2ifu: Difference between revisions

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-[[Image:2ifu.png|left|200px]]
-{{STRUCTURE_2ifu|  PDB=2ifu  |  SCENE=  }}
+==Crystal Structure of a Gamma-SNAP from Danio rerio==
+<StructureSection load='2ifu' size='340' side='right'caption='[[2ifu]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2ifu]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Brachidanio_rerio Brachidanio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IFU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2IFU FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
+<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">zgc:110177 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7955 Brachidanio rerio])</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=2ifu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ifu OCA], [https://pdbe.org/2ifu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ifu RCSB], [https://www.ebi.ac.uk/pdbsum/2ifu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ifu ProSAT], [https://www.topsan.org/Proteins/CESG/2ifu TOPSAN]</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/if/2ifu_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=2ifu ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Soluble N-ethylmaleimide-sensitive factor attachment protein gamma (gamma-SNAP) is a member of an eukaryotic protein family involved in intracellular membrane trafficking. The X-ray structure of Brachydanio rerio gamma-SNAP was determined to 2.6 A and revealed an all-helical protein comprised of an extended twisted-sheet of helical hairpins with a helical-bundle domain on its carboxy-terminal end. Structural and conformational differences between multiple observed gamma-SNAP molecules and Sec17, a SNAP family protein from yeast, are analyzed. Conformational variation in gamma-SNAP molecules is matched with great precision by the two lowest frequency normal modes of the structure. Comparison of the lowest-frequency modes from gamma-SNAP and Sec17 indicated that the structures share preferred directions of flexibility, corresponding to bending and twisting of the twisted sheet motif. We discuss possible consequences related to the flexibility of the SNAP proteins for the mechanism of the 20S complex disassembly during the SNAP receptors recycling.
-===Crystal Structure of a Gamma-SNAP from Danio rerio===
+Structure and dynamics of gamma-SNAP: insight into flexibility of proteins from the SNAP family.,Bitto E, Bingman CA, Kondrashov DA, McCoy JG, Bannen RM, Wesenberg GE, Phillips GN Jr Proteins. 2008 Jan 1;70(1):93-104. PMID:17634982<ref>PMID:17634982</ref>
-{{ABSTRACT_PUBMED_17634982}}
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
-==About this Structure==
+<div class="pdbe-citations 2ifu" style="background-color:#fffaf0;"></div>
-[[2ifu]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Danio_rerio Danio rerio]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2IFU OCA].
+== References ==
+<references/>
-==Reference==
+__TOC__
-<ref group="xtra">PMID:017634982</ref><references group="xtra"/>
+</StructureSection>
-[[Category: Danio rerio]]
+[[Category: Brachidanio rerio]]
-[[Category: Bingman, C A.]]
+[[Category: Large Structures]]
-[[Category: Bitto, E.]]
+[[Category: Bingman, C A]]
-[[Category: CESG, Center for Eukaryotic Structural Genomics.]]
+[[Category: Bitto, E]]
-[[Category: Mccoy, J G.]]
+[[Category: Structural genomic]]
-[[Category: Phillips, G N.]]
+[[Category: Mccoy, J G]]
-[[Category: Wesenberg, G E.]]
+[[Category: Phillips, G N]]
-[[Category: Center for eukaryotic structural genomic]]
+[[Category: Wesenberg, G E]]
 [[Category: Cesg]]
 [[Category: Endocytosis-exocytosis complex]]
 [[Category: Gamma-snap]]
 [[Category: Membrane fusion]]
-[[Category: Protein structure initiative]]
+[[Category: PSI, Protein structure initiative]]
-[[Category: Psi]]
 [[Category: Snare complex disassembly]]