1nhc: Difference between revisions

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-[[Image:1nhc.gif|left|200px]]<br /><applet load="1nhc" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="1nhc, resolution 1.70&Aring;" />
-'''Structural insights into the processivity of endopolygalacturonase I from Aspergillus niger'''<br />
-==Overview==
+==Structural insights into the processivity of endopolygalacturonase I from Aspergillus niger==
+<StructureSection load='1nhc' size='340' side='right'caption='[[1nhc]], [[Resolution|resolution]] 1.70&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1nhc]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NHC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NHC 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]] 1.7&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=1nhc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nhc OCA], [https://pdbe.org/1nhc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nhc RCSB], [https://www.ebi.ac.uk/pdbsum/1nhc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nhc ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/PGLR1_ASPNG PGLR1_ASPNG] Involved in maceration and soft-rotting of plant tissue. Hydrolyzes the 1,4-alpha glycosidic bonds of de-esterified pectate in the smooth region of the plant cell wall.
+== 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/nh/1nhc_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1nhc ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
 Endopolygalacturonase I is a processive enzyme, while the 60% sequence identical endopolygalacturonase II is not. The 1.70 A resolution crystal structure of endopolygalacturonase I reveals a narrowed substrate binding cleft. In addition, Arg96, a residue in this cleft previously shown to be critical for processivity, interacts with the substrate mimics glycerol and sulfate in several well-defined conformations in the six molecules in the asymmetric unit. From this we conclude that both Arg96 and the narrowed substrate binding cleft contribute to retaining the substrate while it moves through the active site after a cleavage event has occurred.
-==About this Structure==
+Structural insights into the processivity of endopolygalacturonase I from Aspergillus niger.,van Pouderoyen G, Snijder HJ, Benen JA, Dijkstra BW FEBS Lett. 2003 Nov 20;554(3):462-6. PMID:14623112<ref>PMID:14623112</ref>
-NHC is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Aspergillus_niger Aspergillus niger] with <scene name='pdbligand=MAN:'>MAN</scene>, <scene name='pdbligand=NAG:'>NAG</scene>, <scene name='pdbligand=SO4:'>SO4</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Polygalacturonase Polygalacturonase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.15 3.2.1.15] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NHC OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Structural insights into the processivity of endopolygalacturonase I from Aspergillus niger., van Pouderoyen G, Snijder HJ, Benen JA, Dijkstra BW, FEBS Lett. 2003 Nov 20;554(3):462-6. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=14623112 14623112]
+</div>
+<div class="pdbe-citations 1nhc" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
 [[Category: Aspergillus niger]]
-[[Category: Polygalacturonase]]
+[[Category: Large Structures]]
-[[Category: Single protein]]
+[[Category: Benen JA]]
-[[Category: Benen, J A.]]
+[[Category: Dijkstra BW]]
-[[Category: Dijkstra, B W.]]
+[[Category: Snijder HJ]]
-[[Category: Pouderoyen, G van.]]
+[[Category: Van Pouderoyen G]]
-[[Category: Snijder, H J.]]
-[[Category: GOL]]
-[[Category: MAN]]
-[[Category: NAG]]
-[[Category: SO4]]
-[[Category: beta-helix]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:06:10 2008''