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OP793884.1__UZV41175.1__vBVpaMR16F_109__00109

Bact-Vir

OP793884.1__UZV41175.1__vBVpaMR16F_109__00109

Identity

Accession:
OP793884 ↗
Kingdom:
phage

Quality

79.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_vB_VpaM_R16F

TaxID: 2996088

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 13-62
PDB
Domain cluster: representative
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3gonA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.88 67.0 4.72e-01 80.0% 29.9%
4uijA00 3.30.710.10 Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A 0.88 66.0 5.07e-01 98.0% 38.5%
1kaeA03 1.20.5.1300 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.84 60.0 5.83e-01 80.0% 69.1%
2vkpB00 3.30.710.10 Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A 0.83 58.0 4.37e-01 98.0% 33.0%
6he1B01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.83 61.0 5.60e-01 78.0% 60.9%
4b6xA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 60.0 5.35e-01 78.0% 59.4%
4u1cA01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.81 61.0 6.01e-01 80.0% 76.9%
4g09A03 1.20.5.1300 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.80 58.0 5.60e-01 80.0% 69.1%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.80 60.0 4.41e-01 80.0% 32.3%
4yvoA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.80 69.0 5.11e-01 94.0% 42.0%
3htmA02 6.10.250.3030 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.80 59.0 6.61e-01 92.0% 97.5%
3hqiA02 3.30.710.10 Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A 0.79 58.0 4.11e-01 92.0% 27.9%
4me2A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.79 66.0 4.34e-01 98.0% 23.7%
1yvwA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.78 64.0 5.11e-01 88.0% 55.4%
3gw4A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.78 71.0 4.66e-01 100.0% 45.8%
1ze0A01 1.20.120.700 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › nitrate reductase, subunit delta (NarJ) 0.77 52.0 4.32e-01 84.0% 41.7%
5jajA03 1.20.1320.30 Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 › 0.77 70.0 5.23e-01 100.0% 47.4%
2chpA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.77 66.0 4.62e-01 94.0% 85.8%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.75 64.0 4.45e-01 94.0% 83.5%
5jc3A02 1.20.1320.30 Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 › 0.75 67.0 4.96e-01 100.0% 42.9%
2fjcB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.74 68.0 4.69e-01 100.0% 84.6%
6v88A00 3.30.710.10 Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A 0.74 65.0 4.88e-01 96.0% 44.0%
4ar9A02 1.10.390.20 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › 0.74 51.0 3.62e-01 72.0% 27.5%
7tzoA01 1.10.1070.11 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › Phosphatidylinositol 3-/4-kinase, catalytic domain 0.72 52.0 3.59e-01 78.0% 23.0%
4tq1A03 1.10.246.190 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Autophagy protein Apg5, helix rich domain 0.72 45.0 4.27e-01 76.0% 53.4%
1fpoC02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.72 64.0 5.26e-01 100.0% 82.4%
4rngC00 1.20.1280.290 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.72 64.0 5.40e-01 100.0% 83.1%
1yozA00 1.10.3200.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af0941 › AF0941-like 0.72 57.0 4.44e-01 90.0% 65.5%
3zrhA01 1.25.40.560 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.70 60.0 4.76e-01 94.0% 61.5%
2dc0A00 3.90.1300.10 Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain 0.70 59.0 3.41e-01 94.0% 51.2%
6axgA01 1.20.870.10 Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 0.64 54.0 4.51e-01 96.0% 64.0%
2b6cA01 1.20.1660.10 Mainly Alpha › Up-down Bundle › ARM repeat fold › Hypothetical protein (EF3068) 0.63 50.0 4.06e-01 100.0% 69.0%
3jsbA01 1.20.1440.300 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › RNA-directed RNA polymerase L, helical domain 0.60 50.0 4.36e-01 98.0% 95.1%
3t0yA02 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 0.56 44.0 4.14e-01 90.0% 71.7%
1nf1A01 1.10.506.10 Mainly Alpha › Orthogonal Bundle › GTPase Activation - p120GAP; domain 1 › GTPase Activation - p120gap; domain 1 0.55 43.0 3.74e-01 90.0% 54.2%
3zhiA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.53 41.0 3.75e-01 94.0% 61.6%
