Back to structures

OQ504960.1__WID42032.1__X__00060

Bact-Vir

OQ504960.1__WID42032.1__X__00060

Identity

Accession:
OQ504960 ↗
Kingdom:
phage

Quality

92.5 mean pLDDT

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 medium residues 26-108
PDB
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1rznA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.77 71.0 5.77e-01 100.0% 56.0%
2fkcA01 3.40.1350.40 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.73 47.0 4.27e-01 92.8% 50.0%
2eo0B00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.71 60.0 5.22e-01 100.0% 61.3%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.69 51.0 4.99e-01 96.4% 71.4%
2zyzC00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.69 50.0 4.77e-01 96.4% 65.6%
4dapA02 3.40.1350.60 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.66 59.0 4.83e-01 100.0% 81.6%
1tx3D00 3.40.600.10 Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › DNA mismatch repair MutH/Restriction endonuclease, type II 0.65 57.0 4.10e-01 100.0% 63.1%
2xi5A00 3.40.91.60 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.61 51.0 3.98e-01 92.8% 51.6%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.60 52.0 3.92e-01 100.0% 46.6%
1jeyA01 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.59 44.0 3.29e-01 78.3% 41.8%
1d02B00 3.40.580.10 Alpha Beta › 3-Layer(aba) Sandwich › ECO RI Endonuclease; Chain A › Eco RI Endonuclease, subunit A 0.59 49.0 3.73e-01 91.6% 67.0%
3abgB01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.58 49.0 3.96e-01 92.8% 82.7%
5cw3C01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.58 47.0 3.95e-01 89.2% 78.9%
4oa3A00 3.10.310.50 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.58 43.0 3.67e-01 83.1% 46.8%
4f7oA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.58 50.0 3.73e-01 100.0% 43.4%
3ndhA00 3.40.600.30 Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › 0.58 52.0 3.87e-01 100.0% 49.5%
4wfqA00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.57 42.0 3.23e-01 78.3% 37.5%
4i1tA02 3.30.70.2640 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Arenavirus RNA polymerase 0.57 42.0 4.24e-01 80.7% 97.6%
3ewiB00 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.57 42.0 3.44e-01 78.3% 42.4%
4hlbA00 3.30.70.2960 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 48.0 4.62e-01 95.2% 98.9%
4rckA00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.56 41.0 3.15e-01 79.5% 38.2%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.56 47.0 3.65e-01 98.8% 44.2%
4dunA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.56 40.0 3.52e-01 86.7% 49.6%
3m7vA02 3.30.70.1250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Phosphopentomutase 0.56 47.0 4.20e-01 95.2% 90.9%
2qb7B02 3.10.310.20 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › DHHA2 domain 0.56 45.0 3.89e-01 91.6% 77.9%
3odhA00 3.40.91.20 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.55 42.0 3.30e-01 84.3% 55.2%
4fvaC00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.55 46.0 3.34e-01 94.0% 51.0%
4u5pA00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.55 41.0 3.55e-01 81.9% 75.0%
3fovA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.55 47.0 4.42e-01 96.4% 78.4%
5zyuA01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.54 46.0 3.60e-01 100.0% 49.8%
4oc8A01 2.30.280.20 Mainly Beta › Roll › PUA domain-like › 0.54 47.0 3.55e-01 100.0% 61.4%
3hy3A00 3.40.50.10420 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NagB/RpiA/CoA transferase-like 0.54 39.0 3.08e-01 97.6% 33.7%
2o8eA01 3.40.1170.10 Alpha Beta › 3-Layer(aba) Sandwich › MutS, DNA mismatch repair protein, domain I › DNA repair protein MutS, domain I 0.53 44.0 3.88e-01 89.2% 98.3%
6fnnB01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.53 46.0 3.93e-01 100.0% 59.7%
2ewfA03 3.40.91.50 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › 0.53 45.0 3.41e-01 100.0% 59.1%
