MolNFT v1 · #99492 · protein
Gamma subunit of the translation initiation factor 2 from sulfolobus solfataricus in complex with gdpcp
4M53 · Translation initiation factor 2 subunit gamma: “Gamma subunit of the translation initiation factor 2 from sulfolobus solfataricus in complex with gdpcp”. X-ray diffraction, 3 ligands (GCP, NA, MG), 5 pockets (best druggability…
- PDB
- 4M53
- Type
- protein
- Length
- 403 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
- GCP, NA, MG
- Pockets
- 5 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 19% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Translation initiation factor 2 subunit gamma | protein | 403 | 19% helix, 40% strand | Q980A5 |
Ligands and binding sites
- GCP · Phosphomethylphosphonic acid guanylate ester · ligand · 2 copies · chains A
- NA · Sodium ion · metal · 9 copies · chains A
- MG · Magnesium ion · metal · chains A
- FMT · Formic acid · additive · 23 copies · chains A
- BME · Beta-mercaptoethanol · additive · chains A
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 | 326 | 0.60 | 0.78 | 37 | FMT, NA |
| 2 | 149 | 0.50 | 0.79 | 30 | FMT |
| 3 | 170 | 0.44 | 0.74 | 33 | BME, FMT, GCP, NA |
| 4 | 56 | 0.26 | 0.73 | 18 | GCP, MG |
| 5 | 56 | 0.26 | 0.72 | 14 | FMT |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 4M53 · Gamma subunit of the translation initiation factor 2 from Sulfolobus solfataricus in… · 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 4M53 · PDBe 4M53 · UniProt Q980A5
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