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OQ267696.1__WDE69786.1__VPHZ6_orf00003__00003

Bact-Vir

OQ267696.1__WDE69786.1__VPHZ6_orf00003__00003

Identity

Accession:
OQ267696 ↗
Kingdom:
phage

Quality

91.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_VPHZ6

TaxID: 3028162

Cluster

View cluster (116 members)

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 6-58
PDB
Domain cluster: rep: NC_074638__YP_010772018.1__QIT35-gp28__00028__D11-63
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6xgqb01 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.86 79.0 6.44e-01 100.0% 63.4%
8bveA03 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.79 71.0 6.37e-01 100.0% 100.0%
1c5eA00 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.78 68.0 5.67e-01 100.0% 60.0%
1uz5A04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.77 68.0 6.13e-01 100.0% 91.7%
1wu2A04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.75 67.0 5.92e-01 100.0% 89.6%
1g8lA04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.74 64.0 5.78e-01 100.0% 98.6%
7ekdA01 2.60.120.330 Mainly Beta › Sandwich › Jelly Rolls › B-lactam Antibiotic, Isopenicillin N Synthase; Chain 0.60 43.0 2.68e-01 77.4% 80.5%
3c2qA01 2.40.420.10 Mainly Beta › Beta Barrel › conserved putative lor/sdh protein from methanococcus maripaludis s2 fold › conserved putative lor/sdh protein from methanococcus maripaludis s2 domain 0.57 41.0 3.55e-01 79.2% 87.5%
3pz6D00 3.90.740.10 Alpha Beta › Alpha-Beta Complex › Isoleucyl-tRNA Synthetase; domain 2 › Valyl/Leucyl/Isoleucyl-tRNA synthetase, editing domain 0.54 42.0 2.80e-01 90.6% 32.3%
8bveA02 2.170.190.11 Mainly Beta › Beta Complex › Molybdopterin biosynthesis moeA protein; domain 3 › Molybdopterin biosynthesis moea protein, domain 3. 0.54 44.0 3.96e-01 100.0% 79.3%
6scxA02 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.53 36.0 2.88e-01 75.5% 80.0%
1x67A01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.51 42.0 3.24e-01 96.2% 86.5%
3qwwA01 2.170.270.10 Mainly Beta › Beta Complex › Beta-clip-like › SET domain 0.50 42.0 3.53e-01 94.3% 87.4%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2559744 70.4.1.2 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_head_fibr 0.89 79.0 7.65e-01 100.0% 86.4%
5002644 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.88 81.0 7.10e-01 100.0% 94.7%
5083816 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.83 75.0 6.83e-01 100.0% 91.4%
5033307 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.83 74.0 5.39e-01 100.0% 42.9%
5007190 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.83 71.0 7.37e-01 96.2% 98.0%
3602933 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.82 75.0 6.94e-01 100.0% 92.3%
4988093 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.81 73.0 5.82e-01 100.0% 66.3%
4937267 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.81 70.0 5.39e-01 98.1% 48.3%
4963571 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.81 74.0 6.85e-01 100.0% 83.1%
5002645 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.81 71.0 6.93e-01 100.0% 96.6%
5039270 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.80 72.0 7.13e-01 98.1% 94.5%
4930420 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.79 72.0 6.51e-01 100.0% 77.1%
5083817 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.79 68.0 6.44e-01 98.1% 98.5%
5022524 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.79 72.0 6.51e-01 100.0% 77.1%
5024766 7550.1.1.5 ↗ a/b three-layered sandwiches › Tetrapyrrole methylase N-terminal domain › Tetrapyrrole methylase N-terminal domain › Tetrapyrrole methylase N-terminal domain › DUF7839 0.79 68.0 4.73e-01 94.3% 31.2%
5016125 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.79 71.0 7.07e-01 100.0% 96.4%
2526359 70.4.1.2 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_head_fibr 0.78 69.0 6.69e-01 100.0% 90.0%
4991571 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.78 69.0 6.02e-01 100.0% 91.3%
2984229 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.77 68.0 6.01e-01 100.0% 91.0%
3981037 70.4.1.9 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement_2 0.77 68.0 6.74e-01 100.0% 98.2%
4956897 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.77 68.0 5.95e-01 100.0% 91.3%
3513462 70.4.1.8 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement 0.77 68.0 6.54e-01 100.0% 95.0%
3945811 70.4.1.7 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › XM1_gp53_minor_capsid 0.77 67.0 6.44e-01 98.1% 95.0%
4953517 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.76 68.0 6.07e-01 100.0% 91.9%
