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OQ999171.1__WJZ23397.1__VPy02_09__00009

Bact-Vir

OQ999171.1__WJZ23397.1__VPy02_09__00009

Identity

Accession:
OQ999171 ↗
Kingdom:
phage

Quality

55.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autoscriptoviridae› Maculvirus› Vibrio_phage_VPy02

TaxID: 3058627

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 299-418
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3nqxA01 3.10.170.10 Alpha Beta › Roll › Elastase; domain 1 › 0.50 37.0 3.50e-01 100.0% 62.1%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3601143 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.55 43.0 3.79e-01 100.0% 57.1%
D2 high residues 437-549
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5g5gA02 1.10.150.120 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › [2Fe-2S]-binding domain 0.74 32.0 3.55e-01 77.9% 50.0%
1t33A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 43.0 3.94e-01 79.6% 85.4%
2hxoA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.57 43.0 3.93e-01 100.0% 61.1%
1sigA00 1.10.601.10 Mainly Alpha › Orthogonal Bundle › RNA Polymerase Primary Sigma Factor › RNA Polymerase Primary Sigma Factor 0.57 40.0 2.96e-01 71.7% 78.0%
2w53B00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 41.0 3.59e-01 77.0% 69.4%
4mk6A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 42.0 3.56e-01 78.8% 79.3%
3dcfA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 41.0 3.83e-01 77.9% 83.1%
4nlbA02 1.10.150.80 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain 0.55 39.0 4.19e-01 74.3% 86.2%
2xubA05 6.10.140.1450 Special › Helix non-globular › Helix Hairpins › 0.55 35.0 3.76e-01 70.8% 75.0%
2np3A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 41.0 3.83e-01 80.5% 80.3%
3zsuA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.53 37.0 3.71e-01 87.6% 68.6%
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.53 41.0 3.92e-01 99.1% 69.9%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.52 34.0 4.03e-01 88.5% 100.0%
1yfmA01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.52 34.0 3.34e-01 80.5% 60.3%
2awiA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.51 30.0 3.56e-01 78.8% 94.0%
4jcyA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.50 34.0 3.63e-01 71.7% 83.7%
2xseA00 1.20.120.1440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › JBP1, DNA-binding domain 0.50 40.0 3.65e-01 87.6% 85.5%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3846682 601.1.2.14 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › DLEU7 0.62 43.0 4.04e-01 70.8% 88.1%
3284180 109.3.1.160 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › EccD 0.55 38.0 3.51e-01 92.0% 54.0%
5002538 1075.5.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MatE 0.55 48.0 3.93e-01 99.1% 97.7%
4237962 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.52 37.0 2.54e-01 73.5% 84.9%
4274766 142.1.1.3 ↗ alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2 0.52 37.0 3.82e-01 93.8% 79.0%
5036824 4952.1.1.0 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like 0.52 28.0 2.91e-01 70.8% 54.3%
3587915 1075.5.1.4 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › Polysacc_synt 0.51 43.0 3.63e-01 95.6% 89.0%
5056945 601.18.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 0.51 35.0 3.57e-01 93.8% 70.4%
5036931 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.50 36.0 3.70e-01 85.0% 76.4%
5016584 1075.5.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MatE 0.50 43.0 3.53e-01 99.1% 87.0%
D3 medium residues 60-163
PDB
D4 medium residues 550-612
PDB
D5 medium residues 613-737_867-890
PDB
Domain cluster: rep: OR208619.1__WKL13477.1__PhageSB_046__00030__D633-758_895-918
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4l8iB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.68 33.0 3.72e-01 100.0% 58.9%
2qe9B01 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.60 39.0 3.87e-01 100.0% 62.0%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.59 30.0 4.07e-01 87.2% 93.7%
1nu7D01 1.20.120.750 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Staphylcoagulase, helix bundle domain 1 0.57 36.0 3.83e-01 99.3% 70.4%
3onjA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.56 30.0 3.58e-01 75.8% 77.3%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.54 40.0 4.12e-01 98.7% 79.9%
3rlbA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.54 34.0 3.23e-01 85.9% 51.7%
1cnt200 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.53 43.0 4.56e-01 98.0% 98.5%
1sumB01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.52 33.0 3.78e-01 85.9% 86.9%
1lvfB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 30.0 3.52e-01 75.8% 80.8%
3tuiA00 1.10.3720.10 Mainly Alpha › Orthogonal Bundle › MetI-like fold › MetI-like 0.52 41.0 3.62e-01 83.2% 58.3%
4cmyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 36.0 3.57e-01 72.5% 69.3%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.51 32.0 3.16e-01 74.5% 56.1%
