Research workbench
Crystal structure of eukaryotic translation initiation factor eif-5A2 from arabidopsis thaliana
Analyse Crystal structure of eukaryotic translation initiation factor eif-5A2 from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3HKS
- Type
- protein
- Length
- 286 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Eukaryotic translation initiation factor 5A-2
- UniProt
- Q93VP3
- Pockets
- 3 · best druggability 0.38
Structure
x-ray diffraction · 2 distinct chains · 10% helix, 55% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Eukaryotic translation initiation factor 5A-2 | protein | 144 | 10% helix, 56% strand | Q93VP3 |
| B | Eukaryotic translation initiation factor 5A-2 | protein | 142 | 11% helix, 55% strand | Q93VP3 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 97 | 0.38 | 0.76 | 18 | empty |
| 2 | 89 | 0.30 | 0.73 | 12 | empty |
| 3 | 70 | 0.28 | 0.72 | 16 | EDO |
Interfaces
1 interface between chains.
- A–B · 484 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 3HKS · Crystal structure of eukaryotic translation initiation factor eIF-5A2 from Arabidopsis… · the same entry in another collection · chain A against A, TM-score 1.00
- Q93VP3 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 5A-2… · a predicted model of the same protein · chain B against A, TM-score 0.92
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 Q93VP3
- Elsewhere: RCSB PDB 3HKS · PDBe 3HKS · UniProt Q93VP3
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