Research workbench
Crystal structure of the navab voltage-gated sodium channel (MET221CYS, 2.95 a)
Analyse Crystal structure of the navab voltage-gated sodium channel (MET221CYS, 2.95 a) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3RW0
- Type
- protein
- Length
- 446 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ion transport protein
- UniProt
- A8EVM5
- Ligands
- PX4
- Pockets
- 8 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain · 83% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Ion transport protein | protein | 223 | 83% helix, 0% strand | A8EVM5 |
Ligands and binding sites
- PX4 · 1,2-dimyristoyl-sn-glycero-3-phosphocholine · ligand · 10 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 450 | 0.66 | 0.78 | 41 | PX4 |
| 2 | 198 | 0.54 | 0.79 | 27 | empty |
| 3 | 205 | 0.53 | 0.77 | 18 | empty |
| 4 | 137 | 0.49 | 0.79 | 21 | empty |
| 5 | 136 | 0.49 | 0.79 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1582 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 22 modified (engineered).
Compared structures
- 3RW0 · Crystal structure of the NavAb voltage-gated sodium channel (Met221Cys, 2.95 A) · 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 A8EVM5
- Elsewhere: RCSB PDB 3RW0 · PDBe 3RW0 · UniProt A8EVM5
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