1DRG: Crystal Structure Of Trimeric Cre Recombinase-Lox Complex

Citation:
Abstract
The crystal structure of a novel Cre-Lox synapse was solved using phases from multiple isomorphous replacement and anomalous scattering, and refined to 2.05 A resolution. In this complex, a symmetric protein trimer is bound to a Y-shaped three-way DNA junction, a marked departure from the pseudo-4-fold symmetrical tetramer associated with Cre-mediated LoxP recombination. The three-way DNA junction was accommodated by a simple kink without significant distortion of the adjoining DNA duplexes. Although the mean angle between DNA arms in the Y and X structures was similar, adjacent Cre trimer subunits rotated 29 degrees relative to those in the tetramers. This rotation was accommodated at the protein-protein and DNA-DNA interfaces by interactions that are "quasi-equivalent" to those in the tetramer, analogous to packing differences of chemically identical viral subunits at non-equivalent positions in icosahedral capsids. This structural quasi-equivalence extends to function as Cre can bind to, cleave and perform strand transfer with a three-way Lox substrate. The structure explains the dual recognition of three and four-way junctions by site-specific recombinases as being due to shared structural features between the differently branched substrates and plasticity of the protein-protein interfaces. To our knowledge, this is the first direct demonstration of quasi-equivalence in both the assembly and function of an oligomeric enzyme.
PDB ID: 1DRGDownload
MMDB ID: 71890
PDB Deposition Date: 2000/1/6
Updated in MMDB: 2011/11
Experimental Method:
x-ray diffraction
Resolution: 2.55  Å
Source Organism:
synthetic construct
Similar Structures:
Biological Unit for 1DRG: nonameric; determined by author
Molecular Components in 1DRG
Label Count Molecule
Proteins (3 molecules)
3
CRE Recombinase(Gene symbol: cre)
Molecule annotation
Nucleotides(2 molecules)
3
5'-d(*tp*ap*tp*ap*ap*cp*tp*tp*cp*gp*tp*ap*tp*ap*gp*c)-3'
Molecule annotation
3
5'-d(*ap*tp*ap*tp*gp*cp*tp*ap*tp*ap*cp*gp*ap*ap*gp*tp*tp*ap *t)-3'
Molecule annotation
* Click molecule labels to explore molecular sequence information.

Citing MMDB
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