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NC_048173.1__YP_009821087.1__HOV30_gp043__00043

Bact-Vir

NC_048173.1__YP_009821087.1__HOV30_gp043__00043

Identity

Accession:
NC_048173 ↗
Kingdom:
phage

Quality

91.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Chimalliviridae› Derbicusvirus› Erwinia_phage_Derbicus

TaxID: 2530027

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 high residues 3-145
PDB
Domain cluster: rep: OR413575.1__WNT47070.1__SPLA10_PHROGS00009__00009__D4-165
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4nleA01 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.51 40.0 3.35e-01 83.9% 93.4%
2ce7B03 1.20.58.760 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Peptidase M41 0.51 27.0 2.60e-01 74.8% 41.1%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5037104 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.55 31.0 3.28e-01 75.5% 60.0%
3210772 5001.1.1.133 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Git3, GPR_Gpa2_C 0.51 36.0 2.91e-01 72.0% 76.6%
D2 high residues 188-273
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vb5A01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.64 48.0 4.71e-01 80.2% 79.8%
1u3dA03 1.10.579.10 Mainly Alpha › Orthogonal Bundle › DNA Cyclobutane Dipyrimidine Photolyase, subunit A; domain 3 › DNA Cyclobutane Dipyrimidine Photolyase, subunit A, domain 3 0.60 48.0 3.75e-01 87.2% 45.8%
3m1mA03 1.10.1240.50 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.60 48.0 4.50e-01 94.2% 70.0%
4u04A02 1.10.3290.10 Mainly Alpha › Orthogonal Bundle › Fic-like fold › Fido-like domain 0.60 48.0 3.56e-01 88.4% 35.8%
3dd7C00 1.20.120.1870 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Fic/DOC protein, Fido domain 0.58 46.0 4.17e-01 88.4% 64.8%
1oheA01 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.58 51.0 4.29e-01 100.0% 77.2%
2e9yB00 3.40.1160.10 Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like 0.58 50.0 3.47e-01 100.0% 67.6%
1sqgA01 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.57 50.0 4.31e-01 98.8% 82.3%
2mbfA01 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 0.57 40.0 3.93e-01 75.6% 78.4%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.56 39.0 3.63e-01 70.9% 89.9%
2clbA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.54 40.0 3.32e-01 79.1% 88.7%
5l0wB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 48.0 4.10e-01 100.0% 82.6%
2c0kB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.54 39.0 3.33e-01 77.9% 70.5%
1x4pA00 1.10.10.790 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Surp module 0.53 35.0 3.90e-01 72.1% 90.9%
5gj7A01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.52 41.0 3.70e-01 87.2% 74.4%
4uurA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.51 40.0 3.65e-01 88.4% 69.4%
3g2eB00 3.40.920.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.51 44.0 3.49e-01 100.0% 90.8%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3616032 189.1.1.0 ↗ alpha bundles › GTPase activation domain, GAP › GTPase activation domain, GAP › GTPase activation domain, GAP 0.72 52.0 3.97e-01 76.7% 71.7%
3996469 189.1.1.2 ↗ alpha bundles › GTPase activation domain, GAP › GTPase activation domain, GAP › GTPase activation domain, GAP › RhoGAP 0.72 52.0 4.11e-01 76.7% 81.7%
3925823 3651.1.1.1 ↗ alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › IF-2B 0.70 56.0 5.25e-01 88.4% 89.1%
5013369 3076.1.1.1 ↗ alpha arrays › Putative triphosphoribosyl-dephospho-coA synthase › Putative triphosphoribosyl-dephospho-coA synthase › Putative triphosphoribosyl-dephospho-coA synthase › CitG 0.70 61.0 4.26e-01 100.0% 81.3%
3619884 708.1.1.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain 0.65 57.0 4.53e-01 98.8% 92.8%
4931982 6035.1.1.3 ↗ alpha bundles › Primase helical domain › Primase helical domain › Primase helical domain › NrS1-1_pol-like_HBD 0.65 52.0 5.41e-01 89.5% 100.0%
4998160 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.63 43.0 2.87e-01 72.1% 34.4%
5039859 6035.1.1.0 ↗ alpha bundles › Primase helical domain › Primase helical domain › Primase helical domain 0.62 48.0 4.81e-01 86.0% 90.0%
5000534 601.30.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Helical bundle domain in hypothetical protein PH1320 › Helical bundle domain in hypothetical protein PH1320 › NOG1_N 0.59 41.0 3.41e-01 72.1% 84.4%
3878148 613.1.1.1 ↗ alpha complex topology › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › tRNA-synt_2c 0.57 46.0 3.59e-01 89.5% 47.0%
1721599 613.1.1.1 ↗ alpha complex topology › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › tRNA-synt_2c 0.57 46.0 4.06e-01 89.5% 72.3%
5075019 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.56 41.0 3.19e-01 80.2% 96.2%
3925493 613.1.1.1 ↗ alpha complex topology › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › Putative anticodon-binding domain of alanyl-tRNA synthetase (AlaRS) › tRNA-synt_2c 0.53 43.0 3.34e-01 89.5% 80.5%
4945781 2006.1.2.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › DHH phosphoesterases 0.52 45.0 3.47e-01 95.3% 83.5%
3729409 226.1.1.1 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.52 43.0 3.57e-01 96.5% 54.7%
3787872 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 44.0 3.38e-01 100.0% 58.6%
4942190 633.12.1.1 ↗ alpha bundles › Bromodomain-like › Ta0600-like › Ta0600-like › UPF0147 0.50 35.0 3.51e-01 73.3% 79.5%
3706544 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.50 42.0 3.32e-01 96.5% 45.0%