4ad3

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Current revision (07:14, 1 May 2024) (edit) (undo)
 
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<StructureSection load='4ad3' size='340' side='right'caption='[[4ad3]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
<StructureSection load='4ad3' size='340' side='right'caption='[[4ad3]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[4ad3]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AD3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4AD3 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[4ad3]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_xylanisolvens_XB1A Bacteroides xylanisolvens XB1A]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4AD3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4AD3 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMJ:1-DEOXYMANNOJIRIMYCIN'>DMJ</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>
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</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&#8491;</td></tr>
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<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[4acy|4acy]], [[4acz|4acz]], [[4ad0|4ad0]], [[4ad1|4ad1]], [[4ad2|4ad2]], [[4ad5|4ad5]]</div></td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMJ:1-DEOXYMANNOJIRIMYCIN'>DMJ</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></td></tr>
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<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glycoprotein_endo-alpha-1,2-mannosidase Glycoprotein endo-alpha-1,2-mannosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.130 3.2.1.130] </span></td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4ad3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ad3 OCA], [https://pdbe.org/4ad3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ad3 RCSB], [https://www.ebi.ac.uk/pdbsum/4ad3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ad3 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=4ad3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ad3 OCA], [https://pdbe.org/4ad3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ad3 RCSB], [https://www.ebi.ac.uk/pdbsum/4ad3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ad3 ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/D6D1V7_9BACE D6D1V7_9BACE]
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N-linked glycans play key roles in protein folding, stability, and function. Biosynthetic modification of N-linked glycans, within the endoplasmic reticulum, features sequential trimming and readornment steps. One unusual enzyme, endo-alpha-mannosidase, cleaves mannoside linkages internally within an N-linked glycan chain, short circuiting the classical N-glycan biosynthetic pathway. Here, using two bacterial orthologs, we present the first structural and mechanistic dissection of endo-alpha-mannosidase. Structures solved at resolutions 1.7-2.1 A reveal a (beta/alpha)(8) barrel fold in which the catalytic center is present in a long substrate-binding groove, consistent with cleavage within the N-glycan chain. Enzymatic cleavage of authentic Glc(1/3)Man(9)GlcNAc(2) yields Glc(1/3)-Man. Using the bespoke substrate alpha-Glc-1,3-alpha-Man fluoride, the enzyme was shown to act with retention of anomeric configuration. Complexes with the established endo-alpha-mannosidase inhibitor alpha-Glc-1,3-deoxymannonojirimycin and a newly developed inhibitor, alpha-Glc-1,3-isofagomine, and with the reducing-end product alpha-1,2-mannobiose structurally define the -2 to +2 subsites of the enzyme. These structural and mechanistic data provide a foundation upon which to develop new enzyme inhibitors targeting the hijacking of N-glycan synthesis in viral disease and cancer.
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Structural and mechanistic insight into N-glycan processing by endo-alpha-mannosidase.,Thompson AJ, Williams RJ, Hakki Z, Alonzi DS, Wennekes T, Gloster TM, Songsrirote K, Thomas-Oates JE, Wrodnigg TM, Spreitz J, Stutz AE, Butters TD, Williams SJ, Davies GJ Proc Natl Acad Sci U S A. 2012 Jan 4. PMID:22219371<ref>PMID:22219371</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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</div>
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<div class="pdbe-citations 4ad3" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
*[[Mannosidase 3D structures|Mannosidase 3D structures]]
*[[Mannosidase 3D structures|Mannosidase 3D structures]]
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== References ==
 
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<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Glycoprotein endo-alpha-1,2-mannosidase]]
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[[Category: Bacteroides xylanisolvens XB1A]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Alonzi, D S]]
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[[Category: Alonzi DS]]
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[[Category: Butters, T D]]
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[[Category: Butters TD]]
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[[Category: Davies, G J]]
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[[Category: Davies GJ]]
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[[Category: Gloster, T M]]
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[[Category: Gloster TM]]
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[[Category: Hakki, Z]]
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[[Category: Hakki Z]]
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[[Category: Songsrirote, K]]
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[[Category: Songsrirote K]]
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[[Category: Spreitz, J]]
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[[Category: Spreitz J]]
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[[Category: Stuetz, A E]]
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[[Category: Stuetz AE]]
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[[Category: Thomas-Oates, J E]]
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[[Category: Thomas-Oates JE]]
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[[Category: Thompson, A J]]
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[[Category: Thompson AJ]]
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[[Category: Wennekes, T]]
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[[Category: Wennekes T]]
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[[Category: Williams, R J]]
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[[Category: Williams RJ]]
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[[Category: Williams, S J]]
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[[Category: Williams SJ]]
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[[Category: Wrodnigg, T M]]
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[[Category: Wrodnigg TM]]
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[[Category: Cazy]]
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[[Category: Enzyme-carbohydrate interaction]]
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[[Category: Gh99]]
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[[Category: Glycoside hydrolase]]
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[[Category: Hydrolase]]
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[[Category: Mannose glycosidase inhibition]]
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Current revision

Structure of the GH99 endo-alpha-mannosidase from Bacteroides xylanisolvens in complex with Glucose-1,3-deoxymannojirimycin

PDB ID 4ad3

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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