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SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00220

Bact-Vir

SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00220

Identity

Kingdom:
phage

Quality

85.3 mean pLDDT

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 high residues 2-68
PDB
Domain cluster: representative
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3a58A01 2.30.29.90 Mainly Beta › Roll › PH-domain like › 0.66 46.0 3.43e-01 100.0% 28.7%
1nr4C00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.63 33.0 3.36e-01 100.0% 50.0%
4fxdA05 3.90.1600.10 Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain 0.61 51.0 4.27e-01 94.0% 74.4%
3oqgA00 3.40.1440.50 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › 0.60 45.0 3.45e-01 85.1% 37.5%
2dtgE06 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 47.0 4.09e-01 97.0% 56.3%
1t92A01 3.30.700.10 Alpha Beta › 2-Layer Sandwich › Glycoprotein, Type 4 Pilin › Glycoprotein, Type 4 Pilin 0.59 41.0 3.61e-01 73.1% 78.8%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.58 49.0 4.49e-01 97.0% 96.7%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.58 48.0 3.70e-01 97.0% 94.0%
4a0gC03 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.57 44.0 3.03e-01 83.6% 65.3%
2d4gA00 3.90.1140.10 Alpha Beta › Alpha-Beta Complex › Cyclic Phosphodiesterase; Chain: A, › Cyclic phosphodiesterase 0.57 48.0 3.60e-01 95.5% 97.6%
1ehiA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.56 49.0 3.86e-01 97.0% 67.4%
3pijA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.55 39.0 2.40e-01 74.6% 39.3%
3wlvA00 3.10.270.10 Alpha Beta › Roll › Urate Oxidase › Urate Oxidase; 0.54 43.0 2.86e-01 91.0% 71.9%
4uzgA01 2.60.40.740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 44.0 3.43e-01 92.5% 49.4%
6grsA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 46.0 4.10e-01 97.0% 67.4%
7prrB01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.53 43.0 3.28e-01 91.0% 55.0%
1a31A03 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.51 38.0 3.08e-01 85.1% 75.3%
5t89Y06 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 42.0 3.85e-01 95.5% 69.6%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.51 39.0 3.91e-01 83.6% 100.0%
2lojA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.51 28.0 3.34e-01 97.0% 87.2%
2z0uA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.50 43.0 3.58e-01 100.0% 67.2%
7c2fB01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.50 44.0 4.08e-01 100.0% 90.7%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3481588 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.67 60.0 4.65e-01 100.0% 77.2%
3469125 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.63 54.0 4.34e-01 100.0% 49.2%
5025713 246.2.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.59 49.0 3.50e-01 95.5% 30.2%
5078886 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.58 43.0 3.74e-01 95.5% 50.0%
3536244 11.1.1.99 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.58 50.0 3.94e-01 97.0% 65.7%
3999124 11.1.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Cadherin 0.54 42.0 4.39e-01 98.5% 93.3%
3954395 3097.1.1.0 ↗ a+b two layers › Ribosome-associated factor Y › Ribosome-associated factor Y › Ribosome-associated factor Y 0.54 37.0 4.00e-01 86.6% 87.3%
3963810 1.1.3.1 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MraZ 0.52 43.0 3.42e-01 92.5% 45.0%
3587254 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.51 44.0 3.89e-01 100.0% 86.7%
3458310 304.9.1.20 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_8 0.51 40.0 3.39e-01 86.6% 67.8%
3594014 2007.2.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II 0.51 43.0 3.00e-01 94.0% 40.0%
3806681 5.1.5.96 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › FBA_3 0.51 40.0 2.66e-01 85.1% 98.9%
2529893 284.2.1.0 ↗ a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain 0.51 39.0 3.90e-01 83.6% 98.6%
3914126 11.1.1.96 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set 0.50 42.0 3.74e-01 95.5% 65.0%
4086588 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.50 41.0 3.17e-01 100.0% 85.9%