MolNFT v1 · #156689 · protein
Crystal structure of human NAV1.4 C-terminal (1599-1754) domain in complex with calcium-bound calmodulin
6MC9 · Sodium channel protein type 4 subunit alpha: “Crystal structure of human NAV1.4 C-terminal (1599-1754) domain in complex with calcium-bound calmodulin”. X-ray diffraction, 1 ligand (CA), 4 pockets (best druggability 0.76). MolNFT v1…
- PDB
- 6MC9
- Type
- protein
- Length
- 291 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sodium channel protein type 4 subunit alpha; Calmodulin-1
- UniProt
- P35499, P0DP29
- Ligands
- CA
- Pockets
- 4 · best druggability 0.76
Structure
x-ray diffraction · 2 distinct chains · 61% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sodium channel protein type 4 subunit alpha | protein | 150 | 65% helix, 7% strand | P35499 |
| B | Calmodulin-1 | protein | 141 | 57% helix, 6% strand | P0DP29 |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains 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 | 908 | 0.76 | 0.79 | 53 | empty |
| 2 | 73 | 0.43 | 0.80 | 19 | empty |
| 3 | 81 | 0.35 | 0.76 | 17 | empty |
| 4 | 59 | 0.27 | 0.73 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 1293 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 6MC9 · Crystal Structure of Human Nav1.4 C-Terminal (1599-1754) domain in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- P35499 · AlphaFold monomer V2.0 prediction for sodium channel protein type 4 subunit alpha (P35499) · a predicted model of the same protein · chain A against A, TM-score 0.78
- P0DP29 · AlphaFold monomer V2.0 prediction for calmodulin-1 (P0DP29) · a predicted model of the same protein · chain B against A, TM-score 0.50
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 P35499
- Every structure of UniProt P0DP29
- Elsewhere: RCSB PDB 6MC9 · PDBe 6MC9 · UniProt P35499 · UniProt P0DP29
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