7d6b
From Proteopedia
(Difference between revisions)
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<StructureSection load='7d6b' size='340' side='right'caption='[[7d6b]], [[Resolution|resolution]] 2.10Å' scene=''> | <StructureSection load='7d6b' size='340' side='right'caption='[[7d6b]], [[Resolution|resolution]] 2.10Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
| - | <table><tr><td colspan='2'> | + | <table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7D6B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7D6B 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> | </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=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LGC:(3S,4R,5R,6S)-3,4,5-TRIHYDROXY-6-(HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-2-ONE'>LGC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=LGC:(3S,4R,5R,6S)-3,4,5-TRIHYDROXY-6-(HYDROXYMETHYL)TETRAHYDRO-2H-PYRAN-2-ONE'>LGC</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7d6b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d6b OCA], [https://pdbe.org/7d6b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d6b RCSB], [https://www.ebi.ac.uk/pdbsum/7d6b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d6b ProSAT]</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=7d6b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7d6b OCA], [https://pdbe.org/7d6b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7d6b RCSB], [https://www.ebi.ac.uk/pdbsum/7d6b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7d6b ProSAT]</span></td></tr> | ||
</table> | </table> | ||
| - | == Function == | ||
| - | [https://www.uniprot.org/uniprot/BGL18_ORYSJ BGL18_ORYSJ] Hydrolyzes glycosides and monolignol glucosides (PubMed:25219312). Can hydrolyze para-nitrophenyl beta-D-glucopyranoside (pNPGlc) in vitro (PubMed:23811195, PubMed:25219312). Hydrolyzes para-nitrophenyl beta-D-fucopyranoside, para-nitrophenyl beta-D-galactopyranoside and para-nitrophenyl beta-D-xylopyranoside in vitro (PubMed:25219312). Hydrolyzes the monolignol glucosides coniferin and syringin with high catalytic efficiencies (PubMed:25219312).<ref>PMID:23811195</ref> <ref>PMID:25219312</ref> | ||
| - | <div style="background-color:#fffaf0;"> | ||
| - | == Publication Abstract from PubMed == | ||
| - | Monolignol glucosides are storage forms of monolignols, which are polymerized to lignin to strengthen plant cell walls. The conversion of monolignol glucosides to monolignols is catalyzed by monolignol beta-glucosidases. Rice Os4BGlu18 beta-glucosidase catalyzes hydrolysis of the monolignol glucosides, coniferin, syringin, and p-coumaryl alcohol glucoside more efficiently than other natural substrates. To understand more clearly the basis for substrate specificity of a monolignol beta-glucosidase, the structure of Os4BGlu18 was determined by X-ray crystallography. Crystals of Os4BGlu18 and its complex with delta-gluconolactone diffracted to 1.7 and 2.1 A resolution, respectively. Two protein molecules were found in the asymmetric unit of the P212121 space group of their isomorphous crystals. The Os4BGlu18 structure exhibited the typical (beta/alpha)8 TIM barrel of glycoside hydrolase family 1 (GH1), but the four variable loops and two disulfide bonds appeared significantly different from other known structures of GH1 beta-glucosidases. Molecular docking studies of the Os4BGlu18 structure with monolignol substrate ligands placed the glycone in a similar position to the delta-gluconolactone in the complex structure and revealed the interactions between protein and ligands. Molecular docking, multiple sequence alignment, and homology modeling identified amino acid residues at the aglycone-binding site involved in substrate specificity for monolignol beta-glucosides. Thus, the structural basis of substrate recognition and hydrolysis by monolignol beta-glucosidases was elucidated. | ||
| - | |||
| - | Structural analysis of rice Os4BGlu18 monolignol beta-glucosidase.,Baiya S, Pengthaisong S, Kitjaruwankul S, Ketudat Cairns JR PLoS One. 2021 Jan 20;16(1):e0241325. doi: 10.1371/journal.pone.0241325. , eCollection 2021. PMID:33471829<ref>PMID:33471829</ref> | ||
| - | |||
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | ||
| - | </div> | ||
| - | <div class="pdbe-citations 7d6b" style="background-color:#fffaf0;"></div> | ||
==See Also== | ==See Also== | ||
*[[Beta-glucosidase 3D structures|Beta-glucosidase 3D structures]] | *[[Beta-glucosidase 3D structures|Beta-glucosidase 3D structures]] | ||
| - | == References == | ||
| - | <references/> | ||
__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
| - | [[Category: Oryza sativa Japonica Group]] | ||
[[Category: Baiya S]] | [[Category: Baiya S]] | ||
[[Category: Ketudat Cairns JR]] | [[Category: Ketudat Cairns JR]] | ||
[[Category: Pengthaisong S]] | [[Category: Pengthaisong S]] | ||
Current revision
Crystal structure of Oryza sativa Os4BGlu18 monolignol beta-glucosidase with delta-gluconolactone
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