1ifq: Difference between revisions

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-[[Image:1ifq.jpg|left|200px]]<br /><applet load="1ifq" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="1ifq, resolution 2.40&Aring;" />
-'''Sec22b N-terminal domain'''<br />
-==Overview==
+==Sec22b N-terminal domain==
-Intra-cellular membrane fusion is facilitated by the association of SNAREs, from opposite membranes into stable alpha-helical bundles. Many SNAREs, in, addition to their alpha-helical regions, contain N-terminal domains that, likely have essential regulatory functions. To better understand this, regulation, we have determined the 2.4-A crystal structure of the, 130-amino acid N-terminal domain of mouse Sec22b (mSec22b), a SNARE, involved in endoplasmic reticulum/Golgi membrane trafficking. The domain, consists of a mixed alpha-helical/beta-sheet fold that resembles a, circular permutation of the actin/poly-proline binding protein, profilin, and the GAF/PAS family of regulatory modules. The structure is distinct, from the previously characterized N-terminal domain of syntaxin 1A, and, unlike syntaxin 1A, the N-terminal domain of mSec22b has no effect on the, rate of SNARE assembly in vitro. An analysis of surface conserved residues, reveals a potential protein interaction site. Key residues in this site, are distinct in two mammalian Sec22 variants that lack SNARE domains., Finally, sequence analysis indicates that a similar domain is likely, present in the endosomal/lysosomal SNARE VAMP7.
+<StructureSection load='1ifq' size='340' side='right'caption='[[1ifq]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1ifq]] is a 2 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=1IFQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1IFQ FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></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=1ifq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ifq OCA], [https://pdbe.org/1ifq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ifq RCSB], [https://www.ebi.ac.uk/pdbsum/1ifq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ifq ProSAT]</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/1ifq_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1ifq ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Intra-cellular membrane fusion is facilitated by the association of SNAREs from opposite membranes into stable alpha-helical bundles. Many SNAREs, in addition to their alpha-helical regions, contain N-terminal domains that likely have essential regulatory functions. To better understand this regulation, we have determined the 2.4-A crystal structure of the 130-amino acid N-terminal domain of mouse Sec22b (mSec22b), a SNARE involved in endoplasmic reticulum/Golgi membrane trafficking. The domain consists of a mixed alpha-helical/beta-sheet fold that resembles a circular permutation of the actin/poly-proline binding protein, profilin, and the GAF/PAS family of regulatory modules. The structure is distinct from the previously characterized N-terminal domain of syntaxin 1A, and, unlike syntaxin 1A, the N-terminal domain of mSec22b has no effect on the rate of SNARE assembly in vitro. An analysis of surface conserved residues reveals a potential protein interaction site. Key residues in this site are distinct in two mammalian Sec22 variants that lack SNARE domains. Finally, sequence analysis indicates that a similar domain is likely present in the endosomal/lysosomal SNARE VAMP7.
-==About this Structure==
+A novel snare N-terminal domain revealed by the crystal structure of Sec22b.,Gonzalez LC Jr, Weis WI, Scheller RH J Biol Chem. 2001 Jun 29;276(26):24203-11. Epub 2001 Apr 17. PMID:11309394<ref>PMID:11309394</ref>
-IFQ is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus] with GOL as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1IFQ OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-A novel snare N-terminal domain revealed by the crystal structure of Sec22b., Gonzalez LC Jr, Weis WI, Scheller RH, J Biol Chem. 2001 Jun 29;276(26):24203-11. Epub 2001 Apr 17. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=11309394 11309394]
+</div>
+<div class="pdbe-citations 1ifq" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Mus musculus]]
-[[Category: Single protein]]
+[[Category: Gonzalez Jr LC]]
-[[Category: Jr., L.C.Gonzalez.]]
+[[Category: Scheller RH]]
-[[Category: Scheller, R.H.]]
+[[Category: Weis WI]]
-[[Category: Weis, W.I.]]
-[[Category: GOL]]
-[[Category: alpha/beta 3-layer sandwich]]
-[[Category: five-stranded anti-parallel beta sheet]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Tue Nov 20 17:22:18 2007''