Research workbench
Cryo-EM structure of arabidopsis thaliana MSL1 in lipid nanodisc
Analyse Cryo-EM structure of arabidopsis thaliana MSL1 in lipid nanodisc in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6VXP
- Type
- protein
- Length
- 1,939 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Mechanosensitive ion channel protein 1, mitochondrial
- UniProt
- Q8VZL4
- Pockets
- 20 · best druggability 0.71
Structure
electron microscopy · 1 distinct chain · 54% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F, G | Mechanosensitive ion channel protein 1, mitochondrial | protein | 277 | 54% helix, 21% strand | Q8VZL4 |
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 | 1097 | 0.71 | 0.74 | 127 | empty |
| 2 | 1013 | 0.70 | 0.74 | 116 | empty |
| 3 | 620 | 0.64 | 0.74 | 53 | empty |
| 4 | 527 | 0.60 | 0.73 | 73 | empty |
| 5 | 363 | 0.60 | 0.77 | 58 | empty |
Interfaces
7 interfaces between chains.
- D–E · 2372 Ų buried · 12 hydrogen bonds · protein-protein
- F–G · 2369 Ų buried · 12 hydrogen bonds · protein-protein
- A–G · 2367 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 2364 Ų buried · 12 hydrogen bonds · protein-protein
- E–F · 2363 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 6VXP · Cryo-EM structure of Arabidopsis thaliana MSL1 in lipid nanodisc · the same entry in another collection · chain G against G, TM-score 1.00
- Q8VZL4 · AlphaFold monomer V2.0 prediction for mechanosensitive ion channel protein 1… · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q8VZL4
- Elsewhere: RCSB PDB 6VXP · PDBe 6VXP · UniProt Q8VZL4
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