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3D_-RNA_polymerase-

Euk-Vir

Equine_rhinitis_B_virus_1

3D_-RNA_polymerase-__NP_740368__Equine_rhinitis_B_virus_1__47001

Identity

Accession:
NP_740368 ↗
Protein ID:
3D_-RNA_polymerase-
Kingdom:
euk

Quality

94.6 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Pisoniviricetes› Picornavirales› Picornaviridae› Erbovirus› Equine_rhinitis_B_virus_1

TaxID: 47001

Cluster

View cluster (450 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 2-58
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3bsoA02 6.10.250.3230 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.60 43.0 4.31e-01 77.2% 77.2%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2541763 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 0.80 72.0 4.28e-01 100.0% 14.9%
D2 high residues 391-466
PDB
Domain cluster: rep: putative_3D_RNA-dependent_RNA_polymerase__YP_009553719__tremovirus_B1__2058161__D405-481
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3nkyA03 1.20.960.20 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › 0.97 79.0 8.09e-01 84.2% 87.7%
1ra6A03 1.20.960.20 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › 0.91 84.0 8.04e-01 100.0% 93.1%
1khvA05 1.20.960.20 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › 0.82 75.0 6.87e-01 100.0% 96.9%
3h5xA04 1.20.960.20 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › 0.74 65.0 6.05e-01 98.7% 91.6%
1lshA02 1.25.10.20 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Vitellinogen, superhelical 0.66 50.0 3.30e-01 82.9% 46.0%
4ip8A00 1.10.132.110 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Serum amyloid A protein 0.66 49.0 4.49e-01 81.6% 79.0%
2qk2A01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.64 49.0 3.53e-01 84.2% 30.3%
6u3wB00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.64 51.0 3.47e-01 88.2% 49.1%
5gmkZ01 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.62 50.0 3.63e-01 90.8% 56.9%
3vldA01 1.25.10.50 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › 0.62 46.0 3.12e-01 80.3% 25.3%
7ep1B01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.62 49.0 3.53e-01 88.2% 83.9%
1te4A01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.62 45.0 4.37e-01 78.9% 71.9%
1b48A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 44.0 4.01e-01 78.9% 85.3%
3beyD00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.61 46.0 4.33e-01 82.9% 72.3%
6idxA01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.61 45.0 3.31e-01 80.3% 38.4%
1gu9C00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.60 47.0 3.77e-01 89.5% 72.6%
3k7dA02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.59 44.0 3.19e-01 82.9% 76.0%
2ii2A04 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.59 42.0 4.21e-01 76.3% 96.2%
1ygmA01 1.10.220.90 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Mistic 0.59 41.0 3.96e-01 75.0% 100.0%
2ewvA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 40.0 2.86e-01 78.9% 22.4%
2ouwB00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.58 43.0 3.69e-01 82.9% 61.8%
4ksaA02 1.20.140.90 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Malonyl-CoA decarboxylase, oligemerization domain 0.57 41.0 3.51e-01 77.6% 78.1%
6wv5A01 1.20.1440.130 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › VKOR domain 0.57 42.0 3.58e-01 81.6% 66.9%
7wf8B01 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.56 39.0 3.39e-01 71.1% 49.6%
2b6cA01 1.20.1660.10 Mainly Alpha › Up-down Bundle › ARM repeat fold › Hypothetical protein (EF3068) 0.56 45.0 4.01e-01 92.1% 71.6%
1kblA04 3.20.20.60 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphoenolpyruvate-binding domains 0.56 45.0 3.03e-01 93.4% 31.9%
2oocB00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.56 40.0 3.70e-01 78.9% 64.8%
2c12A01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.56 42.0 3.68e-01 85.5% 83.5%
1gjwA01 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.56 46.0 2.81e-01 96.1% 48.1%
4g10A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.54 44.0 3.77e-01 92.1% 74.3%
2kc7A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.53 39.0 3.68e-01 81.6% 68.7%
1azwA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 40.0 2.75e-01 85.5% 85.0%
1yozA00 1.10.3200.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af0941 › AF0941-like 0.52 40.0 3.68e-01 89.5% 92.0%
2ho1B00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.52 41.0 3.00e-01 88.2% 57.5%
2dsjA01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.51 37.0 3.86e-01 78.9% 98.5%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2390376 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.96 92.0 8.08e-01 100.0% 72.8%
1147677 4967.1.1.2 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › RdRP_1 0.96 91.0 8.62e-01 100.0% 86.2%
1519288 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.92 86.0 7.83e-01 100.0% 83.5%
2541767 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.90 84.0 7.67e-01 100.0% 85.6%
3092371 4967.1.1.0 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases 0.74 65.0 5.97e-01 100.0% 86.3%
3781283 109.4.1.930 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ARM_ECM29_C 0.70 50.0 3.41e-01 76.3% 34.3%
None — 0.69 56.0 4.00e-01 92.1% 32.0%
4952332 191.1.1.0 ↗ alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.69 53.0 4.51e-01 84.2% 83.8%
3233038 226.1.1.41 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › DUF7754 0.66 48.0 3.39e-01 78.9% 26.7%
2029562 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 49.0 3.70e-01 82.9% 41.6%
3580066 109.54.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 › C-terminal tetramerization domain of Utp1/Utp21/Utp12/Utp13 0.64 51.0 4.04e-01 88.2% 68.5%
4526672 3651.1.1.1 ↗ alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › IF-2B 0.63 47.0 4.45e-01 81.6% 95.8%
3684462 109.4.1.1382 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_3, TPR_24 0.63 48.0 3.41e-01 82.9% 38.3%
3390103 109.4.1.3524 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF29546 0.62 47.0 3.79e-01 84.2% 53.9%
3497123 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 50.0 2.92e-01 92.1% 36.8%
3597585 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.60 47.0 3.28e-01 85.5% 30.5%
3598058 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 43.0 3.09e-01 80.3% 33.8%
3672562 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 48.0 2.79e-01 94.7% 81.3%
3532093 4982.1.1.7 ↗ alpha arrays › KaiA/RbsU domain-like › KaiA/RbsU domain › KaiA/RbsU domain › FWWh 0.58 42.0 3.36e-01 77.6% 74.5%
3969464 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.58 40.0 3.28e-01 73.7% 86.5%
3631704 109.3.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 0.58 42.0 3.07e-01 78.9% 31.6%
3287720 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 41.0 3.00e-01 78.9% 40.0%
3998538 109.27.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › BACK domain › BACK domain 0.54 37.0 3.89e-01 72.4% 95.7%
4965710 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.51 44.0 2.93e-01 100.0% 36.9%
5083232 7531.1.1.1 ↗ a/b three-layered sandwiches › Carbamate kinase-like › Carbamate kinase-like › Carbamate kinase-like › AA_kinase 0.51 40.0 2.71e-01 88.2% 54.5%
3288812 5050.1.1.55 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr, MFS_1 0.51 44.0 2.73e-01 100.0% 29.5%
D3 medium residues 69-92_209-243_301-390
PDB
Domain cluster: rep: RNA_dependent_RNA_polymerase__YP_529897__Newbury_agent_1__331642__D58-79_192-241_281-399
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00680.26 best RdRP_1 57.2 1.80e-15 61.1% 21.1%
D4 medium residues 93-208_244-300
PDB
Domain cluster: rep: hypothetical_protein_3__YP_009345007__Wuhan_spider_virus_8__1923757__D1-105_147-200
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00680.26 best RdRP_1 65.8 4.40e-18 67.6% 26.2%