Research workbench
Cryo-EM structure of the human neutral amino acid transporter ASCT2
Analyse Cryo-EM structure of the human neutral amino acid transporter ASCT2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MPB
- Type
- protein
- Length
- 1,338 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Neutral amino acid transporter B(0)
- UniProt
- Q15758
- Ligands
- GLN, NAG
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 1 distinct chain · 67% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, C, A | Neutral amino acid transporter B(0) | protein | 446 | 67% helix, 2% strand | Q15758 |
Ligands and binding sites
- GLN · Glutamine · ligand · 3 copies · chains B, C, A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains B, C, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1088 | 0.86 | 0.86 | 47 | empty |
| 2 | 399 | 0.73 | 0.84 | 51 | GLN |
| 3 | 463 | 0.70 | 0.80 | 58 | empty |
| 4 | 352 | 0.68 | 0.81 | 40 | empty |
| 5 | 63 | 0.68 | 0.95 | 21 | GLN |
Interfaces
3 interfaces between chains.
- B–A · 1468 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 1466 Ų buried · 13 hydrogen bonds · protein-protein
- C–A · 1438 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 glycan (N-glycosylation).
Compared structures
- 6MPB · Cryo-EM structure of the human neutral amino acid transporter ASCT2 · the same entry in another collection · chain B against B, TM-score 1.00
- Q15758 · AlphaFold monomer V2.0 prediction for neutral amino acid transporter B(0) (Q15758) · a predicted model of the same protein · chain C against A, TM-score 0.95
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 Q15758
- Elsewhere: RCSB PDB 6MPB · PDBe 6MPB · UniProt Q15758
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