Research workbench
cryo-EM structure of TRPM4 in apo state with long coiled coil at 3.5 angstrom resolution
Analyse cryo-EM structure of TRPM4 in apo state with long coiled coil at 3.5 angstrom… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6BCL
- Type
- protein
- Length
- 3,868 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.54
- Source
- Mus musculus
- Molecule
- Transient receptor potential cation channel subfamily M member 4
- UniProt
- Q7TN37
- Ligands
- NA
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · resolution 3.54 · 1 distinct chain · 59% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A, C, D | Transient receptor potential cation channel subfamily M member 4 | protein | 967 | 59% helix, 7% strand | Q7TN37 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains B, A, 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 | 848 | 0.86 | 0.88 | 65 | NA |
| 2 | 955 | 0.76 | 0.79 | 88 | empty |
| 3 | 965 | 0.76 | 0.79 | 80 | empty |
| 4 | 782 | 0.74 | 0.79 | 77 | empty |
| 5 | 393 | 0.73 | 0.84 | 45 | empty |
Interfaces
6 interfaces between chains.
- C–D · 3659 Ų buried · 17 hydrogen bonds · protein-protein
- B–D · 3625 Ų buried · 18 hydrogen bonds · protein-protein
- B–A · 3617 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 3613 Ų buried · 16 hydrogen bonds · protein-protein
- A–D · 30 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 6BCL · Cryo-EM structure of TRPM4 in apo state with long coiled coil at 3.5 ångström resolution · the same entry in another collection · chain A against A, TM-score 1.00
- Q7TN37 · AlphaFold monomer V2.0 prediction for transient receptor potential cation channel… · a predicted model of the same protein · chain B against A, TM-score 0.93
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 Q7TN37
- Elsewhere: RCSB PDB 6BCL · PDBe 6BCL · UniProt Q7TN37
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