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MK387337.2__QAU04483.1__Va1_103__00040

Bact-Vir

MK387337.2__QAU04483.1__Va1_103__00040

Identity

Accession:
MK387337 ↗
Kingdom:
phage

Quality

81.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_Va1

TaxID: 2508852

Cluster

View cluster (4 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 3-110
PDB
Domain cluster: rep: MT778839.1__QNH71827.1__P9VFCI_165__00165__D6-122
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5iduC03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.58 45.0 3.97e-01 88.9% 56.0%
2hujA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.51 35.0 3.38e-01 90.7% 60.0%
4myzC00 6.10.250.3430 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.50 25.0 3.35e-01 72.2% 98.0%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3285752 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 45.0 4.08e-01 82.4% 89.3%
3885066 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.56 41.0 3.50e-01 75.9% 89.7%
3706007 633.6.1.0 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.53 44.0 3.75e-01 91.7% 53.5%
3286627 3281.1.1.2 ↗ alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit L (NuoL)-related › Proton_antipo_M,Proton_antipo_N 0.52 44.0 2.86e-01 97.2% 79.0%
3719985 601.14.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin 0.52 34.0 3.45e-01 95.4% 67.6%
3510785 3345.1.1.1 ↗ alpha arrays › MRG domain › MRG domain › MRG domain › MRG 0.51 38.0 3.39e-01 77.8% 80.6%
4942428 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.51 34.0 3.22e-01 77.8% 54.8%
3947416 101.1.9.88 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › Phage_pRha 0.51 35.0 3.57e-01 72.2% 92.7%
3736574 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 37.0 2.99e-01 78.7% 79.6%
1124217 3791.1.1.1 ↗ alpha arrays › EDS1-PAD4 (EP) domain › EDS1-PAD4 (EP) domain › EDS1-PAD4 (EP) domain › EDS1_EP 0.50 39.0 3.01e-01 83.3% 41.4%
D2 high residues 172-236
PDB
Domain cluster: rep: NC_049505.1__YP_009888547.1__HYQ35_gp021__00021__D163-229
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1u3eM02 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 0.75 55.0 5.50e-01 98.5% 75.0%
1iyjB03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.67 37.0 2.85e-01 100.0% 23.9%
3p42A03 3.10.560.10 Alpha Beta › Roll › Outer membrane lipoprotein wza fold like › Outer membrane lipoprotein wza domain like 0.65 37.0 3.55e-01 100.0% 50.0%
3fmaA00 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.63 39.0 3.62e-01 98.5% 48.1%
4gi3C00 3.30.60.30 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.63 37.0 3.95e-01 98.5% 64.9%
5ccbA01 3.10.330.20 Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › 0.60 47.0 4.62e-01 96.9% 79.2%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.53 37.0 3.56e-01 100.0% 64.5%
3wdhA01 2.60.40.2320 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 37.0 3.27e-01 98.5% 50.0%
2mctA00 2.60.40.4250 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 42.0 3.65e-01 89.2% 87.3%
4ijdA02 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.52 27.0 3.35e-01 89.2% 96.8%
3rkgA01 2.40.128.330 Mainly Beta › Beta Barrel › Lipocalin › 0.52 42.0 3.90e-01 100.0% 88.3%
4wz2C00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.52 37.0 3.56e-01 100.0% 66.2%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2876 101.1.14.2 ↗ alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like 0.75 55.0 5.47e-01 98.5% 73.9%
3333626 822.1.1.0 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain 0.73 43.0 4.52e-01 98.5% 65.0%
3415617 379.1.1.1 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_1 0.69 40.0 4.49e-01 98.5% 76.0%
3400250 379.1.1.3 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 0.65 39.0 4.32e-01 98.5% 76.0%
3236043 10.4.1.9 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB_2 0.65 37.0 3.06e-01 100.0% 31.3%
3574017 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.63 38.0 3.79e-01 98.5% 55.7%
3929550 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.62 47.0 4.54e-01 100.0% 73.0%
3930342 822.1.1.2 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF_2 0.61 37.0 3.98e-01 98.5% 70.9%
3389539 379.1.1.0 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.60 37.0 4.28e-01 98.5% 91.1%
4110075 1.1.2.21 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › PolC_DP2_central+PolC_DP2_cat 0.60 34.0 2.40e-01 100.0% 16.7%
4930160 1.1.2.20 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › PolC_DP2_central 0.59 34.0 2.76e-01 100.0% 26.7%
3500539 322.1.1.1 ↗ a+b two layers › HPr-like › HPr-like › HPr-like › PTS-HPr 0.58 33.0 3.45e-01 98.5% 61.7%
4566976 375.14.2.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS2) 0.54 30.0 3.59e-01 96.9% 87.5%
3617714 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.53 46.0 4.42e-01 100.0% 89.3%
3622068 221.1.1.4 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PB1 0.52 37.0 3.39e-01 75.4% 94.4%
3805835 4121.1.1.2 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › MRS2-like 0.52 42.0 2.90e-01 95.4% 27.2%
3196677 376.1.1.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-C3HC4 0.51 34.0 3.49e-01 100.0% 70.8%
3829044 109.4.1.1272 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, E_motif 0.50 37.0 2.46e-01 100.0% 17.9%
1489496 376.1.1.8 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.50 34.0 2.99e-01 100.0% 45.5%