4xqm: Difference between revisions

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 4xqm is ON HOLD
+==Crystal structure of the MRH domain of Glucosidase II beta bound to mannose==
+<StructureSection load='4xqm' size='340' side='right'caption='[[4xqm]], [[Resolution|resolution]] 1.62&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[4xqm]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Schizosaccharomyces_pombe_972h- Schizosaccharomyces pombe 972h-]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4XQM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4XQM 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]] 1.625&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</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=4xqm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4xqm OCA], [https://pdbe.org/4xqm PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4xqm RCSB], [https://www.ebi.ac.uk/pdbsum/4xqm PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4xqm ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/GLU2B_SCHPO GLU2B_SCHPO] Subunit of glucosidase 2, which cleaves sequentially the 2 innermost alpha-1,3-linked glucose residues from the Glc(2)Man(9)GlcNAc(2) oligosaccharide precursor of immature glycoproteins in the endoplasmic reticulum (ER). Specifically required for the cleavage of the final glucose. The subunit beta retains the catalytic subunit alpha in the ER.<ref>PMID:10464333</ref> <ref>PMID:19605557</ref> <ref>PMID:21471007</ref>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+N-Glycans are modified as part of a quality control mechanism during glycoprotein folding in the endoplasmic reticulum (ER). Glucosidase II (GII) plays a critical role by generating monoglucosylated glycans that are recognized by lectin chaperones, calnexin and calreticulin. To understand how the hydrolytic activity of GIIalpha is enhanced by the mannose 6-phosphate receptor (MPR) homology domain (MRH domain) of its beta subunit, we now report a 1.6 A resolution crystal structure of the MRH domain of GIIbeta bound to mannose. A comparison of ligand-bound and unbound structures reveals no major difference in their overall fold, but rather a repositioning of side chains throughout the binding pocket, including Y372. Mutation of Y372 inhibits GII activity, demonstrating an important role for Y372 in regulating GII activity. Comparison of the MRH domains of GIIbeta, MPRs, and the ER lectin OS-9 identified conserved residues that are critical for the structural integrity and architecture of the carbohydrate binding pocket. As shown by nuclear magnetic resonance spectroscopy, mutations of the primary binding pocket residues and adjacent W409, all of which inhibit the activity of GII both in vitro and in vivo, do not cause a significant change in the overall fold of the GIIbeta MRH domain but impact locally the stability of the binding pocket. W409 does not directly contact mannose; rather, its indole ring is stabilized by binding into a hydrophobic pocket of an adjacent crystallographic neighbor. This suggests that W409 interacts with a hydrophobic region of the GIIbeta or GIIalpha subunit to modulate its effect on GII activity.
-Authors: Olson, L.J., Dahms, N.M., Kim, J.-J.P.
+Crystal Structure and Functional Analyses of the Lectin Domain of Glucosidase II: Insights into Oligomannose Recognition.,Olson LJ, Orsi R, Peterson FC, Parodi AJ, Kim JJ, D'Alessio C, Dahms NM Biochemistry. 2015 Jul 7;54(26):4097-111. doi: 10.1021/acs.biochem.5b00256. Epub , 2015 Jun 24. PMID:26062005<ref>PMID:26062005</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Kim, J.-J.P]]
+<div class="pdbe-citations 4xqm" style="background-color:#fffaf0;"></div>
-[[Category: Olson, L.J]]
-[[Category: Dahms, N.M]]
+==See Also==
+*[[Alpha-glucosidase 3D structures|Alpha-glucosidase 3D structures]]
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
+[[Category: Schizosaccharomyces pombe 972h-]]
+[[Category: Dahms NM]]
+[[Category: Kim J-JP]]
+[[Category: Olson LJ]]