	2	1	25,658	RefSeq:NZ_AIEI01000057
NZ_AIEI01000058	27	27	0	0	25,206	RefSeq:NZ_AIEI01000058
NZ_AIEI01000059	23	16	0	7	25,186	RefSeq:NZ_AIEI01000059
NZ_AIEI01000060	25	21	0	4	25,157	RefSeq:NZ_AIEI01000060
NZ_AIEI01000061	21	19	0	2	24,776	RefSeq:NZ_AIEI01000061
NZ_AIEI01000062	19	15	0	4	23,412	RefSeq:NZ_AIEI01000062
NZ_AIEI01000063	23	20	0	3	22,578	RefSeq:NZ_AIEI01000063
NZ_AIEI01000064	22	20	0	2	22,465	RefSeq:NZ_AIEI01000064
NZ_AIEI01000065	25	24	0	1	22,126	RefSeq:NZ_AIEI01000065
NZ_AIEI01000066	28	25	0	3	21,661	RefSeq:NZ_AIEI01000066
NZ_AIEI01000067	22	19	0	3	21,554	RefSeq:NZ_AIEI01000067
NZ_AIEI01000068	18	13	0	5	21,255	RefSeq:NZ_AIEI01000068
NZ_AIEI01000069	27	26	0	1	21,087	RefSeq:NZ_AIEI01000069
NZ_AIEI01000070	18	16	1	1	21,012	RefSeq:NZ_AIEI01000070
NZ_AIEI01000071	15	12	0	3	20,898	RefSeq:NZ_AIEI01000071
NZ_AIEI01000072	23	18	1	4	20,856	RefSeq:NZ_AIEI01000072
NZ_AIEI01000073	23	19	1	3	20,295	RefSeq:NZ_AIEI01000073
NZ_AIEI01000074	14	11	0	3	20,053	RefSeq:NZ_AIEI01000074
NZ_AIEI01000075	14	13	0	1	20,029	RefSeq:NZ_AIEI01000075
NZ_AIEI01000076	17	16	0	1	19,884	RefSeq:NZ_AIEI01000076
NZ_AIEI01000077	18	16	0	2	19,564	RefSeq:NZ_AIEI01000077
NZ_AIEI01000078	17	17	0	0	19,248	RefSeq:NZ_AIEI01000078
NZ_AIEI01000079	21	19	0	2	18,733	RefSeq:NZ_AIEI01000079
NZ_AIEI01000080	12	12	0	0	18,531	RefSeq:NZ_AIEI01000080
NZ_AIEI01000081	13	12	0	1	18,393	RefSeq:NZ_AIEI01000081
NZ_AIEI01000082	17	15	0	2	18,089	RefSeq:NZ_AIEI01000082
NZ_AIEI01000083	31	26	0	5	17,842	RefSeq:NZ_AIEI01000083
NZ_AIEI01000084	13	13	0	0	17,459	RefSeq:NZ_AIEI01000084
NZ_AIEI01000085	22	19	0	3	17,197	RefSeq:NZ_AIEI01000085
NZ_AIEI01000086	16	13	0	3	17,124	RefSeq:NZ_AIEI01000086
NZ_AIEI01000087	23	21	0	2	16,977	RefSeq:NZ_AIEI01000087
NZ_AIEI01000088	27	24	0	3	16,597	RefSeq:NZ_AIEI01000088
NZ_AIEI01000089	12	11	0	1	16,281	RefSeq:NZ_AIEI01000089
NZ_AIEI01000090	12	12	0	0	15,439	RefSeq:NZ_AIEI01000090
NZ_AIEI01000091	17	15	0	2	15,410	RefSeq:NZ_AIEI01000091
NZ_AIEI01000092	15	13	0	2	14,846	RefSeq:NZ_AIEI01000092
NZ_AIEI01000093	22	20	0	2	14,719	RefSeq:NZ_AIEI01000093
NZ_AIEI01000094	14	12	0	2	14,614	RefSeq:NZ_AIEI01000094
NZ_AIEI01000096	15	11	2	2	14,439	RefSeq:NZ_AIEI01000096
NZ_AIEI01000097	17	14	0	3	14,155	RefSeq:NZ_AIEI01000097
NZ_AIEI01000098	12	11	1	0	13,996	RefSeq:NZ_AIEI01000098
NZ_AIEI01000099	12	11	0	1	13,904	RefSeq:NZ_AIEI01000099
NZ_AIEI01000100	23	23	0	0	13,784	RefSeq:NZ_AIEI01000100
NZ_AIEI01000102	21	19	0	2	13,163	RefSeq:NZ_AIEI01000102
NZ_AIEI01000103	12	11	0	1	12,695	RefSeq:NZ_AIEI01000103
NZ_AIEI01000104	12	9	0	3	12,531	RefSeq:NZ_AIEI01000104
NZ_AIEI01000105	13	12	0	1	12,447	RefSeq:NZ_AIEI01000105
NZ_AIEI01000106	15	12	0	3	12,415	RefSeq:NZ_AIEI01000106
NZ_AIEI01000108	14	13	0	1	11,442	RefSeq:NZ_AIEI01000108
NZ_AIEI01000109	14	12	0	2	11,439	RefSeq:NZ_AIEI01000109
NZ_AIEI01000111	11	9	0	2	11,137	RefSeq:NZ_AIEI01000111
NZ_AIEI01000115	12	9	0	3	10,748	RefSeq:NZ_AIEI01000115
NZ_AIEI01000122	17	12	1	4	9,853	RefSeq:NZ_AIEI01000122
NZ_AIEI01000123	13	10	0	3	9,696	RefSeq:NZ_AIEI01000123
NZ_AIEI01000127	12	6	3	3	9,446	RefSeq:NZ_AIEI01000127
NZ_AIEI01000130	13	9	0	4	9,288	RefSeq:NZ_AIEI01000130
NZ_AIEI01000132	15	14	0	1	9,048	RefSeq:NZ_AIEI01000132
259 Undisplayed Contigs/Replicons	692	677	17	301	933,056

Total:	4,934	4,217	85	632	4,975,999

Ortholog data available?	Yes

Database Contents

Genes	4,930
Pathways	214
Enzymatic Reactions	1,320
Transport Reactions	79
Polypeptides	4,305
Protein Complexes	37
Enzymes	731
Transporters	337
Compounds	1,091
Transcription Units	3,691
tRNAs	68
GO Terms	6,105

Database Version

29.0

Synonyms	Acinetobacter bereziniae CIP 70.12 Acinetobacter bereziniae CIP 70.12 = LMG 1003 Acinetobacter bereziniae LMG 1003 Acinetobacter bereziniae LMG 1003 = CIP 70.12
Taxonomic Lineage	cellular organisms Bacteria <bacteria> Pseudomonadota Gammaproteobacteria Moraxellales Moraxellaceae Acinetobacter Acinetobacter bereziniae Acinetobacter bereziniae LMG 1003 = CIP 70.12
Genetic Code Number	11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLE	SAMN02471592
NCBI BioProject	PRJNA224116
NCBI-Taxonomy	981324
Environment	wound
Collection Date	1966
Host	Homo sapiens
Annotation Provider	NCBI
Annotation Date	2017-05-28
Annotation Pipeline	NCBI Prokaryotic Genome Annotation Pipeline
Annotation Pipeline Version	4.2
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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