6ydd

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==X-ray structure of LPMO==
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==X-ray structure of LPMO.==
<StructureSection load='6ydd' size='340' side='right'caption='[[6ydd]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
<StructureSection load='6ydd' size='340' side='right'caption='[[6ydd]], [[Resolution|resolution]] 2.80&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6ydd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Achaetomiella_virescens Achaetomiella virescens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YDD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6YDD FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6ydd]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Collariella_virescens Collariella virescens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6YDD OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6YDD 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=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</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]] 2.8&#8491;</td></tr>
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<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=HIC:4-METHYL-HISTIDINE'>HIC</scene></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=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=CU:COPPER+(II)+ION'>CU</scene>, <scene name='pdbligand=HIC:4-METHYL-HISTIDINE'>HIC</scene>, <scene name='pdbligand=PRD_900005:beta-cellobiose'>PRD_900005</scene>, <scene name='pdbligand=PRD_900011:beta-cellotetraose'>PRD_900011</scene></td></tr>
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<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">aa9 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1934374 Achaetomiella virescens])</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=6ydd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ydd OCA], [https://pdbe.org/6ydd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ydd RCSB], [https://www.ebi.ac.uk/pdbsum/6ydd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ydd 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=6ydd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ydd OCA], [https://pdbe.org/6ydd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ydd RCSB], [https://www.ebi.ac.uk/pdbsum/6ydd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ydd 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/A0A223GEC9_9PEZI A0A223GEC9_9PEZI]
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Lytic polysaccharide monooxygenases (LPMOs) are copper-dependent enzymes that cleave polysaccharide substrates oxidatively. First discovered because of their action on recalcitrant crystalline substrates (chitin and cellulose), a number of LPMOs are now reported to act on soluble substrates, including oligosaccharides. However, crystallographic complexes with oligosaccharides have been reported for only a single LPMO so far, an enzyme from the basidiomycete fungus Lentinus similis (LsAA9_A). Here we present a more detailed comparative study of LsAA9_A and an LPMO from the ascomycete fungus Collariella virescens (CvAA9_A) with which it shares 41.5% sequence identity. LsAA9_A is considerably more thermostable than CvAA9_A, and the structural basis for the difference has been investigated. We have compared the patterns of oligosaccharide cleavage and the patterns of binding in several new crystal structures explaining the basis for the product preferences of the two enzymes. Obtaining structural information about complexes of LPMOs with carbohydrates has proven to be very difficult in general judging from the structures reported in the literature thus far, and this can be attributed only partly to the low affinity for small substrates. We have thus evaluated the use of differential scanning fluorimetry as a guide to obtaining complex structures. Furthermore, an analysis of crystal packing of LPMOs and glycoside hydrolases corroborates the hypothesis that active site occlusion is a very significant problem for LPMO-substrate interaction analysis by crystallography, due to their relatively flat and extended substrate binding sites.
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Oligosaccharide Binding and Thermostability of Two Related AA9 Lytic Polysaccharide Monooxygenases.,Tandrup T, Tryfona T, Frandsen KEH, Johansen KS, Dupree P, Lo Leggio L Biochemistry. 2020 Sep 15;59(36):3347-3358. doi: 10.1021/acs.biochem.0c00312., Epub 2020 Aug 27. PMID:32818374<ref>PMID:32818374</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 6ydd" style="background-color:#fffaf0;"></div>
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==See Also==
==See Also==
*[[Monooxygenase 3D structures|Monooxygenase 3D structures]]
*[[Monooxygenase 3D structures|Monooxygenase 3D structures]]
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== References ==
 
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<references/>
 
__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Achaetomiella virescens]]
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[[Category: Collariella virescens]]
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Dupree, P]]
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[[Category: Dupree P]]
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[[Category: Frandsen, K E.H]]
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[[Category: Frandsen KEH]]
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[[Category: Johansen, K S]]
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[[Category: Johansen KS]]
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[[Category: Leggio, L Lo]]
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[[Category: Lo Leggio L]]
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[[Category: Tandrup, T]]
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[[Category: Tandrup T]]
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[[Category: Tryfona, T]]
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[[Category: Tryfona T]]
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[[Category: Complex]]
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[[Category: Lytic polysaccharide monooxygenase]]
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[[Category: Metal binding protein]]
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Current revision

X-ray structure of LPMO.

PDB ID 6ydd

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Proteopedia Page Contributors and Editors (what is this?)

OCA

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