←Back to structures

MZ456352.1__QXN60147.1__KUA24_80__00080

Bact-Vir

MZ456352.1__QXN60147.1__KUA24_80__00080

Identity

Accession:
MZ456352 ↗
Kingdom:
phage

Quality

72.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_HNL01

TaxID: 2853169

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 2-61
PDB
Domain cluster: rep: MG592569.1__AUR94877.1__NVP1199A_11__00011__D2-80
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5d1oA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.74 61.0 5.74e-01 100.0% 75.3%
1svdM00 3.30.190.10 Alpha Beta › 2-Layer Sandwich › Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase › Ribulose bisphosphate carboxylase, small subunit 0.72 62.0 5.20e-01 100.0% 63.9%
2vugA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.70 55.0 5.27e-01 100.0% 73.6%
1lfwA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 49.0 4.09e-01 75.0% 96.2%
5mz2I00 3.30.190.10 Alpha Beta › 2-Layer Sandwich › Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase › Ribulose bisphosphate carboxylase, small subunit 0.70 59.0 4.63e-01 100.0% 50.4%
2yweA05 3.30.70.2570 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation factor 4, C-terminal domain 0.70 61.0 5.87e-01 100.0% 86.8%
3bguA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 48.0 4.15e-01 76.7% 99.0%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.67 48.0 4.71e-01 78.3% 71.2%
5xoyB02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 47.0 3.91e-01 75.0% 98.1%
2xqyA03 2.60.40.3190 Mainly Beta › Sandwich › Immunoglobulin-like › Herpesvirus glycoprotein H, C-terminal domain 0.66 56.0 4.29e-01 100.0% 42.1%
1m4jA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.65 57.0 4.45e-01 100.0% 48.1%
5of3A00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.64 52.0 3.32e-01 91.7% 59.6%
3l2pA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.63 48.0 4.61e-01 98.3% 73.2%
3b7yA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.62 55.0 4.17e-01 100.0% 45.8%
2gi3A01 3.90.1300.10 Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain 0.62 52.0 3.26e-01 98.3% 46.3%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.61 51.0 3.82e-01 100.0% 94.6%
3l9bA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.60 54.0 4.22e-01 100.0% 50.8%
1m9uA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.59 50.0 4.23e-01 100.0% 56.0%
3nuhB02 3.30.300.370 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.58 43.0 3.54e-01 81.7% 98.3%
5lhrA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.57 47.0 3.97e-01 100.0% 55.6%
2hpuA01 3.30.70.2060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 48.0 4.80e-01 96.7% 96.8%
2r0lA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.57 48.0 3.99e-01 100.0% 52.2%
2lxxA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.56 46.0 3.62e-01 100.0% 48.7%
5b08A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 45.0 3.85e-01 90.0% 59.0%
1ym0A02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.55 45.0 3.86e-01 100.0% 54.5%
3iayA07 1.10.132.60 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › B family DNA polymerase, thumb domain 0.55 47.0 3.50e-01 95.0% 98.0%
7vyjB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 44.0 3.16e-01 90.0% 93.0%
2z51A02 3.30.300.130 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Fe-S cluster assembly (FSCA) 0.54 38.0 3.65e-01 81.7% 62.5%
5wfiA01 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.54 38.0 3.12e-01 76.7% 44.6%
3kzwA01 3.40.220.10 Alpha Beta › 3-Layer(aba) Sandwich › Leucine Aminopeptidase, subunit E; domain 1 › Leucine Aminopeptidase, subunit E, domain 1 0.54 44.0 3.31e-01 93.3% 86.7%
5uayA02 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.53 45.0 4.16e-01 100.0% 97.6%
2dfkC02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.53 42.0 3.19e-01 90.0% 36.9%
4ehoB03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.52 40.0 3.01e-01 91.7% 35.2%
4uqfA02 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.52 41.0 3.41e-01 100.0% 70.1%
1cfyA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.51 40.0 3.23e-01 91.7% 49.6%
4f8bA00 3.30.1130.10 Alpha Beta › 2-Layer Sandwich › GTP Cyclohydrolase I, domain 2 › GTP cyclohydrolase I, C-terminal domain/NADPH-dependent 7-cyano-7-deazaguanine reductase, N-terminal domain 0.51 41.0 3.33e-01 100.0% 52.5%
6baoA03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.51 39.0 3.12e-01 93.3% 41.7%
