1ump: Difference between revisions

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-[[Image:1ump.png|left|200px]]
-<!--
+==GEOMETRY OF TRITERPENE CONVERSION TO PENTACARBOCYCLIC HOPENE==
-The line below this paragraph, containing "STRUCTURE_1ump", creates the "Structure Box" on the page.
+<StructureSection load='1ump' size='340' side='right'caption='[[1ump]], [[Resolution|resolution]] 2.13&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'>[[1ump]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Alicyclobacillus_acidocaldarius Alicyclobacillus acidocaldarius]. The December 2007 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Oxidosqualene Cyclase''  by David S. Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2007_12 10.2210/rcsb_pdb/mom_2007_12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UMP OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UMP 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]] 2.13&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=C8E:(HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE'>C8E</scene>, <scene name='pdbligand=SQA:2-AZASQUALENE'>SQA</scene></td></tr>
-{{STRUCTURE_1ump|  PDB=1ump  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1ump FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ump OCA], [https://pdbe.org/1ump PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1ump RCSB], [https://www.ebi.ac.uk/pdbsum/1ump PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1ump ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/SQHC_ALIAD SQHC_ALIAD] Catalyzes the cyclization of squalene into hopene.
+== 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/um/1ump_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=1ump ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The membrane protein squalene-hopene cyclase was cocrystallized with 2-azasqualene and analyzed by X-ray diffraction to 2.13 A resolution. The conformation of this close analog was clearly established, and it agreed with the common textbook presentation. The bound squalene undergoes only small conformational changes during the formation of rings A through D, thus requiring no intermediate. However, ring E formation is hindered by an entropic barrier, which may explain its absence in the steroids. The structure analysis revealed a mobile region between the active center cavity and the membrane, which may melt, opening a passage for squalene and hopene.
-===GEOMETRY OF TRITERPENE CONVERSION TO PENTACARBOCYCLIC HOPENE===
+Conversion of squalene to the pentacarbocyclic hopene.,Reinert DJ, Balliano G, Schulz GE Chem Biol. 2004 Jan;11(1):121-6. PMID:15113001<ref>PMID:15113001</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1ump" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_15113001}}, adds the Publication Abstract to the page
+*[[Squalene-hopene cyclase|Squalene-hopene cyclase]]
-(as it appears on PubMed at http://www.pubmed.gov), where 15113001 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_15113001}}
+__TOC__
+</StructureSection>
-==About this Structure==
-[[1ump]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Alicyclobacillus_acidocaldarius Alicyclobacillus acidocaldarius]. The December 2007 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''Oxidosqualene Cyclase''  by David S. Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2007_12 10.2210/rcsb_pdb/mom_2007_12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UMP OCA].
-==Reference==
-<ref group="xtra">PMID:15113001</ref><ref group="xtra">PMID:12031670</ref><ref group="xtra">PMID:9931258</ref><ref group="xtra">PMID:9295270</ref><ref group="xtra">PMID:9070455</ref><references group="xtra"/>
 [[Category: Alicyclobacillus acidocaldarius]]
+[[Category: Large Structures]]
 [[Category: Oxidosqualene Cyclase]]
 [[Category: RCSB PDB Molecule of the Month]]
-[[Category: Squalene--hopene cyclase]]
+[[Category: Balliano G]]
-[[Category: Balliano, G.]]
+[[Category: Reinert DJ]]
-[[Category: Reinert, D J.]]
+[[Category: Schulz GE]]
-[[Category: Schulz, G E.]]
-[[Category: Cholesterol biosynthesis]]
-[[Category: Isomerase]]
-[[Category: Monotopic membrane protein]]
-[[Category: Oxidosqualene cyclase]]
-[[Category: Triterpene cyclase]]