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JF713456.1__AEH21818.1__X__00005

Bact-Vir

JF713456.1__AEH21818.1__X__00005

Identity

Accession:
JF713456 ↗
Kingdom:
phage

Quality

81.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_1

TaxID: 187944

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 medium residues 71-126
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2digA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.83 59.0 5.56e-01 75.0% 77.9%
3oymA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.80 58.0 5.39e-01 76.8% 82.9%
2diqA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.78 59.0 4.82e-01 80.4% 58.0%
4p5nA00 2.30.30.1060 Mainly Beta › Roll › SH3 type barrels. › 0.78 56.0 5.14e-01 76.8% 85.1%
6az1E03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.77 57.0 5.28e-01 80.4% 100.0%
3mp6A05 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.76 55.0 5.27e-01 76.8% 84.1%
4dq2A03 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.75 51.0 5.55e-01 71.4% 97.9%
2dk3A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.75 54.0 4.66e-01 76.8% 77.9%
5ajiB02 2.30.30.60 Mainly Beta › Roll › SH3 type barrels. › 0.73 51.0 5.32e-01 73.2% 96.0%
7razA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.71 51.0 4.48e-01 76.8% 58.8%
2akkA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.70 48.0 4.44e-01 73.2% 81.1%
2ldmA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.68 47.0 4.84e-01 73.2% 94.3%
3u4yA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.64 45.0 2.80e-01 75.0% 22.9%
3udfA03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.64 46.0 3.86e-01 76.8% 98.9%
2ogqA01 3.30.1120.30 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › POLO box domain 0.59 43.0 3.41e-01 80.4% 80.2%
4rs6A01 3.30.1120.30 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › POLO box domain 0.58 43.0 3.44e-01 80.4% 82.2%
2a9sB00 3.90.950.20 Alpha Beta › Alpha-Beta Complex › Maf protein › CinA-like 0.58 45.0 3.32e-01 89.3% 81.8%
2uz8A01 3.40.30.90 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › 0.57 41.0 4.23e-01 80.4% 98.1%
4bpnW02 2.40.50.740 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Ribosomal protein S4, central domain 0.57 38.0 3.99e-01 73.2% 78.4%
1fx7B03 2.30.30.90 Mainly Beta › Roll › SH3 type barrels. › Ferrous iron transport protein A (FeoA) 0.57 40.0 3.65e-01 76.8% 95.0%
1aisA02 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.56 41.0 3.65e-01 82.1% 67.8%
6az1E02 2.40.50.740 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Ribosomal protein S4, central domain 0.56 37.0 3.89e-01 73.2% 78.4%
1whoA00 2.60.40.760 Mainly Beta › Sandwich › Immunoglobulin-like › Expansin, cellulose-binding-like domain 0.54 40.0 3.48e-01 82.1% 75.5%
4a2lF02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.54 43.0 2.74e-01 91.1% 23.8%
1ddqC02 3.90.1100.10 Alpha Beta › Alpha-Beta Complex › Rna Polymerase Beta Subunit; Chain: C,domain 2 › 0.53 39.0 2.52e-01 85.7% 41.1%
6rjiA03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 36.0 3.77e-01 71.4% 76.9%
4by2B00 2.60.450.20 Mainly Beta › Sandwich › lipopolysaccharide transport protein A fold › 0.52 39.0 2.97e-01 85.7% 80.0%
3a0oA03 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.51 41.0 2.72e-01 96.4% 59.8%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3231177 4.1.1.333 ↗ beta barrels › SH3 › SH3 › SH3 › PF29330 0.89 62.0 6.56e-01 73.2% 100.0%
3241817 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.88 64.0 6.31e-01 76.8% 93.3%
3556601 4.1.1.304 ↗ beta barrels › SH3 › SH3 › SH3 › SH3-C_UBE2O 0.88 61.0 5.83e-01 73.2% 92.3%
3304602 4.1.1.427 ↗ beta barrels › SH3 › SH3 › SH3 › F-box 0.86 63.0 5.18e-01 76.8% 53.7%
3502290 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.86 61.0 5.93e-01 73.2% 86.7%
3660244 4.1.1.141 ↗ beta barrels › SH3 › SH3 › SH3 › PTM_DIR17_Tudor 0.86 59.0 5.31e-01 71.4% 69.3%
3779830 4.1.1.304 ↗ beta barrels › SH3 › SH3 › SH3 › SH3-C_UBE2O 0.86 60.0 5.06e-01 73.2% 64.4%
3373330 4.1.1.337 ↗ beta barrels › SH3 › SH3 › SH3 › CSD_RNase_II 0.86 62.0 5.53e-01 75.0% 68.0%
3556321 4.1.1.118 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_15 0.86 63.0 5.47e-01 76.8% 88.7%
3326132 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.86 62.0 5.92e-01 76.8% 78.5%
4218142 4.1.1.101 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_2 0.86 62.0 5.03e-01 76.8% 52.0%
2525277 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.85 60.0 5.91e-01 73.2% 86.4%
3256431 4.1.1.360 ↗ beta barrels › SH3 › SH3 › SH3 › KOW, G-patch_2 0.85 60.0 5.23e-01 73.2% 62.5%
3810217 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.85 58.0 6.14e-01 71.4% 98.0%
1263713 4.1.1.102 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.85 61.0 6.31e-01 75.0% 98.1%
3501574 4.1.1.118 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_15 0.85 62.0 5.56e-01 76.8% 94.7%
3173941 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.85 60.0 4.88e-01 75.0% 52.0%
