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RNA-dependent_RNA-polymerase

Euk-Vir

Fusarium_redolens_polymycovirus_1

RNA-dependent_RNA-polymerase__YP_010086037__Fusarium_redolens_polymycovirus_1__2546034

Identity

Accession:
YP_010086037 ↗
Protein ID:
RNA-dependent_RNA-polymerase
Kingdom:
euk

Quality

85.1 mean pLDDT

Cluster

View cluster (51 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 30-71
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3up9A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.58 47.0 3.45e-01 100.0% 78.3%
2oikA00 3.30.428.10 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › HIT-like 0.57 46.0 3.22e-01 100.0% 26.6%
3i24B00 3.30.428.10 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › HIT-like 0.56 45.0 3.16e-01 100.0% 26.6%
6tmfM00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.55 45.0 3.48e-01 95.2% 83.3%
1vt0k00 1.10.3230.20 Mainly Alpha › Orthogonal Bundle › Hypothetical protein yqbg › P22 tail accessory factor (Gp4) 0.55 47.0 3.30e-01 100.0% 52.4%
2kpmA01 3.30.420.610 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › LOTUS domain-like 0.55 42.0 3.59e-01 88.1% 72.0%
7z0sE01 3.30.460.80 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › NADH:ubiquinone oxidoreductase Nqo5 subunit 0.55 42.0 3.16e-01 88.1% 68.9%
3hm2A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 44.0 2.99e-01 90.5% 94.7%
4da2A02 3.40.1350.60 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.55 45.0 3.21e-01 100.0% 61.2%
1l3iA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 42.0 2.80e-01 88.1% 25.9%
2w9mB03 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.53 41.0 3.45e-01 100.0% 46.9%
6tgvA01 3.40.50.1950 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavin prenyltransferase-like 0.52 41.0 2.89e-01 100.0% 91.3%
3lzhA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 37.0 3.01e-01 90.5% 37.4%
3ks7A02 2.60.120.230 Mainly Beta › Sandwich › Jelly Rolls › 0.50 37.0 2.62e-01 92.9% 83.2%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3431781 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.67 47.0 3.44e-01 73.8% 42.6%
4242604 604.39.1.0 ↗ alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters 0.62 48.0 3.20e-01 88.1% 23.6%
1726418 223.3.1.3 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Transpeptidase 0.60 45.0 3.43e-01 83.3% 36.1%
4859810 3517.1.1.1 ↗ a+b complex topology › Polymerase acidic protein › Polymerase acidic protein › Polymerase acidic protein › Flu_PA 0.60 48.0 2.98e-01 100.0% 14.7%
5061358 304.55.1.14 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Y2_Tnp 0.60 44.0 3.35e-01 83.3% 38.2%
4642235 3745.1.1.1 ↗ alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex 0.58 48.0 2.83e-01 100.0% 57.4%
3061774 223.3.1.8 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase2 0.57 40.0 4.01e-01 95.2% 77.3%
3613897 304.44.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 0.57 47.0 4.08e-01 92.9% 100.0%
1513503 223.3.1.8 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase2 0.57 46.0 4.32e-01 100.0% 72.7%
3940241 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.57 47.0 2.71e-01 100.0% 28.4%
2028124 223.3.1.8 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase2 0.56 42.0 4.20e-01 100.0% 86.4%
3355227 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.56 43.0 2.50e-01 88.1% 8.9%
1117795 316.1.1.25 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Nrap_D4 0.56 46.0 2.96e-01 92.9% 42.0%
3983446 101.1.2.84 ↗ alpha arrays › HTH › HTH › winged helix domain › CaiF_GrlA 0.54 39.0 2.94e-01 97.6% 32.0%
3591285 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.53 44.0 2.73e-01 100.0% 15.4%
3718578 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.53 44.0 2.96e-01 100.0% 89.7%
5009448 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.52 44.0 3.26e-01 100.0% 36.0%
