Summary of Actinoplanes rectilineatus NRRL B-16090, version 29.0

Tier 3 Uncurated Organism Database

Database Authors

Pallavi Subhraveti¹, Peter Midford¹, Ingrid Keseler¹, Anamika Kothari¹, Ron Caspi¹, Peter D Karp¹

Summary

This Pathway/Genome Database (PGDB) was generated on 25-Oct-2020 from the annotated genome of Actinoplanes rectilineatus NRRL B-16090, 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 24.5) [Karp16, Karp11] using MetaCyc version 24.1 [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_JZKF01000001	265	258	0	7	316,289	RefSeq:NZ_JZKF01000001
NZ_JZKF01000002	239	234	0	5	294,612	RefSeq:NZ_JZKF01000002
NZ_JZKF01000003	245	238	3	4	246,138	RefSeq:NZ_JZKF01000003
NZ_JZKF01000004	222	214	1	7	239,674	RefSeq:NZ_JZKF01000004
NZ_JZKF01000005	231	228	1	2	237,601	RefSeq:NZ_JZKF01000005
NZ_JZKF01000006	350	345	1	4	237,090	RefSeq:NZ_JZKF01000006
NZ_JZKF01000007	201	198	0	3	225,675	RefSeq:NZ_JZKF01000007
NZ_JZKF01000008	194	189	1	4	209,362	RefSeq:NZ_JZKF01000008
NZ_JZKF01000009	177	176	0	1	203,381	RefSeq:NZ_JZKF01000009
NZ_JZKF01000010	143	134	0	9	166,814	RefSeq:NZ_JZKF01000010
NZ_JZKF01000011	147	144	0	3	166,803	RefSeq:NZ_JZKF01000011
NZ_JZKF01000012	152	146	0	6	158,853	RefSeq:NZ_JZKF01000012
NZ_JZKF01000013	141	140	0	1	156,524	RefSeq:NZ_JZKF01000013
NZ_JZKF01000014	133	119	9	5	147,707	RefSeq:NZ_JZKF01000014
NZ_JZKF01000015	146	139	4	3	146,551	RefSeq:NZ_JZKF01000015
NZ_JZKF01000016	124	121	2	1	146,158	RefSeq:NZ_JZKF01000016
NZ_JZKF01000017	142	133	5	4	145,680	RefSeq:NZ_JZKF01000017
NZ_JZKF01000018	142	138	1	3	143,047	RefSeq:NZ_JZKF01000018
NZ_JZKF01000019	103	99	1	3	136,826	RefSeq:NZ_JZKF01000019
NZ_JZKF01000020	124	119	0	5	136,594	RefSeq:NZ_JZKF01000020
NZ_JZKF01000021	122	121	1	0	131,727	RefSeq:NZ_JZKF01000021
NZ_JZKF01000022	108	106	0	2	126,228	RefSeq:NZ_JZKF01000022
NZ_JZKF01000023	111	102	2	7	124,363	RefSeq:NZ_JZKF01000023
NZ_JZKF01000024	123	119	0	4	123,769	RefSeq:NZ_JZKF01000024
NZ_JZKF01000025	104	100	2	2	121,035	RefSeq:NZ_JZKF01000025
NZ_JZKF01000026	109	106	0	3	120,140	RefSeq:NZ_JZKF01000026
NZ_JZKF01000027	112	110	0	2	119,654	RefSeq:NZ_JZKF01000027
NZ_JZKF01000028	104	101	1	2	114,117	RefSeq:NZ_JZKF01000028
NZ_JZKF01000029	110	108	0	2	113,788	RefSeq:NZ_JZKF01000029
NZ_JZKF01000030	78	78	0	0	101,909	RefSeq:NZ_JZKF01000030
NZ_JZKF01000031	89	87	1	1	100,182	RefSeq:NZ_JZKF01000031
NZ_JZKF01000032	76	75	0	1	97,803	RefSeq:NZ_JZKF01000032
