Research workbench
Mechanosensitive channel mscs solubilized with lmng in open conformation
Analyse Mechanosensitive channel mscs solubilized with lmng in open conformation in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ONJ
- Type
- protein
- Length
- 1,834 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mechanosensitive channel of small conductance (mscs)
- UniProt
- B6I756
- Ligands
- AV0, PEE
- Pockets
- 20 · best druggability 0.79
Structure
electron microscopy · 1 distinct chain · 53% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, G, B, C, D, E, F | Mechanosensitive channel of small conductance (mscs) | protein | 262 | 53% helix, 24% strand | B6I756 |
Ligands and binding sites
- AV0 · 2-decyl-2-{[(4-O-alpha-D-glucopyranosyl-beta-D-glucopyranosyl)oxy]methyl}dodecyl 4-O-alpha-D-glucopyranosyl-beta-D-glucopyranoside · ligand · 35 copies · chains A, B, G, F, C, D, E
- PEE · 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine · ligand · 7 copies · chains A, B, C, G, D, E, F
- LMT · Dodecyl-beta-D-maltoside · additive · 21 copies · chains A, G, B, F, 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, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1116 | 0.79 | 0.80 | 107 | LMT, PEE |
| 2 | 895 | 0.77 | 0.80 | 88 | PEE |
| 3 | 1050 | 0.76 | 0.78 | 83 | PEE, LMT |
| 4 | 969 | 0.76 | 0.78 | 71 | PEE, LMT |
| 5 | 957 | 0.76 | 0.78 | 76 | LMT, PEE |
Interfaces
14 interfaces between chains.
- A–G · 2365 Ų buried · 25 hydrogen bonds · protein-protein
- E–F · 2364 Ų buried · 21 hydrogen bonds · protein-protein
- D–E · 2359 Ų buried · 23 hydrogen bonds · protein-protein
- C–D · 2357 Ų buried · 23 hydrogen bonds · protein-protein
- B–C · 2345 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 7ONJ · Mechanosensitive channel MscS solubilized with LMNG in open conformation · 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 B6I756
- Elsewhere: RCSB PDB 7ONJ · PDBe 7ONJ · UniProt B6I756
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.