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NC_054461.1__YP_010052642.1__KEM14_gp18__00018

Bact-Vir

NC_054461.1__YP_010052642.1__KEM14_gp18__00018

Identity

Accession:
NC_054461 ↗
Kingdom:
phage

Quality

67.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Beograduvirus› Xanthomonas_virus_phiXaf18

TaxID: 2653651

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 211-284
PDB
Domain cluster: representative
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3tf8B00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.69 51.0 3.76e-01 78.4% 36.4%
1qdbA02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.64 48.0 3.82e-01 79.7% 53.8%
6ifsB02 1.10.8.100 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › rRNA adenine dimethylase, C-terminal domain 0.61 46.0 4.74e-01 81.1% 97.2%
4pu7A00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.61 44.0 4.49e-01 77.0% 80.3%
1bqbA02 1.10.390.10 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › Neutral Protease Domain 2 0.59 45.0 3.56e-01 79.7% 55.6%
4muqA02 3.30.1380.10 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › 0.58 44.0 3.53e-01 89.2% 41.1%
3n2zB02 1.20.120.980 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Serine carboxypeptidase S28, SKS domain 0.58 46.0 3.65e-01 85.1% 52.3%
3gfoA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 48.0 3.36e-01 93.2% 50.6%
1k82A02 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.58 43.0 3.72e-01 81.1% 53.7%
1k3xA02 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.58 43.0 3.67e-01 81.1% 53.5%
8fefH01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 47.0 3.20e-01 93.2% 43.5%
7dd0C01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 44.0 3.16e-01 86.5% 30.8%
2ja2A05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.57 47.0 4.33e-01 94.6% 81.6%
1b0uA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 46.0 3.21e-01 91.9% 55.0%
2w61A03 1.20.58.1040 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 44.0 3.84e-01 97.3% 54.2%
3w0fA02 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.56 41.0 3.46e-01 81.1% 48.5%
1tdzA02 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.55 43.0 3.58e-01 86.5% 52.2%
3gi7A00 1.20.1270.180 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 40.0 3.67e-01 79.7% 78.6%
2iw3A04 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 46.0 3.39e-01 100.0% 68.3%
1j0mA01 1.50.10.100 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › Chondroitin AC/alginate lyase 0.52 38.0 2.52e-01 81.1% 29.9%
3c18A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.51 38.0 3.26e-01 78.4% 81.4%
3hx3A01 1.10.8.20 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › N-terminal domain of phosphatidylinositol transfer protein sec14p 0.51 36.0 3.77e-01 78.4% 83.6%
4h7nA01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.50 41.0 2.90e-01 95.9% 58.8%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4027969 102.9.1.0 ↗ alpha arrays › HhH/H2TH › Cdc45 CID domain › Cdc45 CID domain 0.64 48.0 4.43e-01 79.7% 80.0%
3671314 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.62 47.0 3.30e-01 82.4% 31.9%
4093155 102.2.1.0 ↗ alpha arrays › HhH/H2TH › H2TH › H2TH 0.62 47.0 4.68e-01 81.1% 93.3%
3589274 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.62 49.0 3.58e-01 86.5% 32.7%
3840056 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.61 47.0 3.49e-01 86.5% 33.8%
3208854 2004.1.1.430 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran, ABC_tran_Xtn 0.60 53.0 3.14e-01 100.0% 26.1%
4947779 102.2.1.15 ↗ alpha arrays › HhH/H2TH › H2TH › H2TH › Topo-VIb_trans 0.60 45.0 4.45e-01 81.1% 87.5%
3601706 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.59 52.0 3.11e-01 100.0% 26.9%
4938179 103.5.1.0 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like 0.59 38.0 3.99e-01 81.1% 73.8%
4811740 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.58 45.0 3.42e-01 82.4% 39.2%
3601807 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 50.0 2.98e-01 100.0% 23.3%
4130154 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.58 47.0 3.29e-01 91.9% 47.4%
4657257 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 45.0 2.46e-01 87.8% 13.4%
4562528 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.57 45.0 3.30e-01 86.5% 35.1%
4015147 2004.1.1.430 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran, ABC_tran_Xtn 0.57 48.0 2.91e-01 100.0% 26.2%
4965283 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.56 43.0 3.07e-01 86.5% 28.2%
4953240 102.2.1.3 ↗ alpha arrays › HhH/H2TH › H2TH › H2TH › NFACT_N 0.56 42.0 3.51e-01 81.1% 48.1%
4196289 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.56 43.0 2.96e-01 86.5% 25.6%
4080069 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.55 44.0 3.10e-01 87.8% 50.0%
3252752 102.2.1.1 ↗ alpha arrays › HhH/H2TH › H2TH › H2TH › RrnaAD 0.55 43.0 4.14e-01 85.1% 78.8%
4634269 161.1.1.1 ↗ alpha complex topology › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › SecA_SW 0.55 38.0 2.85e-01 74.3% 85.9%
5038305 102.2.1.0 ↗ alpha arrays › HhH/H2TH › H2TH › H2TH 0.54 42.0 4.49e-01 83.8% 100.0%
3598647 632.19.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Choline binding protein A › Choline binding protein A 0.54 39.0 3.74e-01 77.0% 90.6%
4257500 161.1.1.1 ↗ alpha complex topology › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › SecA_SW 0.54 41.0 3.12e-01 82.4% 81.6%
3482980 4957.2.1.0 ↗ a+b complex topology › helical domain in yeast RNA-polymerases 0.53 44.0 3.78e-01 100.0% 88.9%