Research workbench
The co-complex structure of the translation initiation factor EIF4E with the inhibitor 4EGI-1 reveals an allosteric mechanism for dissociating EIF4G
Analyse The co-complex structure of the translation initiation factor EIF4E with the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4TPW
- Type
- protein
- Length
- 368 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Eukaryotic translation initiation factor 4E
- UniProt
- P06730
- Ligands
- MGP, 33R
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Eukaryotic translation initiation factor 4E | protein | 185 | 33% helix, 29% strand | P06730 |
| B | Eukaryotic translation initiation factor 4E | protein | 183 | 32% helix, 28% strand | P06730 |
Ligands and binding sites
- MGP · 7-methyl-guanosine-5'-triphosphate · ligand · 2 copies · chains A, B
- 33R · (2E)-2-{2-[4-(3,4-dichlorophenyl)-1,3-thiazol-2-yl]hydrazinylidene}-3-(2-nitrophenyl)propanoic acid · ligand · chains A
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 378 | 0.73 | 0.84 | 40 | empty |
| 2 | 385 | 0.64 | 0.79 | 32 | MES |
| 3 | 203 | 0.58 | 0.80 | 26 | MGP |
| 4 | 137 | 0.47 | 0.77 | 24 | MGP |
| 5 | 92 | 0.37 | 0.76 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 931 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 4TPW · The co-complex structure of the translation initiation factor eIF4E with the inhibitor… · the same entry in another collection · chain A against A, TM-score 1.00
- P06730 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4E (P06730) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 P06730
- Elsewhere: RCSB PDB 4TPW · PDBe 4TPW · UniProt P06730
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