3658241 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.52 47.0 3.01e-01 100.0% 27.4%
3180680 7516.1.1.63 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › CAP59_mtransfer 0.51 41.0 2.41e-01 92.9% 42.1%
3313969 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.51 44.0 2.47e-01 100.0% 7.4%
D2 medium residues 103-156_228-253
PDB
Domain cluster: representative
D3 medium residues 193-227_330-360
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3wa2X02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 38.0 3.45e-01 74.2% 56.9%
6gfaA02 3.30.30.30 Alpha Beta › 2-Layer Sandwich › Defensin A-like › 0.51 28.0 2.96e-01 83.3% 51.8%
3uepA00 2.30.330.10 Mainly Beta › Roll › Surface presentation of antigens (SPOA) › SpoA-like 0.51 31.0 2.88e-01 83.3% 44.7%
2j4xA02 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 35.0 3.48e-01 75.8% 98.6%
ECOD (7)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3385473 3747.1.1.2 ↗ a+b two layers › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flg_bb_rod,Flg_bbr_C 0.56 38.0 3.25e-01 71.2% 83.6%
4656132 3124.1.1.1 ↗ beta sandwiches › Nascent polypeptide-associated complex (NAC) dimerization domain › Nascent polypeptide-associated complex (NAC) dimerization domain › Nascent polypeptide-associated complex (NAC) dimerization domain › NAC 0.53 39.0 3.94e-01 92.4% 84.6%
3695037 243.1.1.95 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › PF26528 0.51 36.0 2.88e-01 77.3% 93.1%
4093835 2.21.1.1 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › SmpB 0.51 39.0 3.27e-01 84.8% 100.0%
4557109 2.21.1.1 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › SmpB 0.50 39.0 3.13e-01 87.9% 62.1%
4597943 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.50 39.0 3.16e-01 89.4% 82.8%
2831758 2.21.1.1 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › SmpB 0.50 39.0 3.11e-01 89.4% 88.1%
D4 medium residues 254-329_361-388_425-474
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1b8dA00 1.10.490.20 Mainly Alpha › Orthogonal Bundle › Globin-like › Phycocyanins 0.57 44.0 4.37e-01 96.1% 76.2%
3oqvA00 3.40.50.11710 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Cyclodipeptide synthase 0.57 36.0 3.30e-01 94.8% 46.4%
3l0iA01 1.20.120.1520 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.53 30.0 2.93e-01 90.3% 46.6%
3lmfA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.52 32.0 3.66e-01 92.2% 84.4%
2c5zA00 1.10.1740.100 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › Set2, Rpb1 interacting domain 0.52 26.0 3.16e-01 92.9% 73.1%
2w31A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 41.0 4.13e-01 95.5% 86.8%
4c0nA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 37.0 3.74e-01 94.8% 76.0%
1or4B00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.50 38.0 3.85e-01 96.1% 79.1%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3610924 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 40.0 3.95e-01 83.8% 66.3%
D5 medium residues 518-537_555-586
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7oodf01 3.10.430.100 Alpha Beta › Roll › Ribosomal Protein L9; domain 2 › Ribosomal protein L9, C-terminal domain 0.59 40.0 3.60e-01 96.2% 48.7%
D6 medium residues 538-554_587-622_752-771
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2cs7A00 3.10.50.90 Alpha Beta › Roll › Chitinase A; domain 3 › 0.57 29.0 3.32e-01 76.7% 65.5%
4d0yA00 3.30.1380.10 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › 0.52 37.0 2.87e-01 76.7% 100.0%
6mptA01 3.30.420.590 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.50 34.0 2.71e-01 71.2% 99.4%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3973146 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.58 26.0 3.10e-01 74.0% 54.0%
D7 medium residues 623-751
PDB
Domain cluster: rep: putative_RNA-dependent_RNA_polymerase__YP_009052470__Cladosporium_cladosporioides_virus_1__1529605__D618-649_688-760