NZ_JZKF01000033	90	89	0	1	97,556	RefSeq:NZ_JZKF01000033
NZ_JZKF01000034	88	85	0	3	97,313	RefSeq:NZ_JZKF01000034
NZ_JZKF01000035	84	83	0	1	89,453	RefSeq:NZ_JZKF01000035
NZ_JZKF01000036	74	70	1	3	88,338	RefSeq:NZ_JZKF01000036
NZ_JZKF01000037	80	79	0	1	86,230	RefSeq:NZ_JZKF01000037
NZ_JZKF01000038	93	88	3	2	85,878	RefSeq:NZ_JZKF01000038
NZ_JZKF01000039	57	54	0	3	80,745	RefSeq:NZ_JZKF01000039
NZ_JZKF01000040	75	73	0	2	80,540	RefSeq:NZ_JZKF01000040
NZ_JZKF01000041	86	84	0	2	80,470	RefSeq:NZ_JZKF01000041
NZ_JZKF01000042	70	70	0	0	80,218	RefSeq:NZ_JZKF01000042
NZ_JZKF01000043	96	92	4	0	78,808	RefSeq:NZ_JZKF01000043
NZ_JZKF01000044	74	68	1	5	78,757	RefSeq:NZ_JZKF01000044
NZ_JZKF01000045	79	73	3	3	77,920	RefSeq:NZ_JZKF01000045
NZ_JZKF01000046	58	57	0	1	74,281	RefSeq:NZ_JZKF01000046
NZ_JZKF01000047	68	62	0	6	72,941	RefSeq:NZ_JZKF01000047
NZ_JZKF01000048	52	49	1	2	71,351	RefSeq:NZ_JZKF01000048
NZ_JZKF01000049	54	54	0	0	70,647	RefSeq:NZ_JZKF01000049
NZ_JZKF01000050	74	73	0	1	68,908	RefSeq:NZ_JZKF01000050
NZ_JZKF01000051	48	45	0	3	66,599	RefSeq:NZ_JZKF01000051
NZ_JZKF01000052	46	43	0	3	65,921	RefSeq:NZ_JZKF01000052
NZ_JZKF01000053	46	46	0	0	63,496	RefSeq:NZ_JZKF01000053
NZ_JZKF01000054	45	42	1	2	62,894	RefSeq:NZ_JZKF01000054
NZ_JZKF01000055	57	56	0	1	62,826	RefSeq:NZ_JZKF01000055
NZ_JZKF01000056	39	39	0	0	59,155	RefSeq:NZ_JZKF01000056
NZ_JZKF01000057	53	51	0	2	58,971	RefSeq:NZ_JZKF01000057
NZ_JZKF01000058	47	47	0	0	58,191	RefSeq:NZ_JZKF01000058
NZ_JZKF01000059	46	46	0	0	58,089	RefSeq:NZ_JZKF01000059
NZ_JZKF01000060	47	45	0	2	56,364	RefSeq:NZ_JZKF01000060
NZ_JZKF01000061	45	45	0	0	55,692	RefSeq:NZ_JZKF01000061
NZ_JZKF01000062	60	57	0	3	53,976	RefSeq:NZ_JZKF01000062
NZ_JZKF01000063	45	42	0	3	52,931	RefSeq:NZ_JZKF01000063
NZ_JZKF01000064	43	42	0	1	52,740	RefSeq:NZ_JZKF01000064
NZ_JZKF01000065	49	49	0	0	50,560	RefSeq:NZ_JZKF01000065
NZ_JZKF01000066	36	35	0	1	50,233	RefSeq:NZ_JZKF01000066
NZ_JZKF01000067	47	47	0	0	49,002	RefSeq:NZ_JZKF01000067
NZ_JZKF01000068	39	38	0	1	48,429	RefSeq:NZ_JZKF01000068
NZ_JZKF01000069	36	35	0	1	48,148	RefSeq:NZ_JZKF01000069
NZ_JZKF01000070	67	64	1	2	48,127	RefSeq:NZ_JZKF01000070
NZ_JZKF01000071	44	43	1	0	47,934	RefSeq:NZ_JZKF01000071
NZ_JZKF01000072	36	35	0	1	47,732	RefSeq:NZ_JZKF01000072
NZ_JZKF01000073	42	40	0	2	46,703	RefSeq:NZ_JZKF01000073
NZ_JZKF01000074	34	33	0	1	45,648	RefSeq:NZ_JZKF01000074
