3ldw: Difference between revisions

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 <StructureSection load='3ldw' size='340' side='right'caption='[[3ldw]], [[Resolution|resolution]] 2.47&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3ldw]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Plavs Plavs]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LDW FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3ldw]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Plasmodium_vivax_Sal-1 Plasmodium vivax Sal-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3LDW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3LDW FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</scene></td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.47&#8491;</td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PVX_092040 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=126793 PLAVS])</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=IPE:3-METHYLBUT-3-ENYL+TRIHYDROGEN+DIPHOSPHATE'>IPE</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZOL:ZOLEDRONIC+ACID'>ZOL</scene></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=3ldw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ldw OCA], [https://pdbe.org/3ldw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ldw RCSB], [https://www.ebi.ac.uk/pdbsum/3ldw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ldw ProSAT]</span></td></tr>
 </table>
-<div style="background-color:#fffaf0;">
+== Function ==
-== Publication Abstract from PubMed ==
+[https://www.uniprot.org/uniprot/A5K4U6_PLAVS A5K4U6_PLAVS]
-We present herein a study of a eukaryotic trans-prenylsynthase from the malaria pathogen Plasmodium vivax. Based on the results of biochemical assays and contrary to previous indications, this enzyme catalyzes the production of geranylgeranyl pyrophosphate (GGPP) rather than farnesyl pyrophosphate (FPP). Structural analysis shows that the product length is constrained by a hydrophobic cavity formed primarily by a set of residues from the same subunit as the product as well as at least one other from the dimeric partner. Furthermore, Plasmodium GGPPS can bind nitrogen-containing bisphosphonates (N-BP) strongly with the energetically favorable cooperation of three Mg2+, resulting in inhibition by this class of compounds at IC50 concentrations below 100 nM. In contrast, human and yeast GGPPSs do not accommodate a third magnesium atom in the same manner, resulting in their insusceptibility to N-BPs. This differentiation is in part attributable to a deviation in a conserved motif known as the Second Aspartate-Rich Motif (SARM): whereas the aspartates at the start and end of the five-residue motif in FPPSs and PvGGPPS both participate in the coordination of the third Mg2+, an asparagine is featured as the last residue in human and yeast GGPPSs, resulting in a different manner of interaction with nitrogen-containing ligands.
-Molecular characterization of a novel geranylgeranyl pyrophosphate synthase from Plasmodium parasites.,Artz JD, Wernimont AK, Dunford JE, Schapira M, Dong A, Zhao Y, Lew J, Russell RG, Ebetino FH, Oppermann U, Hui R J Biol Chem. 2010 Nov 17. PMID:21084289<ref>PMID:21084289</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 3ldw" style="background-color:#fffaf0;"></div>
-== References ==
-<references/>
 __TOC__
 </StructureSection>
 [[Category: Large Structures]]
-[[Category: Plavs]]
+[[Category: Plasmodium vivax Sal-1]]
-[[Category: Arrowsmith, C H]]
+[[Category: Arrowsmith CH]]
-[[Category: Artz, J D]]
+[[Category: Artz JD]]
-[[Category: Bochkarev, A]]
+[[Category: Bochkarev A]]
-[[Category: Bountra, C]]
+[[Category: Bountra C]]
-[[Category: Cossar, D]]
+[[Category: Cossar D]]
-[[Category: Edwards, A M]]
+[[Category: Edwards AM]]
-[[Category: Hui, R]]
+[[Category: Hui R]]
-[[Category: Kozieradzki, I]]
+[[Category: Kozieradzki I]]
-[[Category: Lew, J]]
+[[Category: Lew J]]
-[[Category: Structural genomic]]
+[[Category: Schapira M]]
-[[Category: Schapira, M]]
+[[Category: Weigelt J]]
-[[Category: Weigelt, J]]
+[[Category: Wernimont AK]]
-[[Category: Wernimont, A K]]
+[[Category: Zhao Y]]
-[[Category: Zhao, Y]]
-[[Category: Farnesyl pyrophosphate synthase diphosphate]]
-[[Category: Isoprene biosynthesis]]
-[[Category: Lyase]]
-[[Category: Malaria]]
-[[Category: Sgc]]
-[[Category: Transferase]]

3ldw: Difference between revisions

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