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ribonucleoside-diphosphate_reductase_large_chain
Euk-VirTunisvirus_fontaine2
ribonucleoside-diphosphate_reductase_large_chain__YP_009506879__Tunisvirus_fontaine2__1421067
Identity
- Accession:
- YP_009506879 ↗
- Protein ID:
- ribonucleoside-diphosphate_reductase_large_chain
- Kingdom:
- euk
Quality
77.9
mean pLDDT
Taxonomy
Bamfordvirae›
Nucleocytoviricota›
Megaviricetes›
Pimascovirales›
Marseilleviridae›
Losannavirus›
Tunisvirus_fontaine2
TaxID: 1421067
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 1-75_89-134
Domain cluster:
representative
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2pqrA01 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.54 | 37.0 | 4.15e-01 | 77.7% | 90.3% |
| 2g3vA00 | 1.20.120.1140 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CAG pathogenicity island protein 13, CagS | 0.51 | 39.0 | 3.61e-01 | 95.0% | 61.5% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3519243 | 1074.1.1.0 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases | 0.92 | 85.0 | 6.97e-01 | 96.7% | 74.0% |
| 3607359 | 103.2.1.1 ↗ | alpha arrays › RuvA-C › ATP cone › ATP cone › Ribonuc_red_lgN | 0.91 | 87.0 | 7.09e-01 | 100.0% | 73.2% |
| 3721863 | 109.4.1.217 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fis1_TPR_N,Fis1_TPR_C | 0.54 | 37.0 | 3.63e-01 | 78.5% | 65.4% |
| 3845048 | 170.1.1.25 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein-C › Retrovirus capsid protein-C › PNMA | 0.51 | 39.0 | 4.12e-01 | 82.6% | 93.3% |
D2
medium
residues 76-88_135-177
Domain cluster:
representative
CATH (4)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2fnaA02 | 1.10.8.60 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.63 | 49.0 | 4.55e-01 | 89.3% | 76.3% |
| 3lcvB01 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.57 | 47.0 | 4.75e-01 | 89.3% | 93.0% |
| 3b89A01 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.55 | 44.0 | 4.54e-01 | 89.3% | 90.7% |
| 3qwlA02 | 1.10.8.680 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ypt/Rab-GAP domain of gyp1p, domain 2 | 0.53 | 40.0 | 3.71e-01 | 85.7% | 81.8% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3519243 | 1074.1.1.0 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases | 0.98 | 93.0 | 6.06e-01 | 100.0% | 54.0% |
| 3607359 | 103.2.1.1 ↗ | alpha arrays › RuvA-C › ATP cone › ATP cone › Ribonuc_red_lgN | 0.97 | 92.0 | 5.95e-01 | 100.0% | 55.1% |
| 3594035 | 1074.1.1.0 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases | 0.97 | 91.0 | 6.68e-01 | 100.0% | 86.9% |
| 3277072 | 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 | 0.97 | 91.0 | 6.34e-01 | 100.0% | 69.7% |
| 4102625 | 132.3.1.1 ↗ | alpha bundles › ACP-like › Hypothetical protein YjbJ › Hypothetical protein YjbJ › CsbD | 0.55 | 37.0 | 3.62e-01 | 75.0% | 65.0% |
| 4635810 | 148.1.3.173 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_RFC1 | 0.54 | 46.0 | 4.38e-01 | 92.9% | 96.9% |
| 3939049 | 148.1.3.0 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain | 0.50 | 41.0 | 4.02e-01 | 92.9% | 91.7% |
D3
medium
residues 190-303_373-393
Domain cluster:
rep: IMGVR_UViG_3300028089_000252-3300028089-Ga0255299_10029802__D277-388_452-478
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 95.1 | 5.70e-27 | 97.8% | 22.3% |
D4
medium
residues 304-372
Domain cluster:
rep: IMGVR_UViG_3300007266_000133-3300007266-Ga0101450_1063125__D8-101
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 70.5 | 1.60e-19 | 100.0% | 13.2% |
D5
medium
residues 503-575
D6
medium
residues 630-735
Domain cluster:
rep: hypothetical_protein_FR483_N766L__YP_001426398__Paramecium_bursaria_Chlorella_virus_FR483__399781__D433-559_739-758
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 102.2 | 4.10e-29 | 100.0% | 19.9% |
D7
medium
residues 736-828
Domain cluster:
representative
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4fqgA02 | 1.10.10.440 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › FF domain | 0.55 | 30.0 | 3.56e-01 | 90.3% | 80.3% |
| 7zdtD01 | 1.20.1560.10 | Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain | 0.53 | 45.0 | 3.22e-01 | 100.0% | 86.5% |
| 2i2xB01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.52 | 36.0 | 3.54e-01 | 98.9% | 66.0% |
| 5nl6A02 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.52 | 42.0 | 4.07e-01 | 100.0% | 78.7% |
| 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 | 0.52 | 41.0 | 4.05e-01 | 100.0% | 82.7% |
| 3vouB00 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.51 | 39.0 | 3.52e-01 | 83.9% | 58.8% |
| 4jgiA01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.50 | 34.0 | 3.64e-01 | 100.0% | 82.5% |
| 2ms7A00 | 1.10.533.10 | Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas | 0.50 | 35.0 | 3.45e-01 | 73.1% | 99.0% |
ECOD (5)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4927557 | 601.7.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain | 0.58 | 47.0 | 4.44e-01 | 97.8% | 73.0% |
| 3740780 | 604.12.1.2 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1 | 0.53 | 37.0 | 4.01e-01 | 100.0% | 89.3% |
| 4941477 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.53 | 36.0 | 3.60e-01 | 83.9% | 66.0% |
| 3675610 | 101.1.2.386 ↗ | alpha arrays › HTH › HTH › winged helix domain › WH_DRP | 0.52 | 32.0 | 3.09e-01 | 98.9% | 52.4% |
| 3491110 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.50 | 43.0 | 4.09e-01 | 100.0% | 81.8% |