Research workbench
Homodimeric structure of the rbat complex
Analyse Homodimeric structure of the rbat complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6YUZ
- Type
- protein
- Length
- 1,188 residues
- Chains
- 2
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Neutral and basic amino acid transport protein rbat
- UniProt
- Q07837
- Ligands
- NAG, CA
- Pockets
- 8 · best druggability 0.80
Structure
electron microscopy · 1 distinct chain · 27% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Neutral and basic amino acid transport protein rbat | protein | 594 | 27% helix, 16% strand | Q07837 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A, C
- CA · Calcium ion · metal · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1123 | 0.80 | 0.81 | 149 | empty |
| 2 | 240 | 0.48 | 0.74 | 31 | empty |
| 3 | 59 | 0.38 | 0.79 | 17 | empty |
| 4 | 64 | 0.37 | 0.78 | 17 | empty |
| 5 | 92 | 0.37 | 0.76 | 14 | empty |
Interfaces
1 interface between chains.
- A–C · 1060 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 glycan, 6 disulfide (N-glycosylation, disulfide).
Compared structures
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 Q07837
- Elsewhere: RCSB PDB 6YUZ · PDBe 6YUZ · UniProt Q07837
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