1nzc: Difference between revisions

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-{{Seed}}
-[[Image:1nzc.png|left|200px]]
-<!--
+==The high resolution structures of RmlC from Streptococcus suis in complex with dTDP-D-xylose==
-The line below this paragraph, containing "STRUCTURE_1nzc", creates the "Structure Box" on the page.
+<StructureSection load='1nzc' size='340' side='right'caption='[[1nzc]], [[Resolution|resolution]] 1.80&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'>[[1nzc]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Streptococcus_suis Streptococcus suis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NZC OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1NZC 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]] 1.8&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene>, <scene name='pdbligand=TDX:THYMIDINE-5-DIPHOSPHO-BETA-D-XYLOSE'>TDX</scene></td></tr>
-{{STRUCTURE_1nzc|  PDB=1nzc  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1nzc FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1nzc OCA], [https://pdbe.org/1nzc PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1nzc RCSB], [https://www.ebi.ac.uk/pdbsum/1nzc PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1nzc ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/Q8GIQ0_STRSU Q8GIQ0_STRSU]
+== 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/nz/1nzc_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=1nzc ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Nature achieves the epimerization of carbohydrates by a variety of chemical routes. One common route is that performed by the class of enzyme defined by dTDP-6-deoxy-D-xylo-4-hexulose 3,5-epimerase (RmlC) from the rhamnose pathway. Earlier studies failed to identify the key residues in catalysis. We report the 1.3 A structure of RmlC from Streptococcus suis type 2 and its complexes with dTDP-D-glucose and dTDP-D-xylose. The streptococcal RmlC enzymes belong to a separate subgroup, sharing only 25% identity with RmlC from other bacteria, yet the S. suis enzyme has similar kinetic properties and structure to other RmlC enzymes. Structure, sequence alignment, and mutational analysis have now allowed reliable identification of the catalytic residues and their roles.
-===The high resolution structures of RmlC from Streptococcus suis in complex with dTDP-D-xylose===
+High-resolution structures of RmlC from Streptococcus suis in complex with substrate analogs locate the active site of this class of enzyme.,Dong C, Major LL, Allen A, Blankenfeldt W, Maskell D, Naismith JH Structure. 2003 Jun;11(6):715-23. PMID:12791259<ref>PMID:12791259</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 1nzc" style="background-color:#fffaf0;"></div>
-<!--
+==See Also==
-The line below this paragraph, {{ABSTRACT_PUBMED_12791259}}, adds the Publication Abstract to the page
+*[[RmlC|RmlC]]
-(as it appears on PubMed at http://www.pubmed.gov), where 12791259 is the PubMed ID number.
+== References ==
--->
+<references/>
-{{ABSTRACT_PUBMED_12791259}}
+__TOC__
+</StructureSection>
-==About this Structure==
+[[Category: Large Structures]]
-NZC is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Streptococcus_suis Streptococcus suis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1NZC OCA].
-==Reference==
-<ref group="xtra">PMID:12791259</ref><references group="xtra"/>
 [[Category: Streptococcus suis]]
-[[Category: DTDP-4-dehydrorhamnose 3,5-epimerase]]
+[[Category: Allen A]]
-[[Category: Allen, A.]]
+[[Category: Blankenfeldt W]]
-[[Category: Blankenfeldt, W.]]
+[[Category: Dong C]]
-[[Category: Dong, C.]]
+[[Category: Major LL]]
-[[Category: Major, L L.]]
+[[Category: Maskell D]]
-[[Category: Maskell, D.]]
+[[Category: Naismith JH]]
-[[Category: Naismith, J H.]]
-[[Category: Beta sheet]]
-[[Category: Jelly roll-like structure]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:13:56 2009''