NZ_JZKF01000075	49	47	1	1	45,208	RefSeq:NZ_JZKF01000075
NZ_JZKF01000076	39	36	0	3	43,760	RefSeq:NZ_JZKF01000076
NZ_JZKF01000077	35	34	0	1	43,034	RefSeq:NZ_JZKF01000077
NZ_JZKF01000078	41	41	0	0	42,529	RefSeq:NZ_JZKF01000078
NZ_JZKF01000079	38	36	0	2	41,959	RefSeq:NZ_JZKF01000079
NZ_JZKF01000080	34	34	0	0	41,470	RefSeq:NZ_JZKF01000080
NZ_JZKF01000081	43	42	0	1	41,294	RefSeq:NZ_JZKF01000081
NZ_JZKF01000082	37	35	0	2	41,015	RefSeq:NZ_JZKF01000082
NZ_JZKF01000083	34	33	0	1	39,825	RefSeq:NZ_JZKF01000083
NZ_JZKF01000084	30	30	0	0	39,682	RefSeq:NZ_JZKF01000084
NZ_JZKF01000085	30	29	0	1	39,261	RefSeq:NZ_JZKF01000085
NZ_JZKF01000086	40	37	0	3	39,089	RefSeq:NZ_JZKF01000086
NZ_JZKF01000087	34	33	0	1	38,675	RefSeq:NZ_JZKF01000087
NZ_JZKF01000088	29	28	1	0	38,674	RefSeq:NZ_JZKF01000088
NZ_JZKF01000089	21	19	0	2	38,152	RefSeq:NZ_JZKF01000089
NZ_JZKF01000090	35	35	0	0	37,697	RefSeq:NZ_JZKF01000090
NZ_JZKF01000091	32	28	4	0	37,108	RefSeq:NZ_JZKF01000091
NZ_JZKF01000092	32	29	0	3	36,182	RefSeq:NZ_JZKF01000092
NZ_JZKF01000093	34	31	3	0	35,061	RefSeq:NZ_JZKF01000093
NZ_JZKF01000094	25	23	0	2	34,727	RefSeq:NZ_JZKF01000094
NZ_JZKF01000095	20	18	0	2	34,303	RefSeq:NZ_JZKF01000095
NZ_JZKF01000096	33	33	0	0	33,173	RefSeq:NZ_JZKF01000096
NZ_JZKF01000097	30	29	0	1	32,643	RefSeq:NZ_JZKF01000097
NZ_JZKF01000098	31	30	0	1	32,371	RefSeq:NZ_JZKF01000098
NZ_JZKF01000099	32	31	0	1	32,169	RefSeq:NZ_JZKF01000099
NZ_JZKF01000100	41	40	0	1	32,002	RefSeq:NZ_JZKF01000100
NZ_JZKF01000101	25	22	0	3	29,908	RefSeq:NZ_JZKF01000101
NZ_JZKF01000102	30	26	1	3	29,608	RefSeq:NZ_JZKF01000102
NZ_JZKF01000103	30	24	0	6	29,489	RefSeq:NZ_JZKF01000103
NZ_JZKF01000104	34	31	0	3	29,068	RefSeq:NZ_JZKF01000104
NZ_JZKF01000105	28	27	1	0	29,019	RefSeq:NZ_JZKF01000105
NZ_JZKF01000106	27	25	0	2	27,780	RefSeq:NZ_JZKF01000106
NZ_JZKF01000107	18	16	0	2	27,070	RefSeq:NZ_JZKF01000107
NZ_JZKF01000108	29	26	2	1	26,931	RefSeq:NZ_JZKF01000108
NZ_JZKF01000109	27	26	0	1	26,879	RefSeq:NZ_JZKF01000109
NZ_JZKF01000110	23	22	1	0	26,711	RefSeq:NZ_JZKF01000110
NZ_JZKF01000111	29	27	0	2	26,436	RefSeq:NZ_JZKF01000111
NZ_JZKF01000112	14	14	0	0	26,388	RefSeq:NZ_JZKF01000112
NZ_JZKF01000113	25	25	0	0	25,677	RefSeq:NZ_JZKF01000113
NZ_JZKF01000114	23	20	2	1	24,566	RefSeq:NZ_JZKF01000114
NZ_JZKF01000115	23	22	0	1	24,502	RefSeq:NZ_JZKF01000115
NZ_JZKF01000116	20	19	0	1	23,783	RefSeq:NZ_JZKF01000116
NZ_JZKF01000117	25	24	0	1	23,402	RefSeq:NZ_JZKF01000117
