MolNFT v1 · #121428 · protein
Full length open-form sodium channel navms I218C
5HVD · Ion transport protein: “Full length open-form sodium channel navms I218C”. X-ray diffraction, 2 ligands (2CV, NA), 2 pockets (best druggability 0.50). MolNFT v1 #121428 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5HVD
- Type
- protein
- Length
- 255 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ion transport protein
- UniProt
- A0L5S6
- Ligands
- 2CV, NA
- Pockets
- 2 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 82% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ion transport protein | protein | 255 | 82% helix, 0% strand | A0L5S6 |
Ligands and binding sites
- 2CV · Hega-10 · ligand · chains A
- NA · Sodium ion · metal · 3 copies · chains A
- 12P · Dodecaethylene glycol · additive · chains A
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 152 | 0.50 | 0.78 | 18 | empty |
| 2 | 50 | 0.32 | 0.77 | 14 | empty |
Compared structures
- 5HVD · Full length Open-form Sodium Channel NavMs I218C · 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 5HVD · PDBe 5HVD · UniProt A0L5S6
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