MolNFT v1 · #147100 · protein
Cryo-EM structure of rat TRPV6 in complex with calmodulin
6E2G · Transient receptor potential cation channel subfamily V…: “Cryo-EM structure of rat TRPV6 in complex with calmodulin”. Electron microscopy, 1 ligand (CA), 20 pockets (best druggability 0.85). MolNFT v1 #147100 on GenesisL1: 3D…
- PDB
- 6E2G
- Type
- protein
- Length
- 2,637 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
- Q9R186, P0DP23
- Ligands
- CA
- Pockets
- 20 · best druggability 0.85
Structure
electron microscopy · 5 distinct chains · 50% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Transient receptor potential cation channel subfamily V member 6 | protein | 611 | 49% helix, 4% strand | Q9R186 |
| B | Transient receptor potential cation channel subfamily V member 6 | protein | 621 | 51% helix, 5% strand | Q9R186 |
| C | Transient receptor potential cation channel subfamily V member 6 | protein | 644 | 52% helix, 4% strand | Q9R186 |
| D | Transient receptor potential cation channel subfamily V member 6 | protein | 613 | 49% helix, 5% strand | Q9R186 |
| E | Calmodulin-1 | protein | 148 | 51% 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 | 437 | 0.85 | 0.92 | 37 | CA |
| 2 | 852 | 0.83 | 0.85 | 96 | empty |
| 3 | 164 | 0.80 | 0.96 | 25 | empty |
| 4 | 782 | 0.75 | 0.79 | 72 | empty |
| 5 | 592 | 0.75 | 0.81 | 53 | empty |
Interfaces
10 interfaces between chains.
- B–C · 3780 Ų buried · 24 hydrogen bonds · protein-protein
- C–D · 3776 Ų buried · 28 hydrogen bonds · protein-protein
- A–D · 3634 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 3596 Ų buried · 23 hydrogen bonds · protein-protein
- C–E · 2510 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 6E2G · Cryo-EM structure of rat TRPV6 in complex with Calmodulin · the same entry in another collection · chain E against E, TM-score 1.00
- Q9R186 · AlphaFold monomer V2.0 prediction for transient receptor potential cation channel… · a predicted model of the same protein · chain A against A, TM-score 0.97
- P0DP23 · AlphaFold monomer V2.0 prediction for calmodulin-1 (P0DP23) · a predicted model of the same protein · chain E against A, TM-score 0.49
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 Q9R186
- Every structure of UniProt P0DP23
- Elsewhere: RCSB PDB 6E2G · PDBe 6E2G · UniProt Q9R186 · UniProt P0DP23
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