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VP6

Euk-Vir

Eubenangee_virus

VP6__YP_009507703__Eubenangee_virus__40056

Identity

Accession:
YP_009507703 ↗
Protein ID:
VP6
Kingdom:
euk

Quality

61.2 mean pLDDT

Cluster

View cluster (5 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 4-30_259-327
PDB
Domain cluster: rep: helicase__YP_008719929__Changuinola_virus__40052__D4-32_215-282
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF01516.23 best Orbi_VP6 138.6 5.80e-40 72.9% 20.5%
PF01516.23 Orbi_VP6 32.5 1.10e-07 28.1% 7.7%
D2 medium residues 119-189_233-258
PDB
Domain cluster: rep: helicase__YP_009047249__Umatilla_virus__40060__D176-262
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01516.23 best Orbi_VP6 78.9 8.50e-22 78.3% 19.9%
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5agaA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.64 50.0 3.97e-01 84.5% 65.8%
7ejgC01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.62 44.0 4.43e-01 85.6% 73.5%
3hufB02 3.40.50.10190 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › BRCT domain 0.62 43.0 4.33e-01 95.9% 71.7%
2bdtA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.61 52.0 4.32e-01 93.8% 92.4%
1wekF01 3.40.50.450 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.60 50.0 4.00e-01 91.8% 85.4%
1rkbA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 49.0 4.16e-01 93.8% 88.4%
3hh8A01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.59 52.0 4.57e-01 100.0% 96.0%
3fdiB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 49.0 4.08e-01 93.8% 93.3%
4powA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.58 40.0 3.82e-01 84.5% 58.8%
3kvnA01 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.58 49.0 3.43e-01 92.8% 88.1%
2q3fA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 48.0 3.99e-01 92.8% 96.1%
4imrB00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.57 49.0 3.61e-01 92.8% 79.8%
1sr8A03 3.40.50.10720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › CbiD-like domains 0.57 41.0 4.22e-01 83.5% 80.0%
6jimB02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 41.0 3.69e-01 84.5% 54.9%
3fmgA01 3.40.50.11130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycoprotein VP7, domain 1 0.57 48.0 4.21e-01 94.8% 88.5%
1c41A00 3.40.50.960 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Lumazine/riboflavin synthase 0.57 47.0 4.01e-01 92.8% 78.2%
3gdgA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.56 47.0 3.47e-01 92.8% 80.9%
1dnpA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.56 49.0 4.45e-01 96.9% 86.2%
1toaA01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.56 49.0 4.38e-01 100.0% 93.0%
2n3zA00 3.40.50.11230 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 47.0 4.74e-01 97.9% 93.9%
2bd0A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.56 47.0 3.57e-01 92.8% 89.3%
1n0uA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 46.0 3.67e-01 93.8% 89.0%
1vddA03 3.40.1360.10 Alpha Beta › 3-Layer(aba) Sandwich › Dna Topoisomerase Vi A Subunit; Chain: A, domain 2 › 0.55 43.0 4.43e-01 83.5% 98.9%
5dclA00 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 46.0 4.36e-01 92.8% 94.9%
1f14A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 47.0 3.80e-01 96.9% 91.3%
3hdtA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 45.0 3.91e-01 95.9% 91.7%
3mfqA01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.55 49.0 4.33e-01 100.0% 92.9%
3olcX02 3.40.50.10190 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › BRCT domain 0.54 39.0 3.98e-01 96.9% 76.5%
4wsiB03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.54 45.0 3.65e-01 94.8% 83.7%
4us5C00 3.20.20.30 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Luciferase-like domain 0.54 47.0 3.33e-01 100.0% 82.5%
2gaiA01 3.40.50.140 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 44.0 4.09e-01 92.8% 91.5%
1q57G02 3.40.1360.10 Alpha Beta › 3-Layer(aba) Sandwich › Dna Topoisomerase Vi A Subunit; Chain: A, domain 2 › 0.54 44.0 4.14e-01 93.8% 82.5%
4gvlA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.53 42.0 3.77e-01 84.5% 83.8%
7p0jA01 3.40.50.10190 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › BRCT domain 0.53 38.0 3.93e-01 95.9% 81.1%
1t6t200 3.40.1360.10 Alpha Beta › 3-Layer(aba) Sandwich › Dna Topoisomerase Vi A Subunit; Chain: A, domain 2 › 0.53 46.0 4.48e-01 100.0% 85.5%
3ewaA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 43.0 3.22e-01 88.7% 47.8%
4p02A02 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.53 47.0 3.51e-01 97.9% 81.4%
1rljA00 3.40.50.360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain 0.53 44.0 4.02e-01 93.8% 83.0%
3i8oA01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.53 45.0 4.15e-01 95.9% 89.1%
3p0hB02 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.53 46.0 3.30e-01 97.9% 53.7%
1yqgA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 45.0 3.96e-01 96.9% 97.3%
