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RNA-dependent_RNA_polymerase

Euk-Vir

Beihai_weivirus-like_virus_3

RNA-dependent_RNA_polymerase__YP_009336973__Beihai_weivirus-like_virus_3__1922751

Identity

Accession:: YP_009336973 ↗
Protein ID:: RNA-dependent_RNA_polymerase
Kingdom:: euk

Quality

81.5 mean pLDDT

Cluster

View cluster (18 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 7-121_178-192

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009337047__Beihai_weivirus-like_virus_7__1922754__D6-140

CATH (6)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2c42A03	3.40.920.10	Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III	0.66	39.0	3.34e-01	71.5%	35.4%
4fcyA01	1.10.10.60	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like	0.65	33.0	4.18e-01	83.8%	82.1%
2jvfA00	3.30.1710.10	Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein	0.59	28.0	3.21e-01	84.6%	59.6%
3s63A00	1.10.225.10	Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like	0.58	38.0	4.45e-01	85.4%	96.6%
2nq2A00	1.10.3470.10	Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC	0.52	46.0	3.52e-01	98.5%	82.1%
2wy4A00	1.10.490.10	Mainly Alpha › Orthogonal Bundle › Globin-like › Globins	0.51	38.0	3.77e-01	78.5%	100.0%

ECOD (14)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3927392	198.1.1.1 ↗	alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2	0.67	41.0	5.08e-01	83.8%	98.8%
4528425	101.11.1.1 ↗	alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase	0.67	47.0	5.27e-01	83.8%	93.0%
4401833	101.11.1.1 ↗	alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase	0.66	45.0	5.01e-01	83.8%	90.0%
4592728	101.11.1.1 ↗	alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase	0.63	43.0	5.01e-01	79.2%	98.9%
3244588	371.1.1.0 ↗	few secondary structure elements › Phospholipase A2, PLA2 › Phospholipase A2, PLA2 › Phospholipase A2, PLA2	0.62	37.0	4.33e-01	73.8%	85.6%
5001603	198.1.1.0 ↗	alpha arrays › Saposin-like › Saposin-like › Saposin-like	0.59	40.0	4.67e-01	80.8%	100.0%
3605793	604.9.1.0 ↗	alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20	0.58	32.0	4.03e-01	76.9%	90.7%
3806415	4133.1.1.2 ↗	alpha arrays › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Emsy N terminal (ENT) domain-like › Tic110	0.57	42.0	4.42e-01	80.0%	85.2%
4090711	5067.1.1.8 ↗	alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › HPP	0.55	42.0	3.99e-01	97.7%	65.6%
4982987	3352.1.1.1 ↗	alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3	0.53	38.0	2.74e-01	74.6%	59.2%
5066592	1030.1.1.0 ↗	alpha duplicates or obligate multimers › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 › Crispr-associated protein Csm2	0.52	38.0	4.31e-01	96.9%	99.0%
4990171	247.1.1.1 ↗	a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B	0.52	40.0	3.11e-01	81.5%	94.6%
5052842	5081.1.1.1 ↗	alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid	0.51	39.0	3.45e-01	80.0%	80.0%
4271175	101.1.2.498 ↗	alpha arrays › HTH › HTH › winged helix domain › PF25870	0.51	37.0	3.66e-01	80.0%	71.1%

D2 medium residues 242-336_402-431_536-557

PDB

Domain cluster: representative

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3mlqH00	2.40.10.170	Mainly Beta › Beta Barrel › Thrombin, subunit H ›	0.51	16.0	2.89e-01	73.5%	95.2%

D3 medium residues 337-350_558-601

PDB

Domain cluster: representative

CATH (6)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4h8aB01	1.10.1530.10	Mainly Alpha › Orthogonal Bundle › Hypothetical Oxidoreductase Yiak; Chain: A, domain 1 › Malate/L-lactate/L-sulpholactate dehydrogenase, four-helix barrel	0.61	42.0	4.20e-01	72.4%	83.3%
3ihvA01	1.25.40.890	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat ›	0.60	39.0	2.80e-01	75.9%	23.8%
1yvwA00	1.10.287.1080	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like	0.56	40.0	3.42e-01	74.1%	84.8%
3c7jA01	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.55	36.0	3.13e-01	87.9%	41.8%
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	0.54	43.0	3.60e-01	87.9%	68.9%
1rw9A01	1.50.10.100	Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › Chondroitin AC/alginate lyase	0.52	37.0	2.23e-01	74.1%	24.9%

ECOD (3)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4062015	304.8.1.53 ↗	a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › GlnD_5th	0.57	49.0	3.67e-01	100.0%	74.2%
3229247	188.1.1.1 ↗	alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep	0.56	47.0	3.19e-01	100.0%	83.8%
3971074	601.7.1.0 ↗	alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain	0.52	35.0	2.37e-01	70.7%	78.3%

D4 medium residues 351-401_517-535

PDB

Domain cluster: representative

D5 medium residues 609-705

PDB

Domain cluster: representative

CATH (3)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1xg9A02	3.10.25.20	Alpha Beta › Roll › Methionyl-tRNA Fmet Formyltransferase; Chain A, domain 2 ›	0.54	24.0	2.93e-01	72.2%	61.3%
1vqwA01	3.50.50.60	Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain	0.50	40.0	2.81e-01	87.6%	91.7%
3r2uB01	3.60.15.10	Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	0.50	39.0	2.94e-01	100.0%	32.9%

ECOD (5)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3417047	1.1.8.0 ↗	beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain	0.54	28.0	3.30e-01	95.9%	72.3%
4464657	274.1.1.0 ↗	a+b two layers › Pili subunits › Pili subunits › Pili subunits	0.54	30.0	3.27e-01	97.9%	63.7%
4991631	247.1.1.11 ↗	a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B_2	0.52	45.0	3.43e-01	96.9%	59.6%
5045231	247.1.1.11 ↗	a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B_2	0.50	38.0	3.11e-01	100.0%	41.8%
4938531	247.1.1.30 ↗	a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Anti-Pycsar_Apyc1	0.50	44.0	3.81e-01	100.0%	76.7%