Research workbench
Crystal structure of the viral rhodopsins chimera O1O2
Analyse Crystal structure of the viral rhodopsins chimera O1O2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7AKW
- Type
- protein
- Length
- 444 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chimera of viral rhodopsins OLPVR1 and olpvrii
- UniProt
- F2Y337
- Ligands
- LFA, RET
- Pockets
- 8 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 85% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chimera of viral rhodopsins OLPVR1 and olpvrii | protein | 223 | 84% helix, 0% strand | F2Y337 |
| B | Chimera of viral rhodopsins OLPVR1 and olpvrii | protein | 221 | 86% helix, 0% strand | F2Y337 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 140 | 0.81 | 0.97 | 14 | empty |
| 2 | 868 | 0.80 | 0.82 | 49 | empty |
| 3 | 150 | 0.77 | 0.94 | 25 | RET |
| 4 | 151 | 0.76 | 0.93 | 25 | RET |
| 5 | 119 | 0.58 | 0.84 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 616 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 cofactor (retinal Schiff base).
Compared structures
- 7AKW · Crystal structure of the viral rhodopsins chimera O1O2 · 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 F2Y337
- Elsewhere: RCSB PDB 7AKW · PDBe 7AKW · UniProt F2Y337
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