1u9y: Difference between revisions

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 ==Crystal Structure of Phosphoribosyl Diphosphate Synthase from Methanocaldococcus jannaschii==
-<StructureSection load='1u9y' size='340' side='right' caption='[[1u9y]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
+<StructureSection load='1u9y' size='340' side='right'caption='[[1u9y]], [[Resolution|resolution]] 2.65&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[1u9y]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_43067 Atcc 43067]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U9Y OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1U9Y FirstGlance]. <br>
+<table><tr><td colspan='2'>[[1u9y]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Methanocaldococcus_jannaschii Methanocaldococcus jannaschii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1U9Y OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1U9Y FirstGlance]. <br>
-</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">prs ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2190 ATCC 43067])</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.65&#8491;</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Ribose-phosphate_diphosphokinase Ribose-phosphate diphosphokinase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.6.1 2.7.6.1] </span></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=1u9y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u9y OCA], [https://pdbe.org/1u9y PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1u9y RCSB], [https://www.ebi.ac.uk/pdbsum/1u9y PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1u9y ProSAT]</span></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1u9y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u9y OCA], [http://pdbe.org/1u9y PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1u9y RCSB], [http://www.ebi.ac.uk/pdbsum/1u9y PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1u9y ProSAT]</span></td></tr>
 </table>
+== Function ==
+[https://www.uniprot.org/uniprot/KPRS_METJA KPRS_METJA]
 == Evolutionary Conservation ==
 [[Image:Consurf_key_small.gif|200px|right]]
@@ Line 18: / Line 19: @@
 </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=1u9y ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-The prs gene encoding phosphoribosyl diphosphate (PRPP) synthase of the hyperthermophilic autotrophic methanogenic archaeon Methanocaldococcus jannaschii has been cloned and expressed in Escherichia coli. Subsequently, M.jannaschii PRPP synthase has been purified, characterised, crystallised, and the crystal structure determined. The enzyme is activated by phosphate ions and only ATP or dATP serve as diphosphoryl donors. The K(m) values are determined as 2.6 mM and 2.8 mM for ATP and ribose 5-phosphate, respectively, and the V(max) value as 2.20 mmol (minxmg of protein)(-1). ADP is a potent inhibitor of activity while GDP has no effect. A single ADP binding site, the active site, is present per subunit. The crystal structure of the enzyme reveals a more compact subunit than that of the enzyme from the mesophile Bacillus subtilis, caused by truncations at the N and C terminus as well as shorter loops in the M.jannaschii enzyme. The M.jannaschii enzyme displays a tetrameric quaternary structure in contrast to the hexameric quaternary structure of B.subtilis PRPP synthase. Soaking of the crystals with 5'-AMP and PRPP revealed the position of the former compound as well as that of ribose 5-phosphate. The properties of M.jannaschii PRPP synthase differ widely from previously characterised PRPP synthases by its tetrameric quaternary structure and the simultaneous phosphate ion-activation and lack of allosteric inhibition, and, thus, constitute a novel class of PRPP synthases.
-Novel class III phosphoribosyl diphosphate synthase: structure and properties of the tetrameric, phosphate-activated, non-allosterically inhibited enzyme from Methanocaldococcus jannaschii.,Kadziola A, Jepsen CH, Johansson E, McGuire J, Larsen S, Hove-Jensen B J Mol Biol. 2005 Dec 9;354(4):815-28. Epub 2005 Oct 18. PMID:16288921<ref>PMID:16288921</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 1u9y" style="background-color:#fffaf0;"></div>
-== References ==
-<references/>
 __TOC__
 </StructureSection>
-[[Category: Atcc 43067]]
+[[Category: Large Structures]]
-[[Category: Ribose-phosphate diphosphokinase]]
+[[Category: Methanocaldococcus jannaschii]]
-[[Category: Hove-Jensen, B]]
+[[Category: Hove-Jensen B]]
-[[Category: Jepsen, C H]]
+[[Category: Jepsen CH]]
-[[Category: Johansson, E]]
+[[Category: Johansson E]]
-[[Category: Kadziola, A]]
+[[Category: Kadziola A]]
-[[Category: Larsen, S]]
+[[Category: Larsen S]]
-[[Category: McGuire, J]]
+[[Category: McGuire J]]
-[[Category: Prpp synthase]]
-[[Category: Transferase]]