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MW980061.1__QXV73617.1__X__00083

Bact-Vir

MW980061.1__QXV73617.1__X__00083

Identity

Accession:
MW980061 ↗
Kingdom:
phage

Quality

75.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Casjensviridae› Rhizobium_phage_RHph_X2_30

TaxID: 2836126

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 5-235
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1p32B00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.54 26.0 2.97e-01 77.1% 56.7%
3a2eA00 3.30.430.20 Alpha Beta › 2-Layer Sandwich › Killer Toxin P4; Chain A › Gnk2 domain, C-X8-C-X2-C motif 0.50 21.0 2.89e-01 75.3% 75.9%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3844431 11.1.1.593 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › INTS7_C 0.53 29.0 3.34e-01 84.0% 71.5%
3929759 2007.1.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like 0.53 27.0 2.86e-01 75.8% 52.4%
2323917 12.6.1.4 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related › Glyco_hydro127M 0.51 24.0 3.48e-01 78.4% 99.0%
3192481 12.6.1.3 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related › Bac_rhamnosid_C 0.51 24.0 3.30e-01 75.3% 92.2%
3730499 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.50 21.0 3.28e-01 85.3% 100.0%
D2 medium residues 236-291
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wdoA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.64 36.0 2.76e-01 96.4% 25.2%
2mv2A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.61 49.0 3.67e-01 91.1% 69.6%
1hqz800 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.59 48.0 3.71e-01 92.9% 70.5%
2ezvA01 3.40.600.40 Alpha Beta › 3-Layer(aba) Sandwich › ECO RV Endonuclease; Chain A › Type II restriction enzyme SfiI, multifunctional domain 0.58 43.0 2.95e-01 80.4% 75.6%
3g2fA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.56 35.0 3.09e-01 76.8% 40.2%
3jq0A00 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 41.0 2.49e-01 89.3% 72.6%
1p65A00 6.10.140.90 Special › Helix non-globular › Helix Hairpins › 0.53 34.0 3.48e-01 91.1% 66.7%
1h2iA01 3.30.390.80 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › DNA repair protein Rad52/59/22 0.53 36.0 2.69e-01 92.9% 27.0%
4k7cA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.52 40.0 2.39e-01 80.4% 34.0%
1avgI00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 35.0 2.76e-01 71.4% 85.2%
1js3A03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.50 38.0 3.19e-01 82.1% 96.9%
6ketA01 3.20.20.30 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Luciferase-like domain 0.50 36.0 2.23e-01 76.8% 17.4%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4377299 304.18.1.0 ↗ a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS 0.71 37.0 2.91e-01 82.1% 26.7%
5081638 256.1.1.1 ↗ a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like › Archease 0.62 32.0 2.99e-01 94.6% 38.6%
3284651 10.12.1.29 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › CDO_I 0.56 49.0 3.48e-01 100.0% 99.4%
3365668 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.54 43.0 2.56e-01 100.0% 39.3%
215919 2484.1.1.19 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1,Tnp_DNA_bind 0.54 44.0 2.65e-01 96.4% 67.8%
3410597 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.53 36.0 2.13e-01 71.4% 18.8%
4998336 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.53 43.0 3.23e-01 92.9% 95.2%
5060590 223.1.1.2 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS 0.51 42.0 3.24e-01 94.6% 92.1%
3484810 508.1.1.1 ↗ a+b three layers › Protein interacting with HSP90 1 (Pih1) N-terminal domain › Protein interacting with HSP90 1 (Pih1) N-terminal domain › Protein interacting with HSP90 1 (Pih1) N-terminal domain › PIH1 0.51 37.0 2.92e-01 83.9% 72.4%
3818551 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.50 43.0 2.83e-01 96.4% 41.6%
3700076 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.50 41.0 2.54e-01 100.0% 44.2%
3351646 221.1.1.166 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PF26130 0.50 30.0 2.49e-01 83.9% 35.8%