MolNFT v1 · #118017 · protein
Crystal structure of SAM-dependent methyltransferase from thiobacillus denitrificans in complex with S-adenosyl-L-homocysteine
5EPE: “Crystal structure of SAM-dependent methyltransferase from thiobacillus denitrificans in complex with…”. X-ray diffraction, 2 ligands (SAH, NA), 2 pockets (best druggability 0.73). MolNFT v1 #118017 on GenesisL1: 3D structure…
- PDB
- 5EPE
- Type
- protein
- Length
- 248 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SAM-dependent methyltransferase
- EC
- 2.1.1.-
- UniProt
- Q3SJX0
- Ligands
- SAH, NA
- Pockets
- 2 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SAM-dependent methyltransferase (EC 2.1.1.-) | protein | 248 | 47% helix, 23% strand | Q3SJX0 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 590 | 0.73 | 0.80 | 58 | SAH |
| 2 | 50 | 0.28 | 0.75 | 12 | empty |
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 5EPE · Crystal structure of SAM-dependent methyltransferase from Thiobacillus denitrificans in… · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q3SJX0
- Elsewhere: RCSB PDB 5EPE · PDBe 5EPE · UniProt Q3SJX0
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