MolNFT v1 · #151090 · protein
Crystal structure of the potassium channel MTTMEM175 with cesium
6HDA · NANOBODY,MALTOSE/MALTODEXTRIN-binding periplasmic protein: “Crystal structure of the potassium channel MTTMEM175 with cesium”. X-ray diffraction, 2 ligands (GLC, CS), 7 pockets (best druggability 0.70). MolNFT v1 #151090 on…
- PDB
- 6HDA
- Type
- protein
- Length
- 693 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NANOBODY,MALTOSE/MALTODEXTRIN-binding periplasmic protein; TMEM175
- UniProt
- P0AEX9, E4TN31
- Ligands
- GLC, CS
- Pockets
- 7 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | NANOBODY,MALTOSE/MALTODEXTRIN-binding periplasmic protein | protein | 461 | 36% helix, 23% strand | P0AEX9 |
| B | TMEM175 | protein | 232 | 75% helix, 0% strand | E4TN31 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A
- CS · Cesium ion · metal
- LMT · Dodecyl-beta-D-maltoside · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 269 | 0.70 | 0.85 | 30 | GLC |
| 2 | 459 | 0.67 | 0.78 | 38 | empty |
| 3 | 201 | 0.50 | 0.76 | 36 | empty |
| 4 | 96 | 0.48 | 0.81 | 18 | empty |
| 5 | 109 | 0.38 | 0.75 | 21 | LMT |
Interfaces
1 interface between chains.
- A–B · 534 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6HDA · Crystal structure of the potassium channel MtTMEM175 with cesium · the same entry in another collection · chain A against A, TM-score 1.00
- E4TN31 · AlphaFold monomer V2.0 prediction for potassium channel FTRAC_2467 (E4TN31) · a predicted model of the same protein · chain B against A, TM-score 0.89
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 P0AEX9
- Every structure of UniProt E4TN31
- Elsewhere: RCSB PDB 6HDA · PDBe 6HDA · UniProt P0AEX9 · UniProt E4TN31
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