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cytosine-N-4--specific_DNA-methyl_transferase

Euk-Vir

Pandoravirus_inopinatum

cytosine-N-4--specific_DNA-methyl_transferase__YP_009119559__Pandoravirus_inopinatum__1605721

Identity

Accession:
YP_009119559 ↗
Protein ID:
cytosine-N-4--specific_DNA-methyl_transferase
Kingdom:
euk

Quality

80.5 mean pLDDT

Taxonomy

Pandoravirus› Pandoravirus_inopinatum

TaxID: 1605721

Cluster

Singleton — not in a non-trivial cluster

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 18-101
PDB
Domain cluster: rep: IMGVR_UViG_3300009773_000342-3300009773-Ga0123333_100073731__D1-64
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01555.25 best N6_N4_Mtase 46.4 6.70e-12 97.6% 37.6%
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1booA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.82 74.0 4.98e-01 100.0% 28.7%
1eg2A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.81 75.0 5.11e-01 100.0% 39.3%
1g60B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.80 74.0 5.28e-01 100.0% 41.2%
5hfjC00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.73 59.0 4.49e-01 100.0% 36.8%
7f4oA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 51.0 3.90e-01 100.0% 37.2%
2zigA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.61 55.0 3.98e-01 100.0% 35.6%
2y7bA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.53 40.0 3.50e-01 83.3% 89.6%
1o14A02 2.20.150.10 Mainly Beta › Single Sheet › putative 5-dehydro-2- deoxygluconokinase like fold › putative 5-dehydro-2- deoxygluconokinase 0.51 27.0 3.25e-01 79.8% 81.1%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4507224 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.93 85.0 5.62e-01 100.0% 28.4%
4929709 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.91 75.0 5.05e-01 100.0% 26.5%
None — 0.90 69.0 4.76e-01 100.0% 26.8%
5042985 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.88 68.0 4.69e-01 100.0% 26.7%
4997728 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.86 80.0 5.44e-01 100.0% 36.7%
4946282 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.85 77.0 5.25e-01 100.0% 31.2%
5035730 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.85 79.0 5.32e-01 100.0% 38.6%
4872701 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.83 77.0 5.75e-01 100.0% 50.3%
4086811 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.83 76.0 5.13e-01 100.0% 29.8%
5049276 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.83 77.0 5.33e-01 100.0% 34.9%
4233076 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.82 77.0 5.13e-01 100.0% 33.1%
5075270 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.82 68.0 4.88e-01 100.0% 32.9%
4944564 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.82 66.0 4.53e-01 100.0% 27.3%
4505176 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.82 76.0 5.27e-01 100.0% 35.2%
4932762 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.82 75.0 5.31e-01 100.0% 42.9%
4995701 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.81 75.0 5.20e-01 100.0% 39.5%
9377 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.81 74.0 5.26e-01 100.0% 43.7%
3980461 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.80 74.0 5.07e-01 100.0% 35.9%
4624270 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.80 74.0 5.17e-01 100.0% 44.0%
5047210 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.80 63.0 4.39e-01 100.0% 27.3%
5031729 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.79 72.0 4.93e-01 100.0% 31.4%
3839633 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.79 65.0 4.68e-01 100.0% 32.6%
5036708 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.78 63.0 4.55e-01 100.0% 31.1%
5039763 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.77 71.0 4.83e-01 100.0% 34.0%
5001936 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.75 68.0 4.67e-01 100.0% 31.4%
4940275 2003.1.5.44 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MT-A70 0.75 56.0 4.49e-01 100.0% 41.2%
3941844 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.73 58.0 4.29e-01 100.0% 33.5%
4057080 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.73 57.0 4.18e-01 100.0% 32.3%
3512712 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.72 63.0 3.74e-01 100.0% 14.5%
4995766 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.70 64.0 4.54e-01 100.0% 37.5%
5070667 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.69 63.0 4.45e-01 100.0% 38.8%
4963515 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.67 61.0 4.07e-01 100.0% 30.0%
4966290 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.65 59.0 3.97e-01 100.0% 32.0%
346155 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.64 57.0 4.11e-01 100.0% 35.0%
4830306 2003.1.5.44 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MT-A70 0.63 51.0 3.98e-01 100.0% 40.8%
5082537 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.63 56.0 4.33e-01 100.0% 47.4%
3790670 304.44.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.59 46.0 3.80e-01 83.3% 69.3%
3858888 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.51 38.0 2.75e-01 96.4% 26.8%
3783288 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.50 37.0 3.46e-01 79.8% 97.3%
D2 medium residues 102-172
PDB
Domain cluster: rep: SR-VP_4-6_scaffold_141_5680703_prodigal-single.1__X__X__00471__D22-78
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01555.25 best N6_N4_Mtase 63.6 3.70e-17 90.1% 26.7%