Research workbench
Crystal structure of the voltage-gated sodium channel navms (F208L) in complex with tamoxifen (2.8 ångström resolution)
Analyse Crystal structure of the voltage-gated sodium channel navms (F208L) in complex… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6SXF
- Type
- protein
- Length
- 526 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ion transport protein
- UniProt
- A0L5S6
- Ligands
- 2CV, CTX, NA
- Pockets
- 4 · best druggability 0.51
Structure
x-ray diffraction · 1 distinct chain · 82% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Ion transport protein | protein | 263 | 82% helix, 0% strand | A0L5S6 |
Ligands and binding sites
- 2CV · Hega-10 · ligand · 4 copies · chains A, B
- CTX · (Z)-2-[4-(1,2)-diphenyl-1-butenyl)-phenoxy]-N,N-dimethylethanamine · ligand · 3 copies · chains A, B
- NA · Sodium ion · metal · 6 copies · chains A
- 12P · Dodecaethylene glycol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 146 | 0.51 | 0.79 | 21 | empty |
| 2 | 149 | 0.48 | 0.78 | 19 | empty |
| 3 | 58 | 0.32 | 0.76 | 12 | empty |
| 4 | 54 | 0.32 | 0.76 | 9 | empty |
Compared structures
- 6SXF · Crystal Structure of the Voltage-Gated Sodium Channel NavMs (F208L) in complex with… · 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 A0L5S6
- Elsewhere: RCSB PDB 6SXF · PDBe 6SXF · UniProt A0L5S6
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