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NC_042084.1__YP_009620153.1__FDJ09_gp73__00073

Bact-Vir

NC_042084.1__YP_009620153.1__FDJ09_gp73__00073

Identity

Accession:
NC_042084 ↗
Kingdom:
phage

Quality

91.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Sarkviridae› Kagunavirus› Escherichia_phage_VB_EcoS-Golestan

TaxID: 2047801

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 6-46
PDB
Domain cluster: rep: NC_048181.1__YP_009821898.1__HOV38_gp62__00062__D9-50
D2 medium residues 51-85
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7ejoB01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.78 64.0 4.95e-01 97.1% 73.5%
1i7dA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.75 64.0 4.27e-01 100.0% 91.5%
2ed8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.74 62.0 4.72e-01 100.0% 48.8%
3in6A02 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.70 60.0 4.20e-01 100.0% 47.0%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.70 55.0 3.69e-01 100.0% 31.7%
2hhzA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.70 57.0 3.89e-01 100.0% 38.4%
3loiA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.68 58.0 3.75e-01 100.0% 27.5%
4kyxA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.67 55.0 3.80e-01 100.0% 71.9%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.66 53.0 4.33e-01 100.0% 63.2%
4m0wA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.66 54.0 3.73e-01 100.0% 41.6%
3weeA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 48.0 3.11e-01 97.1% 15.8%
2ebfX01 3.10.670.10 Alpha Beta › Roll › Secreted effector protein ssei fold › Secreted effector protein ssei. 0.65 47.0 3.17e-01 100.0% 37.8%
3p1mA00 3.10.20.30 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain 0.64 52.0 3.63e-01 97.1% 77.0%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.63 44.0 2.96e-01 80.0% 20.6%
2jvuA00 2.60.40.2290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.63 50.0 3.81e-01 100.0% 49.0%
2piaA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.62 49.0 3.68e-01 100.0% 60.6%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.62 47.0 3.75e-01 100.0% 67.4%
2dbuB00 3.60.20.40 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Gamma-glutamyltranspeptidase, small (S) subunit 0.62 43.0 2.83e-01 82.9% 17.4%
7bjkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.62 49.0 3.60e-01 100.0% 32.7%
2vfrA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.62 50.0 3.49e-01 100.0% 32.3%
3weeB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.61 48.0 3.24e-01 100.0% 22.8%
2ww8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 50.0 3.69e-01 100.0% 41.5%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.61 46.0 3.97e-01 97.1% 100.0%
2bkfA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.60 49.0 3.86e-01 100.0% 89.2%
4chkB00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.60 46.0 3.51e-01 100.0% 35.2%
2bvfA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.58 45.0 3.18e-01 100.0% 31.2%
4hscX04 2.60.40.1430 Mainly Beta › Sandwich › Immunoglobulin-like › Perfringolysin, domain 4 0.58 47.0 3.43e-01 97.1% 100.0%
1mbyA00 2.40.50.930 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 42.0 3.29e-01 80.0% 40.0%
1s3rA04 2.60.40.1430 Mainly Beta › Sandwich › Immunoglobulin-like › Perfringolysin, domain 4 0.56 49.0 3.53e-01 100.0% 40.5%
3dn7A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.55 44.0 3.11e-01 100.0% 35.2%
1r4kA01 2.170.260.10 Mainly Beta › Beta Complex › paz domain › paz domain 0.55 42.0 3.03e-01 100.0% 65.2%
1o5lA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.55 45.0 3.25e-01 100.0% 34.1%
1uz5A04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.55 38.0 3.27e-01 85.7% 40.3%
2kgfA00 1.10.375.10 Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein 0.55 45.0 3.03e-01 97.1% 37.9%
3mt1A01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.54 44.0 3.09e-01 100.0% 76.6%
2vxtI00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.54 42.0 2.94e-01 94.3% 88.5%
6icmD00 3.10.20.30 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain 0.54 38.0 3.02e-01 82.9% 96.6%
2yg3A02 3.90.660.10 Alpha Beta › Alpha-Beta Complex › Polyamine Oxidase; Chain A, domain 2 › 0.53 42.0 2.80e-01 94.3% 42.1%
1wkyA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 38.0 2.77e-01 100.0% 35.4%
4nlcA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.53 42.0 2.56e-01 97.1% 92.4%
1zr6A02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.51 39.0 2.82e-01 100.0% 31.2%
1w1oA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.51 40.0 2.93e-01 100.0% 34.6%
2xhkB01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 40.0 3.00e-01 97.1% 36.6%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3274993 10.12.1.52 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_8 0.80 66.0 3.76e-01 100.0% 11.2%
4158495 821.1.1.1 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.76 64.0 4.82e-01 100.0% 56.7%
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 0.72 60.0 5.67e-01 100.0% 97.8%
3287985 10.12.1.40 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › JmjC_2 0.70 56.0 3.34e-01 100.0% 12.6%
3699775 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.70 57.0 3.90e-01 100.0% 33.3%
3590261 822.3.1.1 ↗ a+b two layers › GYF/BRK domain-like › conserved domain protein SP_1775 › conserved domain protein SP_1775 › DUF4649 0.69 55.0 4.65e-01 100.0% 70.6%
224066 822.3.1.1 ↗ a+b two layers › GYF/BRK domain-like › conserved domain protein SP_1775 › conserved domain protein SP_1775 › DUF4649 0.67 54.0 4.40e-01 100.0% 62.3%
5054792 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.65 49.0 3.90e-01 100.0% 38.8%
4028716 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.62 46.0 3.23e-01 88.6% 59.3%
3211717 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.62 47.0 4.75e-01 94.3% 91.4%
3594014 2007.2.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II 0.62 50.0 3.11e-01 100.0% 20.4%
4651135 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.61 47.0 3.71e-01 100.0% 38.8%
4026734 2003.1.5.73 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_16 0.59 46.0 2.81e-01 100.0% 12.9%
3552822 11.1.1.99 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.57 45.0 3.35e-01 100.0% 55.5%
5082190 7575.1.1.0 ↗ a/b three-layered sandwiches › Caspase-like › Caspase-like › Caspase-like 0.57 40.0 2.46e-01 80.0% 11.1%
3599314 212.1.1.12 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › UPF0029 0.56 40.0 2.83e-01 85.7% 35.2%
3629581 7512.1.1.6 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_20 0.52 42.0 2.50e-01 94.3% 28.8%
3721139 7512.1.1.6 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_20 0.51 42.0 2.54e-01 100.0% 24.7%