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MH925092.1__QAY01932.1__VpaJT1_3__00002

Bact-Vir

MH925092.1__QAY01932.1__VpaJT1_3__00002

Identity

Accession:
MH925092 ↗
Kingdom:
phage

Quality

90.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_VpaJT_1

TaxID: 2484247

Cluster

View cluster (2 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 3-89
PDB
Domain cluster: rep: NC_042041.1__YP_009615277.1__FDI70_gp06__00006__D1-70
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4n4nB00 3.90.640.100 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › 0.66 39.0 4.69e-01 73.6% 92.9%
1s67L00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.61 29.0 2.66e-01 73.6% 31.1%
5fmnA00 1.20.58.1000 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Metal-sensitive repressor, helix protomer 0.59 45.0 4.59e-01 100.0% 81.4%
2v79A00 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 0.57 41.0 3.77e-01 75.9% 75.7%
3r0aA00 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 0.57 45.0 4.00e-01 82.8% 81.7%
5jk0B01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.56 39.0 3.13e-01 72.4% 86.1%
2wweA01 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.56 34.0 3.21e-01 72.4% 50.0%
2oarB00 1.10.1200.120 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Large-conductance mechanosensitive channel, MscL; domain 1 0.56 39.0 3.43e-01 72.4% 55.2%
6abqB00 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 0.55 44.0 4.16e-01 86.2% 89.6%
4esbA00 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 0.53 43.0 4.05e-01 86.2% 92.2%
1sfxB00 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 0.53 40.0 3.80e-01 79.3% 85.6%
4gs5A01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.53 42.0 3.04e-01 86.2% 61.1%
4eo0A00 3.30.110.160 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › 0.52 38.0 3.52e-01 98.9% 61.3%
2p92A00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.51 35.0 3.44e-01 100.0% 65.3%
4lq0A01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.50 34.0 2.97e-01 70.1% 62.5%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3829017 263.1.1.1 ↗ a+b three layers › SRF-like › SRF-like › SRF-like › SRF-TF 0.75 38.0 4.08e-01 100.0% 56.0%
3711833 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.66 49.0 3.92e-01 82.8% 40.6%
5010819 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.65 44.0 3.66e-01 70.1% 86.7%
3607771 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.64 55.0 3.70e-01 93.1% 80.0%
3198044 604.6.1.0 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.64 50.0 4.86e-01 95.4% 75.8%
4026519 3871.1.1.1 ↗ alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.64 46.0 3.94e-01 74.7% 48.9%
4669204 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 57.0 3.56e-01 95.4% 34.4%
3998938 6110.1.1.1 ↗ alpha superhelices › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › Linker domain of cytoplasmic dynein heavy chain › DHC_N2 0.61 55.0 3.35e-01 96.6% 16.7%
3303720 3336.1.1.1 ↗ alpha complex topology › plant-specific ROP nucleotide exchanger (PRONE) domain › plant-specific ROP nucleotide exchanger (PRONE) domain › plant-specific ROP nucleotide exchanger (PRONE) domain › PRONE 0.61 52.0 3.41e-01 100.0% 21.0%
5018010 109.4.1.202 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_16 0.60 42.0 2.74e-01 71.3% 50.9%
None — 0.60 54.0 4.03e-01 100.0% 74.9%
3225917 2498.1.1.23 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M49 0.59 49.0 2.89e-01 89.7% 60.6%
4935885 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.59 47.0 3.10e-01 85.1% 53.1%
5077402 2007.15.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › N-deoxyribosyltransferase › N-deoxyribosyltransferase 0.58 51.0 4.02e-01 97.7% 61.6%
3716174 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.58 49.0 4.54e-01 93.1% 80.9%
5060792 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.57 46.0 4.13e-01 87.4% 81.5%
1211453 2498.1.1.23 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M49 0.57 48.0 2.81e-01 90.8% 60.0%
3207719 2002.1.1.262 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › SGT1 0.57 38.0 3.02e-01 98.9% 34.3%
5006003 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.57 47.0 4.20e-01 88.5% 88.3%
5042455 101.1.2.92 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_11 0.57 44.0 3.94e-01 81.6% 82.4%
4978825 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.57 45.0 4.04e-01 83.9% 82.5%
2494143 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.57 44.0 4.06e-01 82.8% 83.8%
5072239 3501.1.1.0 ↗ a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 0.57 40.0 4.03e-01 87.4% 71.1%
3519143 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.56 48.0 3.32e-01 96.6% 30.5%
3602715 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.55 45.0 4.02e-01 88.5% 83.2%
3924998 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.55 49.0 3.27e-01 98.9% 63.1%
5077859 2002.1.1.12 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_1 0.55 49.0 3.45e-01 100.0% 55.1%
3971108 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 39.0 3.88e-01 95.4% 71.1%
4025072 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.55 49.0 4.45e-01 97.7% 80.9%
3614862 4015.1.1.1 ↗ alpha complex topology › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › Sec1 0.55 44.0 3.23e-01 87.4% 46.5%
5061722 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.54 43.0 3.99e-01 87.4% 86.7%
3329735 327.11.2.37 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_DEAH11_1st 0.53 25.0 2.78e-01 95.4% 52.9%
5067344 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 37.0 3.58e-01 72.4% 89.0%
4023956 3871.1.1.1 ↗ alpha duplicates or obligate multimers › PHIST › PHIST › PHIST › PRESAN 0.53 44.0 3.86e-01 92.0% 60.0%
154263 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.53 43.0 4.05e-01 86.2% 92.2%
4067342 5069.1.1.15 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Cytochrom_C_asm 0.53 44.0 2.92e-01 89.7% 59.6%
3234354 3352.1.1.12 ↗ alpha bundles › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › STT3/PglB/AglB transmembrane domain › Dpy19 0.53 45.0 2.78e-01 93.1% 43.3%
4928248 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 47.0 4.08e-01 96.6% 94.6%
1203379 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.53 42.0 3.04e-01 86.2% 60.8%
4417592 3281.1.1.1 ↗ alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit L (NuoL)-related › Proton_antipo_M 0.52 45.0 2.82e-01 98.9% 75.8%
1442273 304.11.1.4 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase › FAS_AT_central 0.52 35.0 3.43e-01 100.0% 62.9%
4971747 101.1.2.30 ↗ alpha arrays › HTH › HTH › winged helix domain › TrmB 0.52 37.0 3.45e-01 74.7% 84.5%
3924318 6166.1.1.0 ↗ alpha bundles › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › N-terminal domain of Delta(14)-sterol reductase, MaSR1 › N-terminal domain of Delta(14)-sterol reductase, MaSR1 0.52 44.0 3.38e-01 92.0% 73.3%
3794245 5001.1.1.5 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.51 44.0 3.38e-01 98.9% 71.4%
5065641 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 35.0 3.01e-01 72.4% 88.7%