Research workbench
Crystal structure of NAV1.6 iq motif in complex with apo-cam
Analyse Crystal structure of NAV1.6 iq motif in complex with apo-cam in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3WFN
- Type
- protein
- Length
- 639 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Calmodulin, sodium channel protein type 8 subunit alpha
- UniProt
- P62204, Q9WTU3
- Pockets
- 5 · best druggability 0.43
Structure
x-ray diffraction · 4 distinct chains · 67% helix, 8% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B | Calmodulin, sodium channel protein type 8 subunit alpha | protein | 169 | 67% helix, 7% strand | P62204, Q9WTU3 |
| C | Calmodulin, sodium channel protein type 8 subunit alpha | protein | 166 | 67% helix, 8% strand | P62204, Q9WTU3 |
| D | Calmodulin, sodium channel protein type 8 subunit alpha | protein | 138 | 67% helix, 9% strand | P62204, Q9WTU3 |
| E | Calmodulin, sodium channel protein type 8 subunit alpha | protein | 166 | 67% helix, 7% strand | P62204, Q9WTU3 |
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 154 | 0.43 | 0.75 | 26 | empty |
| 2 | 84 | 0.36 | 0.76 | 13 | empty |
| 3 | 88 | 0.36 | 0.76 | 18 | empty |
| 4 | 81 | 0.36 | 0.76 | 15 | empty |
| 5 | 60 | 0.29 | 0.74 | 14 | empty |
Interfaces
3 interfaces between chains.
- B–E · 890 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 796 Ų buried · 8 hydrogen bonds · protein-protein
- D–E · 695 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 3WFN · Crystal Structure of Nav1.6 IQ motif in complex with apo-CaM · the same entry in another collection · chain E against E, TM-score 1.00
- Q9WTU3 · AlphaFold monomer V2.0 prediction for sodium channel protein type 8 subunit alpha (Q9WTU3) · a predicted model of the same protein · chain D against A, TM-score 0.53
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 P62204
- Every structure of UniProt Q9WTU3
- Elsewhere: RCSB PDB 3WFN · PDBe 3WFN · UniProt P62204 · UniProt Q9WTU3
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