←Back to structures

methyltransferase

Euk-Vir

Diuris_virus_B

methyltransferase__YP_006908989__Diuris_virus_B__1247116

Identity

Accession:
YP_006908989 ↗
Protein ID:
methyltransferase
Kingdom:
euk

Quality

86.4 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Alsuviricetes› Tymovirales› Betaflexiviridae› Divavirus› Diuris_virus_B

TaxID: 1247116

Cluster

View cluster (6 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 115-239
PDB
Domain cluster: rep: hypothetical_protein_AACVs1_gp2__YP_009011226__Anopheline-associated_C_virus_Viruses.__X__D149-168_223-340
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01660.23 best Vmethyltransf 105.5 4.10e-30 100.0% 36.7%
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2vdwG00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.72 66.0 5.05e-01 100.0% 62.3%
1ej6A04 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.69 63.0 5.13e-01 100.0% 65.2%
3mggB01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.69 46.0 4.17e-01 100.0% 51.8%
4fpvB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.67 40.0 3.09e-01 92.0% 28.4%
3htxD03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.67 58.0 4.79e-01 100.0% 52.9%
3jwhA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.67 53.0 4.59e-01 100.0% 55.0%
3frhA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.66 43.0 3.79e-01 100.0% 44.8%
4atnA03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.66 48.0 4.22e-01 100.0% 51.6%
4u1qA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.65 48.0 4.20e-01 100.0% 51.9%
3bkxA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 59.0 4.56e-01 100.0% 60.8%
4umgA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 34.0 3.71e-01 84.0% 62.7%
3futA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.62 47.0 4.01e-01 100.0% 49.7%
4f3nA00 3.40.50.12710 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.62 57.0 4.01e-01 100.0% 57.0%
3vc1J00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 57.0 4.34e-01 100.0% 50.4%
6cl5A01 2.60.40.3940 Mainly Beta › Sandwich › Immunoglobulin-like › 0.61 33.0 3.62e-01 83.2% 63.7%
2oo3A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 45.0 3.51e-01 100.0% 36.0%
6g80B01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 40.0 3.38e-01 100.0% 38.5%
3slkA02 3.90.180.10 Alpha Beta › Alpha-Beta Complex › Quinone Oxidoreductase; Chain A, domain 1 › Medium-chain alcohol dehydrogenases, catalytic domain 0.60 36.0 2.65e-01 94.4% 21.7%
4bluB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 45.0 3.50e-01 100.0% 35.9%
1qyrA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 47.0 4.11e-01 100.0% 56.0%
2ds4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 34.0 3.70e-01 84.0% 65.7%
3rrkA03 3.30.70.2750 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 26.0 3.35e-01 89.6% 68.9%
3e3mA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.59 35.0 3.42e-01 100.0% 51.0%
1yz7A02 3.30.70.1130 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › EIF_2_alpha 0.58 28.0 3.31e-01 91.2% 63.3%
1eamA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 41.0 3.13e-01 100.0% 31.9%
2c7rA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 46.0 3.86e-01 100.0% 51.7%
5hfjC00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 42.0 3.59e-01 100.0% 48.5%
4w9nC02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 36.0 3.27e-01 97.6% 48.5%
2c0cA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 33.0 2.96e-01 97.6% 40.2%
4zkfA01 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.54 44.0 3.23e-01 100.0% 33.2%
5w2fA01 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.53 26.0 3.12e-01 88.8% 67.4%
1v1aA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.53 36.0 2.78e-01 100.0% 28.9%
4ctaA02 3.30.70.2860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 23.0 2.89e-01 91.2% 65.3%
3me5A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 46.0 3.66e-01 100.0% 50.0%
4ft4A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 46.0 3.29e-01 100.0% 51.9%
2ei9A00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.50 44.0 3.73e-01 99.2% 57.0%
4eqmA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 31.0 3.50e-01 89.6% 84.3%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3270393 2003.1.5.28 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › mRNA_G-N7_MeTrfase 0.73 67.0 5.15e-01 100.0% 66.9%
4631218 2003.1.5.28 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › mRNA_G-N7_MeTrfase 0.72 66.0 4.88e-01 100.0% 57.2%
3237258 2003.1.5.119 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_22 0.70 47.0 3.80e-01 100.0% 37.1%
