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MK387337.2__QAU04559.1__Va1_276__00116

Bact-Vir

MK387337.2__QAU04559.1__Va1_276__00116

Identity

Accession:
MK387337 ↗
Kingdom:
phage

Quality

92.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_Va1

TaxID: 2508852

Cluster

View cluster (40 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 medium residues 1-76
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF12322.15 best T4_baseplate 32.2 1.30e-07 100.0% 34.2%
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3fgxA00 3.30.2220.10 Alpha Beta › 2-Layer Sandwich › rbstp2171 › rbstp2171 0.73 66.0 6.12e-01 100.0% 89.6%
2ob9A00 3.30.2220.20 Alpha Beta › 2-Layer Sandwich › rbstp2171 › Phage tail assembly chaperone gp13-like 0.73 65.0 5.73e-01 97.4% 94.4%
3kluA01 3.30.2220.30 Alpha Beta › 2-Layer Sandwich › rbstp2171 › 0.69 61.0 5.42e-01 100.0% 95.5%
6fhpD00 1.10.390.10 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › Neutral Protease Domain 2 0.68 36.0 4.00e-01 71.1% 64.5%
3vhlA02 1.20.58.740 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › DOCK DHR2 domain, lobe C 0.64 46.0 3.99e-01 76.3% 93.3%
6n6qD00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.63 48.0 3.00e-01 82.9% 73.9%
4g1tA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.60 32.0 3.49e-01 72.4% 62.3%
2jjnA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.58 44.0 2.84e-01 82.9% 68.9%
1bvyB00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.57 42.0 2.66e-01 78.9% 77.2%
1szhA01 1.10.150.360 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.54 38.0 4.02e-01 100.0% 86.2%
5cgaE00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.54 43.0 3.07e-01 90.8% 95.3%
1gkrA02 3.20.20.140 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Metal-dependent hydrolases 0.53 41.0 2.69e-01 84.2% 48.7%
4fuqC01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.53 39.0 2.54e-01 80.3% 54.7%
8dvhB01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.52 44.0 3.37e-01 94.7% 96.6%
2nn6G03 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.51 32.0 3.12e-01 98.7% 53.4%
1iurA01 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.50 33.0 3.59e-01 71.1% 82.5%
2jugA01 1.10.10.1830 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Non-ribosomal peptide synthase, adenylation domain 0.50 35.0 3.94e-01 80.3% 100.0%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4954554 6050.1.1.0 ↗ a+b two layers › Phage tail assembly chaperone › Phage tail assembly chaperone › Phage tail assembly chaperone 0.77 68.0 6.13e-01 97.4% 89.5%
4957561 6050.1.1.0 ↗ a+b two layers › Phage tail assembly chaperone › Phage tail assembly chaperone › Phage tail assembly chaperone 0.75 68.0 6.08e-01 100.0% 94.3%
3944499 6050.1.1.0 ↗ a+b two layers › Phage tail assembly chaperone › Phage tail assembly chaperone › Phage tail assembly chaperone 0.71 61.0 5.97e-01 98.7% 100.0%
3731112 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.58 41.0 4.50e-01 92.1% 93.3%
4082601 2004.1.1.414 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU, MMR_HSR1 0.57 40.0 2.81e-01 73.7% 47.9%
3743600 109.4.1.1297 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TIMELESS, PF27570 0.57 43.0 2.47e-01 81.6% 18.1%
5075951 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.54 35.0 3.50e-01 98.7% 62.5%
3175410 109.4.1.3460 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF30192 0.53 38.0 2.83e-01 76.3% 52.7%
4143106 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.53 32.0 3.34e-01 94.7% 64.3%
5074272 247.1.1.1 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.51 41.0 2.84e-01 90.8% 40.3%
3236724 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 41.0 3.67e-01 86.8% 67.6%
4875850 4967.1.1.14 ↗ alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › Flavi_NS5_thumb 0.51 39.0 3.93e-01 90.8% 83.3%
5026193 873.1.1.0 ↗ a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.51 41.0 3.44e-01 89.5% 72.6%
None — 0.50 39.0 2.55e-01 82.9% 37.9%
D2 medium residues 109-181
PDB
Domain cluster: rep: ALT_09252017_20_scaffold_146_prodigal-single.1__X__X__00092__D148-229
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4e9jA02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.55 35.0 3.66e-01 100.0% 69.6%
3mg2B01 1.10.2090.10 Mainly Alpha › Orthogonal Bundle › orange carotenoid protein, domain 2 › Orange carotenoid-binding protein, N-terminal domain 0.52 45.0 3.56e-01 94.5% 98.0%
1iicA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 42.0 3.32e-01 100.0% 71.1%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5009985 3016.1.1.1 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › Aminotran_1_2 0.61 36.0 3.60e-01 100.0% 57.3%
4683271 327.16.1.3 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › Secretin_N 0.57 35.0 3.58e-01 100.0% 64.3%
4222275 5052.1.1.1 ↗ alpha complex topology › Proton glutamate symport protein › Proton glutamate symport protein › Proton glutamate symport protein › SDF 0.53 43.0 2.73e-01 97.3% 84.0%
4204490 2498.4.1.1 ↗ mixed a+b and a/b › Zincin-like › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 C-terminal domain (C-terminal part of Pfam 00183) › HSP90 0.52 38.0 3.16e-01 80.8% 86.3%