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Crystal structure of SAM-dependent methyltransferase, possible histamine N-methyltransferase (TM1293) from thermotoga maritima at 2.20 a resolution
Analyse Crystal structure of SAM-dependent methyltransferase, possible histamine… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1VLM
- Type
- protein
- Length
- 414 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- SAM-dependent methyltransferase
- UniProt
- Q9X119
- Ligands
- NA
- Pockets
- 2 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | SAM-dependent methyltransferase | protein | 207 | 37% helix, 24% strand | Q9X119 |
| B | SAM-dependent methyltransferase | protein | 207 | 39% helix, 23% strand | Q9X119 |
Ligands and binding sites
- NA · Sodium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 338 | 0.77 | 0.88 | 55 | empty |
| 2 | 331 | 0.76 | 0.87 | 43 | empty |
Interfaces
1 interface between chains.
- A–B · 38 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 modified (engineered).
Compared structures
- 1VLM · Crystal structure of SAM-dependent methyltransferase, possible histamine… · 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 Q9X119
- Elsewhere: RCSB PDB 1VLM · PDBe 1VLM · UniProt Q9X119
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