Summary of Actinokineospora spheciospongiae EG49, 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 Actinokineospora spheciospongiae EG49, 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_AYXG01000004	193	180	1	12	224,767	RefSeq:NZ_AYXG01000004
NZ_AYXG01000043	185	177	4	4	171,379	RefSeq:NZ_AYXG01000043
NZ_AYXG01000241	150	148	2	0	162,027	RefSeq:NZ_AYXG01000241
NZ_AYXG01000139	83	82	0	1	142,965	RefSeq:NZ_AYXG01000139
NZ_AYXG01000074	129	126	1	2	133,844	RefSeq:NZ_AYXG01000074
NZ_AYXG01000206	50	49	0	1	129,099	RefSeq:NZ_AYXG01000206
NZ_AYXG01000103	121	120	0	1	128,111	RefSeq:NZ_AYXG01000103
NZ_AYXG01000051	117	109	0	8	126,468	RefSeq:NZ_AYXG01000051
NZ_AYXG01000101	76	75	0	1	114,175	RefSeq:NZ_AYXG01000101
NZ_AYXG01000184	89	86	0	3	113,818	RefSeq:NZ_AYXG01000184
NZ_AYXG01000081	105	100	2	3	112,982	RefSeq:NZ_AYXG01000081
NZ_AYXG01000020	80	77	0	3	107,010	RefSeq:NZ_AYXG01000020
NZ_AYXG01000165	99	99	0	0	103,207	RefSeq:NZ_AYXG01000165
NZ_AYXG01000203	92	89	2	1	102,634	RefSeq:NZ_AYXG01000203
NZ_AYXG01000087	74	73	1	0	100,257	RefSeq:NZ_AYXG01000087
NZ_AYXG01000039	73	72	0	1	99,369	RefSeq:NZ_AYXG01000039
NZ_AYXG01000048	90	86	0	4	97,972	RefSeq:NZ_AYXG01000048
NZ_AYXG01000027	64	63	0	1	89,406	RefSeq:NZ_AYXG01000027
NZ_AYXG01000109	64	62	0	2	87,557	RefSeq:NZ_AYXG01000109
NZ_AYXG01000147	85	84	0	1	82,684	RefSeq:NZ_AYXG01000147
NZ_AYXG01000016	59	58	0	1	78,323	RefSeq:NZ_AYXG01000016
NZ_AYXG01000024	66	65	0	1	78,276	RefSeq:NZ_AYXG01000024
NZ_AYXG01000227	87	83	2	2	74,585	RefSeq:NZ_AYXG01000227
NZ_AYXG01000089	73	64	6	3	71,342	RefSeq:NZ_AYXG01000089
NZ_AYXG01000076	62	57	4	1	69,304	RefSeq:NZ_AYXG01000076
NZ_AYXG01000099	64	59	2	3	66,735	RefSeq:NZ_AYXG01000099
NZ_AYXG01000155	57	56	0	1	63,948	RefSeq:NZ_AYXG01000155
NZ_AYXG01000231	55	52	0	3	61,652	RefSeq:NZ_AYXG01000231
NZ_AYXG01000029	30	29	0	1	59,407	RefSeq:NZ_AYXG01000029
NZ_AYXG01000131	51	51	0	0	58,341	RefSeq:NZ_AYXG01000131
NZ_AYXG01000240	61	60	0	1	57,741	RefSeq:NZ_AYXG01000240
NZ_AYXG01000161	46	45	0	1	57,181	RefSeq:NZ_AYXG01000161
NZ_AYXG01000060	43	42	0	1	56,931	RefSeq:NZ_AYXG01000060
NZ_AYXG01000197	50	48	0	2	55,694	RefSeq:NZ_AYXG01000197
NZ_AYXG01000104	39	39	0	0	55,099	RefSeq:NZ_AYXG01000104
NZ_AYXG01000215	51	49	1	1	54,693	RefSeq:NZ_AYXG01000215
NZ_AYXG01000056	44	44	0	0	54,561	RefSeq:NZ_AYXG01000056
NZ_AYXG01000148	53	51	0	2	54,408	RefSeq:NZ_AYXG01000148
NZ_AYXG01000100	46	45	0	1	54,259	RefSeq:NZ_AYXG01000100
NZ_AYXG01000173	52	49	1	2	53,176	RefSeq:NZ_AYXG01000173
NZ_AYXG01000028	53	53	0	0	52,833	RefSeq:NZ_AYXG01000028
NZ_AYXG01000123	58	58	0	0	52,481	RefSeq:NZ_AYXG01000123
NZ_AYXG01000118	47	46	0	1	51,663	RefSeq:NZ_AYXG01000118
NZ_AYXG01000070	41	36	0	5	51,423	RefSeq:NZ_AYXG01000070
NZ_AYXG01000230	50	46	0	4	50,909	RefSeq:NZ_AYXG01000230
NZ_AYXG01000145	38	37	0	1	50,798	RefSeq:NZ_AYXG01000145
NZ_AYXG01000170	55	55	0	0	50,718	RefSeq:NZ_AYXG01000170
NZ_AYXG01000222	47	45	0	2	50,220	RefSeq:NZ_AYXG01000222
