MolNFT v1 · #147099 · protein
Cryo-EM structure of human TRPV6 in complex with calmodulin
6E2F · Transient receptor potential cation channel subfamily V…: “Cryo-EM structure of human TRPV6 in complex with calmodulin”. Electron microscopy, 1 ligand (CA), 20 pockets (best druggability 0.84). MolNFT v1 #147099 on GenesisL1: 3D…
- PDB
- 6E2F
- Type
- protein
- Length
- 2,640 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transient receptor potential cation channel subfamily V member 6; Calmodulin-1
- UniProt
- Q9H1D0, P0DP23
- Ligands
- CA
- Pockets
- 20 · best druggability 0.84
Structure
electron microscopy · 4 distinct chains · 54% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Transient receptor potential cation channel subfamily V member 6 | protein | 613 | 53% helix, 3% strand | Q9H1D0 |
| B | Transient receptor potential cation channel subfamily V member 6 | protein | 619 | 53% helix, 3% strand | Q9H1D0 |
| C | Transient receptor potential cation channel subfamily V member 6 | protein | 647 | 55% helix, 2% strand | Q9H1D0 |
| E | Calmodulin-1 | protein | 148 | 55% helix, 1% strand | P0DP23 |
Ligands and binding sites
- CA · Calcium ion · metal · 6 copies · chains A, B, C, D, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 452 | 0.84 | 0.91 | 37 | CA |
| 2 | 870 | 0.82 | 0.84 | 100 | empty |
| 3 | 220 | 0.80 | 0.94 | 26 | empty |
| 4 | 689 | 0.75 | 0.80 | 50 | empty |
| 5 | 700 | 0.75 | 0.80 | 64 | empty |
Interfaces
10 interfaces between chains.
- B–C · 3665 Ų buried · 17 hydrogen bonds · protein-protein
- C–D · 3636 Ų buried · 12 hydrogen bonds · protein-protein
- A–D · 3599 Ų buried · 14 hydrogen bonds · protein-protein
- A–B · 3511 Ų buried · 13 hydrogen bonds · protein-protein
- C–E · 2370 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 6E2F · Cryo-EM structure of human TRPV6 in complex with Calmodulin · the same entry in another collection · chain E against E, TM-score 1.00
- Q9H1D0 · AlphaFold monomer V2.0 prediction for transient receptor potential cation channel… · a predicted model of the same protein · chain A against A, TM-score 0.96
- P0DP23 · AlphaFold monomer V2.0 prediction for calmodulin-1 (P0DP23) · a predicted model of the same protein · chain E 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 Q9H1D0
- Every structure of UniProt P0DP23
- Elsewhere: RCSB PDB 6E2F · PDBe 6E2F · UniProt Q9H1D0 · UniProt P0DP23
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