3v67A01 3.30.450.210 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Two-component sensor protein CpxA, periplasmic domain 0.51 39.0 3.22e-01 88.3% 89.3%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3789849 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.69 59.0 5.98e-01 100.0% 93.3%
5058378 304.4.1.14 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Dabb 0.68 49.0 4.18e-01 78.3% 99.0%
3479863 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.67 56.0 5.05e-01 100.0% 67.1%
185296 862.1.1.4 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › RepB_primase 0.64 55.0 3.90e-01 100.0% 64.8%
3738773 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.64 48.0 5.02e-01 100.0% 90.9%
3599659 206.1.3.70 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › DUF7920 0.64 52.0 3.28e-01 100.0% 48.0%
3511806 11.1.3.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Cu,Zn superoxide dismutase-like 0.63 55.0 4.19e-01 100.0% 65.0%
1936537 3145.1.1.1 ↗ beta sandwiches › C-terminal domain of envelope glycoprotein H › C-terminal domain of envelope glycoprotein H › C-terminal domain of envelope glycoprotein H › Herpes_glycoH_C 0.62 51.0 3.86e-01 100.0% 36.9%
4880303 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.62 56.0 4.61e-01 100.0% 57.1%
3229557 3937.1.1.2 ↗ alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin 0.61 43.0 2.66e-01 75.0% 60.3%
4935672 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.60 50.0 3.89e-01 96.7% 59.3%
3698302 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.59 45.0 4.74e-01 83.3% 89.1%
3279592 304.4.1.14 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Dabb 0.59 50.0 3.99e-01 100.0% 92.3%
3730752 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.58 42.0 3.63e-01 80.0% 53.3%
3696880 4956.1.1.0 ↗ a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.58 47.0 4.21e-01 90.0% 75.3%
5033074 1036.1.1.1 ↗ a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.58 49.0 4.06e-01 96.7% 88.2%
3964360 4187.1.1.2 ↗ a+b two layers › NosL/MerB-like › NosL/MerB-like › NosL/MerB-like › NosL 0.57 47.0 4.37e-01 96.7% 76.2%
4954188 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.57 46.0 3.59e-01 96.7% 55.7%
3695564 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.57 46.0 3.80e-01 93.3% 79.1%
3735073 304.9.1.9 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_2 0.56 45.0 2.99e-01 93.3% 31.9%
3797738 3570.1.1.1 ↗ a+b two layers › FAM3 superfamily › FAM3 superfamily › FAM3 superfamily › ILEI 0.56 49.0 3.68e-01 100.0% 51.3%
3229807 822.1.1.0 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain 0.56 44.0 4.14e-01 100.0% 70.0%
3637401 4081.1.1.8 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT_2 0.56 45.0 3.11e-01 100.0% 24.5%
4268442 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.56 44.0 3.67e-01 90.0% 64.3%
3782117 211.1.1.12 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Pfk_N 0.53 41.0 3.32e-01 85.0% 51.7%
3875549 4081.1.1.2 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.53 40.0 2.94e-01 98.3% 26.7%
3907235 4081.1.1.2 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.53 41.0 2.88e-01 98.3% 24.0%
4030418 227.1.1.6 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_C 0.53 42.0 3.31e-01 90.0% 95.0%
3495764 4081.1.1.2 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.53 42.0 3.07e-01 100.0% 29.7%
3883725 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 40.0 3.21e-01 100.0% 43.0%
3617935 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.52 39.0 2.97e-01 91.7% 29.9%
3490462 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.52 40.0 2.81e-01 83.3% 53.0%
3258276 4081.1.1.2 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › VIT 0.51 41.0 2.87e-01 100.0% 24.9%
3702557 3945.1.1.0 ↗ alpha superhelices › N-terminal fragment of dynein heavy chain › N-terminal fragment of dynein heavy chain › N-terminal fragment of dynein heavy chain 0.51 43.0 3.46e-01 100.0% 61.5%
185588 223.1.1.32 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › CpxA_peri 0.51 39.0 3.14e-01 88.3% 81.8%
4927009 2.10.1.1 ↗ beta barrels › OB-fold › CheW › CheW › CheW 0.50 38.0 3.03e-01 86.7% 90.0%
3176895 7571.1.1.1 ↗ a/b three-layered sandwiches › Formyltransferase › Formyltransferase › Formyltransferase › Formyl_trans_N 0.50 41.0 2.80e-01 96.7% 47.6%
D2 high residues 67-124
PDB