View source for 5z3b


==Glycosidase Y48F==
<StructureSection load='5z3b' size='340' side='right'caption='[[5z3b]], [[Resolution|resolution]] 1.25&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[5z3b]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Kribbella_flavida_DSM_17836 Kribbella flavida DSM 17836]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5Z3B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5Z3B 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]] 1.25&#8491;</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=5z3b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5z3b OCA], [https://pdbe.org/5z3b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5z3b RCSB], [https://www.ebi.ac.uk/pdbsum/5z3b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5z3b ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/IMGH_KRIFD IMGH_KRIFD] Involved in the intracellular degradation of the cyclic tetrasaccharide cyclobis-(1-6)-alpha-nigerosyl (CNN) formed extracellularly from starch. Catalyzes the hydrolysis of alpha-1,6-glucosidic linkage from the non-reducing end of isomaltose to yield beta-D-glucose and D-glucose. Can also act on panose and isomaltotriose at a lower rate. It displays low or no activity toward CNN and the general GH15 enzyme substrates such as maltose, soluble starch or dextran.<ref>PMID:27302067</ref> 
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Glycoside hydrolase family 15 (GH15) inverting enzymes contain two glutamate residues functioning as a general acid catalyst and a general base catalyst, for isomaltose glucohydrolase (IGHase), Glu178 and Glu335, respectively. Generally, a two-catalytic residue-mediated reaction exhibits a typical bell-shaped pH-activity curve. However, IGHase is found to display atypical non-bell-shaped pH-kcat and pH-kcat /Km profiles, theoretically better-fitted to a three-catalytic residue-associated pH-activity curve. We determined the crystal structure of IGHase by the single-wavelength anomalous dispersion method using sulfur atoms and the cocrystal structure of a catalytic base mutant E335A with isomaltose. Although the activity of E335A was undetectable, the electron density observed in its active site pocket did not correspond to an isomaltose but a glycerol and a beta-glucose, cryoprotectant, and hydrolysis product. Our structural and biochemical analyses of several mutant enzymes suggest that Tyr48 acts as a second catalytic base catalyst. Y48F mutant displayed almost equivalent specific activity to a catalytic acid mutant E178A. Tyr48, highly conserved in all GH15 members, is fixed by another Tyr residue in many GH15 enzymes; the latter Tyr is replaced by Phe290 in IGHase. The pH profile of F290Y mutant changed to a bell-shaped curve, suggesting that Phe290 is a key residue distinguishing Tyr48 of IGHase from other GH15 members. Furthermore, F290Y is found to accelerate the condensation of isomaltose from glucose by modifying a hydrogen-bonding network between Tyr290-Tyr48-Glu335. The present study indicates that the atypical Phe290 makes Tyr48 of IGHase unique among GH15 enzymes.

Structural insights reveal the second base catalyst of isomaltose glucohydrolase.,Tagami T, Chen M, Furunaga Y, Kikuchi A, Sadahiro J, Lang W, Okuyama M, Tanaka Y, Iwasaki T, Yao M, Kimura A FEBS J. 2022 Feb;289(4):1118-1134. doi: 10.1111/febs.16237. Epub 2021 Oct 30. PMID:34665923<ref>PMID:34665923</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5z3b" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Kribbella flavida DSM 17836]]
[[Category: Large Structures]]
[[Category: Chen M]]
[[Category: Kimura A]]
[[Category: Tagami T]]
[[Category: Tanaka Y]]
[[Category: Yao M]]