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OR836606.1__WRM43499.1__X__00168

Bact-Vir

OR836606.1__WRM43499.1__X__00168

Identity

Accession:
OR836606 ↗
Kingdom:
phage

Quality

91.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Staphylococcus_phage_LY01

TaxID: 3110553

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 3-75
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4y9tA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.73 53.0 4.20e-01 97.3% 38.6%
3gv0A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.73 55.0 4.49e-01 98.6% 43.4%
4ntlA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.71 47.0 3.84e-01 93.2% 36.8%
3mb2B00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.71 49.0 5.39e-01 80.8% 89.8%
2d5cA01 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.70 48.0 4.20e-01 97.3% 46.9%
3hcwA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.70 55.0 4.45e-01 100.0% 45.0%
6ogmD00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.69 46.0 4.99e-01 78.1% 82.0%
4fdxB00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.69 46.0 4.89e-01 78.1% 78.1%
1i6aA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.68 48.0 4.22e-01 95.9% 50.0%
2fm7A00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.67 45.0 4.82e-01 82.2% 82.3%
3i45A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.67 56.0 4.07e-01 98.6% 34.3%
4aq4A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.66 47.0 3.48e-01 97.3% 27.7%
4eqbA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.66 43.0 3.36e-01 98.6% 29.7%
3huuC02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.66 45.0 3.70e-01 93.2% 39.1%
3ej3C00 3.30.429.10 Alpha Beta › 2-Layer Sandwich › Macrophage Migration Inhibitory Factor › Macrophage Migration Inhibitory Factor 0.65 44.0 4.63e-01 80.8% 78.1%
4ryaA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.65 47.0 3.42e-01 97.3% 27.1%
4r2fA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.65 45.0 3.39e-01 97.3% 27.7%
2h84A01 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.62 44.0 3.23e-01 100.0% 26.0%
7yosA01 3.90.1640.30 Alpha Beta › Alpha-Beta Complex › inorganic pyrophosphatase (n-terminal core) › 0.61 43.0 3.28e-01 100.0% 28.8%
3mpkA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.61 49.0 4.01e-01 95.9% 46.4%
1g5hB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.61 43.0 3.90e-01 97.3% 52.3%
3ekiA01 3.40.190.180 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Cypl, domain I 0.61 53.0 4.07e-01 100.0% 44.9%
1efaA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.59 42.0 3.66e-01 98.6% 45.2%
2pyyB01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.59 42.0 3.56e-01 90.4% 44.0%
3i9v102 3.40.50.11540 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NADH-ubiquinone oxidoreductase 51kDa subunit 0.59 51.0 3.93e-01 100.0% 70.4%
1zzgA01 3.40.50.10490 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glucose-6-phosphate isomerase like protein; domain 1 0.59 49.0 3.48e-01 97.3% 49.6%
4le5A02 3.30.300.10 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.59 43.0 3.59e-01 80.8% 45.3%
1pdaA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.56 46.0 4.00e-01 93.2% 59.6%
4i1tA02 3.30.70.2640 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Arenavirus RNA polymerase 0.56 39.0 3.76e-01 78.1% 64.3%
4wnyA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.56 48.0 4.02e-01 100.0% 75.8%
6ll8A02 3.10.310.20 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › DHHA2 domain 0.54 46.0 4.00e-01 100.0% 80.0%
3uorB01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.54 45.0 3.37e-01 93.2% 67.2%
2lndA00 3.40.50.11230 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 47.0 4.08e-01 97.3% 91.1%
3zf8A00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.53 45.0 3.11e-01 100.0% 36.8%
2gm3A00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.53 44.0 3.59e-01 97.3% 86.9%
2wteA01 3.40.50.11700 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 45.0 3.72e-01 100.0% 60.1%
7jgsG01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 43.0 3.41e-01 95.9% 84.8%
1wyzA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.51 31.0 2.79e-01 76.7% 37.3%
1gytL01 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.51 43.0 3.24e-01 94.5% 98.3%
1t1jA00 3.40.50.10400 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Hypothetical protein PA1492 0.50 42.0 3.72e-01 100.0% 89.1%
1q7sA00 3.40.1490.10 Alpha Beta › 3-Layer(aba) Sandwich › Bit1 › Bit1 0.50 44.0 3.79e-01 98.6% 90.6%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5055315 7523.1.1.22 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › ABC2_membrane_3 0.68 58.0 4.87e-01 93.2% 58.3%
3924200 2484.1.1.153 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF1744 0.67 59.0 3.87e-01 100.0% 24.0%
3484554 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.65 55.0 4.05e-01 94.5% 76.9%
3929840 7590.1.1.0 ↗ a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs 0.63 51.0 4.03e-01 100.0% 41.2%
3495217 7579.1.1.71 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › DDHD 0.62 52.0 3.40e-01 97.3% 89.0%
3640577 7516.1.1.109 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Chitin_synth_1, Chitin_synth_2 0.61 52.0 3.15e-01 98.6% 23.3%
3643123 3676.1.1.0 ↗ alpha duplicates or obligate multimers › RNA helicase Hera dimerization domain › RNA helicase Hera dimerization domain › RNA helicase Hera dimerization domain 0.60 48.0 3.12e-01 100.0% 19.4%
3606837 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.60 47.0 3.41e-01 98.6% 28.9%
None — 0.60 51.0 3.52e-01 100.0% 42.1%
3028611 4335.1.1.1 ↗ a/b three-layered sandwiches › Nqo1 FMN-binding domain-like › Nqo1 FMN-binding domain-like › Nqo1 FMN-binding domain-like › Complex1_51K 0.60 51.0 3.60e-01 100.0% 36.8%
4391139 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.59 42.0 3.55e-01 100.0% 42.3%
3471652 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.59 49.0 3.50e-01 95.9% 34.6%
3733223 327.7.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like 0.59 44.0 3.97e-01 79.5% 60.0%
1718583 7512.1.1.29 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › PM0188 0.57 48.0 3.73e-01 97.3% 48.6%
None — 0.57 46.0 3.44e-01 95.9% 57.3%
4241886 2004.1.1.133 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › RHD3_GTPase 0.55 47.0 3.26e-01 100.0% 32.3%
4985983 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.55 45.0 3.80e-01 97.3% 71.9%
4932200 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.55 47.0 4.25e-01 100.0% 86.7%
5048912 7550.1.1.0 ↗ a/b three-layered sandwiches › Tetrapyrrole methylase N-terminal domain › Tetrapyrrole methylase N-terminal domain › Tetrapyrrole methylase N-terminal domain 0.55 48.0 4.10e-01 98.6% 90.8%
3605260 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 40.0 2.62e-01 79.5% 77.0%
3497675 2004.1.1.325 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › TRAPPC-Trs85 0.53 43.0 3.47e-01 93.2% 68.4%
3762002 2007.1.2.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.53 44.0 3.20e-01 93.2% 32.4%
5083576 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.53 37.0 2.77e-01 78.1% 41.3%
3960960 2007.6.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain 0.52 33.0 2.92e-01 95.9% 38.2%
3185896 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.51 42.0 2.92e-01 95.9% 27.9%
4957325 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.51 42.0 3.76e-01 94.5% 77.3%
3602040 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.51 42.0 3.30e-01 95.9% 79.4%
3902362 2004.1.1.81 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GBP 0.51 36.0 2.83e-01 75.3% 35.2%
10093 2007.15.1.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › N-deoxyribosyltransferase › N-deoxyribosyltransferase › DUF1937 0.50 42.0 3.72e-01 100.0% 89.1%
3436518 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.50 40.0 3.28e-01 89.0% 55.2%