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MN939540.1__QIG61060.1__vBLivaVAfA18_136__00136
Bact-VirMN939540.1__QIG61060.1__vBLivaVAfA18_136__00136
Identity
- Accession:
- MN939540 ↗
- Kingdom:
- phage
Quality
73.2
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Herelleviridae›
Pecentumvirus›
Listeria_phage_vB_Liva_VAfA18
TaxID: 2712945
Cluster
Singleton — not in a non-trivial cluster
3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 48-129
Domain cluster:
rep: MN552145.1__QGJ84988.1__X__00107__D25-87
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF02867.21 best | Ribonuc_red_lgC | 45.6 | 5.90e-12 | 85.4% | 13.0% |
CATH (21)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1r1rA02 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.87 | 72.0 | 4.29e-01 | 100.0% | 14.0% |
| 2wghA00 | 3.20.70.20 | Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › | 0.75 | 71.0 | 4.10e-01 | 100.0% | 44.1% |
| 4i1tA02 | 3.30.70.2640 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Arenavirus RNA polymerase | 0.74 | 45.0 | 4.49e-01 | 74.4% | 59.5% |
| 6ogmD00 | 3.30.429.10 | Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor | 0.70 | 39.0 | 4.39e-01 | 70.7% | 72.1% |
| 2fm7A00 | 3.30.429.10 | Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor | 0.68 | 38.0 | 4.25e-01 | 70.7% | 71.0% |
| 4bxoA01 | 3.40.50.10130 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.66 | 36.0 | 3.02e-01 | 73.2% | 30.4% |
| 4uiqB00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.65 | 46.0 | 3.75e-01 | 74.4% | 87.6% |
| 3u80A00 | 3.40.50.9100 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Dehydroquinase, class II | 0.63 | 33.0 | 2.85e-01 | 72.0% | 30.7% |
| 4m1aA00 | 3.30.429.10 | Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor | 0.63 | 38.0 | 3.54e-01 | 100.0% | 45.8% |
| 3by5A00 | 3.30.420.180 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › CobE/GbiG C-terminal domain | 0.63 | 33.0 | 2.88e-01 | 72.0% | 32.5% |
| 1xttB00 | 3.40.50.2020 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.62 | 42.0 | 3.13e-01 | 70.7% | 95.2% |
| 3ekiA01 | 3.40.190.180 | Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Cypl, domain I | 0.62 | 44.0 | 3.43e-01 | 74.4% | 35.2% |
| 1qysA00 | 3.30.1710.10 | Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein | 0.60 | 32.0 | 3.13e-01 | 70.7% | 45.7% |
| 1i5eA00 | 3.40.50.2020 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.57 | 40.0 | 2.98e-01 | 73.2% | 94.2% |
| 4uuwA01 | 3.40.980.10 | Alpha Beta › 3-Layer(aba) Sandwich › Molybdenum Cofactor Biosythetic Enzyme; Chain A › MoaB/Mog-like domain | 0.57 | 33.0 | 2.64e-01 | 76.8% | 26.7% |
| 3qvsA02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.53 | 34.0 | 3.27e-01 | 76.8% | 52.5% |
| 4nesA02 | 3.40.50.2000 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; | 0.52 | 29.0 | 2.37e-01 | 72.0% | 25.8% |
| 2bsnA00 | 3.30.420.180 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › CobE/GbiG C-terminal domain | 0.51 | 32.0 | 2.75e-01 | 97.6% | 35.2% |
| 1e3gA00 | 1.10.565.10 | Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor | 0.51 | 44.0 | 3.16e-01 | 97.6% | 39.6% |
| 7x0fA01 | 3.30.559.10 | Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain | 0.51 | 39.0 | 3.29e-01 | 100.0% | 46.6% |
| 3hhfA01 | 3.40.190.10 | Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II | 0.51 | 28.0 | 2.63e-01 | 74.4% | 38.6% |
ECOD (27)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3963206 | 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 | 73.0 | 4.30e-01 | 100.0% | 13.2% |
| 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 | 0.88 | 73.0 | 4.31e-01 | 100.0% | 13.5% |
| 3942765 | 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 | 72.0 | 4.28e-01 | 100.0% | 13.4% |
| 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 | 0.85 | 73.0 | 4.30e-01 | 100.0% | 13.8% |
| 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 | 79.0 | 4.70e-01 | 100.0% | 16.7% |
| 3958480 | 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 | 0.83 | 72.0 | 4.55e-01 | 100.0% | 20.5% |
| 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 | 0.77 | 73.0 | 4.30e-01 | 100.0% | 53.5% |
| 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 | 0.76 | 72.0 | 4.23e-01 | 100.0% | 53.6% |
| 4015532 | 2500.1.1.0 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel | 0.76 | 72.0 | 4.20e-01 | 100.0% | 49.6% |
| 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 | 0.76 | 71.0 | 4.16e-01 | 100.0% | 49.5% |
| 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 | 0.74 | 70.0 | 4.08e-01 | 100.0% | 57.4% |
| 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 | 0.74 | 70.0 | 4.14e-01 | 100.0% | 47.0% |
| 5063882 | 1074.1.1.6 ↗ | alpha arrays › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Alpha helical domain of ribonucleotide reductases › Ribonuc_red_lgC | 0.73 | 70.0 | 4.38e-01 | 100.0% | 69.3% |
| 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 | 0.70 | 67.0 | 3.88e-01 | 100.0% | 52.7% |
| 5079137 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.67 | 48.0 | 3.95e-01 | 74.4% | 47.9% |
| 5076295 | 2008.1.1.107 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD | 0.65 | 46.0 | 3.93e-01 | 74.4% | 45.9% |
| 3796496 | 7590.1.1.0 ↗ | a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs | 0.63 | 41.0 | 3.45e-01 | 80.5% | 38.6% |
| 4200435 | 7541.1.1.1 ↗ | a/b three-layered sandwiches › Molybdenum cofactor biosynthesis proteins › Molybdenum cofactor biosynthesis proteins › Molybdenum cofactor biosynthesis proteins › MoCF_biosynth | 0.61 | 36.0 | 2.86e-01 | 79.3% | 26.7% |
| 4929961 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.58 | 31.0 | 2.76e-01 | 74.4% | 32.5% |
| 2491402 | 2008.1.1.47 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_Bpu10I | 0.56 | 38.0 | 2.76e-01 | 72.0% | 33.2% |
| 3969016 | 7579.1.1.3 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Peptidase_S9 | 0.55 | 48.0 | 3.46e-01 | 100.0% | 44.4% |
| 5012709 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.54 | 40.0 | 2.95e-01 | 80.5% | 42.6% |
| 4880160 | 323.1.1.5 ↗ | a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation | 0.53 | 40.0 | 3.08e-01 | 100.0% | 35.1% |
| 3277954 | 2008.1.1.67 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RecC_C | 0.52 | 37.0 | 2.58e-01 | 78.0% | 96.0% |
| 5001483 | 304.24.1.1 ↗ | a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_C | 0.51 | 28.0 | 2.95e-01 | 100.0% | 57.3% |
| 2554256 | 323.1.1.5 ↗ | a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › Condensation | 0.51 | 36.0 | 2.79e-01 | 73.2% | 62.8% |
| 4116524 | 212.1.1.3 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › GHMP_kinases_N | 0.51 | 30.0 | 2.37e-01 | 93.9% | 25.9% |