1pvq: Difference between revisions

Revision as of 05:32, 3 May 2008

BASIS FOR A SWITCH IN SUBSTRATE SPECIFICITY: CRYSTAL STRUCTURE OF SELECTED VARIANT OF CRE SITE-SPECIFIC RECOMBINASE, LNSGG BOUND TO THE ENGINEERED RECOGNITION SITE LOXM7

OverviewOverview

The basis for the altered DNA specificities of two Cre recombinase variants, obtained by mutation and selection, was revealed by their cocrystal structures. The proteins share similar substitutions but differ in their preferences for the natural LoxP substrate and an engineered substrate that is inactive with wild-type Cre, LoxM7. One variant preferentially recombines LoxM7 and contacts the substituted bases through a hydrated network of novel interlocking protein-DNA contacts. The other variant recognizes both LoxP and LoxM7 utilizing the same DNA backbone contact but different base contacts, facilitated by an unexpected DNA shift. Assisted by water, novel interaction networks can arise from few protein substitutions, suggesting how new DNA binding specificities might evolve. The contributions of macromolecular plasticity and water networks in specific DNA recognition observed here present a challenge for predictive schemes.

About this StructureAbout this Structure

1PVQ is a Protein complex structure of sequences from Enterobacteria phage p1. Full crystallographic information is available from OCA.

ReferenceReference

A specificity switch in selected cre recombinase variants is mediated by macromolecular plasticity and water., Baldwin EP, Martin SS, Abel J, Gelato KA, Kim H, Schultz PG, Santoro SW, Chem Biol. 2003 Nov;10(11):1085-94. PMID:14652076 Page seeded by OCA on Sat May 3 05:32:28 2008

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

OCA

@@ Line 1: / Line 1: @@
 [[Image:1pvq.gif|left|200px]]
- {{Structure
+<!--
-|PDB= 1pvq |SIZE=350|CAPTION= <scene name='initialview01'>1pvq</scene>, resolution 2.75&Aring;
+The line below this paragraph, containing "STRUCTURE_1pvq", creates the "Structure Box" on the page.
-|SITE=
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=T:THYMIDINE-5&#39;-MONOPHOSPHATE'>T</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY=
+or leave the SCENE parameter empty for the default display.
-|GENE= CRE ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10678 Enterobacteria phage P1])
+-->
-|DOMAIN=
+{{STRUCTURE_1pvq|  PDB=1pvq  |  SCENE=  }}
-|RELATEDENTRY=[[1kbu|1KBU]], [[1ma7|1MA7]], [[1crx|1CRX]], [[3crx|3CRX]], [[1nzb|1NZB]], [[1ouq|1OUQ]], [[1f44|1F44]], [[1pvp|1PVP]], [[1pvr|1PVR]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1pvq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1pvq OCA], [http://www.ebi.ac.uk/pdbsum/1pvq PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1pvq RCSB]</span>
-}}
 '''BASIS FOR A SWITCH IN SUBSTRATE SPECIFICITY: CRYSTAL STRUCTURE OF SELECTED VARIANT OF CRE SITE-SPECIFIC RECOMBINASE, LNSGG BOUND TO THE ENGINEERED RECOGNITION SITE LOXM7'''
@@ Line 32: / Line 29: @@
 [[Category: Santoro, S W.]]
 [[Category: Schultz, P G.]]
-[[Category: cre]]
+[[Category: Cre]]
-[[Category: cre-loxp recombination]]
+[[Category: Cre-loxp recombination]]
-[[Category: dna]]
+[[Category: Dna]]
-[[Category: recombinase]]
+[[Category: Recombinase]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 05:32:28 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 23:05:11 2008''