MolNFT v1 · #148624 · protein
Crystal structure of the EIF4E-EAP1P complex from saccharomyces cerevisiae
6FC2 · Eukaryotic translation initiation factor 4E: “Crystal structure of the EIF4E-EAP1P complex from saccharomyces cerevisiae”. X-ray diffraction, 1 ligand (CA), 6 pockets (best druggability 0.80). MolNFT v1 #148624 on GenesisL1: 3D…
- PDB
- 6FC2
- Type
- protein
- Length
- 475 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Eukaryotic translation initiation factor 4E; Protein EAP1
- UniProt
- P07260, P36041
- Ligands
- CA
- Pockets
- 6 · best druggability 0.80
Structure
x-ray diffraction · 3 distinct chains · 28% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Eukaryotic translation initiation factor 4E | protein | 178 | 26% helix, 30% strand | P07260 |
| B, D | Protein EAP1 | protein | 60 | 48% helix, 0% strand | P36041 |
| C | Eukaryotic translation initiation factor 4E | protein | 177 | 24% helix, 30% strand | P07260 |
Ligands and binding sites
- CA · Calcium ion · metal · chains A, C
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 | 1102 | 0.80 | 0.81 | 96 | CA |
| 2 | 431 | 0.71 | 0.82 | 40 | empty |
| 3 | 237 | 0.51 | 0.75 | 25 | empty |
| 4 | 144 | 0.41 | 0.74 | 21 | empty |
| 5 | 81 | 0.34 | 0.75 | 19 | empty |
Interfaces
6 interfaces between chains.
- A–B · 2189 Ų buried · 24 hydrogen bonds · protein-protein
- C–D · 1895 Ų buried · 23 hydrogen bonds · protein-protein
- A–D · 393 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 278 Ų buried · 1 hydrogen bond · protein-protein
- B–D · 236 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6FC2 · Crystal structure of the eIF4E-Eap1p complex from Saccharomyces cerevisiae · the same entry in another collection · chain D against D, TM-score 1.00
- P07260 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 4E (P07260) · a predicted model of the same protein · chain C against A, TM-score 0.97
- P36041 · AlphaFold monomer V2.0 prediction for protein EAP1 (P36041) · a predicted model of the same protein · chain B against A, TM-score 0.47
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 P07260
- Every structure of UniProt P36041
- Elsewhere: RCSB PDB 6FC2 · PDBe 6FC2 · UniProt P07260 · UniProt P36041
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