Summary of Actinopolymorpha alba DSM 45243, 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 Actinopolymorpha alba DSM 45243, 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_KB892707	481	472	1	8	554,948	RefSeq:NZ_KB892707
NZ_KB892708	387	375	5	7	428,927	RefSeq:NZ_KB892708
NZ_KB892746	265	253	3	9	284,073	RefSeq:NZ_KB892746
NZ_KB892757	243	233	0	10	261,290	RefSeq:NZ_KB892757
NZ_KB892768	190	185	2	3	208,017	RefSeq:NZ_KB892768
NZ_KB892779	169	157	1	11	177,753	RefSeq:NZ_KB892779
NZ_KB892790	172	161	1	10	176,803	RefSeq:NZ_KB892790
NZ_KB892801	147	141	0	6	166,535	RefSeq:NZ_KB892801
NZ_KB892812	126	119	1	6	161,543	RefSeq:NZ_KB892812
NZ_KB892823	137	130	0	7	151,524	RefSeq:NZ_KB892823
NZ_KB892709	151	141	4	6	149,012	RefSeq:NZ_KB892709
NZ_KB892720	123	120	0	3	145,758	RefSeq:NZ_KB892720
NZ_KB892731	127	120	0	7	142,200	RefSeq:NZ_KB892731
NZ_KB892739	126	120	1	5	136,745	RefSeq:NZ_KB892739
NZ_KB892740	119	114	2	3	130,299	RefSeq:NZ_KB892740
NZ_KB892741	115	107	2	6	127,407	RefSeq:NZ_KB892741
NZ_KB892742	118	112	3	3	126,051	RefSeq:NZ_KB892742
NZ_KB892743	113	110	1	2	122,492	RefSeq:NZ_KB892743
NZ_KB892744	128	113	1	14	121,367	RefSeq:NZ_KB892744
NZ_KB892745	105	98	1	6	120,211	RefSeq:NZ_KB892745
NZ_KB892747	107	106	0	1	119,977	RefSeq:NZ_KB892747
NZ_KB892748	100	96	0	4	114,683	RefSeq:NZ_KB892748
NZ_KB892749	100	94	1	5	111,529	RefSeq:NZ_KB892749
NZ_KB892750	108	103	2	3	107,496	RefSeq:NZ_KB892750
NZ_KB892751	97	95	1	1	103,682	RefSeq:NZ_KB892751
NZ_KB892752	88	84	1	3	101,015	RefSeq:NZ_KB892752
NZ_KB892753	81	76	2	3	97,107	RefSeq:NZ_KB892753
NZ_KB892758	85	77	0	8	96,237	RefSeq:NZ_KB892758
NZ_KB892754	83	81	0	2	94,261	RefSeq:NZ_KB892754
NZ_KB892755	88	86	0	2	94,225	RefSeq:NZ_KB892755
NZ_KB892756	72	69	0	3	94,031	RefSeq:NZ_KB892756
NZ_KB892759	76	74	0	2	88,676	RefSeq:NZ_KB892759
NZ_KB892760	81	78	0	3	87,950	RefSeq:NZ_KB892760
NZ_KB892761	84	78	1	5	85,001	RefSeq:NZ_KB892761
NZ_KB892762	84	77	2	5	84,326	RefSeq:NZ_KB892762
NZ_KB892763	71	70	0	1	80,078	RefSeq:NZ_KB892763
NZ_KB892764	66	63	0	3	75,318	RefSeq:NZ_KB892764
NZ_KB892765	62	62	0	0	73,529	RefSeq:NZ_KB892765
NZ_KB892766	70	65	1	4	69,765	RefSeq:NZ_KB892766
NZ_KB892767	60	56	2	2	68,862	RefSeq:NZ_KB892767
NZ_KB892769	58	56	0	2	67,594	RefSeq:NZ_KB892769
NZ_KB892770	70	67	0	3	67,317	RefSeq:NZ_KB892770
NZ_KB892771	62	60	0	2	66,294	RefSeq:NZ_KB892771
NZ_KB892772	63	57	0	6	63,096	RefSeq:NZ_KB892772
NZ_KB892773	48	45	1	2	62,069	RefSeq:NZ_KB892773
NZ_KB892774	60	52	4	4	61,021	RefSeq:NZ_KB892774
NZ_KB892775	56	53	0	3	59,857	RefSeq:NZ_KB892775
NZ_KB892776	48	45	0	3	53,995	RefSeq:NZ_KB892776
NZ_KB892777	51	49	0	2	53,902	RefSeq:NZ_KB892777
NZ_KB892778	55	51	0	4	53,570	RefSeq:NZ_KB892778
NZ_KB892780	52	45	0	7	52,793	RefSeq:NZ_KB892780
NZ_KB892781	37	36	0	1	52,697	RefSeq:NZ_KB892781
NZ_KB892782	57	53	1	3	52,000	RefSeq:NZ_KB892782
NZ_KB892783	39	37	0	2	51,444	RefSeq:NZ_KB892783
NZ_KB892784	48	44	0	4	49,410	RefSeq:NZ_KB892784
NZ_KB892785	41	39	0	2	47,934	RefSeq:NZ_KB892785
NZ_KB892786	47	44	0	3	47,438	RefSeq:NZ_KB892786
NZ_KB892787	49	44	1	4	45,924	RefSeq:NZ_KB892787
NZ_KB892788	38	34	0	4	44,068	RefSeq:NZ_KB892788
NZ_KB892789	35	33	0	2	42,834	RefSeq:NZ_KB892789
NZ_KB892791	37	34	0	3	42,831	RefSeq:NZ_KB892791
NZ_KB892792	41	39	0	2	41,301	RefSeq:NZ_KB892792
NZ_KB892793	38	37	0	1	41,207	RefSeq:NZ_KB892793
NZ_KB892794	36	35	0	1	40,742	RefSeq:NZ_KB892794
NZ_KB892795	33	32	0	1	40,233	RefSeq:NZ_KB892795
NZ_KB892796	38	37	0	1	39,122	RefSeq:NZ_KB892796
NZ_KB892797	30	28	0	2	38,913	RefSeq:NZ_KB892797
NZ_KB892798	33	30	0	3	36,730	RefSeq:NZ_KB892798
NZ_KB892799	42	40	0	2	34,912	RefSeq:NZ_KB892799
NZ_KB892800	31	30	0	1	32,932	RefSeq:NZ_KB892800
NZ_KB892802	28	25	0	3	32,581	RefSeq:NZ_KB892802
NZ_KB892803	25	23	0	2	31,730	RefSeq:NZ_KB892803
NZ_KB892804	31	29	0	2	30,922	RefSeq:NZ_KB892804
NZ_KB892805	32	28	2	2	30,119	RefSeq:NZ_KB892805
NZ_KB892806	29	27	0	2	29,523	RefSeq:NZ_KB892806
NZ_KB892807	25	25	0	0	29,338	RefSeq:NZ_KB892807
NZ_KB892808	27	22	0	5	28,771	RefSeq:NZ_KB892808
NZ_KB892809	28	25	0	3	28,743	RefSeq:NZ_KB892809
NZ_KB892810	31	27	1	3	27,117	RefSeq:NZ_KB892810
NZ_KB892811	24	22	0	2	26,258	RefSeq:NZ_KB892811
NZ_KB892813	26	25	0	1	25,527	RefSeq:NZ_KB892813
NZ_KB892814	23	21	0	2	23,248	RefSeq:NZ_KB892814
NZ_KB892815	27	18	0	9	23,083	RefSeq:NZ_KB892815
NZ_KB892816	18	17	0	1	22,659	RefSeq:NZ_KB892816
NZ_KB892817	25	24	0	1	22,526	RefSeq:NZ_KB892817
NZ_KB892818	24	22	0	2	21,867	RefSeq:NZ_KB892818
NZ_KB892819	27	25	0	2	21,748	RefSeq:NZ_KB892819
NZ_KB892820	23	22	0	1	21,736	RefSeq:NZ_KB892820
NZ_KB892821	24	21	0	3	21,254	RefSeq:NZ_KB892821
NZ_KB892822	34	31	0	3	20,539	RefSeq:NZ_KB892822
NZ_KB892824	17	16	0	1	19,679	RefSeq:NZ_KB892824
NZ_KB892826	14	13	0	1	15,370	RefSeq:NZ_KB892826
NZ_KB892827	14	13	0	1	13,518	RefSeq:NZ_KB892827
NZ_KB892829	13	11	0	2	12,878	RefSeq:NZ_KB892829
NZ_KB892831	13	9	0	4	11,300	RefSeq:NZ_KB892831
NZ_KB892833	12	9	0	3	10,829	RefSeq:NZ_KB892833
31 Undisplayed Contigs/Replicons	110	109	3	28	155,967

