Structural Classification of Proteins

Fold: S-adenosyl-L-methionine-dependent methyltransferases

: core: 3 layers, a/b/a; mixed beta-sheet of 7 strands, order 3214576; strand 7 is antiparallel to the rest

Lineage:

Root: scop
Class: Alpha and beta proteins (a/b) [51349]
Mainly parallel beta sheets (beta-alpha-beta units)
Fold: S-adenosyl-L-methionine-dependent methyltransferases [53334]
core: 3 layers, a/b/a; mixed beta-sheet of 7 strands, order 3214576; strand 7 is antiparallel to the rest

Superfamilies:

S-adenosyl-L-methionine-dependent methyltransferases [53335] (57)
uperfamily
1. COMT-like [53336] (3)
2. Plant O-methyltransferase, C-terminal domain [64111] (5)
3. RNA methyltransferase FtsJ [53339] (1)
4. Fibrillarin homologue [53342] (3)
5. rRNA methyltransferase RlmA [102557] (1)
6. rRNA methyltransferase AviRa [89738] (1)
7. rRNA adenine dimethylase-like [88784] (5)
8. mRNA cap methylase [88785] (3)
9. mRNA cap (Guanine N-7) methyltransferase [102560] (1)
  mRNA capping enzyme
10. Hypothetical protein MJ0882 [53345] (1)
11. Hypothetical protein HI0319 (YecO) [69544] (1)
12. Glycine N-methyltransferase [53348] (3)
13. Arylamine N-methyltransferase [69547] (2)
14. Histamine methyltransferase [75261] (1)
15. Hypothetical Protein YjhP [82469] (1)
16. Salicylic acid carboxyl methyltransferase (SAMT) [102563] (1)
17. Thiopurine S-methyltransferase [102566] (2)
18. Leucine carboxy methyltransferase Ppm1 [102569] (1)
19. Precorrin-6Y methyltransferase (CbiT) [82472] (1)
20. MraW-like putative methyltransferases [82475] (2)
21. N5-glutamine methyltransferase, HemK [89743] (2)
22. Catalytic, N-terminal domain of histone methyltransferase Dot1l [89746] (2)
23. Guanidinoacetate methyltransferase [69550] (2)
24. Arginine methyltransferase [53351] (4)
  lacks the last two strands of the common fold replaced with a beta-sandwich oligomerisation subdomain
25. Protein-L-isoaspartyl O-methyltransferase [53354] (5)
  topological variant; strand order 3214567; strand 6 is antiparallel to the rest
26. Glucose-inhibited division protein B (GidB) [75264] (2)
27. tRNA(1-methyladenosine) methyltransferase-like [64117] (4)
  contains additional N-terminal beta-sandwich domain
28. NOL1/NOP2/sun [102575] (3)
  Pfam 01189; contains additional N-terminal 3-helical and ferredoxin-like domains
29. Ribosomal protein L11 methyltransferase PrmA [102578] (1)
  contains additional N-terminal ferredoxin-like domain
30. (Uracil-5-)-methyltransferase [102581] (1)
  Pfam 05958
31. Chemotaxis receptor methyltransferase CheR, C-terminal domain [53357] (1)
  contains additional N-terminal all-alpha domain, res. 11-91
32. C5 cytosine-specific DNA methylase, DCM [88786] (3)
33. DNA methylase TaqI, N-terminal domain [88787] (1)
34. N6 adenine-specific DNA methylase, DAM [88788] (2)
35. Type II DNA methylase [53377] (3)
  circularly permuted version of the common fold
36. Spermidine synthase [69557] (7)
  contains additional N-terminal tetramerisation all-beta domain, res. 1-71
37. Mycolic acid cyclopropane synthase [69560] (6)
38. Ta1320-like [89751] (2)
39. UbiE/COQ5-like [110671] (5)
  Pfam 01209
40. AD-003 protein-like [117685] (2)
  Pfam 05891; DUF858
41. CAC2371-like [117688] (3)
  similar overall fold to the Glycine N-methyltransferase (scop_fa 53348) and mRNA cap (Guanine N-7) methyltransferase (scop_fa 102560) families
42. TehB-like [142603] (1)
  Pfam 03848; overall structural similarity to Thiopurine S-methyltransferase (Pfam 05724)
43. N-6 DNA Methylase-like [142606] (3)
  Pfam 02384; contains C-terminal extension to the canonical fold and extra N-terminal all-alpha domain similar to the insert domain of the DAM family (scop_fa 88788)
44. YhhF-like [142611] (5)
  Pfam 03602
45. Met-10+ protein-like [142622] (1)
  Pfam 02475; contains extra N-terminal alpha+beta domain: beta(2)-alpha-beta(2); mixed beta-sheet; order: 1234; cf scop_fold 102740
46. Nsp15 N-terminal domain-like [142625] (2)
  rudiment methyltransferase fold that probably has lost the enzymatic activity; contains extra N-terminal alpha+beta subdomain
47. BC2162-like [142629] (1)
  contains extra helical regions inserted after strands 5 and 6 of the canonical fold
48. CmcI-like [142632] (1)
  Pfam 04989; may have evolved different enzymatic activity
49. hypothetical RNA methyltransferase [142635] (4)
  C-terminal part of Pfam 03602; similar to (Uracil-5-)-methyltransferase (Pfam 05958)
50. RPA4359-like [142644] (1)
  Pfam 02636; DUF185
51. TrmB-like [142647] (2)
  Pfam 02390
52. Methyltransferase 10 domain [142651] (1)
  Pfam 05971; DUF890
53. YhiQ-like [159686] (3)
  Pfam 04445; DUF548; contains extra N-terminal alpha+beta subdomain [beta-alpha-beta(4)]
54. FkbM-like [159691] (1)
  contains extra N-terminal alpha/beta and all-alpha subdomains
55. ML2640-like [159694] (1)
  Pfam 02409; O-methyltransferase N-terminus (DUF142); most similar structure to the Leucine carboxy methyltransferase Ppm1 family
56. TRM1-like [159697] (1)
  Pfam 02005; contains extra C-terminal alpha+beta subdomain
57. LPG1296-like [159700] (1)
  Pfam 04378; DUF519