4ojx: Difference between revisions

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 <StructureSection load='4ojx' size='340' side='right'caption='[[4ojx]], [[Resolution|resolution]] 1.31&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[4ojx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Baker's_yeast Baker's yeast]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OJX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4OJX FirstGlance]. <br>
+<table><tr><td colspan='2'>[[4ojx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae_S288C Saccharomyces cerevisiae S288C]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4OJX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4OJX FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5GP:GUANOSINE-5-MONOPHOSPHATE'>5GP</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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]] 1.31&#8491;</td></tr>
-<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[4ojv|4ojv]]</div></td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5GP:GUANOSINE-5-MONOPHOSPHATE'>5GP</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">PDE1, YGL248W, NRB369 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=559292 Baker's yeast])</td></tr>
-<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/3',5'-cyclic-nucleotide_phosphodiesterase 3',5'-cyclic-nucleotide phosphodiesterase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.1.4.17 3.1.4.17] </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=4ojx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ojx OCA], [https://pdbe.org/4ojx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ojx RCSB], [https://www.ebi.ac.uk/pdbsum/4ojx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ojx ProSAT]</span></td></tr>
 </table>
 == Function ==
-[[https://www.uniprot.org/uniprot/PDE1_YEAST PDE1_YEAST]] Controls the level of cAMP in yeast cells, together with the high-affinity cAMP phosphodiesterase (PDE2).
+[https://www.uniprot.org/uniprot/PDE1_YEAST PDE1_YEAST] Controls the level of cAMP in yeast cells, together with the high-affinity cAMP phosphodiesterase (PDE2).
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-Cyclic nucleotide phosphodiesterases (PDEs) decompose second messengers cAMP and cGMP that play critical roles in many physiological processes. PDE1 of Saccharomyces cerevisiae has been subcloned and expressed in Escherichia coli. Recombinant yPDE1 has a KM of 110 muM and a kcat of 16.9 s(-1) for cAMP and a KM of 105 muM and a kcat of 11.8 s(-1) for cGMP. Thus, the specificity constant (kcat/KM(cAMP))/(kcat/KM(cGMP)) of 1.4 indicates a dual specificity of yPDE1 for hydrolysis of both cAMP and cGMP. The crystal structures of unliganded yPDE1 and its complex with GMP at 1.31 A resolution reveal a new structural folding that is different from those of human PDEs but is partially similar to that of some other metalloenzymes such as metallo-beta-lactamase. In spite of their different structures and divalent metals, yPDE1 and human PDEs may share a common mechanism for hydrolysis of cAMP and cGMP.
-Dual specificity and novel structural folding of yeast phosphodiesterase-1 for hydrolysis of second messengers cyclic adenosine and guanosine 3',5'-monophosphate.,Tian Y, Cui W, Huang M, Robinson H, Wan Y, Wang Y, Ke H Biochemistry. 2014 Aug 5;53(30):4938-45. doi: 10.1021/bi500406h. Epub 2014 Jul, 22. PMID:25050706<ref>PMID:25050706</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
-<div class="pdbe-citations 4ojx" style="background-color:#fffaf0;"></div>
 ==See Also==
 *[[Phosphodiesterase|Phosphodiesterase]]
 *[[Phosphodiesterase 3D structures|Phosphodiesterase 3D structures]]
-== References ==
-<references/>
 __TOC__
 </StructureSection>
-[[Category: 3',5'-cyclic-nucleotide phosphodiesterase]]
-[[Category: Baker's yeast]]
 [[Category: Large Structures]]
-[[Category: Cui, W]]
+[[Category: Saccharomyces cerevisiae S288C]]
-[[Category: Huang, M]]
+[[Category: Cui W]]
-[[Category: Ke, H]]
+[[Category: Huang M]]
-[[Category: Robinson, H]]
+[[Category: Ke H]]
-[[Category: Tian, Y]]
+[[Category: Robinson H]]
-[[Category: Wan, Y]]
+[[Category: Tian Y]]
-[[Category: Wang, Y]]
+[[Category: Wan Y]]
-[[Category: Cgmp and camp]]
+[[Category: Wang Y]]
-[[Category: Dual specificity]]
-[[Category: Hydrolase]]
-[[Category: Phosphodiesterase]]
-[[Category: Yeast pde]]