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RNA-dependent_RNA_polymerase

Euk-Vir

Rosellinia_necatrix_megabirnavirus_2-W8

RNA-dependent_RNA_polymerase__YP_009227124__Rosellinia_necatrix_megabirnavirus_2-W8__1676267

Identity

Accession:
YP_009227124 ↗
Protein ID:
RNA-dependent_RNA_polymerase
Kingdom:
euk

Quality

63.7 mean pLDDT

Taxonomy

Orthornavirae› Duplornaviricota› Chrymotiviricetes› Ghabrivirales› Megabirnaviridae› Megabirnavirus› Rosellinia_necatrix_megabirnavirus_2-W8

TaxID: 1676267

Cluster

View cluster (16 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 high residues 944-1106
PDB
D2 medium residues 33-103
PDB
D3 medium residues 112-177
PDB
D4 medium residues 236-308
PDB
D5 medium residues 417-457_584-637
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wgwA00 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.68 35.0 3.46e-01 92.6% 46.5%
3swhA01 1.10.357.50 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.61 53.0 4.45e-01 95.8% 75.8%
5wp3B00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.60 42.0 4.11e-01 72.6% 97.1%
2qsbA00 1.20.1440.50 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like 0.59 31.0 3.28e-01 92.6% 55.3%
4hkaA01 1.20.58.480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 47.0 3.39e-01 89.5% 65.0%
2wzkA01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.57 43.0 3.96e-01 81.1% 86.6%
2np5D00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 49.0 4.18e-01 97.9% 73.4%
2l6xA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.56 41.0 3.14e-01 77.9% 98.3%
1uurA01 1.20.58.240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › STAT; domain 1 0.56 39.0 3.78e-01 72.6% 97.3%
6xpdA01 1.20.1510.10 Mainly Alpha › Up-down Bundle › Alpha-lytic protease prodomain-like › Cation efflux protein transmembrane domain 0.55 44.0 3.54e-01 88.4% 78.7%
3rkoG00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 40.0 3.94e-01 86.3% 71.0%
1u89A00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.55 42.0 3.71e-01 81.1% 71.2%
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.55 43.0 3.83e-01 83.2% 91.1%
4ip8A00 1.10.132.110 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Serum amyloid A protein 0.54 43.0 4.20e-01 86.3% 85.7%
1t98A02 1.20.58.590 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chromosome partition protein MukF, middle domain 0.54 44.0 3.70e-01 87.4% 91.4%
1vdyA00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.54 42.0 3.77e-01 92.6% 57.9%
5dmhB02 3.40.980.20 Alpha Beta › 3-Layer(aba) Sandwich › Molybdenum Cofactor Biosythetic Enzyme; Chain A › Four-carbon acid sugar kinase, nucleotide binding domain 0.54 45.0 3.60e-01 92.6% 47.2%
2vvyA01 1.10.437.20 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › dsDNA poxvirus 0.54 44.0 3.97e-01 89.5% 65.7%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.53 43.0 3.82e-01 86.3% 70.1%
2jx0A00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.52 39.0 3.57e-01 80.0% 67.9%
1cpcB00 1.10.490.20 Mainly Alpha › Orthogonal Bundle › Globin-like › Phycocyanins 0.52 42.0 3.52e-01 89.5% 57.6%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 38.0 3.38e-01 77.9% 92.4%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.52 38.0 3.82e-01 76.8% 76.3%
3iqcA00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.52 39.0 3.67e-01 80.0% 68.1%
2wg7A00 1.20.90.10 Mainly Alpha › Up-down Bundle › Phospholipase A2 › Phospholipase A2 domain 0.52 36.0 3.40e-01 73.7% 86.8%
2qubA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 45.0 3.16e-01 100.0% 48.9%
3zsuA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.51 39.0 3.65e-01 81.1% 70.3%
4n1yB00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.51 39.0 2.98e-01 82.1% 67.8%
4dwlA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.51 38.0 3.66e-01 78.9% 87.0%
1yo7A00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 36.0 3.38e-01 74.7% 76.7%
3m9vA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 38.0 3.21e-01 78.9% 76.4%
1zu2A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.51 41.0 3.50e-01 88.4% 55.1%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.51 38.0 3.50e-01 80.0% 76.0%
6xz3A01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.50 41.0 3.82e-01 87.4% 81.2%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3698864 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.65 56.0 4.06e-01 95.8% 98.9%
4978312 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.58 41.0 4.71e-01 82.1% 100.0%
3272556 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.57 41.0 3.19e-01 80.0% 36.4%
3499593 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.57 39.0 4.21e-01 78.9% 83.7%
3237761 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.56 41.0 4.08e-01 76.8% 94.0%
4943123 604.12.1.134 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › AAA 0.56 42.0 4.40e-01 81.1% 87.1%
4999686 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.55 39.0 4.34e-01 78.9% 93.3%
4947260 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.55 41.0 4.40e-01 80.0% 91.3%
3616967 603.1.1.97 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Syntaxin, SNARE 0.55 43.0 3.18e-01 85.3% 63.5%
3306960 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 45.0 3.93e-01 89.5% 76.6%
3268622 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.53 41.0 4.00e-01 82.1% 73.3%
3989031 4121.1.1.1 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.53 44.0 3.28e-01 90.5% 72.8%
3496310 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.53 36.0 3.36e-01 70.5% 88.3%
5021339 150.1.1.3 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Rubrerythrin 0.53 40.0 3.41e-01 83.2% 83.6%
4550741 106.1.1.7 ↗ alpha arrays › Globin-like › Globin-like › Globin-like › Protoglobin 0.53 46.0 3.83e-01 97.9% 71.2%
3726969 109.4.1.356 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans 0.53 45.0 2.89e-01 95.8% 68.5%
3908483 633.23.1.22 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › MARVEL 0.52 39.0 3.43e-01 80.0% 64.8%
3192708 109.42.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › E3 ubiquitin-protein ligase SHPRH first helical domain › E3 ubiquitin-protein ligase SHPRH first helical domain 0.52 44.0 3.52e-01 93.7% 65.8%
3736123 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.52 43.0 3.18e-01 91.6% 69.4%
4111212 622.4.1.30 ↗ alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › ETR1_N 0.51 38.0 3.79e-01 88.4% 74.0%
3391380 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.51 36.0 3.48e-01 71.6% 92.4%
4535167 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.51 37.0 2.52e-01 77.9% 34.7%
3819480 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.50 36.0 3.10e-01 87.4% 46.5%