MolNFT v1 · #134439 · protein
Crystal structure of the human EIF4E-EIF4G complex
5T46 · Eukaryotic translation initiation factor 4E: “Crystal structure of the human EIF4E-EIF4G complex”. X-ray diffraction, 1 ligand (MGP), 5 pockets (best druggability 0.75). MolNFT v1 #134439 on GenesisL1: 3D structure, binding sites…
- PDB
- 5T46
- Type
- protein
- Length
- 424 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Eukaryotic translation initiation factor 4E; Eukaryotic translation initiation factor 4…
- UniProt
- P06730, Q04637
- Ligands
- MGP
- Pockets
- 5 · best druggability 0.75
Structure
x-ray diffraction · 4 distinct chains · 34% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Eukaryotic translation initiation factor 4E | protein | 176 | 35% helix, 28% strand | P06730 |
| B | Eukaryotic translation initiation factor 4 gamma 1 | protein | 35 | 26% helix, 3% strand | Q04637 |
| C | Eukaryotic translation initiation factor 4E | protein | 177 | 36% helix, 28% strand | P06730 |
| D | Eukaryotic translation initiation factor 4 gamma 1 | protein | 36 | 25% helix, 3% strand | Q04637 |
Ligands and binding sites
- MGP · 7-methyl-guanosine-5'-triphosphate · ligand · 2 copies · chains A, C
- GOL · Glycerol · additive · 7 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 982 | 0.75 | 0.78 | 82 | empty |
| 2 | 148 | 0.49 | 0.78 | 21 | empty |
| 3 | 124 | 0.47 | 0.78 | 16 | MGP |
| 4 | 111 | 0.46 | 0.79 | 19 | MGP |
| 5 | 59 | 0.34 | 0.77 | 12 | empty |
Interfaces
5 interfaces between chains.
- C–D · 1499 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1403 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 424 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 175 Ų buried · 1 hydrogen bond · protein-protein
- A–D · 25 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5T46 · Crystal structure of the human eIF4E-eIF4G complex · the same entry in another collection · chain D against D, 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 A against A, TM-score 0.97
- Q04637 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4 gamma 1… · a predicted model of the same protein · chain D against A, TM-score 0.60
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
- Every structure of UniProt Q04637
- Elsewhere: RCSB PDB 5T46 · PDBe 5T46 · UniProt P06730 · UniProt Q04637
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