2byv: Difference between revisions

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-{{Seed}}
-[[Image:2byv.png|left|200px]]
-<!--
+==Structure of the cAMP responsive exchange factor Epac2 in its auto- inhibited state==
-The line below this paragraph, containing "STRUCTURE_2byv", creates the "Structure Box" on the page.
+<StructureSection load='2byv' size='340' side='right'caption='[[2byv]], [[Resolution|resolution]] 2.70&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2byv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2BYV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2BYV FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.7&#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=2byv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2byv OCA], [https://pdbe.org/2byv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2byv RCSB], [https://www.ebi.ac.uk/pdbsum/2byv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2byv ProSAT]</span></td></tr>
-{{STRUCTURE_2byv|  PDB=2byv  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RPGF4_MOUSE RPGF4_MOUSE] Guanine nucleotide exchange factor (GEF) for RAP1A, RAP1B and RAP2A small GTPases that is activated by binding cAMP. Seems not to activate RAB3A. Involved in cAMP-dependent, PKA-independent exocytosis through interaction with RIMS2.<ref>PMID:11056535</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/by/2byv_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=2byv ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Epac proteins (exchange proteins directly activated by cAMP) are guanine-nucleotide-exchange factors (GEFs) for the small GTP-binding proteins Rap1 and Rap2 that are directly regulated by the second messenger cyclic AMP and function in the control of diverse cellular processes, including cell adhesion and insulin secretion. Here we report the three-dimensional structure of full-length Epac2, a 110-kDa protein that contains an amino-terminal regulatory region with two cyclic-nucleotide-binding domains and a carboxy-terminal catalytic region. The structure was solved in the absence of cAMP and shows the auto-inhibited state of Epac. The regulatory region is positioned with respect to the catalytic region by a rigid, tripartite beta-sheet-like structure we refer to as the 'switchboard' and an ionic interaction we call the 'ionic latch'. As a consequence of this arrangement, the access of Rap to the catalytic site is sterically blocked. Mutational analysis suggests a model for cAMP-induced Epac activation with rigid body movement of the regulatory region, the features of which are universally conserved in cAMP-regulated proteins.
-===STRUCTURE OF THE CAMP RESPONSIVE EXCHANGE FACTOR EPAC2 IN ITS AUTO-INHIBITED STATE===
+Structure of the cyclic-AMP-responsive exchange factor Epac2 in its auto-inhibited state.,Rehmann H, Das J, Knipscheer P, Wittinghofer A, Bos JL Nature. 2006 Feb 2;439(7076):625-8. PMID:16452984<ref>PMID:16452984</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-<!--
+</div>
-The line below this paragraph, {{ABSTRACT_PUBMED_16452984}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 2byv" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 16452984 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_16452984}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-BYV is a [[Single protein]] structure of 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=2BYV OCA].
-==Reference==
-Structure of the cyclic-AMP-responsive exchange factor Epac2 in its auto-inhibited state., Rehmann H, Das J, Knipscheer P, Wittinghofer A, Bos JL, Nature. 2006 Feb 2;439(7076):625-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16452984 16452984]
 [[Category: Mus musculus]]
-[[Category: Single protein]]
+[[Category: Bos JL]]
-[[Category: Bos, J L.]]
+[[Category: Rehmann H]]
-[[Category: Rehmann, H.]]
+[[Category: Wittinghofer A]]
-[[Category: Wittinghofer, A.]]
-[[Category: Auto-inhibition]]
-[[Category: Camp]]
-[[Category: Camp-gef2]]
-[[Category: Cdc25 homology domain]]
-[[Category: Cyclic nucleotide]]
-[[Category: Epac2]]
-[[Category: Exchange factor]]
-[[Category: Gef]]
-[[Category: Regulation]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 14:14:49 2008''