Research workbench
Apra methyltransferase 1 - gnat in complex with MN2+ , SAM, and di- methyl-malonate
Analyse Apra methyltransferase 1 - gnat in complex with MN2+ , SAM, and di… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7UCH
- Type
- protein
- Length
- 636 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Apra methyltransferase 1
- UniProt
- A0A1U7N2Z8
- Ligands
- MU6, SAH, MN
- Pockets
- 8 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 50% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Apra methyltransferase 1 | protein | 636 | 50% helix, 15% strand | A0A1U7N2Z8 |
Ligands and binding sites
- MU6 · dimethylpropanedioic acid · ligand · chains A
- SAH · S-adenosyl-L-homocysteine · ligand · chains A
- MN · Manganese (II) ion · metal · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1009 | 0.79 | 0.80 | 83 | MN, GOL, MU6, SAH |
| 2 | 262 | 0.61 | 0.80 | 30 | empty |
| 3 | 250 | 0.57 | 0.78 | 28 | empty |
| 4 | 173 | 0.48 | 0.76 | 23 | empty |
| 5 | 141 | 0.44 | 0.76 | 19 | empty |
Compared structures
- 7UCH · AprA Methyltransferase 1 - GNAT in complex with Mn2+ , SAM, and Di-methyl-malonate · 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 A0A1U7N2Z8
- Elsewhere: RCSB PDB 7UCH · PDBe 7UCH · UniProt A0A1U7N2Z8
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