MolNFT v1 · #180673 · protein
Electron cryo-microscopy of the eukaryotic translation initiation factor 2B from homo sapiens (updated model of pdb id: 6CAJ)
7L7G · Translation initiation factor eif-2B subunit epsilon: “Electron cryo-microscopy of the eukaryotic translation initiation factor 2B from homo sapiens (updated model…”. Electron microscopy, 1 ligand (C7B), 20 pockets (best…
- PDB
- 7L7G
- Type
- protein
- Length
- 3,198 residues
- Chains
- 10
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Translation initiation factor eif-2B subunit epsilon; Translation initiation factor…
- UniProt
- Q13144, Q9NR50, P49770, Q9UI10, Q14232
- Ligands
- C7B
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 5 distinct chains · 39% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A | Translation initiation factor eif-2B subunit epsilon | protein | 421 | 23% helix, 28% strand | Q13144 |
| J, I | Translation initiation factor eif-2B subunit gamma | protein | 224 | 21% helix, 23% strand | Q9NR50 |
| C, D | Translation initiation factor eif-2B subunit beta | protein | 318 | 54% helix, 14% strand | P49770 |
| F, E | Translation initiation factor eif-2B subunit delta | protein | 357 | 45% helix, 14% strand | Q9UI10 |
| H, G | Translation initiation factor eif-2B subunit alpha | protein | 279 | 53% helix, 14% strand | Q14232 |
Ligands and binding sites
- C7B · 2-(4-chloranylphenoxy)-~{N}-[4-[2-(4-chloranylphenoxy) ethanoylamino]cyclohexyl]ethanamide · ligand · chains C, F, D, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 863 | 0.84 | 0.86 | 82 | empty |
| 2 | 653 | 0.84 | 0.88 | 76 | empty |
| 3 | 584 | 0.77 | 0.84 | 49 | empty |
| 4 | 1177 | 0.76 | 0.78 | 110 | empty |
| 5 | 402 | 0.76 | 0.85 | 48 | C7B |
Interfaces
22 interfaces between chains.
- C–F · 2070 Ų buried · 22 hydrogen bonds · protein-protein
- D–E · 2053 Ų buried · 20 hydrogen bonds · protein-protein
- A–D · 1285 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 1266 Ų buried · 7 hydrogen bonds · protein-protein
- H–G · 1249 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 7L7G · Electron cryo-microscopy of the eukaryotic translation initiation factor 2B from Homo… · the same entry in another collection · chain G against G, TM-score 1.00
- Q9UI10 · AlphaFold monomer V2.0 prediction for translation initiation factor eif-2B subunit delta… · a predicted model of the same protein · chain E 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 Q13144
- Every structure of UniProt Q9NR50
- Every structure of UniProt P49770
- Every structure of UniProt Q9UI10
- Every structure of UniProt Q14232
- Elsewhere: RCSB PDB 7L7G · PDBe 7L7G · UniProt Q13144 · UniProt Q9NR50 · UniProt P49770 · UniProt Q9UI10 · UniProt Q14232
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