Research workbench
Crystal structures reveal transient perk luminal domain tetramerization in er stress signaling
Analyse Crystal structures reveal transient perk luminal domain tetramerization in er… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4YZS
- Type
- protein
- Length
- 434 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Eukaryotic translation initiation factor 2-alpha kinase 3
- EC
- 2.7.11.1
- UniProt
- Q9NZJ5
- Ligands
- W
- Pockets
- 7 · best druggability 0.51
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Eukaryotic translation initiation factor 2-alpha kinase 3 (EC 2.7.11.1) | protein | 200 | 7% helix, 50% strand | Q9NZJ5 |
| B | Eukaryotic translation initiation factor 2-alpha kinase 3 (EC 2.7.11.1) | protein | 234 | 7% helix, 53% strand | Q9NZJ5 |
Ligands and binding sites
- W · Tungsten ion · metal · 2 copies · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 283 | 0.51 | 0.74 | 42 | empty |
| 2 | 88 | 0.43 | 0.79 | 29 | empty |
| 3 | 131 | 0.43 | 0.76 | 21 | empty |
| 4 | 81 | 0.42 | 0.79 | 14 | empty |
| 5 | 102 | 0.41 | 0.76 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1208 Ų buried · 18 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 4YZS · Crystal structures reveal transient PERK luminal domain tetramerization in ER stress… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9NZJ5 · AlphaFold monomer V2.0 prediction for eukaryotic translation initiation factor 2-alpha… · 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 Q9NZJ5
- Elsewhere: RCSB PDB 4YZS · PDBe 4YZS · UniProt Q9NZJ5
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