MolNFT v1 · #13770 · protein
Structure of bovine rhodopsin (metarhodopsin II)
1LN6: “Structure of bovine rhodopsin (metarhodopsin II)”. Solution nmr, 1 ligand (RET), 3 pockets (best druggability 0.82). MolNFT v1 #13770 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1LN6
- Type
- protein
- Length
- 309 residues
- Chains
- 1
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Rhodopsin
- UniProt
- P02699
- Ligands
- RET
- Pockets
- 3 · best druggability 0.82
Structure
solution nmr · 1 distinct chain · 37% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Rhodopsin | protein | 309 | 37% helix, 0% strand | P02699 |
Ligands and binding sites
- RET · Retinal · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 396 | 0.82 | 0.90 | 66 | RET |
| 2 | 103 | 0.50 | 0.81 | 21 | empty |
| 3 | 53 | 0.30 | 0.75 | 14 | empty |
Modifications
Observed in the structure: 5 cofactor, 1 disulfide (retinal Schiff base, 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 P02699
- Elsewhere: RCSB PDB 1LN6 · PDBe 1LN6 · UniProt P02699
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