MolNFT v1 · #154548 · protein
Crystal structure of oxidized phosphoribulokinase from arabidopsis thaliana
6KEW: “Crystal structure of oxidized phosphoribulokinase from arabidopsis thaliana”. X-ray diffraction, 7 pockets (best druggability 0.67). MolNFT v1 #154548 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6KEW
- Type
- protein
- Length
- 685 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phosphoribulokinase
- EC
- 2.7.1.19
- UniProt
- P25697
- Pockets
- 7 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phosphoribulokinase (EC 2.7.1.19) | protein | 342 | 35% helix, 25% strand | P25697 |
| B | Phosphoribulokinase (EC 2.7.1.19) | protein | 343 | 37% helix, 26% strand | P25697 |
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 508 | 0.67 | 0.78 | 59 | empty |
| 2 | 426 | 0.66 | 0.79 | 53 | empty |
| 3 | 170 | 0.58 | 0.81 | 30 | empty |
| 4 | 81 | 0.37 | 0.77 | 22 | empty |
| 5 | 51 | 0.34 | 0.79 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 509 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6KEW · Crystal structure of oxidized phosphoribulokinase 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 A 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 6KEW · PDBe 6KEW · UniProt P25697
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