NZ_AYXG01000183	51	49	1	1	50,111	RefSeq:NZ_AYXG01000183
NZ_AYXG01000005	41	39	0	2	49,457	RefSeq:NZ_AYXG01000005
NZ_AYXG01000185	48	48	0	0	49,275	RefSeq:NZ_AYXG01000185
NZ_AYXG01000071	46	43	0	3	49,048	RefSeq:NZ_AYXG01000071
NZ_AYXG01000083	34	34	0	0	48,716	RefSeq:NZ_AYXG01000083
NZ_AYXG01000084	32	31	0	1	47,678	RefSeq:NZ_AYXG01000084
NZ_AYXG01000102	48	48	0	0	46,892	RefSeq:NZ_AYXG01000102
NZ_AYXG01000244	39	39	0	0	46,327	RefSeq:NZ_AYXG01000244
NZ_AYXG01000111	47	46	1	0	46,102	RefSeq:NZ_AYXG01000111
NZ_AYXG01000033	40	37	2	1	44,393	RefSeq:NZ_AYXG01000033
NZ_AYXG01000212	39	35	1	3	44,045	RefSeq:NZ_AYXG01000212
NZ_AYXG01000069	44	43	0	1	44,013	RefSeq:NZ_AYXG01000069
NZ_AYXG01000097	38	37	0	1	43,960	RefSeq:NZ_AYXG01000097
NZ_AYXG01000059	37	37	0	0	43,932	RefSeq:NZ_AYXG01000059
NZ_AYXG01000220	42	41	0	1	43,920	RefSeq:NZ_AYXG01000220
NZ_AYXG01000209	40	40	0	0	42,285	RefSeq:NZ_AYXG01000209
NZ_AYXG01000130	35	35	0	0	41,588	RefSeq:NZ_AYXG01000130
NZ_AYXG01000136	38	38	0	0	41,585	RefSeq:NZ_AYXG01000136
NZ_AYXG01000246	24	23	0	1	39,681	RefSeq:NZ_AYXG01000246
NZ_AYXG01000228	34	33	0	1	39,578	RefSeq:NZ_AYXG01000228
NZ_AYXG01000079	39	39	0	0	39,338	RefSeq:NZ_AYXG01000079
NZ_AYXG01000042	33	33	0	0	38,112	RefSeq:NZ_AYXG01000042
NZ_AYXG01000166	30	30	0	0	38,092	RefSeq:NZ_AYXG01000166
NZ_AYXG01000255	31	30	1	0	38,007	RefSeq:NZ_AYXG01000255
NZ_AYXG01000169	35	35	0	0	36,752	RefSeq:NZ_AYXG01000169
NZ_AYXG01000187	32	32	0	0	36,682	RefSeq:NZ_AYXG01000187
NZ_AYXG01000142	29	29	0	0	35,170	RefSeq:NZ_AYXG01000142
NZ_AYXG01000159	28	28	0	0	34,563	RefSeq:NZ_AYXG01000159
NZ_AYXG01000229	26	25	0	1	34,230	RefSeq:NZ_AYXG01000229
NZ_AYXG01000210	30	26	0	4	34,032	RefSeq:NZ_AYXG01000210
NZ_AYXG01000224	40	40	0	0	33,142	RefSeq:NZ_AYXG01000224
NZ_AYXG01000216	29	28	0	1	32,402	RefSeq:NZ_AYXG01000216
NZ_AYXG01000179	32	30	0	2	32,322	RefSeq:NZ_AYXG01000179
NZ_AYXG01000188	32	31	1	0	31,730	RefSeq:NZ_AYXG01000188
NZ_AYXG01000225	31	31	0	0	31,715	RefSeq:NZ_AYXG01000225
NZ_AYXG01000077	30	29	0	1	31,230	RefSeq:NZ_AYXG01000077
NZ_AYXG01000245	24	22	0	2	30,907	RefSeq:NZ_AYXG01000245
NZ_AYXG01000037	22	22	0	0	30,137	RefSeq:NZ_AYXG01000037
NZ_AYXG01000129	24	21	1	2	30,000	RefSeq:NZ_AYXG01000129
NZ_AYXG01000072	26	24	1	1	29,764	RefSeq:NZ_AYXG01000072
NZ_AYXG01000263	30	30	0	0	29,667	RefSeq:NZ_AYXG01000263
NZ_AYXG01000205	31	28	0	3	29,645	RefSeq:NZ_AYXG01000205
NZ_AYXG01000078	30	28	2	0	29,059	RefSeq:NZ_AYXG01000078
NZ_AYXG01000182	26	24	0	2	29,050	RefSeq:NZ_AYXG01000182
NZ_AYXG01000138	25	25	0	0	28,016	RefSeq:NZ_AYXG01000138
NZ_AYXG01000032	23	21	0	2	27,957	RefSeq:NZ_AYXG01000032
NZ_AYXG01000106	24	24	0	0	27,329	RefSeq:NZ_AYXG01000106
NZ_AYXG01000127	30	29	1	0	27,317	RefSeq:NZ_AYXG01000127
NZ_AYXG01000057	25	24	1	0	27,288	RefSeq:NZ_AYXG01000057
NZ_AYXG01000082	20	20	0	0	26,741	RefSeq:NZ_AYXG01000082
NZ_AYXG01000196	23	23	0	0	26,649	RefSeq:NZ_AYXG01000196
NZ_AYXG01000237	35	34	1	0	26,397	RefSeq:NZ_AYXG01000237
