MolNFT v1 · #15308 · protein
Crystal structure of yeast elongation factor 2 in complex with sordarin
1N0U: “Crystal structure of yeast elongation factor 2 in complex with sordarin”. X-ray diffraction, 1 ligand (SO1), 6 pockets (best druggability 0.72). MolNFT v1 #15308 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1N0U
- Type
- protein
- Length
- 819 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Elongation factor 2
- UniProt
- P32324
- Ligands
- SO1
- Pockets
- 6 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Elongation factor 2 | protein | 819 | 38% helix, 26% strand | P32324 |
Ligands and binding sites
- SO1 · [1R-(1.alpha.,3a.beta.,4.beta.,4a.beta.,7.beta.,7a.alpha.,8a.beta.)]8a-[(6-deoxy-4-O-methyl-beta-D-altropyranosyloxy)methyl]-4-formyl-4,4A,5,6,7,7A,8,8A-octahydro-7-methyl-3-(1-methylethyl)-1,4-methano-S-indacene-3A(1H)-carboxylic acid · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 721 | 0.72 | 0.78 | 67 | empty |
| 2 | 250 | 0.62 | 0.80 | 37 | SO1 |
| 3 | 215 | 0.52 | 0.77 | 31 | empty |
| 4 | 58 | 0.37 | 0.80 | 15 | empty |
| 5 | 111 | 0.36 | 0.74 | 21 | empty |
Compared structures
- 1N0U · Crystal structure of yeast elongation factor 2 in complex with sordarin · the same entry in another collection · chain A against A, TM-score 1.00
- P32324 · AlphaFold monomer V2.0 prediction for elongation factor 2 (P32324) · a predicted model of the same protein · chain A against A, TM-score 0.63
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 P32324
- Elsewhere: RCSB PDB 1N0U · PDBe 1N0U · UniProt P32324
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