Research workbench
Gamma subunit of the translation initiation factor 2 from sulfolobus solfataricus in complex with GDP and formate ion mimic AIF2GAMMA*GDP*PI complex (a formate ion substitutes for pi)
Analyse Gamma subunit of the translation initiation factor 2 from sulfolobus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4M4S
- 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
- GDP, NA, MG
- Pockets
- 5 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 19% helix, 39% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Translation initiation factor 2 subunit gamma | protein | 414 | 19% helix, 39% strand | Q980A5 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · chains A
- NA · Sodium ion · metal · 4 copies · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
- FMT · Formic acid · additive · 29 copies · 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, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 151 | 0.59 | 0.83 | 31 | FMT, GDP, MG |
| 2 | 311 | 0.59 | 0.77 | 36 | FMT, NA |
| 3 | 266 | 0.52 | 0.75 | 32 | FMT |
| 4 | 51 | 0.39 | 0.81 | 19 | FMT |
| 5 | 86 | 0.38 | 0.77 | 15 | NA |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 4M4S · 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 0.95
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 4M4S · PDBe 4M4S · UniProt Q980A5
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