1drg: Difference between revisions

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1drg.gif|left|200px]]<br /><applet load="1drg" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1drg, resolution 2.55&Aring;" />
-'''CRYSTAL STRUCTURE OF TRIMERIC CRE RECOMBINASE-LOX COMPLEX'''<br />
-==Overview==
+==CRYSTAL STRUCTURE OF TRIMERIC CRE RECOMBINASE-LOX COMPLEX==
-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.
+<StructureSection load='1drg' size='340' side='right'caption='[[1drg]], [[Resolution|resolution]] 2.55&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1drg]] is a 3 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=1DRG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DRG FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.55&#8491;</td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1drg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1drg OCA], [https://pdbe.org/1drg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1drg RCSB], [https://www.ebi.ac.uk/pdbsum/1drg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1drg ProSAT]</span></td></tr>
+</table>
+== Function ==
+[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.
+== Evolutionary Conservation ==
+[[Image:Consurf_key_small.gif|200px|right]]
+Check<jmol>
+  <jmolCheckbox>
+    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/dr/1drg_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+    <text>to colour the structure by Evolutionary Conservation</text>
+  </jmolCheckbox>
+</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=1drg ConSurf].
+<div style="clear:both"></div>
-==About this Structure==
+==See Also==
-DRG is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Enterobacteria_phage_p21 Enterobacteria phage p21]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1DRG OCA].
+*[[Resolvase 3D structures|Resolvase 3D structures]]
+__TOC__
-==Reference==
+</StructureSection>
-Quasi-equivalence in site-specific recombinase structure and function: crystal structure and activity of trimeric Cre recombinase bound to a three-way Lox DNA junction., Woods KC, Martin SS, Chu VC, Baldwin EP, J Mol Biol. 2001 Oct 12;313(1):49-69. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11601846 11601846]
+[[Category: Escherichia virus P1]]
-[[Category: Enterobacteria phage p21]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Baldwin EP]]
-[[Category: Baldwin, E.P.]]
+[[Category: Woods KC]]
-[[Category: Woods, K.C.]]
-[[Category: branched dna]]
-[[Category: protein-dna complex]]
-[[Category: recombination]]
-[[Category: site-specific recombinase]]
-[[Category: three- way junction]]
-[[Category: trimeric]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 13:31:28 2007''