Research workbench
Structure of archaeal initiation factor AIF2GAMMA subunit delta 37-47 from sulfolobus solfataricus in the GDP-bound form.
Analyse Structure of archaeal initiation factor AIF2GAMMA subunit delta 37-47 from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3PEN
- 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
- GDP, 5GP, MG
- Pockets
- 4 · 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 | 403 | 19% helix, 39% strand | Q980A5 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · chains A
- 5GP · Guanosine-5'-monophosphate · ligand · chains A
- MG · Magnesium ion · metal · 5 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 328 | 0.59 | 0.77 | 36 | MG |
| 2 | 142 | 0.49 | 0.78 | 34 | empty |
| 3 | 136 | 0.40 | 0.74 | 30 | 5GP |
| 4 | 54 | 0.26 | 0.73 | 13 | MG |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 3PEN · Structure of archaeal initiation factor aIF2gamma subunit delta 37-47 from Sulfolobus… · 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 3PEN · PDBe 3PEN · UniProt Q980A5
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