NZ_JZKF01000118	23	21	0	2	23,249	RefSeq:NZ_JZKF01000118
NZ_JZKF01000119	12	11	0	1	23,207	RefSeq:NZ_JZKF01000119
NZ_JZKF01000120	18	18	0	0	22,975	RefSeq:NZ_JZKF01000120
NZ_JZKF01000121	20	18	0	2	22,888	RefSeq:NZ_JZKF01000121
NZ_JZKF01000122	25	25	0	0	21,986	RefSeq:NZ_JZKF01000122
NZ_JZKF01000123	25	24	0	1	21,813	RefSeq:NZ_JZKF01000123
NZ_JZKF01000124	16	16	0	0	21,508	RefSeq:NZ_JZKF01000124
NZ_JZKF01000125	19	18	0	1	21,180	RefSeq:NZ_JZKF01000125
NZ_JZKF01000126	16	15	1	0	20,762	RefSeq:NZ_JZKF01000126
NZ_JZKF01000127	24	22	0	2	20,410	RefSeq:NZ_JZKF01000127
NZ_JZKF01000128	18	18	0	0	19,884	RefSeq:NZ_JZKF01000128
NZ_JZKF01000129	22	21	0	1	19,022	RefSeq:NZ_JZKF01000129
NZ_JZKF01000130	21	20	0	1	18,834	RefSeq:NZ_JZKF01000130
NZ_JZKF01000131	14	12	0	2	18,821	RefSeq:NZ_JZKF01000131
NZ_JZKF01000132	20	18	1	1	18,137	RefSeq:NZ_JZKF01000132
NZ_JZKF01000133	12	12	0	0	17,696	RefSeq:NZ_JZKF01000133
NZ_JZKF01000134	15	14	0	1	15,402	RefSeq:NZ_JZKF01000134
NZ_JZKF01000135	13	13	0	0	15,161	RefSeq:NZ_JZKF01000135
NZ_JZKF01000136	13	12	0	1	14,902	RefSeq:NZ_JZKF01000136
NZ_JZKF01000137	12	12	0	0	13,988	RefSeq:NZ_JZKF01000137
NZ_JZKF01000138	13	13	0	0	13,900	RefSeq:NZ_JZKF01000138
NZ_JZKF01000142	14	13	0	1	12,217	RefSeq:NZ_JZKF01000142
NZ_JZKF01000143	13	12	0	1	12,137	RefSeq:NZ_JZKF01000143
172 Undisplayed Contigs/Replicons	289	282	20	61	415,128

Total:	9,386	8,990	90	306	10,320,296

Ortholog data available?	Yes

Database Contents

Genes	9,373
Pathways	285
Enzymatic Reactions	1,441
Transport Reactions	63
Polypeptides	9,097
Protein Complexes	63
Enzymes	1,091
Transporters	744
Compounds	1,069
Transcription Units	6,412
tRNAs	73
Protein Features	9,769

Database Version

29.0

Sequence Source	GCF_000962825.1
Taxonomic Lineage	cellular organisms Bacteria <bacteria> Terrabacteria group Actinomycetota Actinomycetes Micromonosporales Micromonosporaceae Actinoplanes Actinoplanes rectilineatus
Genetic Code Number	11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLE	SAMN03327476
NCBI BioProject	PRJNA224116
NCBI-Taxonomy	113571
Environment	garden soil
Geographic Location	USA
Annotation Provider	NCBI RefSeq
Annotation Date	2020-05-8
Annotation Pipeline	NCBI Prokaryotic Genome Annotation Pipeline (PGAP)
Annotation Pipeline Version	4.11
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, BIOCYC18A.

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