Research workbench
Crystal structure of the human EIF4E-4EBP1 peptide complex without cap
Analyse Crystal structure of the human EIF4E-4EBP1 peptide complex without cap in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3U7X
- Type
- protein
- Length
- 402 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…
- UniProt
- P06730, Q13541
- Ligands
- UNX, SO4
- Pockets
- 3 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 35% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Eukaryotic translation initiation factor 4E | protein | 187 | 34% helix, 29% strand | P06730 |
| C, D | Eukaryotic translation initiation factor 4E-binding protein 1 | protein | 14 | 43% helix, 0% strand | Q13541 |
Ligands and binding sites
- UNX · Unknown atom or ion · ion · 20 copies · chains A, B, C
- SO4 · Sulfate ion · ion · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 277 | 0.52 | 0.75 | 25 | SO4, UNX |
| 2 | 245 | 0.52 | 0.75 | 22 | UNX |
| 3 | 105 | 0.37 | 0.75 | 23 | empty |
Interfaces
3 interfaces between chains.
- B–D · 629 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 604 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 526 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 3U7X · Crystal structure of the human eIF4E-4EBP1 peptide complex without cap · 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 A against A, TM-score 0.97
- Q13541 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4E-binding… · a predicted model of the same protein · chain C against A, TM-score 0.64
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 Q13541
- Elsewhere: RCSB PDB 3U7X · PDBe 3U7X · UniProt P06730 · UniProt Q13541
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