4ymuD00 1.10.3720.10 Mainly Alpha › Orthogonal Bundle › MetI-like fold › MetI-like 0.51 40.0 3.55e-01 82.6% 59.1%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.50 31.0 3.67e-01 85.9% 89.3%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5070527 1076.1.1.1 ↗ alpha bundles › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Rce1-like 0.61 43.0 3.93e-01 100.0% 54.5%
4015026 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.59 27.0 2.72e-01 96.6% 40.7%
3372215 3226.1.1.3 ↗ alpha complex topology › Uracil Transporter UraA › Uracil Transporter UraA › Uracil Transporter UraA › HCO3_cotransp 0.58 52.0 3.54e-01 98.7% 69.0%
3799013 304.28.1.9 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › Patched 0.57 42.0 2.79e-01 77.9% 85.9%
3251129 5054.1.1.9 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › PKD_channel 0.56 41.0 3.19e-01 98.0% 36.5%
5063209 1079.1.1.0 ↗ alpha complex topology › Transmembrane reductase CcdA › Transmembrane reductase CcdA › Transmembrane reductase CcdA 0.55 43.0 3.86e-01 83.9% 75.8%
4512739 1075.5.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MatE 0.54 37.0 3.27e-01 71.1% 64.3%
3900921 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.54 28.0 3.11e-01 94.0% 61.7%
5013382 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.54 38.0 3.44e-01 100.0% 52.4%
3259409 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.54 39.0 4.03e-01 100.0% 80.0%
3398024 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.50 28.0 3.36e-01 83.9% 82.1%
4013477 1025.1.1.0 ↗ alpha bundles › Stonustoxin helical domain › Stonustoxin helical domain › Stonustoxin helical domain 0.50 28.0 3.26e-01 98.0% 74.5%
4008972 3831.1.1.1 ↗ alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › LprI 0.50 30.0 3.29e-01 78.5% 70.8%
D6 medium residues 738-866
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5oklA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.65 48.0 5.35e-01 83.7% 97.0%
1kxpD01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.63 40.0 4.87e-01 82.9% 96.5%
1kxpD03 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.62 42.0 4.96e-01 77.5% 100.0%
1n5uA05 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.62 48.0 5.13e-01 84.5% 93.8%
1n5uA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.61 45.0 4.96e-01 83.7% 96.1%
6fakA01 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.59 41.0 4.69e-01 81.4% 97.9%
2bnlC00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 47.0 4.67e-01 100.0% 82.1%
2om6A02 1.10.150.400 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.57 34.0 4.28e-01 70.5% 98.7%
4rocA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.56 34.0 3.75e-01 79.8% 73.8%
2lyiA01 1.10.274.60 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, repetitive domain 0.55 42.0 4.08e-01 100.0% 70.3%
2k3nA00 1.10.274.60 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, repetitive domain 0.55 41.0 3.81e-01 94.6% 61.9%
1a87A02 1.10.490.30 Mainly Alpha › Orthogonal Bundle › Globin-like › Colicin 0.55 39.0 3.41e-01 100.0% 47.0%
3kq5A01 1.10.3210.40 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › 0.54 46.0 3.89e-01 93.8% 93.2%
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.53 35.0 4.09e-01 79.1% 98.8%
1vinA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.53 39.0 3.87e-01 93.8% 71.9%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4032062 162.1.1.0 ↗ alpha bundles › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD › PTS-regulatory domain, PRD 0.65 39.0 4.27e-01 94.6% 70.0%
4965582 4953.2.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › Lid-like insertion of Propionyl-CoA synthase (PCS) ligase domain › Lid-like insertion of Propionyl-CoA synthase (PCS) ligase domain 0.65 44.0 5.25e-01 96.1% 100.0%
4324174 194.1.1.1 ↗ alpha complex topology › Serum albumin-like › Serum albumin-like › Serum albumin-like › Serum_albumin 0.61 53.0 4.52e-01 91.5% 79.5%
4547252 194.1.1.1 ↗ alpha complex topology › Serum albumin-like › Serum albumin-like › Serum albumin-like › Serum_albumin 0.59 50.0 4.44e-01 89.9% 84.4%
4545831 194.1.1.1 ↗ alpha complex topology › Serum albumin-like › Serum albumin-like › Serum albumin-like › Serum_albumin 0.59 50.0 4.36e-01 91.5% 82.6%
4937529 103.9.1.0 ↗ alpha arrays › RuvA-C › RanGAP2 N-terminal domain › RanGAP2 N-terminal domain 0.58 43.0 4.82e-01 90.7% 99.0%
4301068 194.1.1.1 ↗ alpha complex topology › Serum albumin-like › Serum albumin-like › Serum albumin-like › Serum_albumin 0.58 49.0 4.34e-01 92.2% 80.0%
3385809 5054.1.1.6 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › TrkH 0.56 35.0 3.91e-01 96.9% 78.1%
3309955 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.54 35.0 3.94e-01 96.1% 84.0%
3234179 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.51 30.0 3.80e-01 91.5% 100.0%
3275812 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.51 35.0 3.73e-01 74.4% 79.1%
3241490 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.51 34.0 3.70e-01 78.3% 80.9%
D7 medium residues 1198-1284
PDB