7nl5: Difference between revisions
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<StructureSection load='7nl5' size='340' side='right'caption='[[7nl5]], [[Resolution|resolution]] 1.40Å' scene=''> | <StructureSection load='7nl5' size='340' side='right'caption='[[7nl5]], [[Resolution|resolution]] 1.40Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[7nl5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/ | <table><tr><td colspan='2'>[[7nl5]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Niallia_circulans Niallia circulans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7NL5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7NL5 FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=UKQ:(1R,6S)-5beta-(Hydroxymethyl)-7-oxabicyclo[4.1.0]heptane-2beta,3beta,4alpha-triol'>UKQ</scene>, <scene name='pdbligand=UKT:(1R,2R,3R,4S,5R)-4-(hydroxymethyl)cyclohexane-1,2,3,5-tetrol'>UKT</scene> | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.4Å</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>, <scene name='pdbligand=UKQ:(1R,6S)-5beta-(Hydroxymethyl)-7-oxabicyclo[4.1.0]heptane-2beta,3beta,4alpha-triol'>UKQ</scene>, <scene name='pdbligand=UKT:(1R,2R,3R,4S,5R)-4-(hydroxymethyl)cyclohexane-1,2,3,5-tetrol'>UKT</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=7nl5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nl5 OCA], [https://pdbe.org/7nl5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nl5 RCSB], [https://www.ebi.ac.uk/pdbsum/7nl5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nl5 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=7nl5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7nl5 OCA], [https://pdbe.org/7nl5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7nl5 RCSB], [https://www.ebi.ac.uk/pdbsum/7nl5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7nl5 ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Function == | |||
[https://www.uniprot.org/uniprot/Q9Z4P9_NIACI Q9Z4P9_NIACI] | |||
<div style="background-color:#fffaf0;"> | <div style="background-color:#fffaf0;"> | ||
== Publication Abstract from PubMed == | == Publication Abstract from PubMed == | ||
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__TOC__ | __TOC__ | ||
</StructureSection> | </StructureSection> | ||
[[Category: Large Structures]] | [[Category: Large Structures]] | ||
[[Category: | [[Category: Niallia circulans]] | ||
[[Category: Codee | [[Category: Codee JDC]] | ||
[[Category: Davies | [[Category: Davies GJ]] | ||
[[Category: | [[Category: De Boer C]] | ||
[[Category: | [[Category: Enotarpi J]] | ||
[[Category: | [[Category: Florea BI]] | ||
[[Category: | [[Category: Jin Y]] | ||
[[Category: | [[Category: Males A]] | ||
[[Category: Marino | [[Category: Marino L]] | ||
[[Category: Offen | [[Category: Offen WA]] | ||
[[Category: Overkleeft | [[Category: Overkleeft HS]] | ||
[[Category: Schroeder | [[Category: Schroeder S]] | ||
[[Category: | [[Category: Van der Marel GA]] | ||
Revision as of 15:35, 1 February 2024
Structure of the catalytic domain of the Bacillus circulans alpha-1,6 Mannanase in complex with an alpha-1,6-alpha-manno-cyclophellitol trisaccharide inhibitorStructure of the catalytic domain of the Bacillus circulans alpha-1,6 Mannanase in complex with an alpha-1,6-alpha-manno-cyclophellitol trisaccharide inhibitor
Structural highlights
FunctionPublication Abstract from PubMedThere is a vast genomic resource for enzymes active on carbohydrates. Lagging far behind, however, are functional chemical tools for the rapid characterization of carbohydrate-active enzymes. Activity-based probes (ABPs) offer one chemical solution to these issues with ABPs based upon cyclophellitol epoxide and aziridine covalent and irreversible inhibitors representing a potent and widespread approach. Such inhibitors for enzymes active on polysaccharides are potentially limited by the requirement for several glycosidic bonds, themselves substrates for the enzyme targets. Here we show that non-hydrolysable trisaccharide can be synthesized and applied even to enzymes with challenging subsite requirements. We find that incorporation of carbasugar moieties, which we accomplished by cuprate-assisted regioselective trans-diaxial epoxide opening of carba-mannal we synthesised for this purpose, yields inactivators that act as powerful activity-based inhibitors for a-1,6 endo-mannanases. 3-D structures at 1.35 - 1.47 A resolutions confirm the design rationale and binding to the enzymatic nucleophile. Carbasugar oligosaccharide cyclophellitols offer a powerful new approach for the design of robust endoglycosidase inhibitors, while the synthesis procedures presented here should allow adaptation towards activity-based endoglycosidase probes as well as configurational isosteres targeting other endoglycosidase families. The Development of Non-Hydrolysable Oligosaccharide Activity-Based Inactivators for Endoglycanases: A Case Study on a-1,6 Mannanases.,Overkleeft HS, Schroder S, Offen W, Males A, Jin Y, de Boer C, Enotarpi J, van der Marel G, Florea B, Codee J, Davies G Chemistry. 2021 Apr 20. doi: 10.1002/chem.202101255. PMID:33878235[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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