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Crystal structure of sensory rhodopsin II at 2.4 ångströms: insights into color tuning and transducer interaction
Analyse Crystal structure of sensory rhodopsin II at 2.4 ångströms: insights into color… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1JGJ
- Type
- protein
- Length
- 217 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Sensory rhodopsin II
- UniProt
- P42196
- Ligands
- RET
- Pockets
- 2 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 79% helix, 3% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Sensory rhodopsin II | protein | 217 | 79% helix, 3% strand | P42196 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 160 | 0.78 | 0.94 | 26 | RET |
| 2 | 98 | 0.45 | 0.79 | 15 | BOG |
Modifications
Observed in the structure: 1 cofactor (retinal Schiff base).
Compared structures
- 1JGJ · Crystal structure of sensory rhodopsin II at 2.4 ångströms: insights into color tuning… · the same entry in another collection · chain A against A, TM-score 1.00
- P42196 · AlphaFold monomer V2.0 prediction for sensory rhodopsin-2 (P42196) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P42196
- Elsewhere: RCSB PDB 1JGJ · PDBe 1JGJ · UniProt P42196
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