Research workbench
Cryo-EM structure of mechanosensitive channel mscs in pc-18:1 nanodiscs treated with beta-cyclodextran
Analyse Cryo-EM structure of mechanosensitive channel mscs in pc-18:1 nanodiscs treated… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6VYM
- Type
- protein
- Length
- 1,778 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mechanosensitive channel mscs
- UniProt
- C3SVH2
- Pockets
- 20 · best druggability 0.80
Structure
electron microscopy · 1 distinct chain · 49% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | Mechanosensitive channel mscs | protein | 254 | 49% helix, 22% strand | C3SVH2 |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 502 | 0.80 | 0.86 | 62 | empty |
| 2 | 459 | 0.78 | 0.86 | 69 | empty |
| 3 | 312 | 0.73 | 0.85 | 53 | empty |
| 4 | 208 | 0.73 | 0.87 | 26 | empty |
| 5 | 248 | 0.70 | 0.85 | 41 | empty |
Interfaces
14 interfaces between chains.
- D–E · 3314 Ų buried · 24 hydrogen bonds · protein-protein
- F–G · 3250 Ų buried · 25 hydrogen bonds · protein-protein
- A–G · 3152 Ų buried · 20 hydrogen bonds · protein-protein
- C–D · 3135 Ų buried · 21 hydrogen bonds · protein-protein
- B–C · 3088 Ų buried · 23 hydrogen bonds · protein-protein
Compared structures
- 6VYM · Cryo-EM structure of mechanosensitive channel MscS in PC-18:1 nanodiscs treated with… · 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
- Every structure of UniProt C3SVH2
- Elsewhere: RCSB PDB 6VYM · PDBe 6VYM · UniProt C3SVH2
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