› 2zzl

X-ray diffraction
2.03Å resolution

Structure of bacteriorhodopsin's M intermediate at pH 7

Released:
DOI: 10.2210/pdb2zzl/pdb
PDB entry 2zzl coloured by chain, front view.
PDB entry 2zzl coloured by chain, side view.
PDB entry 2zzl coloured by chain, top view.
Source organism: Halobacterium salinarum
Primary publication:
Crystal structures of different substrates of bacteriorhodopsin's M intermediate at various pH levels.
Yamamoto M, Hayakawa N, Murakami M, Kouyama T
J Mol Biol 393 559-73 (2009)
PMID: 19712684

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-136413 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Bacteriorhodopsin Chain: A
Molecule details ›
Chain: A
Length: 262 amino acids
Theoretical weight: 28.27 KDa
Source organism: Halobacterium salinarum
UniProt:
  • Canonical: P02945 (Residues: 1-262; Coverage: 100%)
Gene names: VNG_1467G, bop
Sequence domains: Bacteriorhodopsin-like protein
Structure domains: Rhodopsin 7-helix transmembrane proteins

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC, MAN, SGA
Carbohydrate polymer
5 bound ligands:
Ligand RET 1 x RET
Ligand L3P 1 x L3P
Ligand L2P 1 x L2P
Ligand L1P 3 x L1P
Ligand SOG 1 x SOG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P622
Unit cell:
a: 102.21Å b: 102.21Å c: 112.48Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.207 0.207 0.238

Quick links

Citations

2 review citations

Bacteriorhodopsin: Would the real structural intermediates please stand up?
Wickstrand et al. (2015)
1 more

2 mentions without citation

Bioinformatic and mutational analysis of channelrhodopsin-2 protein cation-conducting pathway.
Plazzo et al. (2012)
1 more