2jjt: Difference between revisions

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-==Structure of human cd47 in complex with human signal regulatory protein (SIRP) alpha==
+==Structure of human CD47 in complex with human signal regulatory protein (SIRP) alpha==
-<StructureSection load='2jjt' size='340' side='right' caption='[[2jjt]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
+<StructureSection load='2jjt' size='340' side='right'caption='[[2jjt]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2jjt]] is a 4 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=2JJT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2JJT FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2jjt]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JJT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JJT FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 2.3&#8491;</td></tr>
-<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</scene></td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2jjs|2jjs]], [[2vsc|2vsc]], [[2uv3|2uv3]]</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=2jjt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jjt OCA], [https://pdbe.org/2jjt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2jjt RCSB], [https://www.ebi.ac.uk/pdbsum/2jjt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2jjt 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=2jjt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2jjt OCA], [http://pdbe.org/2jjt PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2jjt RCSB], [http://www.ebi.ac.uk/pdbsum/2jjt PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2jjt ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[http://www.uniprot.org/uniprot/SHPS1_HUMAN SHPS1_HUMAN]] Immunoglobulin-like cell surface receptor for CD47. Acts as docking protein and induces translocation of PTPN6, PTPN11 and other binding partners from the cytosol to the plasma membrane. Supports adhesion of cerebellar neurons, neurite outgrowth and glial cell attachment. May play a key role in intracellular signaling during synaptogenesis and in synaptic function (By similarity). Involved in the negative regulation of receptor tyrosine kinase-coupled cellular responses induced by cell adhesion, growth factors or insulin. Mediates negative regulation of phagocytosis, mast cell activation and dendritic cell activation. CD47 binding prevents maturation of immature dendritic cells and inhibits cytokine production by mature dendritic cells.<ref>PMID:10469599</ref> <ref>PMID:11509594</ref>  [[http://www.uniprot.org/uniprot/CD47_HUMAN CD47_HUMAN]] Has a role in both cell adhesion by acting as an adhesion receptor for THBS1 on platelets, and in the modulation of integrins. Plays an important role in memory formation and synaptic plasticity in the hippocampus (By similarity). Receptor for SIRPA, binding to which prevents maturation of immature dendritic cells and inhibits cytokine production by mature dendritic cells. Interaction with SIRPG mediates cell-cell adhesion, enhances superantigen-dependent T-cell-mediated proliferation and costimulates T-cell activation. May play a role in membrane transport and/or integrin dependent signal transduction. May prevent premature elimination of red blood cells. May be involved in membrane permeability changes induced following virus infection.<ref>PMID:7691831</ref> <ref>PMID:11509594</ref> <ref>PMID:15383453</ref>
+[https://www.uniprot.org/uniprot/SHPS1_HUMAN SHPS1_HUMAN] Immunoglobulin-like cell surface receptor for CD47. Acts as docking protein and induces translocation of PTPN6, PTPN11 and other binding partners from the cytosol to the plasma membrane. Supports adhesion of cerebellar neurons, neurite outgrowth and glial cell attachment. May play a key role in intracellular signaling during synaptogenesis and in synaptic function (By similarity). Involved in the negative regulation of receptor tyrosine kinase-coupled cellular responses induced by cell adhesion, growth factors or insulin. Mediates negative regulation of phagocytosis, mast cell activation and dendritic cell activation. CD47 binding prevents maturation of immature dendritic cells and inhibits cytokine production by mature dendritic cells.<ref>PMID:10469599</ref> <ref>PMID:11509594</ref>
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 16: / Line 15: @@
    <jmolCheckbox>
      <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jj/2jjt_consurf.spt"</scriptWhenChecked>
-     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
+     <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.spt</scriptWhenUnchecked>
      <text>to colour the structure by Evolutionary Conservation</text>
    </jmolCheckbox>
@@ Line 37: / Line 36: @@
 __TOC__
 </StructureSection>
-[[Category: Human]]
+[[Category: Homo sapiens]]
-[[Category: Barclay, A N]]
+[[Category: Large Structures]]
-[[Category: Graham, S C]]
+[[Category: Barclay AN]]
-[[Category: Harlos, K]]
+[[Category: Graham SC]]
-[[Category: Hatherley, D]]
+[[Category: Harlos K]]
-[[Category: Stuart, D I]]
+[[Category: Hatherley D]]
-[[Category: Turner, J]]
+[[Category: Stuart DI]]
-[[Category: Alternative splicing]]
+[[Category: Turner J]]
-[[Category: Cd47]]
-[[Category: Cell adhesion]]
-[[Category: Glycoprotein]]
-[[Category: Immunoglobulin domain]]
-[[Category: Immunoglobulin superfamily]]
-[[Category: Membrane]]
-[[Category: Paired receptor]]
-[[Category: Phosphoprotein]]
-[[Category: Polymorphism]]
-[[Category: Pyrrolidone carboxylic acid]]
-[[Category: Sh3-binding]]
-[[Category: Signal regulatory protein alpha]]
-[[Category: Sirp]]
-[[Category: Sirpa]]
-[[Category: Transmembrane]]