Back to structures

OQ363659.1__WDS62353.1__X__00332

Bact-Vir

OQ363659.1__WDS62353.1__X__00332

Identity

Accession:
OQ363659 ↗
Kingdom:
phage

Quality

74.1 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 8-89
PDB
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.88 83.0 7.92e-01 100.0% 91.3%
2ed8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.71 41.0 4.06e-01 82.9% 53.5%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.71 42.0 4.61e-01 82.9% 72.7%
3ujzA03 2.60.20.40 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › 0.69 37.0 3.47e-01 76.8% 43.0%
1jx4A04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.62 44.0 4.14e-01 76.8% 61.2%
3in6A02 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 44.0 3.88e-01 81.7% 51.3%
4iauA01 2.60.20.10 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › Crystallins 0.61 29.0 2.99e-01 75.6% 43.6%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.61 42.0 4.06e-01 78.0% 62.5%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.60 44.0 4.00e-01 76.8% 58.7%
2pw9C02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 37.0 4.21e-01 73.2% 89.7%
4x9tA01 3.40.190.150 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Bordetella uptake gene, domain 1 0.59 40.0 3.26e-01 92.7% 35.3%
2jvuA00 2.60.40.2290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 37.0 3.50e-01 81.7% 53.1%
7ejoB01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.58 44.0 4.42e-01 81.7% 79.5%
1q2lA03 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.57 49.0 3.66e-01 100.0% 79.6%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.56 41.0 4.13e-01 86.6% 78.0%
4qbuA01 3.30.70.3290 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 44.0 3.84e-01 87.8% 87.6%
3kksB00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.55 47.0 3.94e-01 100.0% 81.6%
1wkyA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 35.0 3.00e-01 81.7% 37.5%
2ypjA00 2.60.120.1070 Mainly Beta › Sandwich › Jelly Rolls › 0.53 36.0 3.23e-01 76.8% 47.5%
1lzwA00 3.30.1390.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L7/L12, C-terminal domain/Adaptor protein ClpS 0.53 37.0 3.61e-01 74.4% 86.8%
2wmmA01 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.52 30.0 3.89e-01 89.0% 100.0%
2je6A01 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.51 39.0 2.86e-01 85.4% 51.3%
2piaA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.51 36.0 3.41e-01 82.9% 59.6%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.51 31.0 3.18e-01 75.6% 63.2%
3cjmA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.50 44.0 3.16e-01 100.0% 88.2%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
77927 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.87 82.0 7.79e-01 100.0% 89.4%
4997210 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.79 64.0 6.21e-01 100.0% 77.8%
4158495 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.79 64.0 6.18e-01 100.0% 77.8%
4344289 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.77 70.0 5.98e-01 100.0% 66.2%
3496147 821.1.1.0 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.74 65.0 6.16e-01 100.0% 95.0%
5045774 2492.1.1.7 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.68 41.0 3.43e-01 74.4% 34.3%
5047755 2492.1.1.7 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.66 39.0 3.31e-01 74.4% 34.3%
3959440 4.1.1.180 beta barrels › SH3 › SH3 › SH3 › DUF3107 0.60 42.0 4.56e-01 74.4% 100.0%
4448678 4.1.1.307 beta barrels › SH3 › SH3 › SH3 › PF26132 0.58 41.0 4.27e-01 75.6% 100.0%
4147528 4.1.1.307 beta barrels › SH3 › SH3 › SH3 › PF26132 0.56 39.0 4.11e-01 73.2% 100.0%
4214062 6094.1.1.3 a+b two layers › KS-MAT linker domain in fatty acid synthase › KS-MAT linker domain in fatty acid synthase › KS-MAT linker domain in fatty acid synthase › CurL-like_PKS_C 0.55 44.0 4.52e-01 97.6% 90.0%
3487303 10.12.1.97 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › CNBH_CNNM2_C 0.54 39.0 3.13e-01 76.8% 85.3%
2834312 308.2.1.0 a+b two layers › ClpS-like › Penicillin binding protein ClpS-like domain › Penicillin binding protein ClpS-like domain 0.51 34.0 3.64e-01 90.2% 80.0%
3626178 592.7.1.1 alpha arrays › PWI domain-like › GIPC1 GH2 domain › GIPC1 GH2 domain › GIPC1_GH2 0.51 36.0 3.53e-01 74.4% 78.9%
3250715 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 40.0 3.27e-01 89.0% 91.2%
4345353 322.1.1.2 a+b two layers › HPr-like › HPr-like › HPr-like › 3H 0.50 35.0 3.21e-01 76.8% 51.7%
D2 high residues 105-174
PDB
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.87 80.0 7.22e-01 100.0% 91.3%
2yn5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.74 45.0 4.38e-01 85.7% 54.4%
4iauA01 2.60.20.10 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › Crystallins 0.70 35.0 3.43e-01 82.9% 42.3%
1qr4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 45.0 4.17e-01 91.4% 54.0%
1o5uA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.67 35.0 3.29e-01 82.9% 39.8%
7y8sB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 43.0 4.04e-01 85.7% 58.3%
5eh1A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 41.0 3.76e-01 90.0% 52.6%
4gi3C00 3.30.60.30 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.61 37.0 4.06e-01 94.3% 73.7%
