2xpy: Difference between revisions

← Older edit

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

OCA

@@ Line 1: / Line 1: @@
-[[Image:2xpy.png|left|200px]]
-<!--
+==Structure of Native Leukotriene A4 Hydrolase from Saccharomyces cerevisiae==
-The line below this paragraph, containing "STRUCTURE_2xpy", creates the "Structure Box" on the page.
+<StructureSection load='2xpy' size='340' side='right'caption='[[2xpy]], [[Resolution|resolution]] 2.73&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'>[[2xpy]] is a 1 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=2XPY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XPY 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]] 2.73&#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=GSH:GLUTATHIONE'>GSH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-{{STRUCTURE_2xpy|  PDB=2xpy  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2xpy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xpy OCA], [https://pdbe.org/2xpy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xpy RCSB], [https://www.ebi.ac.uk/pdbsum/2xpy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xpy ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/LKHA4_YEAST LKHA4_YEAST] Aminopeptidase that preferentially cleaves tripeptides. Also has low epoxide hydrolase activity (in vitro). Can hydrolyze an epoxide moiety of LTA(4) to form LTB(4) (in vitro).<ref>PMID:10574934</ref> <ref>PMID:11601994</ref> <ref>PMID:16024909</ref> <ref>PMID:16597475</ref> <ref>PMID:21146536</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Vertebrate leukotriene A(4) hydrolases are bifunctional zinc metalloenzymes with an epoxide hydrolase and an aminopeptidase activity. In contrast, highly homologous enzymes from lower organisms only have the aminopeptidase activity. From sequence comparisons, it is not clear why this difference occurs. In order to obtain more information on the evolutionary relationship between these enzymes and their activities, the structure of a closely related leucine aminopeptidase from Saccharomyces cerevisiae that only shows a very low epoxide hydrolase activity was determined. To investigate the molecular architecture of the active site, the structures of both the native protein and the protein in complex with the aminopeptidase inhibitor bestatin were solved. These structures show a more spacious active site, and the protected cavity in which the labile substrate leukotriene A(4) is bound in the human enzyme is partially obstructed and in other parts is more solvent accessible. Furthermore, the enzyme undergoes induced fit upon binding of the inhibitor bestatin, leading to a movement of the C-terminal domain. The main triggers for the domain movement are a conformational change of Tyr312 and a subtle change in backbone conformation of the PYGAMEN fingerprint region for peptide substrate recognition. This leads to a change in the hydrogen-bonding network pulling the C-terminal domain into a different position. Inasmuch as bestatin is a structural analogue of a leucyl dipeptide and may be regarded as a transition state mimic, our results imply that the enzyme undergoes induced fit during substrate binding and turnover.
-===STRUCTURE OF NATIVE LEUKOTRIENE A4 HYDROLASE FROM SACCHAROMYCES CEREVISIAE===
+A Leukotriene A(4) Hydrolase-Related Aminopeptidase from Yeast Undergoes Induced Fit upon Inhibitor Binding.,Helgstrand C, Hasan M, Uysal H, Haeggstrom JZ, Thunnissen MM J Mol Biol. 2010 Dec 10. PMID:21146536<ref>PMID:21146536</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2xpy" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_21146536}}, adds the Publication Abstract to the page
+*[[Leukotriene A4 Hydrolase|Leukotriene A4 Hydrolase]]
-(as it appears on PubMed at http://www.pubmed.gov), where 21146536 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_21146536}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-[[2xpy]] is a 1 chain structure with sequence 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=2XPY OCA].
-==Reference==
-<ref group="xtra">PMID:21146536</ref><references group="xtra"/>
 [[Category: Saccharomyces cerevisiae]]
-[[Category: Haeggstrom, J Z.]]
+[[Category: Haeggstrom JZ]]
-[[Category: Hasan, M.]]
+[[Category: Hasan M]]
-[[Category: Helgstrand, C.]]
+[[Category: Helgstrand C]]
-[[Category: Thunnissen, M M.G M.]]
+[[Category: Thunnissen MMGM]]
-[[Category: Usyal, H.]]
+[[Category: Usyal H]]