Research workbench
Protein arginine kinase mcsb in the parg-bound state
Analyse Protein arginine kinase mcsb in the parg-bound state in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6FH3
- Type
- protein
- Length
- 696 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein-arginine kinase
- EC
- 2.7.14.1
- UniProt
- P0DMM5
- Ligands
- RPI
- Pockets
- 6 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 50% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein-arginine kinase (EC 2.7.14.1) | protein | 352 | 51% helix, 18% strand | P0DMM5 |
| B | Protein-arginine kinase (EC 2.7.14.1) | protein | 344 | 50% helix, 17% strand | P0DMM5 |
Ligands and binding sites
- RPI · phospho-arginine · ligand · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 8 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 119 | 0.79 | 0.98 | 25 | empty |
| 2 | 99 | 0.76 | 0.97 | 26 | EDO |
| 3 | 178 | 0.58 | 0.82 | 26 | empty |
| 4 | 279 | 0.54 | 0.76 | 29 | EDO |
| 5 | 172 | 0.48 | 0.77 | 29 | empty |
Interfaces
1 interface between chains.
- A–B · 751 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
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 P0DMM5
- Elsewhere: RCSB PDB 6FH3 · PDBe 6FH3 · UniProt P0DMM5
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