Research workbench
Cellular retinol-binding protein 2 (CRBP2) in complex with 1- arachodonoyl-1-thio-glycerol
Analyse Cellular retinol-binding protein 2 (CRBP2) in complex with 1… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JZ5
- Type
- protein
- Length
- 270 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Retinol-binding protein 2
- UniProt
- P50120
- Ligands
- VPY
- Pockets
- 3 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 10% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Retinol-binding protein 2 | protein | 134 | 10% helix, 54% strand | P50120 |
| B | Retinol-binding protein 2 | protein | 136 | 10% helix, 54% strand | P50120 |
Ligands and binding sites
- VPY · S-[(2R)-2,3-dihydroxypropyl] (5Z,8Z,11Z,14Z)-icosa-5,8, 11,14-tetraenethioate · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 271 | 0.85 | 0.95 | 36 | VPY |
| 2 | 282 | 0.84 | 0.95 | 37 | VPY |
| 3 | 135 | 0.46 | 0.77 | 24 | empty |
Interfaces
1 interface between chains.
- A–B · 573 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 7JZ5 · Cellular retinol-binding protein 2 (CRBP2) in complex with 1-arachodonoyl-1-thio-glycerol · 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 P50120
- Elsewhere: RCSB PDB 7JZ5 · PDBe 7JZ5 · UniProt P50120
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