Summary of Acetobacterium dehalogenans DSM 11527, version 29.0

Tier 3 Uncurated Organism Database

Database Authors

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

Summary

This Pathway/Genome Database (PGDB) was generated on 15-Feb-2020 from the annotated genome of Acetobacterium dehalogenans DSM 11527, 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 24.0) [Karp16, Karp11] using MetaCyc version 23.5 [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

Contig	Total Genes	Protein Genes	RNA Genes	Pseudogenes	Size (bp)	NCBI Link
NZ_KI421448	231	222	4	5	257,362	RefSeq:NZ_KI421448
NZ_AXAC01000003	231	228	1	2	253,641	RefSeq:NZ_AXAC01000003
NZ_AXAC01000004	161	160	0	1	184,961	RefSeq:NZ_AXAC01000004
NZ_AXAC01000005	180	175	2	3	175,293	RefSeq:NZ_AXAC01000005
NZ_AXAC01000006	159	155	0	4	175,183	RefSeq:NZ_AXAC01000006
NZ_AXAC01000007	130	129	1	0	139,411	RefSeq:NZ_AXAC01000007
NZ_AXAC01000008	114	111	0	3	136,468	RefSeq:NZ_AXAC01000008
NZ_KI421451	99	97	0	2	120,216	RefSeq:NZ_KI421451
NZ_AXAC01000011	96	94	1	1	103,567	RefSeq:NZ_AXAC01000011
NZ_AXAC01000012	86	83	2	1	103,543	RefSeq:NZ_AXAC01000012
NZ_AXAC01000013	89	88	0	1	102,560	RefSeq:NZ_AXAC01000013
NZ_AXAC01000014	89	86	0	3	101,573	RefSeq:NZ_AXAC01000014
NZ_AXAC01000015	96	95	0	1	101,185	RefSeq:NZ_AXAC01000015
NZ_AXAC01000016	95	91	1	3	98,579	RefSeq:NZ_AXAC01000016
NZ_AXAC01000017	107	104	2	1	92,965	RefSeq:NZ_AXAC01000017
NZ_AXAC01000018	80	79	1	0	92,941	RefSeq:NZ_AXAC01000018
NZ_AXAC01000019	84	77	5	2	88,447	RefSeq:NZ_AXAC01000019
NZ_KI421449	89	87	1	1	88,227	RefSeq:NZ_KI421449
NZ_AXAC01000022	80	76	3	1	85,178	RefSeq:NZ_AXAC01000022
NZ_AXAC01000023	75	74	1	0	84,903	RefSeq:NZ_AXAC01000023
NZ_AXAC01000024	74	65	7	2	81,606	RefSeq:NZ_AXAC01000024
NZ_AXAC01000025	82	81	0	1	79,729	RefSeq:NZ_AXAC01000025
NZ_AXAC01000026	74	71	0	3	77,417	RefSeq:NZ_AXAC01000026
NZ_AXAC01000027	58	57	0	1	66,524	RefSeq:NZ_AXAC01000027
NZ_AXAC01000028	57	57	0	0	64,674	RefSeq:NZ_AXAC01000028
NZ_AXAC01000029	56	51	0	5	63,548	RefSeq:NZ_AXAC01000029
NZ_AXAC01000030	59	53	4	2	62,363	RefSeq:NZ_AXAC01000030
NZ_AXAC01000031	58	56	1	1	59,992	RefSeq:NZ_AXAC01000031
NZ_AXAC01000032	46	46	0	0	58,770	RefSeq:NZ_AXAC01000032
NZ_AXAC01000033	83	73	9	1	56,460	RefSeq:NZ_AXAC01000033
NZ_AXAC01000034	63	60	0	3	56,305	RefSeq:NZ_AXAC01000034
NZ_AXAC01000035	48	42	5	1	51,064	RefSeq:NZ_AXAC01000035
NZ_AXAC01000036	49	49	0	0	50,029	RefSeq:NZ_AXAC01000036
NZ_AXAC01000037	39	38	1	0	44,195	RefSeq:NZ_AXAC01000037
NZ_AXAC01000038	38	38	0	0	43,967	RefSeq:NZ_AXAC01000038
NZ_AXAC01000041	28	27	0	1	37,366	RefSeq:NZ_AXAC01000041
NZ_KI421450	30	29	1	0	37,310	RefSeq:NZ_KI421450
NZ_AXAC01000042	40	38	0	2	37,236	RefSeq:NZ_AXAC01000042
NZ_AXAC01000043	28	27	0	1	35,128	RefSeq:NZ_AXAC01000043
NZ_AXAC01000044	34	31	1	2	33,712	RefSeq:NZ_AXAC01000044
NZ_AXAC01000045	28	28	0	0	32,737	RefSeq:NZ_AXAC01000045
NZ_AXAC01000047	23	21	0	2	27,289	RefSeq:NZ_AXAC01000047
NZ_AXAC01000046	23	22	0	1	27,155	RefSeq:NZ_AXAC01000046
NZ_AXAC01000048	25	25	0	0	26,677	RefSeq:NZ_AXAC01000048
NZ_AXAC01000049	30	27	1	2	25,607	RefSeq:NZ_AXAC01000049
NZ_AXAC01000050	13	11	0	2	18,410	RefSeq:NZ_AXAC01000050
NZ_AXAC01000051	14	14	0	0	16,778	RefSeq:NZ_AXAC01000051
NZ_AXAC01000052	11	8	0	3	13,323	RefSeq:NZ_AXAC01000052
NZ_AXAC01000053	11	10	0	1	13,197	RefSeq:NZ_AXAC01000053
NZ_AXAC01000055	13	13	0	0	11,331	RefSeq:NZ_AXAC01000055
NZ_AXAC01000056	11	11	0	0	10,481	RefSeq:NZ_AXAC01000056
NZ_AXAC01000059	12	10	1	1	10,118	RefSeq:NZ_AXAC01000059
NZ_AXAC01000061	12	11	0	1	9,405	RefSeq:NZ_AXAC01000061
23 Undisplayed Contigs/Replicons	86	85	1	17	123,966

Total:	3,744	3,596	57	91	4,050,072

Ortholog data available?	Yes

Database Contents

Genes	3,741
Pathways	203
Enzymatic Reactions	1,007
Transport Reactions	66
Polypeptides	3,629
Protein Complexes	39
Enzymes	691
Transporters	365
Compounds	773
Transcription Units	2,346
tRNAs	47
Protein Features	4,726

Database Version

29.0

Sequence Source	GCF_000472665.1
Synonyms	Acetobacterium dehalogenans str. DSM 11527 Acetobacterium dehalogenans strain DSM 11527 Acetobacterium dehalogenans DSM 11527
Taxonomic Lineage	cellular organisms Bacteria <bacteria> Terrabacteria group Bacillota Clostridia Eubacteriales Eubacteriaceae Acetobacterium Acetobacterium dehalogenans Acetobacterium dehalogenans DSM 11527
Genetic Code Number	11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLE	SAMN02440712
NCBI BioProject	PRJNA224116
NCBI-Taxonomy	1068975
Environment	Sludge; Wastewater
Geographic Location	Germany
Annotation Provider	NCBI RefSeq
Annotation Date	2019-12-15
Annotation Pipeline	NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version	4.10
Annotation Comment	Best-placed reference protein set; GeneMarkS-2+
NCBI Genome Type	representative

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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Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC17.

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