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RdRp

Euk-Vir

Hubei_permutotetra-like_virus_2

RdRp__YP_009337336__Hubei_permutotetra-like_virus_2__1923076

Identity

Accession:
YP_009337336 ↗
Protein ID:
RdRp
Kingdom:
euk

Quality

75.2 mean pLDDT

Cluster

View cluster (20 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 62-98_133-282_354-422
PDB
Domain cluster: rep: NIb__YP_009221991__Jasmine_virus_T__1775963__D1-51_64-80_112-210_276-312
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF22152.2 best Permu_RdRp_palm 218.5 1.70e-64 57.4% 40.9%
PF22152.2 Permu_RdRp_palm 98.3 6.10e-28 27.7% 20.2%
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2pggA01 3.90.1730.10 Alpha Beta › Alpha-Beta Complex › Infectious bursal virus vp1 polymerase fold › Infectious bursal virus vp1 polymerase domain 0.84 79.0 7.08e-01 98.4% 92.1%
1mukA02 3.90.1850.10 Alpha Beta › Alpha-Beta Complex › RNA-directed RNA polymerase lambda-3 › RNA-directed RNA polymerase lambda-3 0.71 58.0 4.56e-01 85.2% 60.2%
2yguC00 1.10.238.190 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › 0.54 24.0 3.33e-01 70.7% 83.1%
4xaxB02 1.20.58.1290 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › CarD-like, C-terminal domain 0.51 20.0 2.97e-01 77.3% 84.8%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1699894 304.48.2.2 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › 'palm' domain in birnaviruse RNA-dependent RNA polymerase › Permu_RdRp_palm 0.97 95.0 7.14e-01 100.0% 68.3%
1145898 304.48.2.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › 'palm' domain in birnaviruse RNA-dependent RNA polymerase › Birna_RdRp_palm 0.85 82.0 6.30e-01 100.0% 81.7%
None — 0.85 82.0 6.34e-01 100.0% 83.6%
5366 304.48.1.15 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_3 0.76 63.0 5.36e-01 86.3% 63.6%
1789314 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 0.72 69.0 5.83e-01 99.6% 83.0%
2994348 304.48.1.9 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1,CoV_RPol_N 0.70 66.0 4.40e-01 100.0% 39.2%
3928372 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.69 58.0 4.53e-01 86.3% 51.1%
3884315 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.69 58.0 4.24e-01 86.3% 43.8%
3772920 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.68 56.0 5.32e-01 85.9% 91.7%
3260077 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.68 56.0 4.85e-01 86.7% 72.3%
3753579 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.68 56.0 4.36e-01 86.3% 52.1%
3877925 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.67 56.0 4.81e-01 86.3% 67.5%
3789227 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.67 52.0 4.85e-01 79.7% 78.7%
3937215 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.67 55.0 4.75e-01 86.3% 67.1%
3939319 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.66 54.0 4.65e-01 84.8% 68.6%
3938749 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.66 55.0 4.82e-01 86.3% 71.1%
3920615 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.66 60.0 4.90e-01 96.5% 67.9%
3273928 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.65 59.0 4.49e-01 95.3% 58.1%
3753267 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.65 58.0 4.86e-01 95.3% 70.3%
3927049 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.64 58.0 4.90e-01 95.3% 72.0%
3766919 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.64 59.0 4.22e-01 96.9% 47.9%
3645993 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.64 53.0 4.60e-01 86.3% 69.4%
3875601 141.1.1.0 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases 0.64 59.0 3.93e-01 98.0% 40.8%
3899435 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.64 57.0 4.73e-01 95.3% 72.1%
3676014 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.62 56.0 4.27e-01 96.5% 49.2%
3655168 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.61 56.0 4.77e-01 97.3% 70.5%
3889441 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.60 55.0 4.52e-01 96.9% 69.3%
4424453 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.60 54.0 4.17e-01 96.5% 51.3%
3651623 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.59 46.0 4.73e-01 80.5% 88.6%
D2 high residues 769-909
PDB
D3 medium residues 283-353_423-483
PDB
Domain cluster: rep: RdRp__YP_009337318__Hubei_permutotetra-like_virus_6__1923080__D328-384_485-539
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF22152.2 best Permu_RdRp_palm 77.1 1.70e-21 54.5% 18.5%
PF22152.2 Permu_RdRp_palm 76.2 3.10e-21 47.7% 17.1%
D4 medium residues 484-637
PDB
Domain cluster: rep: RdRp__YP_009337318__Hubei_permutotetra-like_virus_6__1923080__D29-60_540-665
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF22260.2 best Permu_RdRp_thumb 141.0 1.80e-41 68.2% 100.0%