MolNFT v1 · #126814 · protein
Crystal structure of EIF4E from C. melo
5ME7 · Eukaryotic transcription initiation factor 4E: “Crystal structure of EIF4E from C. melo”. X-ray diffraction, 5 pockets (best druggability 0.72). MolNFT v1 #126814 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5ME7
- Type
- protein
- Length
- 703 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Eukaryotic transcription initiation factor 4E
- UniProt
- Q00LS8
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 4 distinct chains · 27% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Eukaryotic transcription initiation factor 4E | protein | 175 | 29% helix, 31% strand | Q00LS8 |
| B | Eukaryotic transcription initiation factor 4E | protein | 173 | 27% helix, 31% strand | Q00LS8 |
| C | Eukaryotic transcription initiation factor 4E | protein | 182 | 25% helix, 30% strand | Q00LS8 |
| D | Eukaryotic transcription initiation factor 4E | protein | 173 | 27% helix, 31% strand | Q00LS8 |
Ligands and binding sites
- GOL · Glycerol · additive · 5 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1052 | 0.72 | 0.76 | 96 | empty |
| 2 | 502 | 0.62 | 0.75 | 45 | empty |
| 3 | 176 | 0.44 | 0.74 | 23 | empty |
| 4 | 133 | 0.39 | 0.74 | 29 | empty |
| 5 | 79 | 0.34 | 0.75 | 18 | empty |
Interfaces
5 interfaces between chains.
- B–C · 659 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 361 Ų buried · 3 hydrogen bonds · protein-protein
- A–D · 342 Ų buried · 0 hydrogen bonds · protein-protein
- C–D · 130 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 97 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 5ME7 · Crystal Structure of eiF4E from C. melo · the same entry in another collection · chain A against A, TM-score 1.00
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 Q00LS8
- Elsewhere: RCSB PDB 5ME7 · PDBe 5ME7 · UniProt Q00LS8
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