2vz0: Difference between revisions

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

OCA

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-[[Image:2vz0.png|left|200px]]
-<!--
+==Pteridine Reductase 1 (PTR1) from Trypanosoma Brucei in complex with NADP and DDD00066641==
-The line below this paragraph, containing "STRUCTURE_2vz0", creates the "Structure Box" on the page.
+<StructureSection load='2vz0' size='340' side='right'caption='[[2vz0]], [[Resolution|resolution]] 1.90&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'>[[2vz0]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VZ0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2VZ0 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]] 1.9&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=D64:6-(4-METHYLPHENYL)QUINAZOLINE-2,4-DIAMINE'>D64</scene>, <scene name='pdbligand=NAP:NADP+NICOTINAMIDE-ADENINE-DINUCLEOTIDE+PHOSPHATE'>NAP</scene></td></tr>
-{{STRUCTURE_2vz0|  PDB=2vz0  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2vz0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2vz0 OCA], [https://pdbe.org/2vz0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2vz0 RCSB], [https://www.ebi.ac.uk/pdbsum/2vz0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2vz0 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/O76290_TRYBB O76290_TRYBB]
+== 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/vz/2vz0_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=2vz0 ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Activity of the pterin- and folate-salvaging enzymes pteridine reductase 1 (PTR1) and dihydrofolate reductase-thymidylate synthetase (DHFR-TS) is commonly measured as a decrease in absorbance at 340 nm, corresponding to oxidation of nicotinamide adenine dinucleotide phosphate (NADPH). Although this assay has been adequate to study the biology of these enzymes, it is not amenable to support any degree of routine inhibitor assessment because its restricted linearity is incompatible with enhanced throughput microtiter plate screening. In this article, we report the development and validation of a nonenzymatically coupled screening assay in which the product of the enzymatic reaction reduces cytochrome c, causing an increase in absorbance at 550 nm. We demonstrate this assay to be robust and accurate, and we describe its utility in supporting a structure-based design, small-molecule inhibitor campaign against Trypanosoma brucei PTR1 and DHFR-TS.
-===PTERIDINE REDUCTASE 1 (PTR1) FROM TRYPANOSOMA BRUCEI IN COMPLEX WITH NADP AND DDD00066641===
+Development and validation of a cytochrome c-coupled assay for pteridine reductase 1 and dihydrofolate reductase.,Shanks EJ, Ong HB, Robinson DA, Thompson S, Sienkiewicz N, Fairlamb AH, Frearson JA Anal Biochem. 2010 Jan 15;396(2):194-203. Epub 2009 Sep 11. PMID:19748480<ref>PMID:19748480</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2vz0" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_19748480}}, adds the Publication Abstract to the page
+*[[Pteridine reductase|Pteridine reductase]]
-(as it appears on PubMed at http://www.pubmed.gov), where 19748480 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_19748480}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-[[2vz0]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Trypanosoma_brucei_brucei Trypanosoma brucei brucei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2VZ0 OCA].
-==Reference==
-<ref group="xtra">PMID:019748480</ref><ref group="xtra">PMID:016968221</ref><references group="xtra"/>
-[[Category: Pteridine reductase]]
 [[Category: Trypanosoma brucei brucei]]
-[[Category: Fairlamb, A H.]]
+[[Category: Fairlamb AH]]
-[[Category: Robinson, D A.]]
+[[Category: Robinson DA]]
-[[Category: Sienkiewicz, N.]]
+[[Category: Sienkiewicz N]]
-[[Category: Thompson, S.]]
+[[Category: Thompson S]]
-[[Category: Oxidoreductase]]
-[[Category: Pteridine reductase]]
-[[Category: Short-chain dehydrogenase/reductase]]
-[[Category: Trypanosomatid]]