4du5B00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.52 39.0 2.70e-01 79.5% 34.6%
3lfjB00 3.40.35.10 Alpha Beta › 3-Layer(aba) Sandwich › Fructose Permease › Phosphotransferase system, sorbose subfamily IIB component 0.52 44.0 3.53e-01 100.0% 47.0%
2x5nA01 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.51 41.0 3.28e-01 89.2% 72.1%
2g3wA00 3.10.640.10 Alpha Beta › Roll › Restriction endonuclease-like alpha-beta roll fold › Restriction endonuclease-like alpha-beta roll domain 0.51 43.0 3.42e-01 95.2% 67.0%
3d36B01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.51 41.0 3.44e-01 94.0% 82.5%
1xubA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.51 43.0 3.69e-01 100.0% 78.4%
2qlcA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.51 43.0 3.82e-01 97.6% 67.5%
3ragB00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.50 42.0 3.23e-01 100.0% 57.1%
ECOD (65)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4357158 2008.1.1.13 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RecU 0.81 71.0 5.49e-01 100.0% 45.1%
5004397 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.77 70.0 5.58e-01 100.0% 64.4%
5072012 2008.1.1.3 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Hjc 0.75 55.0 5.39e-01 96.4% 71.1%
5001440 2008.1.1.11 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SfsA 0.70 64.0 5.07e-01 100.0% 75.8%
5035680 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 62.0 4.85e-01 100.0% 48.3%
5057784 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 57.0 5.46e-01 94.0% 78.9%
5066637 2008.1.1.11 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SfsA 0.69 62.0 5.04e-01 100.0% 58.7%
3884920 2008.2.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.67 58.0 4.69e-01 96.4% 59.4%
5081349 2008.2.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.67 52.0 4.85e-01 96.4% 66.7%
3005282 2008.2.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.67 58.0 5.08e-01 96.4% 76.0%
4975898 2008.1.1.11 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SfsA 0.66 60.0 4.64e-01 100.0% 67.2%
3625561 2008.2.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.66 53.0 5.00e-01 96.4% 72.0%
4938771 2008.1.1.11 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SfsA 0.66 60.0 4.94e-01 100.0% 62.1%
5013988 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 59.0 5.08e-01 100.0% 70.0%
4342068 2008.1.1.11 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SfsA 0.65 59.0 4.82e-01 100.0% 61.3%
11017 2008.1.1.42 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Endonuc-HincII 0.65 57.0 4.09e-01 100.0% 61.8%
4060516 2008.1.1.6 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.65 56.0 5.07e-01 96.4% 75.7%
4152182 2008.2.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.64 50.0 4.83e-01 96.4% 73.7%
3602814 2008.1.1.210 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF27324 0.64 58.0 4.44e-01 100.0% 53.5%
4350516 2008.1.1.6 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.63 55.0 5.12e-01 96.4% 80.6%
402316 2008.1.1.65 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › L_protein_N 0.62 51.0 4.00e-01 92.8% 51.9%
5075190 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.61 51.0 4.11e-01 100.0% 47.5%
3951310 3585.1.1.0 a+b two layers › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain › DNA polymerase III C-terminal domain 0.61 39.0 4.12e-01 83.1% 73.3%
4936416 2006.1.6.12 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_2 0.60 45.0 3.24e-01 79.5% 28.8%
3427017 2485.1.1.45 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin_8 0.60 45.0 4.48e-01 80.7% 78.7%
1144868 2008.1.1.66 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ArenaCapSnatch 0.60 46.0 3.70e-01 83.1% 53.8%
3838474 2008.1.1.78 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_endonuc 0.59 49.0 3.92e-01 92.8% 49.7%
4981995 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.59 52.0 4.17e-01 96.4% 80.0%
4670642 2008.1.1.6 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.59 50.0 4.58e-01 96.4% 74.3%
