3ko8: Difference between revisions

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-{{Seed}}
-[[Image:3ko8.jpg|left|200px]]
-<!--
+==Crystal Structure of UDP-galactose 4-epimerase==
-The line below this paragraph, containing "STRUCTURE_3ko8", creates the "Structure Box" on the page.
+<StructureSection load='3ko8' size='340' side='right'caption='[[3ko8]], [[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'>[[3ko8]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrobaculum_calidifontis_JCM_11548 Pyrobaculum calidifontis JCM 11548]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KO8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KO8 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=NAD:NICOTINAMIDE-ADENINE-DINUCLEOTIDE'>NAD</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
-{{STRUCTURE_3ko8|  PDB=3ko8  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3ko8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ko8 OCA], [https://pdbe.org/3ko8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ko8 RCSB], [https://www.ebi.ac.uk/pdbsum/3ko8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ko8 ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/A3MUJ4_PYRCJ A3MUJ4_PYRCJ]
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The crystal structure of a highly thermostable UDP-galactose 4-epimerase (GalE) from the hyperthermophilic archaeon Pyrobaculum calidifontis was determined at a resolution of 1.8A. The asymmetric unit contained one subunit, and the functional dimer was generated by a crystallographic two-fold axis. Each monomer consisted of a Rossmann-fold domain with NAD bound and a carboxyl terminal domain. The overall structure of P. calidifontis GalE showed significant similarity to the structures of the GalEs from Escherichia coli, human and Trypanosoma brucei. However, the sizes of several surface loops were markedly smaller in P. calidifontis GalE than the corresponding loops in the other enzymes. Structural comparison revealed that the presence of an extensive hydrophobic interaction at the subunit interface is likely the main factor contributing to the hyperthermostability of the P. calidifontis enzyme. Within the NAD-binding site of P. calidifontis GalE, a loop (NAD-binding loop) tightly holds the adenine ribose moiety of NAD. Moreover, a deletion mutant lacking this loop bound NAD in a loose, reversible manner. Thus the presence of the NAD-binding loop in GalE is largely responsible for preventing the release of the cofactor from the holoenzyme.
-===Crystal Structure of UDP-galactose 4-epimerase===
+Crystal structure of UDP-galactose 4-epimerase from the hyperthermophilic archaeon Pyrobaculum calidifontis.,Sakuraba H, Kawai T, Yoneda K, Ohshima T Arch Biochem Biophys. 2011 Aug 15;512(2):126-34. Epub 2011 May 27. PMID:21645492<ref>PMID:21645492</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 3ko8" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-KO8 is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Pyrobaculum_calidifontis Pyrobaculum calidifontis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KO8 OCA].
+*[[UDP-galactose 4-epimerase|UDP-galactose 4-epimerase]]
-[[Category: Pyrobaculum calidifontis]]
+== References ==
-[[Category: UDP-glucose 4-epimerase]]
+<references/>
-[[Category: Kawai, T.]]
+__TOC__
-[[Category: Ohshima, T.]]
+</StructureSection>
-[[Category: Sakuraba, H.]]
+[[Category: Large Structures]]
-[[Category: Yoneda, K.]]
+[[Category: Pyrobaculum calidifontis JCM 11548]]
-[[Category: Isomerase]]
+[[Category: Kawai T]]
-[[Category: Udp-galactose 4-epimerase]]
+[[Category: Ohshima T]]
+[[Category: Sakuraba H]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Nov 18 00:48:53 2010''
+[[Category: Yoneda K]]