MolNFT v1 · #180000 · protein
Crystal structure of EIF2BALPHA with a ligand.
7KMA · Translation initiation factor eif-2B subunit alpha: “Crystal structure of EIF2BALPHA with a ligand.”. X-ray diffraction, 1 ligand (M6P), 20 pockets (best druggability 0.69). MolNFT v1 #180000 on GenesisL1: 3D structure, binding…
- PDB
- 7KMA
- Type
- protein
- Length
- 2,277 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Translation initiation factor eif-2B subunit alpha
- UniProt
- Q14232
- Ligands
- M6P
- Pockets
- 20 · best druggability 0.69
Structure
x-ray diffraction · 8 distinct chains · 53% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Translation initiation factor eif-2B subunit alpha | protein | 287 | 55% helix, 15% strand | Q14232 |
| B | Translation initiation factor eif-2B subunit alpha | protein | 268 | 51% helix, 16% strand | Q14232 |
| C | Translation initiation factor eif-2B subunit alpha | protein | 294 | 52% helix, 15% strand | Q14232 |
| D | Translation initiation factor eif-2B subunit alpha | protein | 284 | 56% helix, 15% strand | Q14232 |
| E | Translation initiation factor eif-2B subunit alpha | protein | 278 | 53% helix, 15% strand | Q14232 |
| F | Translation initiation factor eif-2B subunit alpha | protein | 287 | 54% helix, 15% strand | Q14232 |
| G | Translation initiation factor eif-2B subunit alpha | protein | 290 | 53% helix, 15% strand | Q14232 |
| H | Translation initiation factor eif-2B subunit alpha | protein | 289 | 53% helix, 15% strand | Q14232 |
Ligands and binding sites
- M6P · 6-O-phosphono-alpha-D-mannopyranose · ligand · 8 copies · chains A, B, C, D, E, F, G, H
- ACT · Acetate ion · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 323 | 0.69 | 0.83 | 35 | M6P |
| 2 | 714 | 0.68 | 0.76 | 70 | empty |
| 3 | 309 | 0.66 | 0.82 | 35 | M6P |
| 4 | 331 | 0.66 | 0.81 | 34 | M6P |
| 5 | 342 | 0.65 | 0.80 | 34 | M6P |
Interfaces
10 interfaces between chains.
- F–G · 1636 Ų buried · 28 hydrogen bonds · protein-protein
- A–C · 1634 Ų buried · 27 hydrogen bonds · protein-protein
- D–E · 1568 Ų buried · 33 hydrogen bonds · protein-protein
- B–H · 1429 Ų buried · 21 hydrogen bonds · protein-protein
- D–F · 769 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 7KMA · Crystal structure of eif2Balpha with a ligand. · the same entry in another collection · chain H against H, TM-score 1.00
- Q14232 · AlphaFold monomer V2.0 prediction for translation initiation factor eif-2B subunit alpha… · a predicted model of the same protein · chain G against A, TM-score 0.98
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 Q14232
- Elsewhere: RCSB PDB 7KMA · PDBe 7KMA · UniProt Q14232
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