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KX581096.3__AOT26809.1__pVa5_0050__00049

Bact-Vir

KX581096.3__AOT26809.1__pVa5_0050__00049

Identity

Accession:
KX581096 ↗
Kingdom:
phage

Quality

94.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_vB_VspP_pVa5_12Jun

TaxID: 2890992

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 4-64
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1au7A01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.80 70.0 6.65e-01 100.0% 91.7%
3fyaB00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.73 60.0 5.60e-01 100.0% 72.7%
2ewtA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.72 59.0 5.71e-01 95.1% 80.3%
3h5tA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.68 49.0 5.42e-01 80.3% 100.0%
3me5A01 1.10.260.140 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › 0.68 54.0 5.35e-01 100.0% 85.9%
2hinA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.68 52.0 5.12e-01 98.4% 78.8%
2fjrA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.67 53.0 5.00e-01 100.0% 72.4%
3rmgA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.63 51.0 3.27e-01 100.0% 18.4%
1w98B02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.62 42.0 3.44e-01 70.5% 54.4%
3ez0C00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.60 43.0 2.96e-01 75.4% 58.2%
8thmA01 1.20.120.1310 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Carboxysome Shell Carbonic Anhydrase, N-terminal helical domain 0.60 43.0 4.04e-01 78.7% 60.0%
2w96A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.58 43.0 3.66e-01 83.6% 65.5%
1e1dA02 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.58 51.0 4.66e-01 100.0% 75.0%
1nbwA04 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 43.0 3.42e-01 82.0% 58.3%
4r42A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.57 40.0 2.89e-01 75.4% 74.3%
2qwwC00 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 42.0 3.25e-01 80.3% 68.1%
3s6jE02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.56 43.0 4.17e-01 83.6% 84.1%
3cl3A01 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.56 48.0 4.39e-01 100.0% 77.4%
3d6jA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.55 42.0 4.12e-01 82.0% 88.1%
1g2nA00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.55 44.0 3.07e-01 95.1% 58.1%
4irlB02 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.55 46.0 4.11e-01 100.0% 83.9%
2yukA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.55 43.0 3.84e-01 88.5% 76.7%
1nvmA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.54 39.0 3.84e-01 100.0% 71.9%
3on3B00 3.40.920.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.53 44.0 3.27e-01 96.7% 88.0%
1hr7C02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.52 36.0 2.55e-01 75.4% 60.0%
1pu6A02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.52 38.0 3.12e-01 82.0% 91.1%
2of7A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 37.0 2.97e-01 80.3% 74.3%
4hfvA01 1.20.1440.330 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.51 42.0 3.57e-01 100.0% 68.4%
3eoqB02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.51 43.0 3.18e-01 100.0% 54.1%
3g2eB00 3.40.920.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.50 33.0 2.47e-01 70.5% 45.9%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3518121 101.1.4.1 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › Pou 0.81 71.0 5.78e-01 100.0% 57.4%
3472710 101.1.4.1 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › Pou 0.80 71.0 5.77e-01 100.0% 61.7%
2627770 101.1.4.1 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › Pou 0.77 66.0 6.41e-01 98.4% 95.6%
4958195 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.76 52.0 5.43e-01 70.5% 81.8%
3281381 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.76 67.0 5.62e-01 100.0% 70.5%
5012960 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.76 67.0 5.93e-01 100.0% 68.9%
5013811 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.75 52.0 5.51e-01 73.8% 81.8%
3588819 101.1.4.47 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › DUF1456 0.73 64.0 6.05e-01 100.0% 98.7%
4502581 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.71 57.0 5.60e-01 95.1% 84.6%
169605 101.1.4.3 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_3 0.71 57.0 5.19e-01 100.0% 65.9%
3603740 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.70 49.0 4.75e-01 73.8% 65.7%
3944587 101.1.4.26 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › DNA_meth_N 0.70 60.0 5.77e-01 100.0% 85.7%
3487537 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.69 45.0 4.87e-01 78.7% 82.0%
4966173 101.1.4.97 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › DrmE_C 0.69 56.0 4.56e-01 95.1% 50.4%
3290948 3960.1.1.1 ↗ alpha arrays › Aminoglycoside adenyltransferase AadA C-terminal domain › Aminoglycoside adenyltransferase AadA C-terminal domain › Aminoglycoside adenyltransferase AadA C-terminal domain › AadA_C 0.68 59.0 5.10e-01 100.0% 81.0%
3949869 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.68 55.0 5.35e-01 100.0% 82.9%
2755607 143.2.1.1 ↗ alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20 › Ribosomal_L20 0.67 51.0 3.94e-01 96.7% 36.4%
3960854 101.1.4.18 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_31 0.67 54.0 5.12e-01 100.0% 74.4%
3392725 101.1.10.1 ↗ alpha arrays › HTH › HTH › Cyclin-like › Cyclin_N 0.67 50.0 3.85e-01 80.3% 57.0%
4348000 563.2.1.1 ↗ alpha bundles › ATPD N-terminal domain-like › Cas Cmr5-like › Cas Cmr5-like › Cas_Cmr5 0.66 55.0 4.56e-01 95.1% 53.9%
2617394 3960.1.1.1 ↗ alpha arrays › Aminoglycoside adenyltransferase AadA C-terminal domain › Aminoglycoside adenyltransferase AadA C-terminal domain › Aminoglycoside adenyltransferase AadA C-terminal domain › AadA_C 0.64 55.0 4.78e-01 100.0% 79.6%
2979123 143.2.1.0 ↗ alpha arrays › PABP domain-like › Ribosomal protein L20 › Ribosomal protein L20 0.64 47.0 3.84e-01 86.9% 41.9%
4927588 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 48.0 4.49e-01 82.0% 82.7%
4929815 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 47.0 4.62e-01 80.3% 83.1%
4335728 192.7.1.3 ↗ alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Phe_tRNA-synt_N 0.62 39.0 3.24e-01 80.3% 37.1%
3335763 592.1.1.0 ↗ alpha arrays › PWI domain-like › PWI domain › PWI domain 0.61 44.0 3.72e-01 78.7% 52.7%
4661100 6056.1.1.2 ↗ alpha arrays › SP1917-like › SP1917-like › SP1917-like › PrmC_N 0.59 51.0 4.74e-01 100.0% 85.0%
4273747 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.58 43.0 3.33e-01 83.6% 50.7%
4393120 192.29.1.2 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Turandot 0.57 48.0 4.02e-01 100.0% 69.6%
5041315 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.56 48.0 4.13e-01 98.4% 92.0%
3456864 5059.1.1.8 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › Mg_trans_NIPA 0.55 43.0 3.43e-01 83.6% 94.2%
4928247 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.54 40.0 2.73e-01 83.6% 89.4%
5000806 251.1.1.1 ↗ a+b two layers › FYSH domain › FYSH domain › FYSH domain › SBDS 0.53 45.0 3.64e-01 100.0% 49.6%
3488191 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.53 36.0 3.18e-01 72.1% 46.3%
3936312 309.1.1.4 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_C 0.53 35.0 2.43e-01 70.5% 56.9%
4028395 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.51 38.0 3.23e-01 96.7% 47.6%
3940940 3755.3.1.288 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › LMBR1 0.51 33.0 2.69e-01 86.9% 33.6%
3647980 309.1.1.4 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_C 0.50 38.0 2.75e-01 88.5% 47.2%
3569301 309.1.1.4 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_C 0.50 38.0 2.55e-01 83.6% 77.6%