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ribonucleotide_reductase_subunit_1
Euk-VirSaimiriine_betaherpesvirus_4
ribonucleotide_reductase_subunit_1__YP_004940217__Saimiriine_betaherpesvirus_4__1535247
Identity
- Accession:
- YP_004940217 ↗
- Protein ID:
- ribonucleotide_reductase_subunit_1
- Kingdom:
- euk
Quality
81.5
mean pLDDT
Taxonomy
Heunggongvirae›
Peploviricota›
Herviviricetes›
Herpesvirales›
Orthoherpesviridae›
Cytomegalovirus›
Saimiriine_betaherpesvirus_4
TaxID: 1535247
Cluster
View cluster (25 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 163-289
Domain cluster:
rep: ribonucleotide_reductase_subunit_1__YP_401655__Human_gammaherpesvirus_4__10376__D15-179
CATH (5)
| 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 › | 0.78 | 69.0 | 4.26e-01 | 100.0% | 18.3% |
| 1xjkA00 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.77 | 54.0 | 3.32e-01 | 72.4% | 14.4% |
| 2no4A02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.65 | 32.0 | 4.01e-01 | 70.9% | 77.3% |
| 2l95A00 | 1.10.287.2250 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.52 | 29.0 | 3.53e-01 | 81.1% | 86.3% |
| 2v40A02 | 1.10.300.10 | Mainly Alpha › Orthogonal Bundle › Adenylosuccinate Synthetase, subunit A; domain 2 › Adenylosuccinate Synthetase, subunit A, domain 2 | 0.50 | 27.0 | 3.24e-01 | 100.0% | 76.1% |
ECOD (12)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5034061 | 148.1.3.400 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Ribonuc_red_lgN | 0.84 | 52.0 | 4.47e-01 | 71.7% | 42.1% |
| 4976420 | 1074.1.1.0 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases | 0.82 | 53.0 | 5.81e-01 | 74.0% | 79.0% |
| 3948801 | 1074.1.1.1 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Ribonuc_red_lgN | 0.79 | 72.0 | 7.28e-01 | 100.0% | 97.6% |
| 4340041 | 1074.1.1.3 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › RNR_Alpha | 0.79 | 62.0 | 6.52e-01 | 86.6% | 90.4% |
| 4230006 | 1074.1.1.3 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › RNR_Alpha | 0.76 | 58.0 | 6.09e-01 | 86.6% | 87.8% |
| 4308397 | 1074.1.1.4 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Ribonuc_red_2_N | 0.72 | 57.0 | 5.14e-01 | 81.1% | 91.5% |
| 3518945 | 524.1.1.0 ↗ | alpha arrays › Ypt/Rab-GAP domain of gyp1p-like › Ypt/Rab-GAP domain of gyp1p › Ypt/Rab-GAP domain of gyp1p | 0.55 | 46.0 | 4.41e-01 | 97.6% | 78.0% |
| 4952081 | 3352.1.1.0 ↗ | alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain | 0.55 | 44.0 | 3.15e-01 | 85.0% | 41.8% |
| 3683201 | 5073.1.1.0 ↗ | alpha bundles › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain M | 0.54 | 45.0 | 3.01e-01 | 93.7% | 87.5% |
| 3536512 | 192.29.1.100 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF4211 | 0.52 | 39.0 | 3.76e-01 | 79.5% | 84.7% |
| 3631008 | 5073.1.2.9 ↗ | alpha bundles › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain-related › Copper efflux ATPase transmembrane domain › Cation_ATPase_C | 0.50 | 43.0 | 3.50e-01 | 93.7% | 90.2% |
| 163703 | 101.1.9.84 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR, MerR_1 | 0.50 | 36.0 | 3.16e-01 | 93.7% | 46.8% |
D2
medium
residues 393-448
Domain cluster:
representative
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1peqA03 | 1.10.1650.20 | Mainly Alpha › Orthogonal Bundle › 50s Ribosomal Protein L19e, Chain O, domain 1 › | 0.65 | 53.0 | 5.43e-01 | 92.9% | 100.0% |
| 6gt9A02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.62 | 42.0 | 2.99e-01 | 71.4% | 62.6% |
| 2eggB01 | 3.40.50.10860 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 | 0.53 | 38.0 | 2.90e-01 | 78.6% | 82.0% |
ECOD (4)
| 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 | 0.86 | 76.0 | 4.26e-01 | 100.0% | 9.3% |
| 1512999 | 3953.1.1.0 ↗ | a+b two layers › Csd3 N-terminal domain › Csd3 N-terminal domain › Csd3 N-terminal domain | 0.54 | 40.0 | 3.47e-01 | 85.7% | 80.2% |
| 4076539 | 2005.1.1.5 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1c | 0.54 | 42.0 | 2.77e-01 | 92.9% | 89.5% |
| 3234873 | 101.1.1.228 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › Eaf7 | 0.52 | 37.0 | 3.10e-01 | 78.6% | 84.5% |
D3
medium
residues 503-654_692-712
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 53.7 | 2.10e-14 | 97.7% | 23.8% |
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4dylA02 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.63 | 27.0 | 3.60e-01 | 78.0% | 73.4% |
| 3fppA03 | 6.10.140.1990 | Special › Helix non-globular › Helix Hairpins › | 0.58 | 25.0 | 3.40e-01 | 79.2% | 77.3% |
| 4nsmA00 | 6.10.250.2770 | Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.53 | 22.0 | 3.31e-01 | 79.8% | 90.1% |
| 1t72A02 | 1.20.58.220 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 | 0.53 | 27.0 | 3.60e-01 | 87.9% | 87.8% |
| 4q5nA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.51 | 30.0 | 3.62e-01 | 71.1% | 89.3% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4994375 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.81 | 75.0 | 5.16e-01 | 96.0% | 37.2% |
| 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 | 0.74 | 70.0 | 4.73e-01 | 100.0% | 38.1% |
| 3681223 | 109.4.1.1124 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_ANAPC2 | 0.54 | 43.0 | 2.95e-01 | 83.2% | 48.4% |
| 3249848 | 376.1.1.21 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 | 0.51 | 25.0 | 3.38e-01 | 71.7% | 90.6% |
D4
medium
residues 655-691_758-797
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 31.8 | 9.00e-08 | 90.9% | 8.4% |