MolNFT v1 · #114883 · protein
Crystal structure of mouse ryanodine receptor 2 SPRY1 domain
5C33: “Crystal structure of mouse ryanodine receptor 2 SPRY1 domain”. X-ray diffraction, 1 ligand (CL), 6 pockets (best druggability 0.67). MolNFT v1 #114883 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5C33
- Type
- protein
- Length
- 358 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ryanodine receptor 2
- UniProt
- E9Q401
- Ligands
- CL
- Pockets
- 6 · best druggability 0.67
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ryanodine receptor 2 | protein | 180 | 6% helix, 44% strand | E9Q401 |
| B | Ryanodine receptor 2 | protein | 178 | 6% helix, 46% strand | E9Q401 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 58 | 0.67 | 0.95 | 22 | empty |
| 2 | 53 | 0.56 | 0.90 | 19 | empty |
| 3 | 50 | 0.55 | 0.90 | 19 | empty |
| 4 | 97 | 0.39 | 0.76 | 25 | empty |
| 5 | 78 | 0.33 | 0.74 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 1280 Ų buried · 28 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (artifact).
Compared structures
- 5C33 · Crystal Structure of Mouse Ryanodine Receptor 2 SPRY1 Domain · the same entry in another collection · chain A against A, TM-score 1.00
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 E9Q401
- Elsewhere: RCSB PDB 5C33 · PDBe 5C33 · UniProt E9Q401
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