3t5qG01 1.10.150.550 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Arenavirus nucleocapsid protein, head domain 0.53 44.0 3.38e-01 94.0% 42.3%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3821338 226.1.1.5 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › Skp1_POZ 0.92 75.0 5.40e-01 100.0% 34.4%
3267440 109.3.1.2 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank,Ank_2 0.91 67.0 4.75e-01 90.0% 28.9%
5061322 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.91 64.0 5.79e-01 74.0% 56.9%
3641395 226.1.1.3 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › Skp1,Skp1_POZ 0.87 68.0 4.76e-01 98.0% 29.0%
None — 0.86 65.0 3.79e-01 100.0% 10.3%
3728114 101.1.2.22 ↗ alpha arrays › HTH › HTH › winged helix domain › PCI 0.84 56.0 3.30e-01 76.0% 10.1%
3908431 226.1.1.1 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.83 60.0 4.38e-01 100.0% 30.4%
4237659 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.83 61.0 6.47e-01 78.0% 91.1%
3562584 226.1.1.1 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.82 59.0 4.03e-01 100.0% 23.7%
3547743 226.1.1.1 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.82 59.0 4.05e-01 100.0% 23.7%
3752138 226.1.1.10 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › KLHL33-like_BTB_POZ 0.81 61.0 4.98e-01 100.0% 45.9%
3442391 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.81 76.0 5.36e-01 100.0% 46.7%
3864403 226.1.1.1 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.81 58.0 4.04e-01 100.0% 24.5%
3495975 109.3.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat 0.81 63.0 4.67e-01 92.0% 33.1%
3647434 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.81 61.0 4.74e-01 80.0% 40.0%
3813807 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.80 60.0 3.29e-01 80.0% 5.9%
3371794 109.4.1.883 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR+PPR_2 0.79 63.0 4.00e-01 94.0% 18.7%
3825527 109.4.1.2793 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SPO22, TPR_8 0.79 69.0 3.85e-01 100.0% 8.4%
3456203 109.4.1.189 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_2 0.78 63.0 4.39e-01 100.0% 28.4%
3465073 109.27.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › BACK domain › BACK domain 0.78 56.0 4.54e-01 98.0% 42.2%
3992850 109.27.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › BACK domain › BACK domain 0.77 64.0 5.03e-01 98.0% 45.0%
3914660 604.1.1.95 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › KIAA1755_C 0.75 55.0 4.66e-01 80.0% 47.1%
3870171 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.75 63.0 5.63e-01 98.0% 65.7%
3412028 109.59.1.11 ↗ alpha superhelices › Repetitive alpha hairpins › Intraflagellar transport protein 80 (IFT80) C-terminal domain › Intraflagellar transport protein 80 (IFT80) C-terminal domain › TPR_IFT80_172 0.74 53.0 4.74e-01 88.0% 54.3%
3715274 633.24.1.0 ↗ alpha bundles › Bromodomain-like › RABEX-5 helical domain › RABEX-5 helical domain 0.74 62.0 6.07e-01 96.0% 85.5%
4016845 622.1.1.1 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › HSCB_C 0.74 65.0 5.32e-01 98.0% 77.8%
3580559 109.59.1.11 ↗ alpha superhelices › Repetitive alpha hairpins › Intraflagellar transport protein 80 (IFT80) C-terminal domain › Intraflagellar transport protein 80 (IFT80) C-terminal domain › TPR_IFT80_172 0.74 56.0 3.79e-01 88.0% 23.7%
3752566 109.3.1.424 ↗ alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › TPR_24 0.73 64.0 3.91e-01 94.0% 18.5%
3942830 608.1.1.1 ↗ alpha arrays › AhpD-like › AhpD-like › AhpD-like › CMD 0.72 60.0 4.89e-01 98.0% 52.0%
3352354 109.4.1.420 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.72 56.0 4.13e-01 100.0% 32.6%
5007040 4204.1.1.5 ↗ alpha bundles › AF0941-like › AF0941-like › AF0941-like › DUF2150 0.71 62.0 4.23e-01 98.0% 40.0%
3344626 5.1.4.255 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › RCC1, RCC1_2, WD40_RLD 0.68 62.0 3.52e-01 98.0% 89.9%
2516284 192.3.1.1 ↗ alpha bundles › Long alpha-hairpin › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Sod_Fe_N 0.66 59.0 4.70e-01 100.0% 52.0%
3303808 605.8.1.4 ↗ alpha duplicates or obligate multimers › ROP-like › BAS1536-like › BAS1536-like › Ovate 0.64 54.0 5.32e-01 100.0% 100.0%
3881146 110.1.1.3 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › DED 0.64 54.0 4.36e-01 98.0% 91.0%
3253152 198.1.1.3 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_1 0.53 42.0 3.66e-01 100.0% 61.1%
4936146 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.51 39.0 3.90e-01 96.0% 94.5%