› 3vvk

X-ray diffraction
2.3Å resolution

An M-like Reaction State of the azide-bound purple form of pharaonis halorhodopsin

Released:
DOI: 10.2210/pdb3vvk/pdb
PDB entry 3vvk coloured by chain, front view.
PDB entry 3vvk coloured by chain, side view.
PDB entry 3vvk coloured by chain, top view.
Source organism: Natronomonas pharaonis
Primary publication:
Large deformation of helix F during the photoreaction cycle of Pharaonis halorhodopsin in complex with azide.
Nakanishi T, Kanada S, Murakami M, Ihara K, Kouyama T
Biophys J 104 377-85 (2013)
PMID: 23442859

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-147416 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Halorhodopsin Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 291 amino acids
Theoretical weight: 30.98 KDa
Source organism: Natronomonas pharaonis
UniProt:
  • Canonical: P15647 (Residues: 1-291; Coverage: 100%)
Gene name: hop
Sequence domains: Bacteriorhodopsin-like protein
Structure domains: Rhodopsin 7-helix transmembrane proteins

Ligands and Environments

5 bound ligands:
Ligand RET 6 x RET
Ligand BNG 4 x BNG
Ligand 22B 2 x 22B
Ligand L3P 4 x L3P
Ligand AZI 3 x AZI
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL38B1
Spacegroup: C2
Unit cell:
a: 153.85Å b: 97.9Å c: 101.02Å
α: 90° β: 128.53° γ: 90°
R-values:
R R work R free
0.211 0.211 0.24

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Citations

1 review citation

Toward the Optical Cochlear Implant.
Dombrowski et al. (2019)
12 other articles