3954323 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.69 46.0 3.33e-01 100.0% 25.4%
5054390 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.68 53.0 5.51e-01 100.0% 87.8%
4521495 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.68 46.0 3.25e-01 100.0% 23.5%
3663236 2003.1.5.67 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_12 0.67 56.0 4.52e-01 100.0% 47.2%
None — 0.67 44.0 3.14e-01 100.0% 23.8%
5063286 2003.1.5.10 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Fibrillarin 0.67 48.0 4.33e-01 100.0% 54.1%
5040502 2003.1.5.10 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Fibrillarin 0.67 48.0 4.28e-01 100.0% 52.6%
4116230 2003.1.5.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.67 48.0 4.27e-01 100.0% 52.2%
5075957 2003.1.5.42 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_21 0.67 44.0 3.48e-01 100.0% 33.6%
3170060 2007.1.16.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Iron-sulphur enzyme Dph2 0.66 46.0 4.41e-01 100.0% 61.4%
None — 0.66 45.0 3.15e-01 100.0% 23.0%
4399710 2003.1.5.25 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GidB 0.66 42.0 3.49e-01 100.0% 37.2%
4949002 2003.1.5.64 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_9 0.66 60.0 4.83e-01 100.0% 58.2%
3577955 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.66 47.0 3.63e-01 100.0% 33.8%
3512301 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.63 50.0 3.66e-01 100.0% 32.5%
3646130 2003.1.5.31 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.63 57.0 4.50e-01 99.2% 63.1%
3654078 2003.1.5.31 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GRAS 0.61 56.0 3.90e-01 100.0% 46.4%
3834748 304.128.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in periplasmic region of MacB › ferredoxin-like domain in periplasmic region of MacB 0.61 30.0 3.43e-01 91.2% 62.1%
4324006 2003.1.1.188 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Methyltransf_12, KR 0.61 55.0 3.41e-01 100.0% 18.5%
2439987 2003.1.5.80 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_24 0.60 40.0 3.36e-01 100.0% 37.6%
3241239 2003.1.5.213 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS, tRNA_U5-meth_tr 0.60 46.0 3.21e-01 100.0% 24.6%
4655780 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.59 36.0 2.57e-01 97.6% 19.5%
4002275 2003.1.5.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.59 45.0 3.13e-01 99.2% 24.1%
4074459 2003.1.5.55 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PrmA 0.57 35.0 3.01e-01 96.0% 37.7%
3223591 207.1.1.247 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › PF28313 0.55 44.0 3.16e-01 100.0% 29.6%
3678172 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.53 48.0 4.13e-01 100.0% 62.6%
3733282 2003.1.1.5 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › ADH_zinc_N 0.53 34.0 2.91e-01 97.6% 38.5%
None — 0.53 33.0 2.94e-01 98.4% 41.6%
3741755 314.1.1.12 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › LplA-B_cat 0.52 47.0 3.67e-01 98.4% 79.2%
3833447 2003.1.5.174 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr, Methyltransf_15 0.52 47.0 3.15e-01 100.0% 25.4%
4884008 2003.4.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Tryptophan synthase beta subunit-like PLP-dependent enzymes › Tryptophan synthase beta subunit-like PLP-dependent enzymes 0.52 35.0 3.40e-01 97.6% 60.6%
2530276 2002.1.1.30 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 0.52 44.0 3.40e-01 96.8% 49.1%
3509077 246.3.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.51 43.0 3.29e-01 100.0% 39.0%
D2 high residues 255-307
PDB
Domain cluster: rep: methyltransferase__YP_006908994__Diuris_virus_A__1247115__D255-307
D3 medium residues 1-57
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01660.23 best Vmethyltransf 47.2 2.40e-12 98.2% 15.4%
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3tovA02 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.59 44.0 3.16e-01 82.5% 85.4%
4uavA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.53 36.0 3.29e-01 71.9% 58.8%
2yevC00 6.10.280.110 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 38.0 3.69e-01 98.2% 68.3%
4o5fA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.51 42.0 3.37e-01 96.5% 53.5%
7bv3A01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.50 37.0 2.51e-01 82.5% 98.1%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3707811 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.64 47.0 2.85e-01 78.9% 13.6%
5040283 2006.1.1.14 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › HAD 0.59 42.0 2.79e-01 75.4% 18.3%
4542132 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.56 36.0 2.52e-01 78.9% 21.1%