4975116 70.1.1.0 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like 0.76 67.0 5.89e-01 100.0% 90.0%
3205316 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.76 67.0 5.65e-01 100.0% 92.2%
4950136 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.76 66.0 5.90e-01 98.1% 94.7%
5011090 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.75 66.0 5.88e-01 98.1% 93.3%
5012061 70.1.1.0 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like 0.75 66.0 6.04e-01 98.1% 95.7%
2808420 70.4.1.1 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › HDPD 0.75 65.0 5.20e-01 100.0% 52.3%
3923131 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.75 66.0 5.80e-01 100.0% 97.5%
3516152 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.71 60.0 5.27e-01 100.0% 91.8%
3838054 70.1.1.0 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like 0.71 63.0 5.60e-01 100.0% 92.0%
5083172 70.4.1.9 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement_2 0.70 58.0 5.82e-01 92.5% 100.0%
4027754 376.1.1.3 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › ZZ 0.59 40.0 4.07e-01 71.7% 100.0%
4946921 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.54 44.0 3.20e-01 98.1% 78.9%
4151286 3052.1.1.1 ↗ a+b complex topology › MoeA domain II › MoeA domain II › MoeA domain II › MoeA_N 0.52 42.0 3.73e-01 100.0% 73.3%
4369475 2007.1.1.7 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › HTS 0.51 34.0 2.20e-01 71.7% 47.9%
3286177 4081.1.1.5 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Peptidase_M1_N 0.50 45.0 3.05e-01 100.0% 30.5%
D2 high residues 62-115
PDB
Domain cluster: rep: NC_074638__YP_010772018.1__QIT35-gp28__00028__D11-63
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6xgqb01 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.89 82.0 6.71e-01 100.0% 88.2%
8bveA03 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.78 65.0 5.92e-01 92.6% 98.6%
1g8lA04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.75 61.0 5.50e-01 90.7% 97.3%
3gqhA01 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.75 64.0 4.84e-01 94.4% 41.5%
3frnA02 3.90.1210.10 Alpha Beta › Alpha-Beta Complex › Type Iii Antifreeze Protein Isoform Hplc 12 › Antifreeze-like/N-acetylneuraminic acid synthase C-terminal domain 0.61 51.0 4.74e-01 92.6% 92.6%
2eqjA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.56 39.0 3.65e-01 85.2% 59.1%
1r5bA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.55 45.0 3.97e-01 98.1% 61.8%
8b6zA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.51 40.0 3.67e-01 96.3% 65.9%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2559744 70.4.1.2 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_head_fibr 0.90 84.0 8.10e-01 100.0% 91.5%
5002645 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.89 79.0 7.68e-01 96.3% 98.3%
2640772 70.4.1.1 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › HDPD 0.88 81.0 6.44e-01 100.0% 82.0%
5083817 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.86 72.0 6.74e-01 90.7% 96.9%
5007190 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.81 70.0 7.32e-01 92.6% 100.0%
3981037 70.4.1.9 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement_2 0.79 66.0 6.60e-01 92.6% 96.4%
5075574 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.77 66.0 5.81e-01 96.3% 96.2%
2526359 70.4.1.2 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_head_fibr 0.77 65.0 6.33e-01 94.4% 91.7%
4602455 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.76 63.0 5.78e-01 94.4% 95.9%
4930420 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.76 68.0 6.19e-01 98.1% 78.6%
5022524 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.76 68.0 6.23e-01 98.1% 78.6%
3602932 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.75 62.0 6.51e-01 90.7% 100.0%
4933166 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.75 65.0 5.71e-01 96.3% 95.0%
3970970 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.75 64.0 5.74e-01 96.3% 93.3%
5016125 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.75 65.0 6.50e-01 94.4% 94.5%
4070519 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.74 63.0 5.65e-01 94.4% 98.7%
1176867 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.74 64.0 5.47e-01 100.0% 86.8%
3603211 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.72 61.0 5.43e-01 96.3% 90.0%
3229874 708.1.1.18 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › DUF7747 0.55 45.0 3.16e-01 92.6% 69.1%
3396896 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.50 39.0 3.52e-01 85.2% 82.7%