Research workbench
Naveh sodium channel, and naveh from the coccolithophore emiliania huxleyi
Analyse Naveh sodium channel, and naveh from the coccolithophore emiliania huxleyi in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7X5V
- Type
- protein
- Length
- 1,176 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ion CHANNEL,GFP-twinstrep; Ion channel
- Pockets
- 17 · best druggability 0.87
Structure
electron microscopy · 2 distinct chains · 74% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Ion CHANNEL,GFP-twinstrep | protein | 290 | 73% helix, 3% strand | — |
| E | Ion channel | protein | 16 | 88% helix, 0% strand | — |
Pockets
17 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1020 | 0.87 | 0.87 | 84 | empty |
| 2 | 679 | 0.69 | 0.76 | 74 | empty |
| 3 | 645 | 0.69 | 0.77 | 69 | empty |
| 4 | 160 | 0.64 | 0.85 | 24 | empty |
| 5 | 296 | 0.63 | 0.81 | 29 | empty |
Interfaces
10 interfaces between chains.
- A–B · 2138 Ų buried · 21 hydrogen bonds · protein-protein
- C–D · 2138 Ų buried · 18 hydrogen bonds · protein-protein
- A–C · 2129 Ų buried · 22 hydrogen bonds · protein-protein
- B–D · 2106 Ų buried · 24 hydrogen bonds · protein-protein
- B–C · 335 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 7X5V · NaVEh Sodium channel, and NaVEh from the coccolithophore Emiliania huxleyi · 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
- Elsewhere: RCSB PDB 7X5V · PDBe 7X5V
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