MolNFT v1 · #144527 · protein
3.7 ångström cryoem structure of truncated mouse TRPM7
6BWD · Transient receptor potential cation channel subfamily M…: “3.7 ångström cryoem structure of truncated mouse TRPM7”. Electron microscopy, 2 ligands (Y01, MG), 20 pockets (best druggability 0.81). MolNFT v1 #144527 on GenesisL1: 3D…
- PDB
- 6BWD
- Type
- protein
- Length
- 3,084 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Transient receptor potential cation channel subfamily M member 7
- Ligands
- Y01, MG
- Pockets
- 20 · best druggability 0.81
Structure
electron microscopy · 1 distinct chain · 50% helix, 1% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Transient receptor potential cation channel subfamily M member 7 | protein | 771 | 50% helix, 1% strand | — |
Ligands and binding sites
- Y01 · Cholesterol hemisuccinate · ligand · 20 copies · chains A, D, B, C
- MG · Magnesium ion · metal · 5 copies · chains A, B, C, D
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 | 163 | 0.81 | 0.96 | 16 | MG |
| 2 | 917 | 0.78 | 0.80 | 92 | Y01 |
| 3 | 476 | 0.77 | 0.85 | 44 | empty |
| 4 | 1193 | 0.76 | 0.78 | 97 | Y01 |
| 5 | 1076 | 0.75 | 0.78 | 83 | Y01 |
Interfaces
6 interfaces between chains.
- A–D · 3090 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 3029 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 2995 Ų buried · 8 hydrogen bonds · protein-protein
- C–D · 2969 Ų buried · 10 hydrogen bonds · protein-protein
- B–D · 104 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6BWD · 3.7 angstrom cryoEM structure of truncated mouse TRPM7 · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 6BWD · PDBe 6BWD
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