←Back to structures

MG592459.1__AUR86380.1__NVP1084O_173__00173

Bact-Vir

MG592459.1__AUR86380.1__NVP1084O_173__00173

Identity

Accession:
MG592459 ↗
Kingdom:
phage

Quality

73.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_1.084.O._10N.261.49.F5

TaxID: 2070724

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 69-126
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4oj5A02 2.10.10.80 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.77 68.0 6.41e-01 100.0% 91.5%
3h09A03 3.30.160.280 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 52.0 4.62e-01 100.0% 75.0%
2pliA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.60 41.0 3.65e-01 87.9% 48.8%
2pm9A02 2.20.25.400 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.57 31.0 3.63e-01 72.4% 96.7%
7ecrA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.56 47.0 3.39e-01 96.6% 44.3%
2wdtC02 3.30.1490.420 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ubiquitin carboxyl-terminal hydrolase, domain 2 0.56 39.0 3.41e-01 77.6% 80.2%
3fvzA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.54 41.0 2.67e-01 91.4% 27.7%
3vmaA03 3.30.2060.10 Alpha Beta › 2-Layer Sandwich › Penicillin-binding protein 1b fold › Penicillin-binding protein 1b domain 0.51 37.0 3.25e-01 100.0% 51.1%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2442382 3856.1.1.1 ↗ beta sandwiches › Putative tailspike protein Orf210 N-terminal domain › Putative tailspike protein Orf210 N-terminal domain › Putative tailspike protein Orf210 N-terminal domain › Tail_spike_N 0.77 68.0 4.68e-01 100.0% 33.3%
1694867 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.71 56.0 5.86e-01 91.4% 96.2%
3963528 3312.1.1.2 ↗ a+b two layers › Domain 2 in immunoglobulin A protease › Domain 2 in immunoglobulin A protease › Domain 2 in immunoglobulin A protease › IgA0_D2 0.64 55.0 4.83e-01 100.0% 77.8%
4141849 3312.1.1.2 ↗ a+b two layers › Domain 2 in immunoglobulin A protease › Domain 2 in immunoglobulin A protease › Domain 2 in immunoglobulin A protease › IgA0_D2 0.63 54.0 4.74e-01 100.0% 73.3%
3560927 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.59 35.0 4.03e-01 86.2% 94.3%
3511457 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.56 45.0 3.48e-01 91.4% 44.4%
152575 207.6.1.3 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › Peptidase_M10_C 0.53 36.0 2.55e-01 100.0% 19.2%
3164741 506.2.1.1 ↗ beta meanders › Colicin E3 ribonuclease domain-like › UvrB interaction domain › UvrB interaction domain › UB2H 0.51 38.0 3.44e-01 100.0% 58.7%
5055829 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.51 38.0 3.24e-01 87.9% 78.2%
3596264 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 34.0 2.94e-01 72.4% 75.5%
D2 medium residues 1-68
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4gyiA01 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 0.66 38.0 3.39e-01 100.0% 40.9%
4hjhA02 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.61 44.0 4.25e-01 79.4% 97.5%
4iduB01 1.20.142.20 Mainly Alpha › Up-down Bundle › Poly(ADP-ribose) Polymerase; domain 1 › 0.56 38.0 3.19e-01 75.0% 38.6%
6y1xB01 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.56 43.0 2.96e-01 83.8% 43.3%
3k6qA01 3.40.1620.10 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › YefM-like domain 0.55 37.0 4.07e-01 94.1% 97.9%
7v5yA01 3.40.1620.10 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › YefM-like domain 0.55 39.0 4.22e-01 89.7% 100.0%
4qwoB00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.54 34.0 2.75e-01 70.6% 32.6%
1bifA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 43.0 3.24e-01 98.5% 85.9%
4oa3A00 3.10.310.50 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.51 41.0 3.28e-01 89.7% 47.5%
3hcsA02 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.51 34.0 3.66e-01 98.5% 90.4%
3lulA02 3.20.10.10 Alpha Beta › Alpha-Beta Barrel › D-amino Acid Aminotransferase; Chain A, domain 2 › D-amino Acid Aminotransferase, subunit A, domain 2 0.50 35.0 2.84e-01 76.5% 79.4%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4453177 4207.1.2.1 ↗ alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region › Med7 0.61 33.0 2.71e-01 77.9% 28.8%
4111809 304.1.1.1 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.58 43.0 3.45e-01 77.9% 66.7%
4953680 2008.1.1.4 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.58 35.0 2.41e-01 100.0% 15.8%
4938605 2008.1.1.4 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.56 38.0 2.62e-01 70.6% 25.5%
3750883 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.55 39.0 2.86e-01 75.0% 30.3%
3839368 304.3.1.1 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › HMA 0.54 34.0 3.55e-01 77.9% 67.7%
5063119 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.52 38.0 2.73e-01 80.9% 24.3%
5064459 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.52 38.0 2.62e-01 76.5% 62.7%
3963339 223.1.1.24 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_8 0.52 37.0 3.16e-01 77.9% 82.5%
3622481 604.29.1.1 ↗ alpha bundles › Spectrin repeat-like › Trehalose-6-phosphate phosphatase N-terminal helical bundle › Trehalose-6-phosphate phosphatase N-terminal helical bundle › T6PP_N 0.51 37.0 3.20e-01 77.9% 61.7%