MolNFT v1 · #65260 · protein
Crystal structure of the complex between AMP and methanocaldococcus jannaschi DIM1
3GRU · Dimethyladenosine transferase: “Crystal structure of the complex between AMP and methanocaldococcus jannaschi DIM1”. X-ray diffraction, 2 ligands (AMP, SO4), 1 pocket (best druggability 0.62). MolNFT v1 #65260 on GenesisL1: 3D…
- PDB
- 3GRU
- Type
- protein
- Length
- 263 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dimethyladenosine transferase
- EC
- 2.1.1.-
- UniProt
- Q58435
- Ligands
- AMP, SO4
- Pockets
- 1 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 51% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dimethyladenosine transferase (EC 2.1.1.-) | protein | 263 | 51% helix, 19% strand | Q58435 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 246 | 0.62 | 0.81 | 38 | AMP |
Compared structures
- 3GRU · Crystal Structure of the Complex between AMP and Methanocaldococcus jannaschi Dim1 · the same entry in another collection · chain A against A, TM-score 1.00
- Q58435 · AlphaFold monomer V2.0 prediction for probable ribosomal RNA small subunit… · a predicted model of the same protein · 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 Q58435
- Elsewhere: RCSB PDB 3GRU · PDBe 3GRU · UniProt Q58435
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