3tr2: Difference between revisions

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-[[Image:3tr2.jpg|left|200px]]
-<!--
+==Structure of a orotidine 5'-phosphate decarboxylase (pyrF) from Coxiella burnetii==
-The line below this paragraph, containing "STRUCTURE_3tr2", creates the "Structure Box" on the page.
+<StructureSection load='3tr2' size='340' side='right'caption='[[3tr2]], [[Resolution|resolution]] 2.00&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'>[[3tr2]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Coxiella_burnetii Coxiella burnetii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TR2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3TR2 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]] 2.001&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
-{{STRUCTURE_3tr2|  PDB=3tr2  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3tr2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3tr2 OCA], [https://pdbe.org/3tr2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3tr2 RCSB], [https://www.ebi.ac.uk/pdbsum/3tr2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3tr2 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PYRF_COXBU PYRF_COXBU] Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP).[HAMAP-Rule:MF_01200]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Coxiella burnetii is a highly infectious bacterium and potential agent of bioterrorism. However, it has not been studied as extensively as other biological agents, and very few of its proteins have been structurally characterized. To address this situation, we undertook a study of critical metabolic enzymes in C. burnetii that have great potential as drug targets. We used high-throughput techniques to produce novel crystal structures of 48 of these proteins. We selected one protein, C. burnetii dihydrofolate reductase (CbDHFR), for additional work to demonstrate the value of these structures for structure-based drug design. This enzyme's structure reveals a feature in the substrate binding groove that is different between CbDHFR and human dihydrofolate reductase (hDFHR). We then identified a compound by in silico screening that exploits this binding groove difference, and demonstrated that this compound inhibits CbDHFR with at least 25-fold greater potency than hDHFR. Since this binding groove feature is shared by many other prokaryotes, the compound identified could form the basis of a novel antibacterial agent effective against a broad spectrum of pathogenic bacteria. This article is protected by copyright. All rights reserved.
-===Structure of a orotidine 5'-phosphate decarboxylase (pyrF) from Coxiella burnetii===
+Structural Genomics for Drug Design against the Pathogen Coxiella burnetii.,Franklin MC, Cheung J, Rudolph MJ, Burshteyn F, Cassidy M, Gary E, Hillerich B, Yao ZK, Carlier PR, Totrov M, Love JD Proteins. 2015 Jun 1. doi: 10.1002/prot.24841. PMID:26033498<ref>PMID:26033498</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3tr2" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-[[3tr2]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Coxiella_burnetii Coxiella burnetii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3TR2 OCA].
+*[[Uridine 5'-monophosphate synthase 3D structures|Uridine 5'-monophosphate synthase 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Coxiella burnetii]]
-[[Category: Orotidine-5'-phosphate decarboxylase]]
+[[Category: Large Structures]]
-[[Category: Burshteyn, F.]]
+[[Category: Burshteyn F]]
-[[Category: Cassidy, M.]]
+[[Category: Cassidy M]]
-[[Category: Cheung, J.]]
+[[Category: Cheung J]]
-[[Category: Franklin, M.]]
+[[Category: Franklin M]]
-[[Category: Gary, E.]]
+[[Category: Gary E]]
-[[Category: Love, J.]]
+[[Category: Love J]]
-[[Category: Rudolph, M.]]
+[[Category: Rudolph M]]
-[[Category: Lyase]]
-[[Category: Nucleoside]]
-[[Category: Nucleotide]]
-[[Category: Purine]]
-[[Category: Pyrimidine]]