1w9q: Difference between revisions

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 ==Crystal structure of the PDZ tandem of human syntenin in complex with TNEFAF peptide==
-<StructureSection load='1w9q' size='340' side='right' caption='[[1w9q]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+<StructureSection load='1w9q' size='340' side='right'caption='[[1w9q]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1w9q]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W9Q OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1W9Q FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1w9q]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1W9Q OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1W9Q FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.7&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[1n99|1n99]], [[1nte|1nte]], [[1obx|1obx]], [[1oby|1oby]], [[1obz|1obz]], [[1r6j|1r6j]], [[1v1t|1v1t]], [[1w9e|1w9e]], [[1w9o|1w9o]], [[1ybo|1ybo]]</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BEZ:BENZOIC+ACID'>BEZ</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">SDCBP OR MDA9 OR SYCL ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=1w9q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w9q OCA], [https://pdbe.org/1w9q PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1w9q RCSB], [https://www.ebi.ac.uk/pdbsum/1w9q PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1w9q ProSAT]</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=1w9q FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1w9q OCA], [http://pdbe.org/1w9q PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1w9q RCSB], [http://www.ebi.ac.uk/pdbsum/1w9q PDBsum]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/SDCB1_HUMAN SDCB1_HUMAN] Seems to function as an adapter protein. In adherens junctions may function to couple syndecans to cytoskeletal proteins or signaling components. Seems to couple transcription factor SOX4 to the IL-5 receptor (IL5RA). May also play a role in vesicular trafficking. Seems to be required for the targeting of TGFA to the cell surface in the early secretory pathway.<ref>PMID:10230395</ref> <ref>PMID:11179419</ref> <ref>PMID:11498591</ref>
 == 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/w9/1w9q_consurf.spt"</scriptWhenChecked>
+     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/w9/1w9q_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].
+</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=1w9q ConSurf].
 <div style="clear:both"></div>
 <div style="background-color:#fffaf0;">
@@ Line 27: / Line 29: @@
 </div>
 <div class="pdbe-citations 1w9q" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[3D structures of syntenin|3D structures of syntenin]]
 == References ==
 <references/>
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
-[[Category: Cierpicki, T]]
+[[Category: Large Structures]]
-[[Category: Cooper, D R]]
+[[Category: Synthetic construct]]
-[[Category: Derewenda, Z S]]
+[[Category: Cierpicki T]]
-[[Category: Devedjiev, Y]]
+[[Category: Cooper DR]]
-[[Category: Grembecka, J]]
+[[Category: Derewenda ZS]]
-[[Category: Adhesion-complex]]
+[[Category: Devedjiev Y]]
-[[Category: Cell adhesion]]
+[[Category: Grembecka J]]
-[[Category: Pdz domain]]
-[[Category: Scaffolding protein]]