MolNFT v1 · #105923 · protein
Gamma subunit of the translation initiation factor 2 from sulfolobus solfataricus complexed with gdpcp
4RJL · Translation initiation factor 2 subunit gamma: “Gamma subunit of the translation initiation factor 2 from sulfolobus solfataricus complexed with gdpcp”. X-ray diffraction, 4 ligands (7PG, GCP, MG), 4 pockets (best druggability…
- PDB
- 4RJL
- Type
- protein
- Length
- 414 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Translation initiation factor 2 subunit gamma
- UniProt
- Q980A5
- Ligands
- 7PG, GCP, MG, NA
- Pockets
- 4 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 20% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Translation initiation factor 2 subunit gamma | protein | 414 | 20% helix, 39% strand | Q980A5 |
Ligands and binding sites
- 7PG · 2,5,8,11,14,17,20,23-octaoxapentacosan-25-ol · ligand · chains A
- GCP · Phosphomethylphosphonic acid guanylate ester · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
- NA · Sodium ion · metal · 2 copies · chains A
- FMT · Formic acid · additive · 23 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 312 | 0.62 | 0.79 | 35 | FMT, NA |
| 2 | 335 | 0.61 | 0.78 | 54 | FMT, 7PG |
| 3 | 100 | 0.42 | 0.78 | 26 | MG, GCP |
| 4 | 50 | 0.28 | 0.75 | 13 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 4RJL · Gamma subunit of the translation initiation factor 2 from Sulfolobus solfataricus… · the same entry in another collection · chain A against A, TM-score 1.00
- Q980A5 · 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 0.99
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 Q980A5
- Elsewhere: RCSB PDB 4RJL · PDBe 4RJL · UniProt Q980A5
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