1uzr: Difference between revisions

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-[[Image:1uzr.jpg|left|200px]]<br /><applet load="1uzr" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="1uzr, resolution 2.20&Aring;" />
-'''CRYSTAL STRUCTURE OF THE CLASS IB RIBONUCLEOTIDE REDUCTASE R2F-2 SUBUNIT FROM MYCOBACTERIUM TUBERCULOSIS'''<br />
-==Overview==
+==Crystal Structure of the Class Ib Ribonucleotide Reductase R2F-2 subunit from Mycobacterium tuberculosis==
-Two nrdF genes of Mycobacterium tuberculosis code for different R2, subunits of the class Ib ribonucleotide reductase (RNR). The proteins are, denoted R2F-1 and R2F-2 having 71% sequence identity. The R2F-2 subunit, forms the biologically active RNR complex with the catalytic R1E-subunit., We present the structure of the reduced R2F-2 subunit to 2.2 A resolution., Comparison of the R2F-2 structure with a model of R2F-1 suggests that the, important differences are located at the C-terminus. We found that within, class Ib, the E-helix close to the iron diiron centre has two preferred, conformations, which cannot be explained by the redox-state of the diiron, centre. In the R2F-2 structure, we also could see a mobility of alphaE in, between the two conformations.
+<StructureSection load='1uzr' size='340' side='right'caption='[[1uzr]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1uzr]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UZR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UZR FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=FE:FE+(III)+ION'>FE</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=1uzr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uzr OCA], [https://pdbe.org/1uzr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uzr RCSB], [https://www.ebi.ac.uk/pdbsum/1uzr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uzr ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/RIR2B_MYCTU RIR2B_MYCTU] Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides. Two genes for this protein are present in M.tuberculosis; this is the active form. When coexpressed in E.coli with nrdE the 2 proteins complement a temperature-sensitive E.coli mutant.<ref>PMID:9335290</ref>
+== 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/uz/1uzr_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=1uzr ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Two nrdF genes of Mycobacterium tuberculosis code for different R2 subunits of the class Ib ribonucleotide reductase (RNR). The proteins are denoted R2F-1 and R2F-2 having 71% sequence identity. The R2F-2 subunit forms the biologically active RNR complex with the catalytic R1E-subunit. We present the structure of the reduced R2F-2 subunit to 2.2 A resolution. Comparison of the R2F-2 structure with a model of R2F-1 suggests that the important differences are located at the C-terminus. We found that within class Ib, the E-helix close to the iron diiron centre has two preferred conformations, which cannot be explained by the redox-state of the diiron centre. In the R2F-2 structure, we also could see a mobility of alphaE in between the two conformations.
-==About this Structure==
+Crystal structure of the biologically active form of class Ib ribonucleotide reductase small subunit from Mycobacterium tuberculosis.,Uppsten M, Davis J, Rubin H, Uhlin U FEBS Lett. 2004 Jul 2;569(1-3):117-22. PMID:15225619<ref>PMID:15225619</ref>
-UZR is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Mycobacterium_tuberculosis Mycobacterium tuberculosis] with <scene name='pdbligand=FE:'>FE</scene>, <scene name='pdbligand=CIT:'>CIT</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Ribonucleoside-diphosphate_reductase Ribonucleoside-diphosphate reductase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.17.4.1 1.17.4.1] Known structural/functional Site: <scene name='pdbsite=AC1:Gol+Binding+Site+For+Chain+C'>AC1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UZR OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Crystal structure of the biologically active form of class Ib ribonucleotide reductase small subunit from Mycobacterium tuberculosis., Uppsten M, Davis J, Rubin H, Uhlin U, FEBS Lett. 2004 Jul 2;569(1-3):117-22. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15225619 15225619]
+</div>
+<div class="pdbe-citations 1uzr" style="background-color:#fffaf0;"></div>
+==See Also==
+*[[Ribonucleotide reductase 3D structures|Ribonucleotide reductase 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Mycobacterium tuberculosis]]
-[[Category: Ribonucleoside-diphosphate reductase]]
+[[Category: Davis J]]
-[[Category: Single protein]]
+[[Category: Rubin H]]
-[[Category: Davis, J.]]
+[[Category: Uhlin U]]
-[[Category: Rubin, H.]]
+[[Category: Uppsten M]]
-[[Category: Uhlin, U.]]
-[[Category: Uppsten, M.]]
-[[Category: CIT]]
-[[Category: FE]]
-[[Category: GOL]]
-[[Category: r2f-2]]
-[[Category: radical generation]]
-[[Category: ribonucleotide reductase]]
-[[Category: small subunit]]
-[[Category: tuberculosis]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Feb  3 10:13:07 2008''