1oc4: Difference between revisions

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-{{Seed}}
-[[Image:1oc4.png|left|200px]]
-<!--
+==Lactate dehydrogenase from Plasmodium berghei==
-The line below this paragraph, containing "STRUCTURE_1oc4", creates the "Structure Box" on the page.
+<StructureSection load='1oc4' size='340' side='right'caption='[[1oc4]], [[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'>[[1oc4]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_berghei Plasmodium berghei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OC4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OC4 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=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=OXM:OXAMIC+ACID'>OXM</scene></td></tr>
-{{STRUCTURE_1oc4|  PDB=1oc4  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1oc4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1oc4 OCA], [https://pdbe.org/1oc4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1oc4 RCSB], [https://www.ebi.ac.uk/pdbsum/1oc4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1oc4 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/LDH_PLABA LDH_PLABA]
+== 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/oc/1oc4_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=1oc4 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+As Plasmodium rely extensively on homolactic fermentation for energy production, Plasmodium falciparum lactate dehydrogenase (PfLDH)--the key enzyme in this process--has previously been suggested as a novel target for antimalarials. This enzyme has distinctive kinetic and structural properties that distinguish it from its human homologues. In this study, we now describe the expression, kinetic characterisation and crystal structure determination of the LDH from Plasmodium berghei. This enzyme is seen to have a similar kinetic profile to its P. falciparum counterpart, exhibiting the characteristic lack of substrate inhibition that distinguishes plasmodial from human LDHs. The crystal structure of P. berghei lactate dehydrogenase (PbLDH) shows a very similar active site arrangement to the P. falciparum enzyme. In particular, an insertion of five amino acid residues in the active site loop creates an enlarged volume in the substrate binding site, and characteristic changes in the residues lining the NADH cofactor binding pocket result in displacement of the cofactor relative to its observed position in mammalian and all other LDH structures. These results imply the special features previously described for PfLDH may be shared across the Plasmodium genus, supporting the universal application of therapeutics targeting this enzyme.
-===LACTATE DEHYDROGENASE FROM PLASMODIUM BERGHEI===
+Crystal structure of Plasmodium berghei lactate dehydrogenase indicates the unique structural differences of these enzymes are shared across the Plasmodium genus.,Winter VJ, Cameron A, Tranter R, Sessions RB, Brady RL Mol Biochem Parasitol. 2003 Sep;131(1):1-10. PMID:12967707<ref>PMID:12967707</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1oc4" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_12967707}}, adds the Publication Abstract to the page
+*[[Lactate dehydrogenase 3D structures|Lactate dehydrogenase 3D structures]]
-(as it appears on PubMed at http://www.pubmed.gov), where 12967707 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12967707}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-OC4 is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Plasmodium_berghei Plasmodium berghei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OC4 OCA].
-==Reference==
-<ref group="xtra">PMID:12967707</ref><references group="xtra"/>
-[[Category: L-lactate dehydrogenase]]
 [[Category: Plasmodium berghei]]
-[[Category: Brady, L.]]
+[[Category: Brady RL]]
-[[Category: Winter, V.]]
+[[Category: Winter VJ]]
-[[Category: Glycolysis]]
-[[Category: Interconversion of pyruvate and lactate]]
-[[Category: Lactate dehydrogenase]]
-[[Category: Oxidoreductase]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Feb 18 09:49:29 2009''