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1kbu

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Revision as of 21:18, 24 January 2018

CRE RECOMBINASE BOUND TO A LOXP HOLLIDAY JUNCTION

Structural highlights

1kbu is a 4 chain structure with sequence from Bpp1. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Related:	3crx, 2crx, 4crx, 1crx, 1f44, 1drg
Gene:	CRE (BPP1)
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[RECR_BPP1] Catalyzes site-specific recombination between two 34-base-pair LOXP sites. Its role is to maintain the phage genome as a monomeric unit-copy plasmid in the lysogenic state.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

Cre recombinase uses two pairs of sequential cleavage and religation reactions to exchange homologous DNA strands between 34 base-pair (bp) LoxP recognition sequences. In the oligomeric recombination complex, a switch between "cleaving" and "non-cleaving" subunit conformations regulates the number, order, and regio-specificity of the strand exchanges. However, the particular sequence of events has been in question. From analysis of strand composition of the Holliday junction (HJ) intermediate, we determined that Cre initiates recombination of LoxP by cleaving the upper strand on the left arm. Cre preferred to react with the left arm of a LoxP suicide substrate, but at a similar rate to the right arm, indicating that the first strand to be exchanged is selected prior to cleavage. We propose that during complex assembly the cleaving subunit preferentially associates with the LoxP left arm, directing the first strand exchange to that side. In addition, this biased assembly would enforce productive orientation of LoxP sites in the recombination synapses. A novel Cre-HJ complex structure in which LoxP was oriented with the left arm bound by the cleaving Cre subunit suggested a physical basis for the strand exchange order. Lys86 and Lys201 interact with the left arm scissile adenine base differently than in structures that have a scissile guanine. These interactions are associated with positioning the 198-208 loop, a structural component of the conformational switch, in a configuration that is specific to the cleaving conformation. Our results suggest that strand exchange order and site alignment are regulated by an "induced fit" mechanism in which the cleaving conformation is selectively stabilized through protein-DNA interactions with the scissile base on the strand that is cleaved first.

The order of strand exchanges in Cre-LoxP recombination and its basis suggested by the crystal structure of a Cre-LoxP Holliday junction complex.,Martin SS, Pulido E, Chu VC, Lechner TS, Baldwin EP J Mol Biol. 2002 May 24;319(1):107-27. PMID:12051940^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Martin SS, Pulido E, Chu VC, Lechner TS, Baldwin EP. The order of strand exchanges in Cre-LoxP recombination and its basis suggested by the crystal structure of a Cre-LoxP Holliday junction complex. J Mol Biol. 2002 May 24;319(1):107-27. PMID:12051940 doi:10.1016/S0022-2836(02)00246-2

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/1kbu"

@@ Line 1: / Line 1: @@
 ==CRE RECOMBINASE BOUND TO A LOXP HOLLIDAY JUNCTION==
 <StructureSection load='1kbu' size='340' side='right' caption='[[1kbu]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
@@ Line 5: / Line 6: @@
 </td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3crx|3crx]], [[2crx|2crx]], [[4crx|4crx]], [[1crx|1crx]], [[1f44|1f44]], [[1drg|1drg]]</td></tr>
 <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">CRE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10678 BPP1])</td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kbu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kbu OCA], [http://pdbe.org/1kbu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kbu RCSB], [http://www.ebi.ac.uk/pdbsum/1kbu PDBsum]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kbu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kbu OCA], [http://pdbe.org/1kbu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kbu RCSB], [http://www.ebi.ac.uk/pdbsum/1kbu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kbu ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 13: / Line 14: @@
 Check<jmol>
   <jmolCheckbox>
-    <scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kb/1kbu_consurf.spt"</scriptWhenChecked>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kb/1kbu_consurf.spt"</scriptWhenChecked>
     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
     <text>to colour the structure by Evolutionary Conservation</text>
@@ Line 28: / Line 29: @@
 </div>
 <div class="pdbe-citations 1kbu" style="background-color:#fffaf0;"></div>
-==See Also==
-*[[Resolvase|Resolvase]]
 == References ==
 <references/>

1kbu

From Proteopedia

Revision as of 21:18, 24 January 2018

CRE RECOMBINASE BOUND TO A LOXP HOLLIDAY JUNCTION

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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