Research workbench
The yeast ribosome synthesis factor EMG1 alpha beta knot fold methyltransferase
Analyse The yeast ribosome synthesis factor EMG1 alpha beta knot fold methyltransferase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2V3J
- Type
- protein
- Length
- 217 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Essential for mitotic growth 1
- UniProt
- Q06287
- Ligands
- SO4
- Pockets
- 3 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 29% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Essential for mitotic growth 1 | protein | 217 | 29% helix, 23% strand | Q06287 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 172 | 0.62 | 0.84 | 26 | empty |
| 2 | 83 | 0.47 | 0.82 | 20 | empty |
| 3 | 63 | 0.33 | 0.76 | 15 | empty |
Modifications
Observed in the structure: 5 modified (engineered).
Compared structures
- 2V3J · The yeast ribosome synthesis factor Emg1 alpha beta knot fold methyltransferase · the same entry in another collection · chain A against A, TM-score 1.00
- Q06287 · AlphaFold monomer V2.0 prediction for ribosomal RNA small subunit methyltransferase NEP1… · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q06287
- Elsewhere: RCSB PDB 2V3J · PDBe 2V3J · UniProt Q06287
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