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SR-VP_0-2_scaffold_141_316084_prodigal-single.1__X__X__00476

Bact-Vir

SR-VP_0-2_scaffold_141_316084_prodigal-single.1__X__X__00476

Identity

Kingdom:
phage

Quality

74.8 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 high residues 8-69
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wcrB00 3.10.129.140 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Helicobacter TNF-alpha-Inducing protein 0.78 68.0 5.11e-01 96.8% 87.7%
6bogA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.71 40.0 4.28e-01 95.2% 63.5%
3a7rA02 3.30.390.50 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain 0.71 61.0 5.48e-01 98.4% 83.1%
1tk7A01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.68 38.0 4.66e-01 83.9% 91.9%
3lxrF00 1.10.4120.20 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › 0.68 57.0 4.21e-01 100.0% 82.3%
2ysiA01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.66 33.0 4.18e-01 83.9% 87.9%
1x2nA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.64 45.0 4.56e-01 74.2% 90.0%
2rsmA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 44.0 3.66e-01 77.4% 53.0%
1b7tA02 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.61 35.0 3.72e-01 95.2% 61.5%
3g2bA00 1.10.10.1150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) 0.61 46.0 4.10e-01 95.2% 56.7%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 46.0 4.58e-01 90.3% 78.8%
2da3A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.61 42.0 4.61e-01 74.2% 97.9%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.60 37.0 3.86e-01 90.3% 68.4%
1qh5A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.59 48.0 3.22e-01 91.9% 28.8%
2pn2A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.59 47.0 3.74e-01 90.3% 70.1%
1xm8A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.59 53.0 3.49e-01 100.0% 64.2%
3ia1B00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 41.0 3.19e-01 74.2% 59.2%
3rm5B01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.59 46.0 2.95e-01 85.5% 72.2%
2czrA02 3.90.79.30 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › TBP-interacting protein, C-terminal domain 0.59 44.0 3.65e-01 83.9% 76.7%
2zwrB00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.58 49.0 3.47e-01 98.4% 32.9%
1vw5A00 3.30.70.1420 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Structure from the mobile metagenome of cole harbour salt marsh: integron cassette protein hfx_cass1 0.57 39.0 3.00e-01 71.0% 30.5%
1x2mA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.57 40.0 4.23e-01 100.0% 85.2%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.57 50.0 3.69e-01 100.0% 87.3%
4l8nA03 3.30.160.670 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 38.0 2.91e-01 71.0% 56.7%
3lxqA01 3.30.1120.80 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.56 48.0 4.21e-01 100.0% 62.6%
3fdfA02 6.10.140.550 Special › Helix non-globular › Helix Hairpins › 0.56 44.0 4.63e-01 90.3% 100.0%
4nnaA01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.54 44.0 2.81e-01 91.9% 91.1%
1qd1B02 3.30.70.670 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Formiminotransferase, C-terminal subdomain 0.54 41.0 3.23e-01 85.5% 46.2%
2oap202 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 45.0 3.05e-01 100.0% 60.3%
4m4zA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.54 31.0 3.34e-01 95.2% 66.0%
2nmlA00 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.54 46.0 4.02e-01 100.0% 76.0%
2kt0A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.53 37.0 4.04e-01 100.0% 100.0%
7u32F02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.53 30.0 3.23e-01 100.0% 62.7%
1gpqB00 3.40.1420.10 Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › Inhibitor of vertebrate lysozyme 0.53 45.0 3.67e-01 100.0% 52.3%
1c9fA00 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.53 38.0 3.54e-01 82.3% 71.3%
4o2zA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 38.0 2.94e-01 100.0% 32.7%
1hczA02 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.52 40.0 4.16e-01 98.4% 89.8%
1nnwB00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.52 45.0 3.04e-01 100.0% 28.7%
2da7A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.52 41.0 3.97e-01 90.3% 84.5%
1t98A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.51 43.0 3.87e-01 95.2% 77.0%
4mtnA01 3.30.1480.10 Alpha Beta › 2-Layer Sandwich › N Utilization Substance Protein A; Chain:P; domain 4 › NusA, N-terminal domain 0.51 39.0 3.51e-01 88.7% 66.3%
2eifA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 39.0 4.02e-01 95.2% 89.8%
2xmjA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 36.0 3.63e-01 75.8% 96.8%
6lf2B01 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.51 36.0 2.90e-01 100.0% 37.9%
3rqzC00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.50 41.0 2.80e-01 91.9% 96.7%
1ybyA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 42.0 4.19e-01 100.0% 90.6%
4fr4D01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 42.0 3.41e-01 98.4% 57.4%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4960621 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.77 54.0 3.15e-01 74.2% 13.2%
3243842 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 42.0 3.45e-01 100.0% 33.6%
5032595 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.68 48.0 2.85e-01 75.8% 13.8%
