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ribonucleotide_reductase_large_subunit
Euk-VirCricetid_gammaherpesvirus_2
ribonucleotide_reductase_large_subunit__YP_004207897__Cricetid_gammaherpesvirus_2__1605972
Identity
- Accession:
- YP_004207897 ↗
- Protein ID:
- ribonucleotide_reductase_large_subunit
- Kingdom:
- euk
Quality
88.9
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Rhadinovirus›
Cricetid_gammaherpesvirus_2
TaxID: 1605972
Cluster
View cluster (122 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 4-161
Domain cluster:
rep: ribonucleotide_reductase_subunit_1__YP_401655__Human_gammaherpesvirus_4__10376__D15-179
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00317.27 best | Ribonuc_red_lgN | 34.2 | 3.00e-08 | 47.5% | 72.7% |
D2
medium
residues 162-183_399-516_579-594_655-675
Domain cluster:
rep: rr1__YP_009552690__Operophtera_brumata_nucleopolyhedrovirus__1046267__D445-618_684-706
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 88.1 | 7.40e-25 | 81.9% | 22.7% |
CATH (9)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2wghA00 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.89 | 87.0 | 5.61e-01 | 100.0% | 75.8% |
| 1xjkA00 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.87 | 85.0 | 5.53e-01 | 100.0% | 80.3% |
| 1r1rA02 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.83 | 80.0 | 5.52e-01 | 100.0% | 91.3% |
| 1peqA02 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.82 | 80.0 | 5.58e-01 | 100.0% | 92.1% |
| 1l1lA01 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.79 | 76.0 | 5.22e-01 | 100.0% | 75.1% |
| 2x5eA00 | 3.20.20.370 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycoside hydrolase/deacetylase | 0.60 | 44.0 | 3.97e-01 | 100.0% | 55.2% |
| 3rkvA00 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.55 | 29.0 | 3.22e-01 | 79.1% | 60.5% |
| 2oerA00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.54 | 39.0 | 3.97e-01 | 74.6% | 83.8% |
| 2iaiA02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.52 | 33.0 | 3.69e-01 | 77.4% | 81.6% |
ECOD (33)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 996122 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.89 | 78.0 | 5.18e-01 | 89.8% | 85.2% |
| 4822330 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.89 | 78.0 | 5.54e-01 | 90.4% | 88.9% |
| 4934525 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.88 | 79.0 | 5.32e-01 | 91.5% | 85.7% |
| 5040104 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.88 | 81.0 | 5.53e-01 | 93.8% | 88.0% |
| 4993733 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.88 | 86.0 | 5.76e-01 | 100.0% | 80.9% |
| 4985374 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.87 | 85.0 | 5.66e-01 | 100.0% | 78.8% |
| 3972491 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.87 | 78.0 | 5.22e-01 | 92.1% | 90.8% |
| 4994375 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.87 | 77.0 | 5.29e-01 | 90.4% | 88.0% |
| 4298539 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.86 | 77.0 | 5.19e-01 | 91.0% | 91.2% |
| 4190659 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.86 | 78.0 | 4.98e-01 | 92.7% | 90.9% |
| 5058546 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.86 | 78.0 | 5.09e-01 | 92.7% | 88.4% |
| 4564490 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.86 | 78.0 | 5.20e-01 | 92.7% | 88.0% |
| 5030208 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.86 | 77.0 | 5.06e-01 | 92.7% | 84.4% |
| 3500621 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.84 | 74.0 | 5.05e-01 | 90.4% | 92.9% |
| 3823652 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.84 | 80.0 | 5.34e-01 | 97.7% | 90.3% |
| 2504767 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.82 | 72.0 | 4.96e-01 | 89.8% | 93.5% |
| 4145444 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.82 | 73.0 | 4.94e-01 | 90.4% | 90.1% |
