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1q3u

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[[Image:1q3u.png|left|200px]]
 
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==Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex==
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The line below this paragraph, containing "STRUCTURE_1q3u", creates the "Structure Box" on the page.
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<StructureSection load='1q3u' size='340' side='right'caption='[[1q3u]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1q3u]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_virus_P1 Escherichia virus P1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1Q3U FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.9&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IOD:IODIDE+ION'>IOD</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=UMP:2-DEOXYURIDINE+5-MONOPHOSPHATE'>UMP</scene></td></tr>
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{{STRUCTURE_1q3u| PDB=1q3u | SCENE= }}
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1q3u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1q3u OCA], [https://pdbe.org/1q3u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1q3u RCSB], [https://www.ebi.ac.uk/pdbsum/1q3u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1q3u ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RECR_BPP1 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.
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/q3/1q3u_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1q3u ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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Escherichia coli phage P1 Cre recombinase catalyzes the site-specific recombination of DNA containing loxP sites. We report here two crystal structures of a wild-type Cre recombinase-loxP synaptic complex corresponding to two distinct reaction states: an initial pre-cleavage complex, trapped using a phosphorothioate modification at the cleavable scissile bond that prevents the recombination reaction, and a 3'-phosphotyrosine protein-DNA intermediate resulting from the first strand cleavage. In contrast to previously determined Cre complexes, both structures contain a full tetrameric complex in the asymmetric unit, unequivocally showing that the anti-parallel arrangement of the loxP sites is an intrinsic property of the Cre-loxP recombination synapse. The conformation of the spacer is different to the one observed for the symmetrized loxS site: a kink next to the scissile phosphate in the top strand of the pre-cleavage complex leads to unstacking of the TpG step and a widening of the minor groove. This side of the spacer is interacting with a 'cleavage-competent' Cre subunit, suggesting that the first cleavage occurs at the ApT step in the top strand. This is further confirmed by the structure of the 3'-phosphotyrosine intermediate, where the DNA is cleaved in the top strands and covalently linked to the 'cleavage-competent' subunits. The cleavage is followed by a movement of the C-terminal part containing the attacking Y324 and the helix N interacting with the 'non-cleaving' subunit. This rearrangement could be responsible for the interconversion of Cre subunits. Our results also suggest that the Cre-induced kink next to the scissile phosphodiester activates the DNA for cleavage at this position and facilitates strand transfer.
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===Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex===
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Crystal structure of a wild-type Cre recombinase-loxP synapse reveals a novel spacer conformation suggesting an alternative mechanism for DNA cleavage activation.,Ennifar E, Meyer JE, Buchholz F, Stewart AF, Suck D Nucleic Acids Res. 2003 Sep 15;31(18):5449-60. PMID:12954782<ref>PMID:12954782</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<div class="pdbe-citations 1q3u" style="background-color:#fffaf0;"></div>
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(as it appears on PubMed at http://www.pubmed.gov), where 12954782 is the PubMed ID number.
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{{ABSTRACT_PUBMED_12954782}}
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==About this Structure==
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[[1q3u]] is a 8 chain structure of [[Resolvase]] with sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p1 Enterobacteria phage p1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q3U OCA].
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==See Also==
==See Also==
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*[[Resolvase]]
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*[[Resolvase 3D structures|Resolvase 3D structures]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:12954782</ref><references group="xtra"/>
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__TOC__
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[[Category: Enterobacteria phage p1]]
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</StructureSection>
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[[Category: Buchholz, F.]]
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[[Category: Escherichia virus P1]]
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[[Category: Ennifar, E.]]
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[[Category: Large Structures]]
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[[Category: Meyer, J E.W.]]
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[[Category: Buchholz F]]
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[[Category: Stewart, A F.]]
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[[Category: Ennifar E]]
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[[Category: Suck, D.]]
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[[Category: Meyer JEW]]
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[[Category: Cre]]
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[[Category: Stewart AF]]
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[[Category: Crystal]]
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[[Category: Suck D]]
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[[Category: Dna-protein complex]]
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[[Category: Recombinase]]
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[[Category: Replication/dna complex]]
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Current revision

Crystal structure of a wild-type Cre recombinase-loxP synapse: pre-cleavage complex

PDB ID 1q3u

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