NZ_AYXG01000208	20	19	1	0	24,699	RefSeq:NZ_AYXG01000208
NZ_AYXG01000261	21	20	0	1	24,699	RefSeq:NZ_AYXG01000261
NZ_AYXG01000162	21	19	1	1	24,417	RefSeq:NZ_AYXG01000162
NZ_AYXG01000232	19	18	0	1	23,962	RefSeq:NZ_AYXG01000232
NZ_AYXG01000026	23	23	0	0	23,954	RefSeq:NZ_AYXG01000026
NZ_AYXG01000238	18	16	0	2	23,847	RefSeq:NZ_AYXG01000238
NZ_AYXG01000031	24	22	1	1	23,563	RefSeq:NZ_AYXG01000031
NZ_AYXG01000217	16	15	0	1	23,067	RefSeq:NZ_AYXG01000217
NZ_AYXG01000054	23	23	0	0	22,847	RefSeq:NZ_AYXG01000054
NZ_AYXG01000223	21	20	0	1	22,756	RefSeq:NZ_AYXG01000223
NZ_AYXG01000177	24	23	0	1	22,319	RefSeq:NZ_AYXG01000177
NZ_AYXG01000075	26	21	4	1	22,070	RefSeq:NZ_AYXG01000075
NZ_AYXG01000153	19	19	0	0	21,842	RefSeq:NZ_AYXG01000153
NZ_AYXG01000001	23	23	0	0	20,965	RefSeq:NZ_AYXG01000001
NZ_AYXG01000021	19	18	0	1	20,148	RefSeq:NZ_AYXG01000021
NZ_AYXG01000014	18	18	0	0	19,848	RefSeq:NZ_AYXG01000014
NZ_AYXG01000090	21	20	0	1	19,843	RefSeq:NZ_AYXG01000090
NZ_AYXG01000214	16	16	0	0	19,654	RefSeq:NZ_AYXG01000214
NZ_AYXG01000122	20	18	1	1	19,571	RefSeq:NZ_AYXG01000122
NZ_AYXG01000149	20	20	0	0	19,307	RefSeq:NZ_AYXG01000149
NZ_AYXG01000190	23	22	0	1	18,825	RefSeq:NZ_AYXG01000190
NZ_AYXG01000015	14	14	0	0	18,769	RefSeq:NZ_AYXG01000015
NZ_AYXG01000007	13	13	0	0	17,912	RefSeq:NZ_AYXG01000007
NZ_AYXG01000107	19	18	0	1	17,870	RefSeq:NZ_AYXG01000107
NZ_AYXG01000018	17	16	0	1	17,730	RefSeq:NZ_AYXG01000018
NZ_AYXG01000053	17	17	0	0	17,141	RefSeq:NZ_AYXG01000053
NZ_AYXG01000121	17	17	0	0	16,941	RefSeq:NZ_AYXG01000121
NZ_AYXG01000036	11	11	0	0	16,819	RefSeq:NZ_AYXG01000036
NZ_AYXG01000242	18	18	0	0	16,603	RefSeq:NZ_AYXG01000242
NZ_AYXG01000133	15	14	0	1	16,327	RefSeq:NZ_AYXG01000133
NZ_AYXG01000045	18	18	0	0	16,085	RefSeq:NZ_AYXG01000045
NZ_AYXG01000065	15	15	0	0	15,932	RefSeq:NZ_AYXG01000065
NZ_AYXG01000251	16	16	0	0	15,125	RefSeq:NZ_AYXG01000251
NZ_AYXG01000157	13	13	0	0	15,085	RefSeq:NZ_AYXG01000157
NZ_AYXG01000003	12	12	0	0	14,859	RefSeq:NZ_AYXG01000003
NZ_AYXG01000013	11	11	0	0	14,795	RefSeq:NZ_AYXG01000013
NZ_AYXG01000221	13	12	0	1	14,729	RefSeq:NZ_AYXG01000221
NZ_AYXG01000008	14	14	0	0	14,256	RefSeq:NZ_AYXG01000008
NZ_AYXG01000112	13	12	0	1	14,180	RefSeq:NZ_AYXG01000112
NZ_AYXG01000198	14	13	0	1	14,003	RefSeq:NZ_AYXG01000198
NZ_AYXG01000259	12	11	0	1	13,991	RefSeq:NZ_AYXG01000259
NZ_AYXG01000258	11	10	0	1	13,849	RefSeq:NZ_AYXG01000258
NZ_AYXG01000163	13	12	0	1	13,750	RefSeq:NZ_AYXG01000163
NZ_AYXG01000063	12	12	0	0	13,625	RefSeq:NZ_AYXG01000063
NZ_AYXG01000158	12	10	0	2	13,476	RefSeq:NZ_AYXG01000158
NZ_AYXG01000135	15	15	0	0	12,654	RefSeq:NZ_AYXG01000135
NZ_AYXG01000172	13	12	0	1	11,766	RefSeq:NZ_AYXG01000172
NZ_AYXG01000168	12	11	0	1	11,602	RefSeq:NZ_AYXG01000168
NZ_AYXG01000192	13	11	0	2	11,198	RefSeq:NZ_AYXG01000192
NZ_AYXG01000119	12	12	0	0	10,802	RefSeq:NZ_AYXG01000119
NZ_AYXG01000116	14	14	0	0	10,543	RefSeq:NZ_AYXG01000116
112 Undisplayed Contigs/Replicons	430	426	6	22	632,396