| 2472944 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.82 | 72.0 | 5.12e-01 | 89.8% | 90.1% |
| 4937370 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.81 | 77.0 | 5.05e-01 | 97.7% | 92.7% |
| 4015532 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.81 | 77.0 | 5.11e-01 | 97.7% | 85.6% |
| 4990406 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.80 | 76.0 | 5.02e-01 | 97.7% | 91.2% |
| 4963031 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.80 | 72.0 | 4.70e-01 | 92.1% | 88.1% |
| 5051775 | 2500.1.1.9 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › RNR-II_ins_dom | 0.76 | 67.0 | 4.64e-01 | 91.0% | 88.6% |
| 3275621 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.76 | 68.0 | 4.81e-01 | 92.1% | 84.9% |
| 3590466 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.75 | 71.0 | 4.79e-01 | 97.7% | 88.6% |
| 4208725 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.74 | 66.0 | 4.61e-01 | 92.1% | 86.6% |
| 3974803 | 1075.1.2.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX | 0.57 | 43.0 | 4.36e-01 | 78.0% | 89.4% |
| 4992835 | 1075.1.2.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX | 0.57 | 43.0 | 3.23e-01 | 79.1% | 85.9% |
| 3954871 | 1075.1.2.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX | 0.57 | 42.0 | 4.02e-01 | 75.7% | 94.1% |
| 5006033 | 1075.1.2.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX | 0.54 | 41.0 | 3.95e-01 | 77.4% | 88.0% |
| 3722363 | 310.2.1.0 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF | 0.53 | 39.0 | 4.12e-01 | 76.8% | 98.1% |
| 3504305 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.50 | 28.0 | 3.53e-01 | 72.3% | 89.5% |
| 3890513 | 3914.1.1.4 ↗ | alpha bundles › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › TMC | 0.50 | 43.0 | 3.28e-01 | 93.2% | 51.8% |
D3
medium
residues 184-287_357-398
Domain cluster:
rep: IMGVR_UViG_3300028089_000252-3300028089-Ga0255299_10029802__D277-388_452-478
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 47.3 | 1.80e-12 | 71.9% | 20.0% |
| PF02867.21 | Ribonuc_red_lgC | 32.2 | 6.80e-08 | 29.4% | 6.9% |
D4
medium
residues 288-356
Domain cluster:
rep: orf61__YP_009044444__Alcelaphine_gammaherpesvirus_2__138184__D298-350
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 39.0 | 5.70e-10 | 100.0% | 12.8% |
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2wghA00 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.96 | 88.0 | 4.96e-01 | 100.0% | 10.4% |
| 2g9wA01 | 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 | 0.63 | 31.0 | 3.21e-01 | 100.0% | 49.3% |
| 6m5nA00 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.59 | 43.0 | 2.92e-01 | 78.3% | 97.7% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3823652 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.96 | 89.0 | 5.04e-01 | 100.0% | 11.9% |
| 4015532 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.95 | 88.0 | 5.02e-01 | 100.0% | 11.7% |
| 4822330 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.95 | 91.0 | 5.30e-01 | 100.0% | 15.1% |
| 996122 | 2500.1.1.2 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC | 0.95 | 86.0 | 4.89e-01 | 100.0% | 11.3% |
| 5024019 | 327.16.1.18 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › Se_S_carrier | 0.54 | 37.0 | 3.54e-01 | 71.0% | 76.2% |
| 3784221 | 7579.1.1.42 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Hydrolase_4 | 0.52 | 37.0 | 2.57e-01 | 79.7% | 80.0% |
| 4383741 | 101.1.2.135 ↗ | alpha arrays › HTH › HTH › winged helix domain › MarR_2 | 0.51 | 44.0 | 4.19e-01 | 100.0% | 96.5% |
D5
medium
residues 517-578
Domain cluster:
rep: ribonucleotide-reductase,_large_subunit__YP_009042040__Bovine_gammaherpesvirus_6__1504288__D546-596
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 34.9 | 1.00e-08 | 98.4% | 10.3% |