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NC_023605.1__YP_009009736.1__CG95_gp17__00017

Bact-Vir

NC_023605.1__YP_009009736.1__CG95_gp17__00017

Identity

Accession:
NC_023605 ↗
Kingdom:
phage

Quality

81.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_PVA1

TaxID: 1461743

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 38-153
PDB
Domain cluster: rep: DQ320509.1__ABD78793.1__X__00016__D7-102
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF08346.18 best AntA 57.1 3.00e-15 68.1% 97.1%
D2 high residues 164-270
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1nv8B01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.75 46.0 5.44e-01 82.2% 91.5%
3b9qA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.67 37.0 4.00e-01 82.2% 62.9%
2qffA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.67 41.0 4.81e-01 80.4% 89.2%
1dkxA02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.66 41.0 4.64e-01 82.2% 83.7%
6jlzA01 1.20.120.1070 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Translation initiation factor eIF-2B, N-terminal domain 0.62 39.0 3.96e-01 75.7% 62.0%
1wpwA00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.62 43.0 3.09e-01 72.9% 97.3%
4nv0A02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.61 37.0 4.14e-01 100.0% 79.3%
3ckyA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.59 31.0 2.91e-01 70.1% 39.6%
2bnlC00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.57 40.0 3.77e-01 72.9% 72.4%
2zs0A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.55 35.0 3.16e-01 72.0% 48.6%
1rp3A01 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.55 37.0 4.06e-01 78.5% 87.1%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.54 47.0 4.70e-01 100.0% 93.5%
1orjD00 1.20.120.340 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Flagellar protein FliS 0.54 38.0 3.64e-01 89.7% 61.6%
2c0uA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.54 41.0 3.58e-01 82.2% 62.1%
3vdpA01 1.10.8.420 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › RecR Domain 1 0.53 25.0 3.27e-01 82.2% 84.6%
1uaaA04 1.10.486.10 Mainly Alpha › Orthogonal Bundle › PCRA; domain 4 › PCRA; domain 4 0.53 37.0 3.26e-01 72.0% 59.9%
3ihuA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.53 38.0 3.53e-01 91.6% 58.3%
1b8dA00 1.10.490.20 Mainly Alpha › Orthogonal Bundle › Globin-like › Phycocyanins 0.52 37.0 3.22e-01 72.0% 65.2%
1sigA00 1.10.601.10 Mainly Alpha › Orthogonal Bundle › RNA Polymerase Primary Sigma Factor › RNA Polymerase Primary Sigma Factor 0.52 38.0 2.76e-01 76.6% 32.8%
6p73A02 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.52 41.0 3.79e-01 89.7% 65.0%
1n5uA02 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.51 35.0 3.74e-01 95.3% 83.3%
1tvzA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.51 39.0 3.58e-01 82.2% 74.1%
4xxiA00 1.10.490.20 Mainly Alpha › Orthogonal Bundle › Globin-like › Phycocyanins 0.51 36.0 3.29e-01 91.6% 54.4%
3oziB00 3.40.50.10140 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Toll/interleukin-1 receptor homology (TIR) domain 0.51 41.0 3.58e-01 88.8% 94.6%
1s7bA00 1.10.3730.20 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › 0.51 34.0 3.49e-01 83.2% 69.8%
3fysA01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.50 42.0 3.68e-01 87.9% 95.4%
1evsA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.50 38.0 3.34e-01 81.3% 76.1%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5080933 159.1.2.0 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related 0.72 64.0 6.01e-01 97.2% 90.8%
3429545 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 0.69 40.0 3.82e-01 72.9% 48.8%
3220981 601.16.1.3 ↗ alpha bundles › Four-helical up-and-down bundle › FAT domain of focal adhesion kinase › FAT domain of focal adhesion kinase › GIT1_C 0.63 43.0 4.32e-01 88.8% 67.3%
3519484 148.1.3.179 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_BCS1 0.61 40.0 4.57e-01 89.7% 94.7%
3285073 2004.1.1.363 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › UvrD-helicase+UvrD_C 0.60 42.0 2.50e-01 72.9% 43.9%
5058135 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.57 40.0 4.11e-01 90.7% 78.0%
3497347 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.55 44.0 4.24e-01 93.5% 73.6%
3989573 601.14.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Hemerythrin 0.55 46.0 3.66e-01 90.7% 45.6%
54592 601.13.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Flagellar export chaperone FliS › Flagellar export chaperone FliS 0.54 37.0 3.62e-01 89.7% 61.8%
4930480 5060.2.1.1 ↗ alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.54 39.0 3.53e-01 74.8% 60.7%
5058654 601.14.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Hemerythrin 0.53 44.0 3.90e-01 90.7% 68.4%
5035227 5060.2.1.1 ↗ alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.53 38.0 3.63e-01 74.8% 68.0%
4971221 101.1.6.42 ↗ alpha arrays › HTH › HTH › TrpR › HTH_24 0.52 42.0 4.25e-01 100.0% 87.3%
5033485 5060.2.1.1 ↗ alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.51 37.0 3.43e-01 74.8% 62.2%
4964562 5060.2.1.1 ↗ alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.51 36.0 3.38e-01 74.8% 63.0%
5025849 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.50 43.0 3.57e-01 100.0% 80.9%