Research workbench
Complex of D. melanogaster EIF4E with the 4E-binding protein mextli
Analyse Complex of D. melanogaster EIF4E with the 4E-binding protein mextli in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5ABV
- Type
- protein
- Length
- 947 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Eukaryotic translation initiation factor 4E; GH11071P
- UniProt
- P48598, Q9VR35
- Pockets
- 13 · best druggability 0.49
Structure
x-ray diffraction · 7 distinct chains · 35% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E | Eukaryotic translation initiation factor 4E | protein | 179 | 29% helix, 31% strand | P48598 |
| B | GH11071P | protein | 60 | 50% helix, 2% strand | Q9VR35 |
| C | Eukaryotic translation initiation factor 4E | protein | 174 | 30% helix, 30% strand | P48598 |
| D | GH11071P | protein | 61 | 48% helix, 2% strand | Q9VR35 |
| F | GH11071P | protein | 59 | 42% helix, 2% strand | Q9VR35 |
| G | Eukaryotic translation initiation factor 4E | protein | 176 | 30% helix, 31% strand | P48598 |
| H | GH11071P | protein | 59 | 49% helix, 2% strand | Q9VR35 |
Pockets
13 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 193 | 0.49 | 0.76 | 19 | empty |
| 2 | 177 | 0.48 | 0.76 | 20 | empty |
| 3 | 184 | 0.47 | 0.75 | 24 | empty |
| 4 | 213 | 0.46 | 0.74 | 27 | empty |
| 5 | 175 | 0.45 | 0.75 | 30 | empty |
Interfaces
8 interfaces between chains.
- E–F · 1641 Ų buried · 29 hydrogen bonds · protein-protein
- A–B · 1588 Ų buried · 28 hydrogen bonds · protein-protein
- G–H · 1554 Ų buried · 27 hydrogen bonds · protein-protein
- C–D · 1539 Ų buried · 27 hydrogen bonds · protein-protein
- C–F · 451 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5ABV · Complex of D. melanogaster eIF4E with the 4E-binding protein Mextli · the same entry in another collection · chain H against H, TM-score 1.00
- P48598 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4E1… · a predicted model of the same protein · chain C against A, TM-score 0.97
- Q9VR35 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4E-binding… · a predicted model of the same protein · chain B against A, TM-score 0.71
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 P48598
- Every structure of UniProt Q9VR35
- Elsewhere: RCSB PDB 5ABV · PDBe 5ABV · UniProt P48598 · UniProt Q9VR35
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