←Back to structures

SRR1747044_scaffold_0_prodigal-single.1__X__X__00001

Bact-Vir

SRR1747044_scaffold_0_prodigal-single.1__X__X__00001

Identity

Kingdom:
phage

Quality

90.5 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 1-92
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4bpuC00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.77 69.0 4.59e-01 100.0% 62.4%
1g71A01 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.70 63.0 4.61e-01 100.0% 38.6%
1qpoA01 3.90.1170.20 Alpha Beta › Alpha-Beta Complex › Aldehyde Oxidoreductase; domain 3 › Quinolinate phosphoribosyl transferase, N-terminal domain 0.68 47.0 4.31e-01 71.7% 65.5%
3jtnB00 3.30.70.1950 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 51.0 5.15e-01 97.8% 90.0%
2e1bA02 3.30.980.10 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2 0.62 46.0 4.15e-01 79.3% 86.8%
2x26A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.57 44.0 3.62e-01 84.8% 89.2%
1ci9A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.54 42.0 2.80e-01 84.8% 83.0%
3w6kC00 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 0.53 33.0 3.44e-01 100.0% 65.5%
4hesA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.53 39.0 2.87e-01 79.3% 68.7%
8adbA01 3.90.70.120 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.53 47.0 3.67e-01 100.0% 87.0%
2qm3A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 45.0 3.49e-01 100.0% 85.4%
1darA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 38.0 2.84e-01 79.3% 93.4%
3fzqA02 3.30.1240.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › 0.51 37.0 3.53e-01 79.3% 96.5%
1w6kA01 6.20.120.20 Special › Other non-globular › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 21.0 2.69e-01 80.4% 64.0%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004945 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.77 69.0 5.00e-01 98.9% 38.4%
5065288 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.77 70.0 4.91e-01 98.9% 34.9%
4426711 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.77 71.0 5.05e-01 100.0% 39.2%
4962169 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.76 67.0 4.98e-01 96.7% 41.4%
4993038 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.76 69.0 4.87e-01 98.9% 36.4%
3921299 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.75 68.0 4.69e-01 100.0% 53.2%
4972968 862.1.1.0 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain 0.74 67.0 4.77e-01 98.9% 35.1%
3266917 862.1.1.1 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.74 67.0 4.58e-01 100.0% 50.5%
3171058 304.120.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI 0.67 48.0 5.01e-01 75.0% 88.2%
4284745 304.48.1.22 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GCH_III 0.67 50.0 4.60e-01 79.3% 66.7%
3817329 2006.1.1.3 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Trehalose_PPase 0.66 49.0 3.51e-01 79.3% 25.6%
4995927 3715.1.1.0 ↗ a+b two layers › Ribosomal protein L22e › Ribosomal protein L22e › Ribosomal protein L22e 0.66 50.0 5.04e-01 79.3% 83.3%
5043528 304.48.1.22 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GCH_III 0.65 48.0 4.47e-01 79.3% 66.7%
4968515 305.2.1.0 ↗ a+b two layers › DCoH-like › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) 0.65 39.0 4.53e-01 70.7% 87.3%
4461334 304.150.1.1 ↗ a+b two layers › Alpha-beta plaits › Adapter protein mecA 2 C-terminal domain › Adapter protein mecA 2 C-terminal domain › MecA 0.61 50.0 5.07e-01 97.8% 92.2%
3935908 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.58 46.0 4.19e-01 87.0% 68.8%
3970227 101.1.2.55 ↗ alpha arrays › HTH › HTH › winged helix domain › SMC_ScpB 0.56 33.0 3.55e-01 96.7% 67.5%
5057738 312.1.1.0 ↗ a+b three layers › HIT-like › HIT-related › HIT-related 0.54 39.0 3.26e-01 78.3% 85.3%
5065034 2003.1.4.9 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › DHS-like NAD/FAD-binding domain › SIR2_2 0.53 44.0 3.17e-01 93.5% 87.1%
3396993 223.2.1.32 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_2 0.53 44.0 3.88e-01 90.2% 94.8%
4056379 223.1.1.130 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PF26961 0.52 36.0 3.57e-01 72.8% 93.0%
4527741 205.1.1.23 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Nqo3_Fer4 0.52 34.0 3.40e-01 72.8% 63.0%