6yve: Difference between revisions
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==Glycogen phosphorylase b in complex with pelargonidin 3-O-beta-D-glucoside== | |||
<StructureSection load='6yve' size='340' side='right'caption='[[6yve]], [[Resolution|resolution]] 2.10Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[6yve]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YVE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6YVE 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]] 2.1Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=PLP:PYRIDOXAL-5-PHOSPHATE'>PLP</scene>, <scene name='pdbligand=PUQ:pelargonidin+3-O-beta-D-glucoside'>PUQ</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=6yve FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6yve OCA], [https://pdbe.org/6yve PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6yve RCSB], [https://www.ebi.ac.uk/pdbsum/6yve PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6yve ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/PYGM_RABIT PYGM_RABIT] Phosphorylase is an important allosteric enzyme in carbohydrate metabolism. Enzymes from different sources differ in their regulatory mechanisms and in their natural substrates. However, all known phosphorylases share catalytic and structural properties. | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Anthocyanins (ACNs) are dietary phytochemicals with an acknowledged therapeutic significance. Pomegranate juice (PJ) is a rich source of ACNs with potential applications in nutraceutical development. Glycogen phosphorylase (GP) catalyzes the first step of glycogenolysis and is a molecular target for the development of antihyperglycemics. The inhibitory potential of the ACN fraction of PJ is assessed through a combination of in vitro assays, ex vivo investigation in hepatic cells, and X-ray crystallography studies. The ACN extract potently inhibits muscle and liver isoforms of GP. Affinity crystallography reveals the structural basis of inhibition through the binding of pelargonidin-3-O-glucoside at the GP inhibitor site. The glucopyranose moiety is revealed as a major determinant of potency as it promotes a structural binding mode different from that observed for other flavonoids. This inhibitory effect of the ACN scaffold and its binding mode at the GP inhibitor binding site may have significant implications for future structure-based drug design endeavors. | |||
Affinity Crystallography Reveals Binding of Pomegranate Juice Anthocyanins at the Inhibitor Site of Glycogen Phosphorylase: The Contribution of a Sugar Moiety to Potency and Its Implications to the Binding Mode.,Drakou CE, Gardeli C, Tsialtas I, Alexopoulos S, Mallouchos A, Koulas SM, Tsagkarakou AS, Asimakopoulos D, Leonidas DD, Psarra AG, Skamnaki VT J Agric Food Chem. 2020 Sep 16;68(37):10191-10199. doi: 10.1021/acs.jafc.0c04205., Epub 2020 Sep 7. PMID:32840370<ref>PMID:32840370</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
[[Category: | <div class="pdbe-citations 6yve" style="background-color:#fffaf0;"></div> | ||
[[Category: | |||
[[Category: | ==See Also== | ||
[[Category: | *[[Glycogen phosphorylase 3D structures|Glycogen phosphorylase 3D structures]] | ||
[[Category: | == References == | ||
[[Category: | <references/> | ||
[[Category: | __TOC__ | ||
[[Category: | </StructureSection> | ||
[[Category: | [[Category: Large Structures]] | ||
[[Category: | [[Category: Oryctolagus cuniculus]] | ||
[[Category: Tsagkarakou | [[Category: Alexopoulos S]] | ||
[[Category: Asimakopoulos D]] | |||
[[Category: Drakou CE]] | |||
[[Category: Gardeli C]] | |||
[[Category: Koulas S]] | |||
[[Category: Leonidas DD]] | |||
[[Category: Mallouchos A]] | |||
[[Category: Psarra AM]] | |||
[[Category: Skamnaki VT]] | |||
[[Category: Tsagkarakou A]] | |||
[[Category: Tsialtas I]] | |||
Latest revision as of 16:36, 24 January 2024
Glycogen phosphorylase b in complex with pelargonidin 3-O-beta-D-glucosideGlycogen phosphorylase b in complex with pelargonidin 3-O-beta-D-glucoside
Structural highlights
FunctionPYGM_RABIT Phosphorylase is an important allosteric enzyme in carbohydrate metabolism. Enzymes from different sources differ in their regulatory mechanisms and in their natural substrates. However, all known phosphorylases share catalytic and structural properties. Publication Abstract from PubMedAnthocyanins (ACNs) are dietary phytochemicals with an acknowledged therapeutic significance. Pomegranate juice (PJ) is a rich source of ACNs with potential applications in nutraceutical development. Glycogen phosphorylase (GP) catalyzes the first step of glycogenolysis and is a molecular target for the development of antihyperglycemics. The inhibitory potential of the ACN fraction of PJ is assessed through a combination of in vitro assays, ex vivo investigation in hepatic cells, and X-ray crystallography studies. The ACN extract potently inhibits muscle and liver isoforms of GP. Affinity crystallography reveals the structural basis of inhibition through the binding of pelargonidin-3-O-glucoside at the GP inhibitor site. The glucopyranose moiety is revealed as a major determinant of potency as it promotes a structural binding mode different from that observed for other flavonoids. This inhibitory effect of the ACN scaffold and its binding mode at the GP inhibitor binding site may have significant implications for future structure-based drug design endeavors. Affinity Crystallography Reveals Binding of Pomegranate Juice Anthocyanins at the Inhibitor Site of Glycogen Phosphorylase: The Contribution of a Sugar Moiety to Potency and Its Implications to the Binding Mode.,Drakou CE, Gardeli C, Tsialtas I, Alexopoulos S, Mallouchos A, Koulas SM, Tsagkarakou AS, Asimakopoulos D, Leonidas DD, Psarra AG, Skamnaki VT J Agric Food Chem. 2020 Sep 16;68(37):10191-10199. doi: 10.1021/acs.jafc.0c04205., Epub 2020 Sep 7. PMID:32840370[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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