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RNA-dependent_RNA_polymerase

Euk-Vir

Hubei_narna-like_virus_12

RNA-dependent_RNA_polymerase__YP_009336759__Hubei_narna-like_virus_12__1922942

Identity

Accession:
YP_009336759 ↗
Protein ID:
RNA-dependent_RNA_polymerase
Kingdom:
euk

Quality

75.4 mean pLDDT

Cluster

View cluster (11 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 344-498_535-573
PDB
Domain cluster: rep: replication_associated_protein__YP_009345107__Amphibola_crenata_associated_bacilladnavirus_1__1941435__D302-478
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00910.29 best RNA_helicase 100.7 8.60e-29 54.1% 98.1%
D2 medium residues 19-119
PDB
Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009337385__Changjiang_narna-like_virus_4__1922779__D8-108
D3 medium residues 120-249
PDB
Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009337385__Changjiang_narna-like_virus_4__1922779__D109-233
D4 medium residues 250-265_280-331_626-658_705-749
PDB
Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009333153__Beihai_narna-like_virus_14__1922441__D77-145_426-451_481-543
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3h20A04 1.10.1240.50 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.51 26.0 3.20e-01 76.7% 77.5%
D5 medium residues 266-279_659-704_750-836
PDB
Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009337087__Hubei_narna-like_virus_4__1922958__D375-415_481-588
D6 medium residues 837-904
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4d3pA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.61 52.0 4.05e-01 95.6% 87.1%
2j16A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.60 51.0 4.14e-01 95.6% 87.2%
2esbA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.60 51.0 3.86e-01 95.6% 86.4%
3r2cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.59 49.0 3.94e-01 94.1% 94.2%
2r0bA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.59 50.0 3.87e-01 95.6% 89.4%
3nufB00 1.10.1790.10 Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › PRD domain 0.58 39.0 3.43e-01 72.1% 85.7%
4z4qA04 1.10.268.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase; domain 3 › Topoisomerase, domain 3 0.57 37.0 3.48e-01 70.6% 51.7%
1kl7A01 3.90.1380.10 Alpha Beta › Alpha-Beta Complex › threonine synthase, domain 1, chain A › Threonine synthase, N-terminal domain 0.57 39.0 3.59e-01 73.5% 82.8%
4dlqA02 1.25.40.610 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.56 47.0 4.28e-01 95.6% 81.1%
3eyyA01 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 0.56 41.0 3.88e-01 79.4% 65.9%
3g2bA00 1.10.10.1150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) 0.55 40.0 3.66e-01 76.5% 57.8%
6wshA02 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 0.53 32.0 3.45e-01 72.1% 70.9%
2dhmA01 3.30.300.90 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › BolA-like 0.53 43.0 3.96e-01 91.2% 73.3%
3au4A01 1.25.40.530 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › MyTH4 domain 0.52 41.0 3.10e-01 94.1% 66.8%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
10305 7516.1.1.25 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › TcdA_TcdB 0.63 44.0 2.70e-01 75.0% 15.1%
4971366 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.60 41.0 3.97e-01 79.4% 64.0%
3927048 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.59 43.0 3.84e-01 80.9% 53.0%
1284299 101.1.2.25 ↗ alpha arrays › HTH › HTH › winged helix domain › FUR 0.58 43.0 3.31e-01 79.4% 34.8%
4985252 101.1.2.141 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_24 0.58 40.0 4.07e-01 79.4% 75.4%
5033230 101.1.2.141 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_24 0.55 38.0 4.11e-01 79.4% 89.1%
4972840 2004.1.3.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III › POR 0.54 47.0 3.39e-01 100.0% 84.9%
5070839 2006.1.1.18 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD_2 0.52 41.0 2.83e-01 83.8% 43.9%
3602377 109.2.1.19 ↗ alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid › C5-epim_C 0.52 44.0 3.06e-01 100.0% 46.9%
4978129 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.52 42.0 2.63e-01 91.2% 27.6%
5067099 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.52 42.0 3.48e-01 94.1% 54.8%
D7 medium residues 905-1002_1014-1026
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2qtsA04 1.10.287.820 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Acid-sensing ion channel domain 0.53 32.0 3.61e-01 84.7% 79.8%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3179391 109.4.1.166 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DUF3535 0.50 36.0 2.44e-01 75.7% 40.9%
3391090 7004.1.1.0 ↗ 0.50 29.0 3.13e-01 87.4% 65.3%
D8 medium residues 1003-1013_1027-1101
PDB