1ya7: Difference between revisions

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-[[Image:1ya7.png|left|200px]]
-<!--
+==Implications for interactions of proteasome with PAN and PA700 from the 1.9 A structure of a proteasome-11S activator complex==
-The line below this paragraph, containing "STRUCTURE_1ya7", creates the "Structure Box" on the page.
+<StructureSection load='1ya7' size='340' side='right'caption='[[1ya7]], [[Resolution|resolution]] 2.30&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'>[[1ya7]] is a 21 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum] and [https://en.wikipedia.org/wiki/Trypanosoma_brucei Trypanosoma brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YA7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1YA7 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]] 2.3&#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=SO4:SULFATE+ION'>SO4</scene></td></tr>
-{{STRUCTURE_1ya7|  PDB=1ya7  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ya7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ya7 OCA], [https://pdbe.org/1ya7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ya7 RCSB], [https://www.ebi.ac.uk/pdbsum/1ya7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ya7 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PSA_THEAC PSA_THEAC] Component of the proteasome core, a large protease complex with broad specificity involved in protein degradation. The T.acidophilum proteasome is able to cleave oligopeptides after Tyr, Leu, Phe, and to a lesser extent after Glu and Arg. Thus, displays chymotrypsin-like activity and low level of caspase-like and trypsin-like activities.<ref>PMID:8999862</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/ya/1ya7_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=1ya7 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Proteasomes are cylindrical structures that function in multiple cellular processes by degrading a wide variety of cytosolic and nuclear proteins. Substrate access and product release from the enclosed catalytic chamber occurs through axial pores that are opened by activator complexes. Here, we report high-resolution structures of wild-type and mutant archaeal proteasomes bound to the activator PA26. These structures support the proposal that an ordered open conformation is required for proteolysis and that its formation can be triggered by outward displacement of surrounding residues. The structures and associated biochemical assays reveal the mechanism of binding, which involves an interaction between the PA26 C terminus and a conserved lysine. Surprisingly, biochemical observations implicate an equivalent interaction for the unrelated ATP-dependent activators PAN and PA700.
-===Implications for interactions of proteasome with PAN and PA700 from the 1.9 A structure of a proteasome-11S activator complex===
+The 1.9 A structure of a proteasome-11S activator complex and implications for proteasome-PAN/PA700 interactions.,Forster A, Masters EI, Whitby FG, Robinson H, Hill CP Mol Cell. 2005 May 27;18(5):589-99. PMID:15916965<ref>PMID:15916965</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_15916965}}, adds the Publication Abstract to the page
+<div class="pdbe-citations 1ya7" style="background-color:#fffaf0;"></div>
-(as it appears on PubMed at http://www.pubmed.gov), where 15916965 is the PubMed ID number.
--->
-{{ABSTRACT_PUBMED_15916965}}
-==About this Structure==
-[[1ya7]] is a 21 chain structure of [[Proteasome]] with sequence from [http://en.wikipedia.org/wiki/Thermoplasma_acidophilum Thermoplasma acidophilum] and [http://en.wikipedia.org/wiki/Trypanosoma_brucei Trypanosoma brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YA7 OCA].
 ==See Also==
-*[[Proteasome]]
+*[[Proteasome 3D structures|Proteasome 3D structures]]
+== References ==
-==Reference==
+<references/>
-<ref group="xtra">PMID:15916965</ref><references group="xtra"/>
+__TOC__
-[[Category: Proteasome endopeptidase complex]]
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Thermoplasma acidophilum]]
 [[Category: Trypanosoma brucei]]
-[[Category: Forster, A.]]
+[[Category: Forster A]]
-[[Category: Hill, C P.]]
+[[Category: Hill CP]]
-[[Category: Masters, E I.]]
+[[Category: Masters EI]]
-[[Category: Robinson, H.]]
+[[Category: Robinson H]]
-[[Category: Whitby, F G.]]
+[[Category: Whitby FG]]
-[[Category: Archaeal proteasome]]
-[[Category: Copmlex]]
-[[Category: Hydrolase/hydrolase activator complex]]
-[[Category: Open gate]]
-[[Category: Pa26]]