Total:	7,332	6,916	55	361	7,983,713

Ortholog data available?	Yes

Database Contents

Genes	7,328
Pathways	229
Enzymatic Reactions	1,205
Transport Reactions	57
Polypeptides	6,928
Protein Complexes	61
Enzymes	905
Transporters	638
Compounds	965
Transcription Units	5,401
tRNAs	46
Protein Features	7,837

Database Version

29.0

Sequence Source	GCF_000373925.1
Synonyms	Actinopolymorpha sp. YIM 48868 Actinopolymorpha alba DSM 45243
Taxonomic Lineage	cellular organisms Bacteria <bacteria> Terrabacteria group Actinomycetota Actinomycetes Propionibacteriales Nocardioidaceae Actinopolymorpha Actinopolymorpha alba Actinopolymorpha alba DSM 45243
Genetic Code Number	11 -- Bacterial, Archaeal and Plant Plastid (same as Standard, except for alternate initiation codons)
BIOSAMPLE	SAMN02440435
NCBI BioProject	PRJNA224116
NCBI-Taxonomy	1120950
Environment	Rhizosphere; Soil
Geographic Location	China
Latitude/Longitude	22.008 N 100.797 E
Relationship to Oxygen	aerobe
Temperature Range	mesophile
Biotic Relationship	free-living
Annotation Provider	NCBI
Annotation Date	2017-05-17
Annotation Pipeline	NCBI Prokaryotic Genome Annotation Pipeline
Annotation Pipeline Version	4.2
Annotation Comment	Best-placed reference protein set; GeneMarkS+
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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