Research workbench
Voltage-gated sodium channel NaV1.4 IQ domain in complex with Ca2+/Calmodulin
Analyse Voltage-gated sodium channel NaV1.4 IQ domain in complex with Ca2+/Calmodulin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MUE
- Type
- protein
- Length
- 154 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.9
- Source
- Homo sapiens; SYNTHETIC CONSTRUCT
- Molecule
- Calmodulin-1; Sodium channel protein type 4 subunit alpha
- UniProt
- P0DP23, P15390
- Ligands
- CA
- Pockets
- 3 · best druggability 0.61
Structure
x-ray diffraction · resolution 1.9 · 2 distinct chains · 65% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Calmodulin-1 | protein | 139 | 64% helix, 6% strand | P0DP23 |
| B | Sodium channel protein type 4 subunit alpha | protein | 15 | 73% helix, 0% strand | P15390 |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 65 | 0.61 | 0.90 | 16 | empty |
| 2 | 69 | 0.43 | 0.79 | 11 | empty |
| 3 | 65 | 0.40 | 0.80 | 10 | empty |
Interfaces
1 interface between chains.
- A–B · 445 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 6MUE · Voltage-gated sodium channel NAV1.4 iq domain in complex with CA2+/CALMODULIN · the same entry in another collection · chain A against A, TM-score 1.00
- P0DP23 · AlphaFold monomer V2.0 prediction for calmodulin-1 (P0DP23) · a predicted model of the same protein · chain A against A, TM-score 0.63
- P15390 · AlphaFold monomer V2.0 prediction for sodium channel protein type 4 subunit alpha (P15390) · a predicted model of the same protein · chain B against A, TM-score 0.61
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 P0DP23
- Every structure of UniProt P15390
- Elsewhere: RCSB PDB 6MUE · PDBe 6MUE · UniProt P0DP23 · UniProt P15390
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