←Back to structures

NC_007052.1__YP_239902.1__ST42eORF175__00048

Bact-Vir

NC_007052.1__YP_239902.1__ST42eORF175__00048

Identity

Accession:
NC_007052 ↗
Kingdom:
phage

Quality

74.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Triavirus› Staphylococcus_phage_42E

TaxID: 2908113

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 1-36
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2d4gA00 3.90.1140.10 Alpha Beta › Alpha-Beta Complex › Cyclic Phosphodiesterase; Chain: A, › Cyclic phosphodiesterase 0.68 47.0 3.05e-01 72.2% 63.5%
3jq0A00 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.64 48.0 2.79e-01 100.0% 28.5%
2f96A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.62 46.0 3.00e-01 91.7% 32.8%
2mh9A00 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 0.60 44.0 3.14e-01 86.1% 85.8%
2xfaA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.58 41.0 2.80e-01 75.0% 20.3%
3a58A01 2.30.29.90 Mainly Beta › Roll › PH-domain like › 0.58 42.0 2.83e-01 86.1% 58.6%
6kxkB02 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.55 42.0 2.99e-01 88.9% 25.2%
7q5yD01 3.30.70.3270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 40.0 2.92e-01 77.8% 25.6%
1ilvA00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.55 40.0 2.55e-01 86.1% 12.2%
2i14A01 3.90.1170.20 Alpha Beta › Alpha-Beta Complex › Aldehyde Oxidoreductase; domain 3 › Quinolinate phosphoribosyl transferase, N-terminal domain 0.54 39.0 2.90e-01 75.0% 57.5%
1gcbA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.54 40.0 2.38e-01 100.0% 32.0%
2onfA01 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.53 40.0 2.89e-01 91.7% 52.2%
1kf6A04 4.10.80.40 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › succinate dehydrogenase protein domain 0.53 38.0 3.82e-01 86.1% 94.3%
6njeA00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.53 41.0 2.49e-01 94.4% 48.8%
3icyA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.53 35.0 2.73e-01 83.3% 31.4%
3dxvA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.52 37.0 2.62e-01 86.1% 57.2%
6jwfA01 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.52 35.0 2.12e-01 86.1% 12.1%
1id0A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.52 36.0 2.46e-01 88.9% 18.5%
3es1A01 2.20.70.150 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.51 37.0 3.71e-01 88.9% 83.8%
1xttB00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 37.0 2.43e-01 86.1% 26.4%
1q8mA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 36.0 2.71e-01 83.3% 25.6%
3e66A01 3.30.420.230 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Prp8 RNase H domain, palm region 0.50 39.0 2.70e-01 94.4% 22.4%
1ivyB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 36.0 2.07e-01 75.0% 6.2%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3376457 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.76 53.0 3.87e-01 77.8% 27.0%
5074066 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.73 55.0 3.72e-01 91.7% 22.1%
3648884 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.73 49.0 3.87e-01 72.2% 33.3%
3586080 11.1.4.93 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CNRIP1 0.68 50.0 3.73e-01 83.3% 35.4%
3618924 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.67 48.0 2.71e-01 72.2% 6.4%
2719886 5084.5.3.1 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Ligand-gated protein channel › TonB_dep_Rec_b-barrel 0.67 46.0 2.51e-01 77.8% 3.8%
3493249 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.65 44.0 3.34e-01 72.2% 28.9%
3575624 386.1.1.29 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-TRAF_2 0.64 46.0 3.94e-01 80.6% 64.1%
4979129 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.64 47.0 3.24e-01 88.9% 20.8%
3198542 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.63 47.0 2.86e-01 86.1% 37.7%
3605930 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.63 46.0 2.57e-01 75.0% 5.6%
3358578 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.62 43.0 3.37e-01 72.2% 30.6%
4599597 1.1.2.39 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › Peptidase_U4 0.59 45.0 3.26e-01 88.9% 73.9%
4979007 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.59 45.0 3.14e-01 88.9% 22.1%
3176504 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.59 43.0 2.71e-01 83.3% 23.0%
3370099 212.1.1.10 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › RNase_PH 0.58 42.0 3.08e-01 86.1% 41.6%
4028595 59.1.4.1 ↗ beta complex topology › triple barrel › triple barrel › TFIID subunits TAF1-TAF7 › TAFII55_N 0.57 41.0 2.78e-01 77.8% 31.0%
9228 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.56 41.0 2.67e-01 97.2% 16.7%
3940681 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 46.0 2.70e-01 100.0% 29.4%
3616135 145.1.1.32 ↗ alpha arrays › F-box domain › F-box domain › F-box domain › F-box_4 0.55 40.0 3.43e-01 72.2% 40.0%
4532030 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.55 43.0 2.84e-01 91.7% 20.6%
3685895 189.1.1.2 ↗ alpha bundles › GTPase activation domain, GAP › GTPase activation domain, GAP › GTPase activation domain, GAP › RhoGAP 0.55 44.0 2.75e-01 100.0% 40.8%
3320346 2004.1.1.26 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin 0.52 39.0 2.36e-01 97.2% 22.9%
3469465 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 0.51 39.0 2.17e-01 94.4% 15.4%
4681454 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.50 39.0 2.61e-01 94.4% 22.2%