3f27: Difference between revisions

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-{{Seed}}
+==Structure of Sox17 Bound to DNA==
-[[Image:3f27.png|left|200px]]
+<StructureSection load='3f27' size='340' side='right' caption='[[3f27]], [[Resolution|resolution]] 2.75&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[3f27]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F27 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3F27 FirstGlance]. <br>
+</td></tr><tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">Sox-17, Sox17 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
+<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3f27 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f27 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3f27 RCSB], [http://www.ebi.ac.uk/pdbsum/3f27 PDBsum]</span></td></tr>
+<table>
+== 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/f2/3f27_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/chain_selection.php?pdb_ID=2ata ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Sox17 regulates endodermal lineage commitment and is thought to function antagonistically to the pluripotency determinant Sox2. To investigate the biochemical basis for the distinct functions of Sox2 and Sox17, we solved the crystal structure of the high mobility group domain of Sox17 bound to a DNA element derived from the Lama1 enhancer using crystals diffracting to 2.7 A resolution. Sox17 targets the minor groove and bends the DNA by approximately 80 degrees . The DNA architecture closely resembles the one seen for Sox2/DNA structures, suggesting that the degree of bending is conserved between both proteins and nucleotide substitutions have only marginal effects on the bending topology. Accordingly, affinities of Sox2 and Sox17 for the Lama1 element were found to be identical. However, when the Oct1 contact interface of Sox2 is compared with the corresponding region of Sox17, a significantly altered charge distribution is observed, suggesting differential co-factor recruitment that may explain their biological distinctiveness.
-<!--
+The structure of Sox17 bound to DNA reveals a conserved bending topology but selective protein interaction platforms.,Palasingam P, Jauch R, Ng CK, Kolatkar PR J Mol Biol. 2009 May 8;388(3):619-30. Epub 2009 Mar 25. PMID:19328208<ref>PMID:19328208</ref>
-The line below this paragraph, containing "STRUCTURE_3f27", creates the "Structure Box" on the page.
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-or leave the SCENE parameter empty for the default display.
--->
-{{STRUCTURE_3f27|  PDB=3f27  |  SCENE=  }}
-===Structure of Sox17 Bound to DNA===
+From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
+</div>
+== References ==
-<!--
+<references/>
-The line below this paragraph, {{ABSTRACT_PUBMED_19328208}}, adds the Publication Abstract to the page
+__TOC__
-(as it appears on PubMed at http://www.pubmed.gov), where 19328208 is the PubMed ID number.
+</StructureSection>
--->
-{{ABSTRACT_PUBMED_19328208}}
-==About this Structure==
-F27 is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F27 OCA].
-==Reference==
-<ref group="xtra">PMID:19328208</ref><references group="xtra"/>
 [[Category: Mus musculus]]
 [[Category: Jauch, R.]]
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 [[Category: Palasingam, P.]]
 [[Category: Activator]]
-[[Category: Alternative splicing]]
 [[Category: Dna-binding]]
 [[Category: Endodermal]]
@@ Line 38: / Line 41: @@
 [[Category: Transcription]]
 [[Category: Transcription regulation]]
-[[Category: Transcription/dna complex]]
+[[Category: Transcription-dna complex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Apr 29 20:53:44 2009''