2qcx: Difference between revisions

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-[[Image:2qcx.jpg|left|200px]]
- {{Structure
+==Crystal structure of Bacillus subtilis TenA Y112F mutant complexed with formyl aminomethyl pyrimidine==
-|PDB= 2qcx |SIZE=350|CAPTION= <scene name='initialview01'>2qcx</scene>, resolution 2.200&Aring;
+<StructureSection load='2qcx' size='340' side='right'caption='[[2qcx]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
-|SITE= <scene name='pdbsite=AC1:Pf1+Binding+Site+For+Residue+A+300'>AC1</scene> and <scene name='pdbsite=AC2:Pf1+Binding+Site+For+Residue+B+300'>AC2</scene>
+== Structural highlights ==
-|LIGAND= <scene name='pdbligand=PF1:N-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-N-(2-HYDROXYETHYL)FORMAMIDE'>PF1</scene>
+<table><tr><td colspan='2'>[[2qcx]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QCX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2QCX FirstGlance]. <br>
-|ACTIVITY= <span class='plainlinks'>[http://en.wikipedia.org/wiki/Thiaminase Thiaminase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.5.99.2 3.5.99.2] </span>
+</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>
-|GENE= tenA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1423 Bacillus subtilis])
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PF1:N-[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]-N-(2-HYDROXYETHYL)FORMAMIDE'>PF1</scene></td></tr>
-|DOMAIN=
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2qcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qcx OCA], [https://pdbe.org/2qcx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2qcx RCSB], [https://www.ebi.ac.uk/pdbsum/2qcx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2qcx ProSAT]</span></td></tr>
-|RELATEDENTRY=
+</table>
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2qcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2qcx OCA], [http://www.ebi.ac.uk/pdbsum/2qcx PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2qcx RCSB]</span>
+== Function ==
-}}
+[https://www.uniprot.org/uniprot/TENA_BACSU TENA_BACSU] Stimulates the production of several extracellular degradative enzymes at the transcriptional level, probably by interfering with DegS and DegU, which are required for this effect. Is not an essential protein, but affects the sporulation frequency.
+== 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/qc/2qcx_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=2qcx ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+TenA catalyzes the hydrolysis of 4-amino-5-aminomethyl-2-methylpyrimidine and participates in the salvage of base-degraded thiamin. Here, we describe mutagenesis of the active site of TenA guided by structures of the enzyme complexed to a substrate analog and to the product. Catalytic roles for each of the active site residues are identified and a mechanism for the reaction is described.
-'''Crystal structure of Bacillus subtilis TenA Y112F mutant complexed with formyl aminomethyl pyrimidine'''
+Mutagenesis studies on TenA: a thiamin salvage enzyme from Bacillus subtilis.,Jenkins AL, Zhang Y, Ealick SE, Begley TP Bioorg Chem. 2008 Feb;36(1):29-32. Epub 2007 Dec 3. PMID:18054064<ref>PMID:18054064</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2qcx" style="background-color:#fffaf0;"></div>
-==Overview==
+==See Also==
-TenA catalyzes the hydrolysis of 4-amino-5-aminomethyl-2-methylpyrimidine and participates in the salvage of base-degraded thiamin. Here, we describe mutagenesis of the active site of TenA guided by structures of the enzyme complexed to a substrate analog and to the product. Catalytic roles for each of the active site residues are identified and a mechanism for the reaction is described.
+*[[Thiaminase|Thiaminase]]
+*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
-==About this Structure==
+== References ==
-QCX is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QCX OCA].
+<references/>
+__TOC__
-==Reference==
+</StructureSection>
-Mutagenesis studies on TenA: A thiamin salvage enzyme from Bacillus subtilis., Jenkins AL, Zhang Y, Ealick SE, Begley TP, Bioorg Chem. 2008 Feb;36(1):29-32. Epub 2007 Dec 3. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18054064 18054064]
 [[Category: Bacillus subtilis]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Thiaminase]]
+[[Category: Begley TP]]
-[[Category: Begley, T P.]]
+[[Category: Ealick SE]]
-[[Category: Ealick, S E.]]
+[[Category: Jenkins AL]]
-[[Category: Jenkins, A L.]]
+[[Category: Zhang Y]]
-[[Category: Zhang, Y.]]
-[[Category: hydrolase]]
-[[Category: up-down bundle]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:47:49 2008''