MolNFT v1 · #96654 · protein
Voltage-gated sodium channel 1.5 C-terminal domain in complex with FGF12B and CA2+/CALMODULIN
4JQ0 · Fibroblast growth factor 12: “Voltage-gated sodium channel 1.5 C-terminal domain in complex with FGF12B and CA2+/CALMODULIN”. X-ray diffraction, 1 ligand (CA), 5 pockets (best druggability 0.72). MolNFT v1 #96654 on GenesisL1: 3D…
- PDB
- 4JQ0
- Type
- protein
- Length
- 425 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fibroblast growth factor 12; Calmodulin; Sodium channel protein type 5 subunit alpha
- UniProt
- P61328, P62158, Q14524
- Ligands
- CA
- Pockets
- 5 · best druggability 0.72
Structure
x-ray diffraction · 3 distinct chains · 42% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fibroblast growth factor 12 | protein | 141 | 6% helix, 50% strand | P61328 |
| C | Calmodulin | protein | 142 | 57% helix, 4% strand | P62158 |
| D | Sodium channel protein type 5 subunit alpha | protein | 142 | 63% helix, 8% strand | Q14524 |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 615 | 0.72 | 0.79 | 83 | empty |
| 2 | 547 | 0.70 | 0.79 | 64 | empty |
| 3 | 261 | 0.57 | 0.78 | 45 | CA |
| 4 | 81 | 0.38 | 0.77 | 16 | empty |
| 5 | 60 | 0.29 | 0.74 | 19 | empty |
Interfaces
2 interfaces between chains.
- C–D · 942 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 722 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 4JQ0 · Voltage-gated sodium channel 1.5 C-terminal domain in complex with FGF12B and… · the same entry in another collection · chain A against A, TM-score 1.00
- P61328 · AlphaFold monomer V2.0 prediction for fibroblast growth factor 12 (P61328) · a predicted model of the same protein · chain A against A, TM-score 0.98
- Q14524 · AlphaFold monomer V2.0 prediction for sodium channel protein type 5 subunit alpha (Q14524) · a predicted model of the same protein · chain D against A, TM-score 0.72
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 P61328
- Every structure of UniProt P62158
- Every structure of UniProt Q14524
- Elsewhere: RCSB PDB 4JQ0 · PDBe 4JQ0 · UniProt P61328 · UniProt P62158 · UniProt Q14524
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