3920026 4.1.1.101 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_2 0.84 64.0 4.20e-01 80.4% 31.9%
3222147 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.84 59.0 5.74e-01 73.2% 93.3%
3510676 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.83 61.0 5.00e-01 76.8% 57.9%
3993250 4.1.1.333 ↗ beta barrels › SH3 › SH3 › SH3 › PF29330 0.83 58.0 5.92e-01 73.2% 90.9%
3999508 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.83 57.0 5.27e-01 71.4% 90.0%
3480491 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.83 58.0 5.21e-01 73.2% 81.3%
3372822 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.83 58.0 5.21e-01 73.2% 80.0%
3569289 4.1.1.118 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_15 0.83 60.0 5.30e-01 76.8% 88.7%
4024913 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.82 58.0 5.55e-01 75.0% 72.3%
3623890 4.1.1.322 ↗ beta barrels › SH3 › SH3 › SH3 › GPKOW_C 0.82 57.0 4.90e-01 73.2% 65.9%
3622389 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.82 57.0 5.43e-01 73.2% 81.5%
4091771 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.81 59.0 5.81e-01 76.8% 96.7%
3397846 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.81 59.0 5.99e-01 76.8% 94.5%
4929875 4.11.1.0 ↗ beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.81 58.0 4.72e-01 75.0% 54.0%
3868320 4.1.1.65 ↗ beta barrels › SH3 › SH3 › SH3 › 53-BP1_Tudor 0.81 57.0 5.46e-01 75.0% 80.0%
4419198 4.1.1.308 ↗ beta barrels › SH3 › SH3 › SH3 › PF31073 0.80 58.0 5.25e-01 76.8% 84.0%
3245032 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.80 58.0 5.25e-01 76.8% 97.3%
3989485 4.1.1.28 ↗ beta barrels › SH3 › SH3 › SH3 › BPL_C 0.80 55.0 5.77e-01 71.4% 98.0%
3243143 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.79 58.0 5.48e-01 76.8% 93.8%
1289661 4.1.1.101 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_2 0.78 57.0 5.33e-01 76.8% 77.6%
3544925 4.1.1.50 ↗ beta barrels › SH3 › SH3 › SH3 › MIB_HERC2 0.78 56.0 4.48e-01 76.8% 60.9%
3926120 4.1.1.169 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4819 0.78 59.0 4.27e-01 80.4% 59.3%
2831843 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.77 58.0 4.68e-01 80.4% 70.2%
3936726 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.77 55.0 5.62e-01 76.8% 100.0%
3855972 4.1.1.253 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4537 0.77 54.0 5.18e-01 75.0% 80.0%
3793656 4.1.1.169 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4819 0.76 58.0 4.19e-01 80.4% 57.9%
4120629 4.1.1.97 ↗ beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.75 54.0 4.89e-01 76.8% 82.7%
5022448 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.74 54.0 4.89e-01 76.8% 94.7%
3263031 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.73 50.0 4.84e-01 73.2% 87.7%
5038405 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.70 50.0 5.41e-01 75.0% 97.8%
3518475 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.68 62.0 5.76e-01 100.0% 97.1%
3413864 4.1.1.92 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_9 0.67 47.0 3.40e-01 75.0% 61.2%
3600486 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 46.0 3.80e-01 71.4% 57.0%
3595917 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.66 55.0 3.99e-01 92.9% 86.5%
3323984 4.1.1.38 ↗ beta barrels › SH3 › SH3 › SH3 › Ribosomal_L2_C 0.65 54.0 3.73e-01 92.9% 77.3%
4043931 2.1.1.9 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S4e 0.64 45.0 4.41e-01 73.2% 71.7%
5081654 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.63 52.0 5.10e-01 91.1% 100.0%
4185536 101.8.1.4 ↗ alpha arrays › HTH › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › tRNA-synt_1f 0.62 44.0 2.59e-01 76.8% 14.4%
1068760 4.1.1.102 ↗ beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.59 49.0 4.42e-01 94.6% 93.6%
None — 0.57 46.0 2.84e-01 89.3% 23.3%
3494765 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.54 44.0 3.08e-01 98.2% 48.6%
3477005 5.1.4.12 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Sema 0.51 39.0 2.51e-01 94.6% 38.0%
D2 medium residues 127-261
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3m7kA00 3.30.40.220 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.62 48.0 4.77e-01 82.2% 92.3%
4mspB02 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.57 25.0 3.23e-01 70.4% 70.7%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3953059 378.1.1.0 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases 0.54 35.0 4.13e-01 85.9% 97.8%
4947306 4095.1.1.1 ↗ alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_N 0.53 24.0 2.81e-01 79.3% 56.0%
3952384 378.1.1.0 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases 0.53 35.0 4.07e-01 85.2% 94.7%
3952923 378.1.1.2 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › HNH 0.53 35.0 3.94e-01 87.4% 89.0%
4255240 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 27.0 3.28e-01 72.6% 82.5%
5042736 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.50 37.0 3.33e-01 75.6% 95.7%