4189444 2008.1.1.6 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.59 50.0 4.55e-01 98.8% 74.2%
3784751 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.58 51.0 3.92e-01 100.0% 60.0%
5013697 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.58 48.0 3.96e-01 100.0% 47.9%
3274159 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 46.0 4.24e-01 96.4% 65.2%
2116981 2008.1.1.66 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ArenaCapSnatch 0.58 44.0 3.43e-01 83.1% 44.3%
5014895 2007.15.1.0 a/b three-layered sandwiches › Flavodoxin-like › N-deoxyribosyltransferase › N-deoxyribosyltransferase 0.58 47.0 4.03e-01 100.0% 54.8%
3227080 2006.1.6.33 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_4 0.57 44.0 3.35e-01 81.9% 36.0%
3290483 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 49.0 3.76e-01 100.0% 58.1%
3974303 4081.1.1.16 beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › T6SS_TssF 0.56 45.0 3.97e-01 88.0% 90.4%
221616 327.7.1.3 a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › DUF6981 0.56 48.0 4.62e-01 95.2% 98.9%
4946427 2004.1.1.308 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21 0.56 43.0 2.91e-01 84.3% 99.7%
5076203 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.55 47.0 3.71e-01 100.0% 46.2%
3399114 2008.1.1.80 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › FAST_2 0.55 45.0 4.02e-01 92.8% 78.4%
4967158 327.7.1.19 a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › Cas_Cas4 0.55 45.0 4.13e-01 97.6% 67.0%
3999455 2485.1.1.0 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.55 40.0 3.50e-01 83.1% 50.0%
5035773 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.55 45.0 3.82e-01 94.0% 57.2%
1155793 5104.1.1.3 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA2 0.54 45.0 3.82e-01 94.0% 79.9%
5057950 3105.1.1.1 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › TPM_phosphatase 0.54 43.0 3.69e-01 88.0% 65.7%
4556488 2485.1.1.69 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › DUF4174 0.54 41.0 3.54e-01 81.9% 76.3%
3529568 2485.1.1.69 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › DUF4174 0.54 41.0 3.49e-01 81.9% 73.6%
4016812 5104.1.1.3 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA2 0.54 44.0 3.70e-01 92.8% 76.6%
5041727 2492.1.1.0 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.54 45.0 3.74e-01 97.6% 69.4%
4884047 2003.1.9.10 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › ThiF, E1_FCCH 0.53 37.0 3.09e-01 95.2% 38.6%
3931829 7579.1.1.14 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Lipase_3 0.53 44.0 3.03e-01 97.6% 36.1%
4973169 7518.1.1.0 a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like 0.53 41.0 3.94e-01 85.5% 85.0%
5001512 247.1.1.1 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.53 41.0 3.16e-01 85.5% 83.0%
3386782 2004.1.1.84 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › TsaE 0.53 38.0 3.28e-01 77.1% 87.4%
4959669 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.52 45.0 3.34e-01 100.0% 37.5%
3704855 2003.1.9.8 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › ThiF, E1_4HB 0.52 47.0 3.33e-01 100.0% 50.4%
4966910 7518.1.1.6 a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like › DacZ_A 0.52 41.0 3.68e-01 86.7% 86.7%
2082815 2003.1.9.8 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › ThiF, E1_4HB 0.51 44.0 3.48e-01 94.0% 61.8%
5046891 300.1.1.0 a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.51 44.0 3.40e-01 100.0% 85.5%
3969876 2006.1.6.15 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF58 0.51 43.0 3.15e-01 92.8% 82.5%
3521006 323.1.1.0 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.51 42.0 3.24e-01 95.2% 66.2%
4977572 7563.1.1.0 a/b three-layered sandwiches › MCP/YpsA-related › MCP/YpsA-related › MCP/YpsA-related 0.50 44.0 3.65e-01 100.0% 70.3%
4543685 225.1.1.17 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c+His_kinase 0.50 41.0 3.18e-01 92.8% 66.5%