3tauA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 44.0 3.99e-01 93.8% 86.5%
3e1sA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 40.0 3.20e-01 85.6% 50.0%
4pcfC00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.52 43.0 3.35e-01 95.9% 79.0%
4mdyA01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.51 43.0 3.92e-01 93.8% 86.0%
2c54A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 42.0 3.49e-01 92.8% 87.4%
2c31A01 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.51 41.0 3.42e-01 91.8% 87.2%
6hrdA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 43.0 3.51e-01 95.9% 91.6%
2j5bB01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.50 44.0 3.55e-01 100.0% 52.3%
1o5xA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.50 42.0 3.24e-01 95.9% 78.5%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3600103 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.62 52.0 4.24e-01 93.8% 96.8%
3595563 2007.6.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain 0.61 54.0 3.37e-01 100.0% 59.7%
3891450 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.61 51.0 4.34e-01 91.8% 88.1%
5002802 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.60 46.0 4.75e-01 94.8% 88.9%
4020830 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.59 48.0 4.06e-01 93.8% 93.3%
3786295 2002.1.1.44 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › TatD_DNase 0.59 52.0 3.46e-01 100.0% 79.2%
3457387 2005.1.1.41 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CHX17_C 0.58 51.0 4.28e-01 100.0% 65.7%
4221207 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 48.0 3.60e-01 94.8% 84.0%
5078719 2007.1.14.4 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Chelatase-like › ZnuA 0.57 51.0 4.51e-01 100.0% 82.9%
3205164 2004.1.1.366 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NPHP3_N 0.56 45.0 3.85e-01 85.6% 74.2%
3806709 2004.1.1.462 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NBD_SMAX1 0.56 42.0 3.33e-01 85.6% 37.1%
3271830 7590.1.1.7 ↗ a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › MID_MedPIWI 0.56 46.0 3.69e-01 91.8% 76.6%
3200668 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.56 47.0 3.50e-01 93.8% 89.4%
3262582 2006.1.4.29 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN-like_DDX60 0.56 47.0 4.15e-01 93.8% 87.6%
3742608 2006.1.4.10 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN_4 0.55 48.0 4.20e-01 99.0% 82.7%
4862955 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.54 43.0 3.75e-01 85.6% 56.9%
4652309 2004.1.1.105 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinase-PPPase 0.54 44.0 3.98e-01 93.8% 78.6%
4013233 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.53 47.0 3.66e-01 100.0% 86.7%
3965694 2003.1.1.46 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › F420_oxidored 0.53 46.0 3.97e-01 97.9% 94.2%
5006903 2003.1.1.36 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › 3HCDH_N 0.53 43.0 3.52e-01 91.8% 76.9%
3250636 7568.1.1.1 ↗ a/b three-layered sandwiches › BRCT domain › BRCT domain › BRCT domain › BRCT 0.53 39.0 4.13e-01 91.8% 90.6%
5060193 2005.1.1.13 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › CTP_transf_like 0.53 45.0 4.01e-01 96.9% 73.8%
5053909 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.53 46.0 4.33e-01 97.9% 93.3%
3457145 2004.1.1.462 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NBD_SMAX1 0.53 43.0 3.58e-01 90.7% 62.2%
1230913 2004.1.1.162 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Rad51 0.52 41.0 3.28e-01 83.5% 54.2%
3194532 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.52 45.0 3.25e-01 100.0% 70.7%
3603907 2006.1.4.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.52 45.0 3.96e-01 99.0% 79.3%
4879645 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.52 44.0 3.64e-01 94.8% 98.9%
3308696 2003.1.1.3 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.52 44.0 3.84e-01 93.8% 91.3%
3509953 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.52 43.0 4.17e-01 91.8% 81.8%
3176320 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.51 44.0 3.75e-01 97.9% 88.5%
3811937 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.51 44.0 3.24e-01 97.9% 36.7%
5014445 2498.2.1.0 ↗ mixed a+b and a/b › Zincin-like › beta-N-acetylhexosaminidase-like domain › beta-N-acetylhexosaminidase-like domain 0.51 43.0 3.74e-01 94.8% 73.5%
4864014 2006.1.4.53 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PF31195 0.50 43.0 3.47e-01 99.0% 69.2%
3378268 7568.1.1.1 ↗ a/b three-layered sandwiches › BRCT domain › BRCT domain › BRCT domain › BRCT 0.50 41.0 3.63e-01 96.9% 60.7%
3668032 2007.1.8.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Uroporphyrinogen III synthase (U3S, HemD) 0.50 39.0 3.49e-01 85.6% 83.4%
5062207 2007.2.2.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Phosphotyrosine protein phosphatases I-like › LMWPc 0.50 41.0 3.65e-01 94.8% 94.8%