Research workbench
Crystal structure of the cnmp binding domain of the magnesium transporter CNNM4
Analyse Crystal structure of the cnmp binding domain of the magnesium transporter CNNM4 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6G52
- Type
- protein
- Length
- 1,249 residues
- Chains
- 9
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Metal transporter CNNM4
- UniProt
- Q6P4Q7
- Pockets
- 8 · best druggability 0.77
Structure
x-ray diffraction · 8 distinct chains · 27% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| I | Metal transporter CNNM4 | protein | 137 | 26% helix, 26% strand | Q6P4Q7 |
| B | Metal transporter CNNM4 | protein | 150 | 29% helix, 24% strand | Q6P4Q7 |
| C | Metal transporter CNNM4 | protein | 136 | 28% helix, 25% strand | Q6P4Q7 |
| D | Metal transporter CNNM4 | protein | 136 | 27% helix, 25% strand | Q6P4Q7 |
| E, A | Metal transporter CNNM4 | protein | 138 | 25% helix, 25% strand | Q6P4Q7 |
| F | Metal transporter CNNM4 | protein | 136 | 30% helix, 25% strand | Q6P4Q7 |
| G | Metal transporter CNNM4 | protein | 139 | 25% helix, 28% strand | Q6P4Q7 |
| H | Metal transporter CNNM4 | protein | 139 | 28% helix, 28% strand | Q6P4Q7 |
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 662 | 0.77 | 0.82 | 85 | empty |
| 2 | 721 | 0.73 | 0.79 | 75 | empty |
| 3 | 580 | 0.69 | 0.78 | 91 | empty |
| 4 | 284 | 0.65 | 0.82 | 52 | empty |
| 5 | 152 | 0.51 | 0.79 | 19 | empty |
Interfaces
16 interfaces between chains.
- B–A · 642 Ų buried · 12 hydrogen bonds · protein-protein
- E–F · 608 Ų buried · 8 hydrogen bonds · protein-protein
- B–F · 561 Ų buried · 1 hydrogen bond · protein-protein
- C–A · 522 Ų buried · 3 hydrogen bonds · protein-protein
- B–G · 477 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 33 modified (engineered).
Compared structures
- 6G52 · Crystal structure of the cnmp binding domain of the magnesium transporter CNNM4 · the same entry in another collection · chain C against C, TM-score 1.00
- Q6P4Q7 · AlphaFold monomer V2.0 prediction for metal transporter CNNM4 (Q6P4Q7) · a predicted model of the same protein · chain D 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 Q6P4Q7
- Elsewhere: RCSB PDB 6G52 · PDBe 6G52 · UniProt Q6P4Q7
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