MolNFT v1 · #12542 · protein
Structure of the large gamma subunit of initiation factor EIF2 from pyrococcus abyssi-G235D mutant complexed with gdpnp-MG2+
1KK1 · EIF2GAMMA: “Structure of the large gamma subunit of initiation factor EIF2 from pyrococcus abyssi-G235D mutant complexed…”. X-ray diffraction, 3 ligands (GNP, ZN, MG), 6 pockets (best druggability 0.53). MolNFT v1 #12542 on…
- PDB
- 1KK1
- Type
- protein
- Length
- 397 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- EIF2GAMMA
- UniProt
- Q9V1G0
- Ligands
- GNP, ZN, MG
- Pockets
- 6 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain · 19% helix, 42% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | EIF2GAMMA | protein | 397 | 19% helix, 42% strand | Q9V1G0 |
Ligands and binding sites
- GNP · Phosphoaminophosphonic acid-guanylate ester · ligand · chains A
- ZN · Zinc ion · metal · chains A
- MG · Magnesium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 262 | 0.53 | 0.76 | 41 | empty |
| 2 | 162 | 0.51 | 0.79 | 36 | empty |
| 3 | 102 | 0.40 | 0.76 | 22 | empty |
| 4 | 80 | 0.36 | 0.76 | 17 | empty |
| 5 | 67 | 0.35 | 0.77 | 13 | empty |
Compared structures
- 1KK1 · Structure of the large gamma subunit of initiation factor eIF2 from Pyrococcus… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9V1G0 · AlphaFold monomer V2.0 prediction for translation initiation factor 2 subunit gamma… · a predicted model of the same protein · chain A against A, TM-score 0.89
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 Q9V1G0
- Elsewhere: RCSB PDB 1KK1 · PDBe 1KK1 · UniProt Q9V1G0
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