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RNA-dependent_RNA_polymerase
Euk-VirEtheostoma_fonticola_aquareovirus
RNA-dependent_RNA_polymerase__YP_009259508__Etheostoma_fonticola_aquareovirus__1862978
Identity
- Accession:
- YP_009259508 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
90.0
mean pLDDT
Cluster
View cluster (29 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
medium
residues 1-66_151-205
Domain cluster:
rep: Lambda_B__YP_009246466__Mahlapitsi_orthoreovirus__2170064__D14-63_156-216
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07925.16 best | RdRP_5 | 58.9 | 2.70e-16 | 52.9% | 4.9% |
| PF07925.16 | RdRP_5 | 42.8 | 1.90e-11 | 47.1% | 4.3% |
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3bvoA02 | 1.20.1280.20 | Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain | 0.50 | 27.0 | 3.10e-01 | 95.0% | 69.8% |
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2392232 | 4963.1.1.2 ↗ | alpha complex topology › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › RdRP_5 | 0.98 | 94.0 | 6.27e-01 | 99.2% | 53.0% |
| 3290592 | 191.1.1.64 ↗ | alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › DUF4254 | 0.56 | 48.0 | 4.75e-01 | 95.0% | 93.8% |
D2
medium
residues 67-150_206-241
Domain cluster:
rep: core_RNA-dependent_RNA_polymerase__YP_009445963__Piscine_orthoreovirus__1157337__D63-154_212-236
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07925.16 best | RdRP_5 | 70.6 | 8.00e-20 | 71.7% | 6.6% |
| PF07925.16 | RdRP_5 | 43.0 | 1.60e-11 | 31.7% | 2.9% |
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1ti6B02 | 3.30.70.20 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.55 | 23.0 | 3.10e-01 | 88.3% | 75.4% |
| 2p6rA03 | 1.10.3380.30 | Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › | 0.51 | 37.0 | 3.09e-01 | 96.7% | 42.7% |
| 2l2oA00 | 1.10.10.1540 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Costar domain | 0.50 | 35.0 | 3.91e-01 | 80.8% | 100.0% |
ECOD (6)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2392232 | 4963.1.1.2 ↗ | alpha complex topology › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › RdRP_5 | 0.97 | 94.0 | 6.26e-01 | 100.0% | 45.5% |
| 4905 | 4963.1.1.2 ↗ | alpha complex topology › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › RdRP_5 | 0.93 | 90.0 | 6.00e-01 | 100.0% | 45.1% |
| 3218679 | 386.1.1.0 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers | 0.59 | 28.0 | 3.38e-01 | 90.0% | 66.3% |
| 3575930 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.53 | 40.0 | 2.57e-01 | 79.2% | 18.7% |
| 4107264 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.51 | 37.0 | 3.78e-01 | 76.7% | 97.4% |
| 3221607 | 101.1.2.160 ↗ | alpha arrays › HTH › HTH › winged helix domain › BLACT_WH | 0.51 | 28.0 | 3.61e-01 | 92.5% | 100.0% |
D3
medium
residues 242-387
Domain cluster:
rep: Lambda_B__YP_009246466__Mahlapitsi_orthoreovirus__2170064__D217-284_324-370_825-850
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07925.16 best | RdRP_5 | 202.8 | 1.00e-59 | 100.0% | 11.2% |
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6w08A01 | 1.20.1170.10 | Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › | 0.58 | 49.0 | 3.73e-01 | 91.8% | 98.0% |
| 8e9gE01 | 1.10.10.1590 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E | 0.57 | 25.0 | 3.53e-01 | 91.1% | 90.5% |
| 2nwuB01 | 3.30.1440.10 | Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 | 0.57 | 32.0 | 3.38e-01 | 91.8% | 61.1% |
| 2zopA00 | 1.10.520.30 | Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › AF1862-like domain | 0.55 | 39.0 | 4.39e-01 | 93.2% | 97.3% |
| 2kicA00 | 1.10.150.590 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Dinitrogenase iron-molybdenum cofactor, N-terminal | 0.54 | 29.0 | 3.37e-01 | 96.6% | 74.0% |
| 1f0jA00 | 1.10.1300.10 | Mainly Alpha › Orthogonal Bundle › Catalytic domain of cyclic nucleotide phosphodiesterase 4b2b › 3'5'-cyclic nucleotide phosphodiesterase, catalytic domain | 0.53 | 40.0 | 3.12e-01 | 80.1% | 89.5% |
| 3zheD01 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.53 | 36.0 | 3.25e-01 | 92.5% | 49.3% |
| 2elcA01 | 1.20.970.10 | Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C | 0.50 | 22.0 | 2.95e-01 | 93.2% | 79.1% |