3606532 2484.6.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Periplasmic domain of ExbD/TolR › Periplasmic domain of ExbD/TolR 0.66 48.0 4.21e-01 88.7% 52.2%
5079725 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.63 44.0 4.55e-01 74.2% 80.0%
4031670 4.1.1.58 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_3 0.62 35.0 3.57e-01 98.4% 53.3%
4319187 101.1.1.1 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Homeodomain 0.62 42.0 3.88e-01 71.0% 61.2%
3217638 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 41.0 3.82e-01 100.0% 56.0%
3838562 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.60 43.0 4.55e-01 91.9% 85.5%
4973139 511.1.1.0 ↗ beta sandwiches › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain 0.60 41.0 3.04e-01 71.0% 52.3%
4927916 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 34.0 3.41e-01 91.9% 54.0%
4946598 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 45.0 2.93e-01 88.7% 46.0%
3271679 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 47.0 3.65e-01 93.5% 86.2%
5005841 246.2.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases 0.57 48.0 3.25e-01 95.2% 95.9%
4943183 247.1.1.0 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.56 47.0 3.16e-01 100.0% 89.1%
3232509 5001.1.1.66 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Srg 0.56 36.0 2.37e-01 88.7% 14.1%
4440689 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.56 44.0 4.39e-01 100.0% 81.5%
3801752 375.1.1.269 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PF29332 0.55 40.0 4.41e-01 93.5% 94.0%
5081367 246.2.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases 0.55 44.0 2.97e-01 88.7% 89.2%
4987009 3837.1.1.1 ↗ alpha bundles › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › Uncharacterized conserved protein Dip1984 › DUF6847 0.54 40.0 3.05e-01 83.9% 32.7%
5081305 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 45.0 2.71e-01 100.0% 32.5%
3242009 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.54 44.0 3.07e-01 96.8% 66.0%
3246050 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.54 44.0 3.92e-01 91.9% 64.4%
3261577 543.1.1.6 ↗ few secondary structure elements › Frizzled cysteine-rich domain-related › Frizzled cysteine-rich domain-related › Frizzled cysteine-rich domain-related › PF29739 0.54 45.0 3.47e-01 95.2% 84.0%
3605369 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 37.0 3.89e-01 100.0% 81.8%
4164250 3604.1.1.1 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.53 39.0 3.94e-01 82.3% 95.4%
3592754 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 44.0 3.63e-01 95.2% 77.3%
3196814 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.53 43.0 2.65e-01 91.9% 62.1%
3797547 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.53 42.0 3.36e-01 98.4% 43.2%
3277232 543.1.1.6 ↗ few secondary structure elements › Frizzled cysteine-rich domain-related › Frizzled cysteine-rich domain-related › Frizzled cysteine-rich domain-related › PF29739 0.53 41.0 3.22e-01 90.3% 77.5%
5073662 101.1.2.141 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_24 0.53 43.0 3.07e-01 95.2% 91.1%
3990109 2484.1.1.102 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_ISL3 0.53 43.0 3.53e-01 100.0% 45.9%
3781161 4099.1.1.1 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › MAD 0.53 44.0 3.55e-01 100.0% 51.1%
3611012 7577.1.1.1 ↗ a/b three-layered sandwiches › PLP-dependent transferases › PLP-dependent transferases › PLP-dependent transferases › Aminotran_1_2 0.52 42.0 2.52e-01 87.1% 94.0%
3642524 108.1.1.96 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_6, EF-hand_7 0.52 39.0 3.22e-01 91.9% 40.8%
4886249 304.130.1.1 ↗ a+b two layers › Alpha-beta plaits › Uncharacterized protein MK0293 N-terminal domain › Uncharacterized protein MK0293 N-terminal domain › Ni_insertion 0.52 39.0 3.91e-01 100.0% 78.5%
162079 246.2.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases 0.52 46.0 3.05e-01 100.0% 28.6%
3898672 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.52 30.0 3.00e-01 95.2% 50.8%
3703231 216.1.1.2 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › Autophagy_act_C 0.52 42.0 3.23e-01 95.2% 80.6%
4944122 246.2.1.9 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.52 42.0 3.02e-01 100.0% 80.3%
5038811 246.2.1.9 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.52 42.0 2.90e-01 91.9% 97.4%
4983901 300.1.1.0 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.51 42.0 3.43e-01 93.5% 83.2%
143302 246.2.1.9 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.51 41.0 2.82e-01 91.9% 96.3%
4196808 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.51 42.0 2.67e-01 95.2% 37.4%
3201592 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.51 43.0 2.99e-01 98.4% 50.0%
2764339 4020.1.1.0 ↗ a+b two layers › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes › a+b domain in D-aminoacid aminotransferase-like PLP-dependent enzymes 0.51 44.0 3.46e-01 96.8% 70.3%
4993106 246.2.1.9 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos_2 0.50 41.0 2.83e-01 91.9% 96.9%
4051852 2.1.1.10 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › EFP 0.50 42.0 4.21e-01 100.0% 90.8%
3224339 5001.1.1.66 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Srg 0.50 38.0 2.51e-01 85.5% 55.3%