Research workbench
Crystal structure of redox-sensitive phosphoribulokinase (PRK) from Arabidopsis thaliana
Analyse Crystal structure of redox-sensitive phosphoribulokinase (PRK) from Arabidopsis… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6H7H
- Type
- protein
- Length
- 675 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.471
- Source
- Arabidopsis thaliana
- Molecule
- Phosphoribulokinase, chloroplastic
- EC
- 2.7.1.19
- UniProt
- P25697
- Pockets
- 6 · best druggability 0.58
Structure
x-ray diffraction · resolution 2.471 · 2 distinct chains · 33% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphoribulokinase, chloroplastic (EC 2.7.1.19) | protein | 339 | 32% helix, 25% strand | P25697 |
| B | Phosphoribulokinase, chloroplastic (EC 2.7.1.19) | protein | 336 | 34% helix, 26% strand | P25697 |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 307 | 0.58 | 0.77 | 31 | empty |
| 2 | 245 | 0.51 | 0.75 | 29 | empty |
| 3 | 113 | 0.49 | 0.80 | 18 | empty |
| 4 | 54 | 0.48 | 0.86 | 19 | empty |
| 5 | 111 | 0.47 | 0.79 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 581 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6H7H · Crystal structure of redox-sensitive phosphoribulokinase (prk) from arabidopsis thaliana · the same entry in another collection · chain A against A, TM-score 1.00
- P25697 · AlphaFold monomer V2.0 prediction for phosphoribulokinase, chloroplastic (P25697) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 P25697
- Elsewhere: RCSB PDB 6H7H · PDBe 6H7H · UniProt P25697
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