Research workbench
Cryo-EM structure of human OATP1B1 in complex with DCF
Analyse Cryo-EM structure of human OATP1B1 in complex with DCF in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 8K6L
- Type
- protein
- Length
- 547 residues
- Chains
- 1
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.92
- Source
- Homo sapiens
- Molecule
- Solute carrier organic anion transporter family member 1B1
- UniProt
- Q9Y6L6
- Ligands
- IOQ, NAG
- Pockets
- 5 · best druggability 0.80
Structure
electron microscopy · resolution 2.92 · 1 distinct chain · 60% helix, 5% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Solute carrier organic anion transporter family member 1B1 | protein | 547 | 60% helix, 5% strand | Q9Y6L6 |
Ligands and binding sites
- IOQ · 2',7'-bis(chloranyl)-3',6'-bis(oxidanyl)spiro[2-benzofuran-3,9'-xanthene]-1-one · ligand · chains A
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 869 | 0.80 | 0.83 | 76 | IOQ |
| 2 | 167 | 0.50 | 0.78 | 31 | empty |
| 3 | 55 | 0.40 | 0.82 | 15 | empty |
| 4 | 56 | 0.39 | 0.81 | 15 | empty |
| 5 | 51 | 0.29 | 0.76 | 15 | empty |
Modifications
Observed in the structure: 7 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- Q9Y6L6 · AlphaFold monomer V2.0 prediction for solute carrier organic anion transporter family… · a predicted model of the same protein · chain A against A, TM-score 0.80
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 Q9Y6L6
- Elsewhere: RCSB PDB 8K6L · PDBe 8K6L · UniProt Q9Y6L6
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