5mj6A03 2.60.40.1910 Mainly Beta › Sandwich › Immunoglobulin-like › 0.61 36.0 3.53e-01 85.7% 52.5%
3in6A02 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.60 46.0 3.92e-01 85.7% 49.6%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.59 42.0 3.85e-01 82.9% 56.5%
1u1sA00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.59 39.0 4.00e-01 82.9% 71.2%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.59 40.0 3.73e-01 82.9% 54.3%
3szpB02 3.40.190.290 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › 0.58 38.0 2.84e-01 91.4% 23.6%
4uzgA01 2.60.40.740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 45.0 3.46e-01 84.3% 40.4%
1wmdA02 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.57 41.0 3.44e-01 85.7% 45.3%
2h5eA03 3.30.70.3280 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptide chain release factor 3, domain III 0.57 49.0 3.93e-01 95.7% 76.6%
1a21A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 43.0 3.87e-01 91.4% 58.2%
4x9tA01 3.40.190.150 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Bordetella uptake gene, domain 1 0.56 42.0 3.25e-01 81.4% 54.5%
1xvsA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.56 40.0 3.35e-01 84.3% 43.1%
3vzbB02 2.60.200.40 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.56 45.0 3.24e-01 88.6% 98.5%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.55 42.0 3.25e-01 84.3% 49.7%
2pw9C02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.55 38.0 4.12e-01 81.4% 89.7%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.54 36.0 3.58e-01 84.3% 64.5%
6b9tF01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.54 31.0 2.66e-01 87.1% 31.2%
2wyqA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 40.0 3.93e-01 84.3% 87.0%
1u3eM02 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 38.0 3.89e-01 85.7% 79.4%
1vwxr00 3.30.390.110 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.52 38.0 3.19e-01 78.6% 72.8%
2r5oA01 2.70.50.60 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › abc- transporter (atp binding component) like domain 0.52 42.0 3.33e-01 91.4% 44.4%
1vw4U00 3.30.1390.20 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L30/L7 0.51 45.0 4.27e-01 100.0% 82.9%
5hdwA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.51 38.0 3.15e-01 80.0% 95.4%
3pjyA00 2.60.120.1140 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF192 0.51 38.0 3.23e-01 82.9% 95.3%
2odpA03 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.51 35.0 2.76e-01 74.3% 98.2%
1o54A01 3.10.330.20 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.51 39.0 3.93e-01 84.3% 80.6%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
77927 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.87 80.0 7.17e-01 100.0% 89.4%
3505268 821.1.1.0 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.79 71.0 5.67e-01 100.0% 80.7%
3958896 4187.2.1.0 a+b two layers › NosL/MerB-like › DUF2233 › DUF2233 0.72 45.0 4.84e-01 81.4% 75.0%
4158495 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.67 59.0 5.46e-01 100.0% 76.7%
4976909 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.67 44.0 3.95e-01 84.3% 49.5%
3502158 221.1.1.6 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.67 43.0 3.29e-01 91.4% 29.7%
3400250 379.1.1.3 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 0.65 39.0 4.36e-01 95.7% 82.0%
1096061 3375.1.1.1 beta barrels › Single-stranded DNA-binding protein DdrB › Single-stranded DNA-binding protein DdrB › Single-stranded DNA-binding protein DdrB › DdrB 0.65 36.0 2.93e-01 78.6% 29.7%
4448678 4.1.1.307 beta barrels › SH3 › SH3 › SH3 › PF26132 0.63 48.0 4.73e-01 84.3% 100.0%
3200355 72.1.1.0 beta sandwiches › gamma-Crystallin-like › gamma-Crystallin-like › gamma-Crystallin-like 0.63 38.0 3.53e-01 85.7% 47.8%
5047427 75.1.1.4 beta barrels › Cyclophilin-like › Cyclophilin-like › Cyclophilin-like › Cyclophil_like 0.62 46.0 3.86e-01 80.0% 99.2%
3365225 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.61 45.0 3.87e-01 100.0% 47.5%
4139791 304.41.1.1 a+b two layers › Alpha-beta plaits › Glutamyl tRNA-reductase catalytic, N-terminal domain › Glutamyl tRNA-reductase catalytic, N-terminal domain › GlutR_N 0.60 53.0 4.08e-01 100.0% 94.4%
3622513 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.57 44.0 4.72e-01 88.6% 100.0%
4191800 3075.1.1.0 a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.55 36.0 3.97e-01 80.0% 87.3%
3941506 2002.1.1.16 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Bac_luciferase 0.55 43.0 2.84e-01 88.6% 94.9%
3959955 304.163.1.3 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › PF31118 0.54 34.0 4.00e-01 85.7% 97.8%
3620852 3075.1.1.0 a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.54 36.0 3.91e-01 80.0% 87.3%
5001166 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.53 39.0 3.28e-01 100.0% 43.0%
2876 101.1.14.2 alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like 0.53 38.0 3.87e-01 85.7% 78.3%
3258059 4357.1.1.1 beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.51 42.0 4.12e-01 90.0% 94.7%
3937833 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.51 36.0 2.64e-01 77.1% 94.6%
3930427 4357.1.1.0 beta barrels › WWE domain › WWE domain › WWE domain 0.51 35.0 3.66e-01 84.3% 78.5%
D3 high residues 184-239
PDB