| 2rekA00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.50 | 33.0 | 3.17e-01 | 71.9% | 55.8% |
| 2z1qB04 | 1.20.140.10 | Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 | 0.50 | 35.0 | 3.64e-01 | 76.7% | 75.7% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2392232 | 4963.1.1.2 ↗ | alpha complex topology › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › RdRP_5 | 0.98 | 96.0 | 6.66e-01 | 99.3% | 37.7% |
| 4905 | 4963.1.1.2 ↗ | alpha complex topology › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › RdRP_5 | 0.95 | 91.0 | 6.42e-01 | 99.3% | 38.0% |
| 1697856 | 4963.1.1.3 ↗ | alpha complex topology › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › N-terminal additional helical subdomain in reovirus polymerase lambda3 › CPV_RdRP_N | 0.81 | 71.0 | 5.24e-01 | 99.3% | 39.2% |
| 5074457 | 1030.1.1.0 ↗ | alpha duplicates or obligate multimers › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 | 0.64 | 42.0 | 4.79e-01 | 93.2% | 91.4% |
| 2595282 | 3758.1.1.0 ↗ | alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins | 0.59 | 50.0 | 3.78e-01 | 92.5% | 95.2% |
| 146949 | 3171.1.1.1 ↗ | alpha arrays › Nitrogenase gamma subunit N-terminal domain › Nitrogenase gamma subunit N-terminal domain › Nitrogenase gamma subunit N-terminal domain › DIMCO_N | 0.54 | 29.0 | 3.37e-01 | 96.6% | 74.0% |
| 4029332 | 109.4.1.218 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SNAP | 0.53 | 32.0 | 2.54e-01 | 79.5% | 27.9% |
D4
medium
residues 409-460_545-562_600-666
Domain cluster:
rep: RNA_polymerase__YP_009110697__Cangyuan_orthoreovirus__1388882__D397-453_589-643
Pfam (3)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07925.16 best | RdRP_5 | 75.6 | 2.40e-21 | 49.6% | 5.3% |
| PF07925.16 | RdRP_5 | 39.5 | 1.90e-10 | 39.4% | 4.2% |
| PF07925.16 | RdRP_5 | 20.1 | 1.40e-04 | 18.2% | 1.6% |
D5
medium
residues 461-544_667-690
Domain cluster:
representative
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07925.16 best | RdRP_5 | 104.4 | 4.80e-30 | 78.7% | 6.6% |
| PF07925.16 | RdRP_5 | 21.7 | 4.50e-05 | 24.1% | 1.9% |
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1mukA02 | 3.90.1850.10 | Alpha Beta › Alpha-Beta Complex › RNA-directed RNA polymerase lambda-3 › RNA-directed RNA polymerase lambda-3 | 0.92 | 88.0 | 5.45e-01 | 100.0% | 45.1% |
| 4dt4A02 | 2.40.10.330 | Mainly Beta › Beta Barrel › Thrombin, subunit H › | 0.56 | 25.0 | 3.26e-01 | 98.1% | 75.4% |
| 2kr7A02 | 2.40.10.330 | Mainly Beta › Beta Barrel › Thrombin, subunit H › | 0.54 | 24.0 | 3.08e-01 | 98.1% | 73.7% |
| 2z2mD01 | 3.90.1310.10 | Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) | 0.54 | 21.0 | 2.77e-01 | 88.9% | 62.7% |
| 6w1kA01 | 3.10.180.50 | Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › | 0.51 | 42.0 | 3.19e-01 | 95.4% | 95.6% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5368 | 304.48.1.23 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_5 | 0.92 | 88.0 | 5.73e-01 | 100.0% | 58.1% |
| 3945039 | 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 | 0.55 | 50.0 | 3.51e-01 | 100.0% | 52.7% |
| 5061577 | 2002.1.1.29 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › DHDPS | 0.52 | 40.0 | 2.94e-01 | 84.3% | 48.1% |
| 3303322 | 304.9.1.0 ↗ | a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD | 0.50 | 28.0 | 3.23e-01 | 70.4% | 78.6% |
D6
medium
residues 563-599_691-798
Domain cluster:
rep: RNA_polymerase__YP_009110697__Cangyuan_orthoreovirus__1388882__D557-588_685-792
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07925.16 best | RdRP_5 | 154.6 | 3.30e-45 | 75.2% | 8.5% |
| PF07925.16 | RdRP_5 | 61.0 | 6.10e-17 | 26.9% | 3.0% |
D7
medium
residues 966-1058_1128-1172
Domain cluster:
rep: VP2__YP_001837095__American_grass_carp_reovirus__465447__D966-1046_1125-1153
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07925.16 best | RdRP_5 | 73.2 | 1.30e-20 | 68.1% | 7.0% |
| PF07925.16 | RdRP_5 | 48.9 | 2.80e-13 | 37.0% | 3.4% |
D8
medium
residues 1062-1127_1177-1274
Domain cluster:
rep: VP2__YP_001837095__American_grass_carp_reovirus__465447__D1058-1114_1176-1274
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF07925.16 best | RdRP_5 | 99.2 | 1.80e-28 | 61.0% | 7.6% |
| PF07925.16 | RdRP_5 | 82.7 | 1.80e-23 | 41.5% | 5.3% |