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RNA-dependent_RNA_polymerase

Euk-Vir

Trichomonas_vaginalis_virus_4

RNA-dependent_RNA_polymerase__YP_009507836__Trichomonas_vaginalis_virus_4__1008292

Identity

Accession:: YP_009507836 ↗
Protein ID:: RNA-dependent_RNA_polymerase
Kingdom:: euk

Quality

53.1 mean pLDDT

Cluster

View cluster (2 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 455-599

PDB

D2 medium residues 608-645_692-703

PDB

D3 medium residues 895-983

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02123.22 best	RdRP_4	36.8	3.30e-09	100.0%	18.5%

CATH (14)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1iuqA01	1.10.1200.50	Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Glycerol-3-phosphate acyltransferase, alpha helical bundle, N-terminal	0.68	35.0	3.74e-01	80.9%	57.9%
3ibyD02	1.10.287.1770	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.66	44.0	4.50e-01	79.8%	71.4%
2iw3A02	1.20.1390.20	Mainly Alpha › Up-down Bundle › PWI domain ›	0.59	44.0	4.43e-01	79.8%	94.4%
3f2bA07	6.10.140.1510	Special › Helix non-globular › Helix Hairpins ›	0.59	42.0	4.32e-01	75.3%	98.8%
3tahA02	1.10.287.1770	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.55	38.0	3.90e-01	79.8%	73.9%
4uobA02	1.10.340.30	Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2	0.55	41.0	3.70e-01	79.8%	61.9%
1c3cA03	1.10.40.30	Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain)	0.55	38.0	3.96e-01	71.9%	77.8%
1m4rB00	1.20.1250.10	Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; ›	0.54	40.0	3.52e-01	80.9%	65.2%
1dcnA03	1.10.40.30	Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain)	0.53	37.0	4.06e-01	73.0%	88.9%
4hteA01	1.20.58.1730	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.51	40.0	3.52e-01	87.6%	60.8%
5dvwA00	1.20.120.1160	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.51	36.0	3.26e-01	75.3%	53.8%
1xrhD01	1.10.1530.10	Mainly Alpha › Orthogonal Bundle › Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 › Malate/L-lactate/L-sulpholactate dehydrogenase, four-helix barrel	0.51	37.0	3.56e-01	76.4%	79.6%
1ah7A00	1.10.575.10	Mainly Alpha › Orthogonal Bundle › P1 Nuclease › P1 Nuclease	0.51	38.0	2.90e-01	83.1%	49.8%
1o0wA01	1.10.1520.10	Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain	0.50	34.0	2.86e-01	87.6%	40.3%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4947265	4009.1.1.0 ↗	alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins	0.72	33.0	3.64e-01	79.8%	52.9%
3597136	5050.1.1.0 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter	0.59	44.0	3.31e-01	79.8%	44.2%
4175747	142.1.1.3 ↗	alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2	0.58	35.0	3.49e-01	89.9%	58.9%
4074074	3457.1.1.1 ↗	alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Peptidase_A24	0.55	40.0	2.96e-01	76.4%	37.3%
3391331	101.1.10.6 ↗	alpha arrays › HTH › HTH › Cyclin-like › RB_A	0.54	41.0	3.25e-01	82.0%	60.5%
3559333	102.1.1.34 ↗	alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › SAM_4	0.52	36.0	3.72e-01	73.0%	81.2%

D4 medium residues 984-1099_1132-1184

PDB

Domain cluster: rep: hypothetical_protein_2__YP_009336713__Beihai_toti-like_virus_4__1922734__D167-187_213-323_360-427

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02123.22 best	RdRP_4	78.0	1.00e-21	69.8%	27.5%
PF02123.22	RdRP_4	36.7	3.40e-09	31.9%	12.7%

D5 medium residues 1275-1356_1393-1437_1451-1481

PDB