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RNA-dependent_RNA_polymerase

Euk-Vir

Beihai_narna-like_virus_3

RNA-dependent_RNA_polymerase__YP_009333144__Beihai_narna-like_virus_3__1922455

Identity

Accession:: YP_009333144 ↗
Protein ID:: RNA-dependent_RNA_polymerase
Kingdom:: euk

Quality

70.2 mean pLDDT

Cluster

View cluster (39 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 124-254

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009337264__Wenling_narna-like_virus_1__1923501__D1-107

D2 medium residues 280-311_445-463_476-487_548-619

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009337087__Hubei_narna-like_virus_4__1922958__D375-415_481-588

CATH (7)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1ra6A02	3.30.70.270	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain	0.76	53.0	5.92e-01	71.1%	100.0%
1irxA05	1.10.10.350	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A ›	0.56	28.0	3.24e-01	93.3%	65.6%
2hfsA02	3.30.70.890	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain	0.53	37.0	3.67e-01	71.9%	71.9%
4gs5A02	3.30.300.30	Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain	0.53	34.0	3.73e-01	73.3%	81.0%
1zj8A02	3.90.480.10	Alpha Beta › Alpha-Beta Complex › Sulfite Reductase Hemoprotein; domain 2 › Sulfite Reductase Hemoprotein;Domain 2	0.51	39.0	3.77e-01	79.3%	87.5%
6ei1A01	3.90.70.130	Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A ›	0.51	36.0	2.97e-01	72.6%	54.1%
4uskA02	3.30.70.890	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain	0.51	36.0	3.42e-01	71.9%	65.6%

ECOD (9)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3306901	304.48.1.43 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Mitovir_RNA_pol	0.76	55.0	5.07e-01	73.3%	83.0%
1173784	304.48.1.8 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1	0.72	66.0	4.77e-01	100.0%	82.1%
3336938	304.48.1.43 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Mitovir_RNA_pol	0.72	67.0	5.37e-01	100.0%	82.8%
None	—		0.71	65.0	4.73e-01	100.0%	82.0%
5030236	304.1.1.1 ↗	a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C	0.54	37.0	3.59e-01	70.4%	79.7%
4542315	304.1.1.1 ↗	a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C	0.54	37.0	3.61e-01	71.1%	71.8%
4989701	304.1.1.0 ↗	a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain	0.52	35.0	3.69e-01	71.9%	75.8%
3574164	219.1.1.1 ↗	a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C1	0.51	32.0	2.93e-01	97.8%	47.4%
3306268	327.5.1.6 ↗	a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › AMP-dom_DIP2-like	0.50	36.0	3.58e-01	73.3%	83.6%

D3 medium residues 464-475_620-660

PDB

Domain cluster: representative

CATH (7)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2h0uA00	3.40.109.10	Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase	0.56	42.0	2.96e-01	86.8%	65.8%
1k90A02	3.90.1760.10	Alpha Beta › Alpha-Beta Complex › Adenylylcyclase toxin fold › Anthrax toxin, edema factor, central domain	0.52	40.0	3.06e-01	96.2%	87.4%
2dewX02	2.60.40.1700	Mainly Beta › Sandwich › Immunoglobulin-like › Protein-arginine deiminase, central domain	0.52	42.0	3.11e-01	98.1%	83.0%
1vw3C02	3.30.160.810	Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain ›	0.51	39.0	3.63e-01	83.0%	76.1%
6spbZ00	3.30.1390.20	Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L30/L7	0.51	28.0	2.73e-01	77.4%	40.4%
4jf8A00	3.10.450.230	Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein	0.50	39.0	2.99e-01	92.5%	51.4%
2g17A02	3.30.360.10	Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2	0.50	39.0	2.87e-01	90.6%	86.3%

ECOD (13)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4943668	377.1.1.0 ↗	few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like	0.59	40.0	3.48e-01	71.7%	58.9%
5082912	101.1.2.70 ↗	alpha arrays › HTH › HTH › winged helix domain › PqqD	0.59	43.0	3.17e-01	77.4%	31.5%
5050861	377.1.1.8 ↗	few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › Ribosomal_S26e	0.58	40.0	3.43e-01	73.6%	66.7%
5067631	101.1.2.70 ↗	alpha arrays › HTH › HTH › winged helix domain › PqqD	0.57	39.0	3.18e-01	71.7%	96.4%
5050068	2007.1.1.3 ↗	a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › DJ-1_PfpI	0.56	40.0	2.80e-01	81.1%	32.9%
4980443	101.1.2.70 ↗	alpha arrays › HTH › HTH › winged helix domain › PqqD	0.56	39.0	3.22e-01	77.4%	41.8%
3238788	5001.1.1.41 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw	0.55	47.0	2.88e-01	100.0%	30.9%
5032264	2004.1.1.5 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran	0.53	40.0	2.77e-01	86.8%	87.0%
5035402	377.1.1.0 ↗	few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like	0.51	34.0	3.16e-01	73.6%	63.7%
3182121	304.9.1.1 ↗	a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1	0.51	41.0	3.36e-01	100.0%	48.3%
3690836	2004.1.1.74 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1,YGR210-like_G4	0.51	41.0	2.64e-01	100.0%	26.7%
3892039	219.1.1.3 ↗	a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH	0.51	44.0	2.63e-01	100.0%	50.9%
3399407	4.1.1.0 ↗	beta barrels › SH3 › SH3 › SH3	0.50	41.0	3.43e-01	96.2%	79.0%

D4 medium residues 661-778

PDB