Research workbench
Structure of glutamate transporter homologue GltTk in the presence of TBOA inhibitor
Analyse Structure of glutamate transporter homologue GltTk in the presence of TBOA… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6XWN
- Type
- protein
- Length
- 1,276 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.47
- Source
- Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)
- Molecule
- Proton/glutamate symporter, SDF family
- UniProt
- Q5JID0
- Ligands
- TB1
- Pockets
- 15 · best druggability 0.88
Structure
electron microscopy · resolution 3.47 · 3 distinct chains · 70% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Proton/glutamate symporter, SDF family | protein | 427 | 72% helix, 0% strand | Q5JID0 |
| B | Proton/glutamate symporter, SDF family | protein | 426 | 72% helix, 0% strand | Q5JID0 |
| C | Proton/glutamate symporter, SDF family | protein | 423 | 65% helix, 0% strand | Q5JID0 |
Ligands and binding sites
- TB1 · (3S)-3-(benzyloxy)-L-aspartic acid · ligand · 2 copies · chains B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 517 | 0.88 | 0.93 | 37 | empty |
| 2 | 475 | 0.66 | 0.78 | 56 | TB1 |
| 3 | 352 | 0.63 | 0.79 | 41 | TB1 |
| 4 | 287 | 0.61 | 0.79 | 45 | empty |
| 5 | 351 | 0.56 | 0.74 | 35 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1210 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 1190 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 1179 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 6XWN · Structure of glutamate transporter homologue glttk in the presence of tboa inhibitor · 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 Q5JID0
- Elsewhere: RCSB PDB 6XWN · PDBe 6XWN · UniProt Q5JID0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.