3dxr: Difference between revisions

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-{{Seed}}
-[[Image:3dxr.jpg|left|200px]]
-<!--
+==Crystal structure of the yeast inter-membrane space chaperone assembly TIM9.10==
-The line below this paragraph, containing "STRUCTURE_3dxr", creates the "Structure Box" on the page.
+<StructureSection load='3dxr' size='340' side='right'caption='[[3dxr]], [[Resolution|resolution]] 2.50&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'>[[3dxr]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DXR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3DXR 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]] 2.5&#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=3dxr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3dxr OCA], [https://pdbe.org/3dxr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3dxr RCSB], [https://www.ebi.ac.uk/pdbsum/3dxr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3dxr ProSAT]</span></td></tr>
-{{STRUCTURE_3dxr|  PDB=3dxr  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/TIM9_YEAST TIM9_YEAST] Mitochondrial intermembrane chaperone that participates in the import and insertion of multi-pass transmembrane proteins into the mitochondrial inner membrane. Also required for the transfer of beta-barrel precursors from the TOM complex to the sorting and assembly machinery (SAM complex) of the outer membrane. Acts as a chaperone-like protein that protects the hydrophobic precursors from aggregation and guide them through the mitochondrial intermembrane space. Compared to TIM10, it may have a strong structural role.<ref>PMID:10369662</ref> <ref>PMID:10995434</ref> <ref>PMID:11483513</ref> <ref>PMID:11509656</ref> <ref>PMID:12138093</ref> <ref>PMID:12391147</ref> <ref>PMID:14978039</ref> <ref>PMID:16039669</ref> <ref>PMID:9822593</ref> <ref>PMID:9889188</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/dx/3dxr_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=3dxr ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Monitoring Editor: Thomas D. Fox The Tim9-Tim10 complex plays an essential role in mitochondrial protein import by chaperoning select hydrophobic precursor proteins across the intermembrane space. How the complex interacts with precursors is not clear, although it has been proposed that Tim10 acts in substrate recognition, while Tim9 acts in complex stabilization. In this study, we report the structure of the yeast Tim9-Tim10 hexameric assembly determined to 2.5 A and have performed mutational analysis in yeast to evaluate the specific roles of Tim9 and Tim10. Like the human counterparts, each Tim9 and Tim10 subunit contains a central loop flanked by disulfide bonds that separate two extended N- and C-terminal tentacle-like helices. Buried salt-bridges between highly conserved lysine and glutamate residues connect alternating subunits. Mutation of these residues destabilizes the complex, causes defective import of precursor substrates and results in yeast growth defects. Truncation analysis revealed that in the absence of the N-terminal region of Tim9, the hexameric complex is no longer able to efficiently trap incoming substrates even though contacts with Tim10 are still made. We conclude that Tim9 plays an important functional role that includes facilitating the initial steps in translocating precursor substrates into the intermembrane space.
-===Crystal structure of the yeast inter-membrane space chaperone assembly TIM9.10===
+Structural and Functional Requirements for Activity of the Tim9-Tim10 Complex in Mitochondrial Protein Import.,Baker MJ, Webb CT, Stroud DA, Palmer CS, Frazier AE, Guiard B, Chacinska A, Gulbis JM, Ryan MT Mol Biol Cell. 2008 Nov 26. PMID:19037098<ref>PMID:19037098</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_19037098}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 3dxr" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 19037098 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_19037098}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-DXR is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3DXR OCA].
-==Reference==
-Structural and Functional Requirements for Activity of the Tim9-Tim10 Complex in Mitochondrial Protein Import., Baker MJ, Webb CT, Stroud DA, Palmer CS, Frazier AE, Guiard B, Chacinska A, Gulbis JM, Ryan MT, Mol Biol Cell. 2008 Nov 26. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/19037098 19037098]
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Gulbis, J M.]]
+[[Category: Gulbis JM]]
-[[Category: Webb, C T.]]
+[[Category: Webb CT]]
-[[Category: Alpha-propeller]]
-[[Category: Chaperone]]
-[[Category: Helix-turn-helix]]
-[[Category: Inner membrane]]
-[[Category: Intramolecular disulfides.]]
-[[Category: Membrane]]
-[[Category: Metal-binding]]
-[[Category: Mitochondrion]]
-[[Category: Protein transport]]
-[[Category: Translocation]]
-[[Category: Transport]]
-[[Category: Zinc]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 24 11:30:44 2008''