Total:	6,527	6,293	57	177	7,529,476

Ortholog data available?	Yes

Database Contents

Genes	6,525
Pathways	266
Enzymatic Reactions	1,378
Transport Reactions	50
Polypeptides	6,363
Protein Complexes	47
Enzymes	970
Transporters	437
Compounds	1,057
Transcription Units	4,487
tRNAs	49
Protein Features	7,362
GO Terms	15,564

Database Version

29.0

Sequence Source	GCF_000564855.1
Synonyms	Actinokineospora sp. EG49
Taxonomic Lineage	cellular organisms Bacteria <bacteria> Terrabacteria group Actinomycetota Actinomycetes Pseudonocardiales Pseudonocardiaceae Actinokineospora Actinokineospora spheciospongiae
Genetic Code Number	11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLE	SAMN02382011
NCBI BioProject	PRJNA224116
NCBI-Taxonomy	909613
Environment	Spheciospongia vagabunda
Geographic Location	Egypt
Collection Date	2006-07-31/2006-08-31
Host	Spheciospongia vagabunda
Annotation Provider	NCBI RefSeq
Annotation Date	2020-01-31
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

Report Errors or Provide Feedback
Page generated by Pathway Tools version 29.0 (software by SRI International) on Mon Jun 30, 2025, BIOCYC18A.

References

General Information

Data and Services

Credits

Follow Us

Select One or More Databases:

Current Selection

Search

Genome

SmartTables

Metabolism

Analysis

References