Research workbench
Cryo-EM structure of the mgte MG2+ channel under MG2+-free conditions
Analyse Cryo-EM structure of the mgte MG2+ channel under MG2+-free conditions in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6LBH
- Type
- protein
- Length
- 1,236 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Magnesium transporter mgte; Fab light chain; Fab heavy chain
- UniProt
- Q5SMG8
- Pockets
- 9 · best druggability 0.77
Structure
electron microscopy · 3 distinct chains · 28% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Magnesium transporter mgte | protein | 178 | 85% helix, 0% strand | Q5SMG8 |
| D, F | Fab light chain | protein | 216 | 5% helix, 39% strand | — |
| C, E | Fab heavy chain | protein | 224 | 4% helix, 44% strand | — |
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 606 | 0.77 | 0.83 | 64 | empty |
| 2 | 432 | 0.59 | 0.74 | 48 | empty |
| 3 | 410 | 0.57 | 0.74 | 53 | empty |
| 4 | 80 | 0.41 | 0.79 | 21 | empty |
| 5 | 69 | 0.37 | 0.78 | 17 | empty |
Interfaces
7 interfaces between chains.
- A–B · 2768 Ų buried · 21 hydrogen bonds · protein-protein
- D–C · 1987 Ų buried · 14 hydrogen bonds · protein-protein
- F–E · 1924 Ų buried · 12 hydrogen bonds · protein-protein
- A–E · 608 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 601 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 6LBH · Cryo-EM structure of the MgtE Mg2+ channel under Mg2+-free conditions · the same entry in another collection · chain D against D, TM-score 1.00
- Q5SMG8 · AlphaFold monomer V2.0 prediction for magnesium transporter mgte (Q5SMG8) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 Q5SMG8
- Elsewhere: RCSB PDB 6LBH · PDBe 6LBH · UniProt Q5SMG8
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