6ohe - Revision history

OCA at 07:10, 11 October 2023

OCA — Wed, 11 Oct 2023 07:10:47 GMT

←Older revision		Revision as of 07:10, 11 October 2023
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	<StructureSection load='6ohe' size='340' side='right'caption='[[6ohe]], [[Resolution\|resolution]] 3.14Å' scene=''>		<StructureSection load='6ohe' size='340' side='right'caption='[[6ohe]], [[Resolution\|resolution]] 3.14Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ohe]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_a"_von_freudenreich_1890 "bacillus a" von freudenreich 1890~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OHE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6OHE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ohe]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Lacticaseibacillus_casei Lacticaseibacillus casei]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OHE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6OHE FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FUC:ALPHA~~-~~L-FUCOSE'>FUC</scene>~~, ~~<scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>~~</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]] 3.14Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[6o18\|6o18]]~~, ~~[[6o1a\|6o1a]], [[6o1c\|6o1c]], [[6o1i\|6o1i]], [[6o1j\|6o1j]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=6ohe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ohe OCA], [~~http~~://pdbe.org/6ohe PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6ohe RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6ohe PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6ohe 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=6ohe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ohe OCA], [https://pdbe.org/6ohe PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6ohe RCSB], [https://www.ebi.ac.uk/pdbsum/6ohe PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6ohe ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A422MHI3_LACPA A0A422MHI3_LACPA] Alpha-L-fucosidase is responsible for hydrolyzing the alpha-1,6-linked fucose joined to the reducing-end N-acetylglucosamine of the carbohydrate moieties of glycoproteins.[ARBA:ARBA00004071]
	<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: ~~Bacillus a von freudenreich 1890~~]]	+	[[Category: Lacticaseibacillus casei]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Klontz~~, E H~~]]	+	[[Category: Klontz EH]]
-	[[Category: Sundberg~~, E J]]~~	+	[[Category: Sundberg EJ]]
-	~~[[Category: Alfc]]~~	+
-	~~[[Category: Fucosidase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 12:43, 16 December 2020

OCA — Wed, 16 Dec 2020 12:43:10 GMT

←Older revision		Revision as of 12:43, 16 December 2020
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	<StructureSection load='6ohe' size='340' side='right'caption='[[6ohe]], [[Resolution\|resolution]] 3.14Å' scene=''>		<StructureSection load='6ohe' size='340' side='right'caption='[[6ohe]], [[Resolution\|resolution]] 3.14Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6ohe]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OHE OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OHE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6ohe]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_a"_von_freudenreich_1890 "bacillus a" von freudenreich 1890]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OHE OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OHE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6o18\|6o18]], [[6o1a\|6o1a]], [[6o1c\|6o1c]], [[6o1i\|6o1i]], [[6o1j\|6o1j]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[6o18\|6o18]], [[6o1a\|6o1a]], [[6o1c\|6o1c]], [[6o1i\|6o1i]], [[6o1j\|6o1j]]</div></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6ohe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ohe OCA], [http://pdbe.org/6ohe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ohe RCSB], [http://www.ebi.ac.uk/pdbsum/6ohe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ohe ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6ohe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ohe OCA], [http://pdbe.org/6ohe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ohe RCSB], [http://www.ebi.ac.uk/pdbsum/6ohe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ohe ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Fucosylation is important for the function of many proteins with biotechnical and medical applications. Alpha-fucosidases comprise a large enzyme family that recognizes fucosylated substrates with diverse alpha-linkages on these proteins. Lactobacillus casei produces an alpha-fucosidase, called AlfC, with specificity towards alpha(1,6)-fucose, the only linkage found in human N-glycan core fucosylation. AlfC and certain point mutants thereof have been used to add and remove fucose from monoclonal antibody N-glycans, with significant impacts on their effector functions. Despite the potential uses for AlfC, little is known about its mechanism. Here, we present crystal structures of AlfC, combined with mutational and kinetic analyses, hydrogen-deuterium exchange mass spectrometry, molecular dynamic simulations, and transfucosylation experiments to define the molecular mechanisms of the activities of AlfC and its transfucosidase mutants. Our results indicate that AlfC creates an aromatic subsite adjacent to the active site that specifically accommodates GlcNAc in alpha(1,6)-linkages, suggest that enzymatic activity is controlled by distinct open and closed conformations of an active-site loop, with certain mutations shifting the equilibrium towards open conformations to promote transfucosylation over hydrolysis, and provide a potentially generalizable framework for the rational creation of AlfC transfucosidase mutants.
		+
		+	Structure and dynamics of an alpha-fucosidase reveal a mechanism for highly efficient IgG transfucosylation.,Klontz EH, Li C, Kihn K, Fields JK, Beckett D, Snyder GA, Wintrode PL, Deredge D, Wang LX, Sundberg EJ Nat Commun. 2020 Dec 4;11(1):6204. doi: 10.1038/s41467-020-20044-z. PMID:33277506<ref>PMID:33277506</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6ohe" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus a von freudenreich 1890]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Klontz, E H]]		[[Category: Klontz, E H]]

OCA at 06:50, 8 April 2020

OCA — Wed, 08 Apr 2020 06:50:45 GMT

←Older revision		Revision as of 06:50, 8 April 2020
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-	'''Unreleased structure'''

-	~~The entry 6ohe is ON HOLD until Paper Publication~~	+	==Alpha-L-fucosidase AlfC D200A in complex with Fuca(1,6)GlcNAc==
-		+	<StructureSection load='6ohe' size='340' side='right'caption='[[6ohe]], [[Resolution\|resolution]] 3.14Å' scene=''>
-	~~Authors: Klontz, E.H., Sundberg, E.J.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6ohe]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6OHE OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6OHE FirstGlance]. <br>
-	~~Description:~~ Alpha-L-fucosidase AlfC D200A in complex with Fuca(1,6)GlcNAc	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6o18\|6o18]], [[6o1a\|6o1a]], [[6o1c\|6o1c]], [[6o1i\|6o1i]], [[6o1j\|6o1j]]</td></tr>
-	[[Category: ~~Sundberg~~, E.J]]	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6ohe FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6ohe OCA], [http://pdbe.org/6ohe PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6ohe RCSB], [http://www.ebi.ac.uk/pdbsum/6ohe PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6ohe ProSAT]</span></td></tr>
-	[[Category: ~~Klontz~~, E.H]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Klontz, E H]]
		+	[[Category: Sundberg, E J]]
		+	[[Category: Alfc]]
		+	[[Category: Fucosidase]]
		+	[[Category: Hydrolase]]

OCA at 07:06, 1 May 2019

OCA — Wed, 01 May 2019 07:06:20 GMT

←Older revision		Revision as of 07:06, 1 May 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6ohe is ON HOLD	+	The entry 6ohe is ON HOLD until Paper Publication

	Authors: Klontz, E.H., Sundberg, E.J.		Authors: Klontz, E.H., Sundberg, E.J.

OCA: Protected "6ohe" [edit=sysop:move=sysop]

OCA — Wed, 17 Apr 2019 04:09:28 GMT

Protected "6ohe" [edit=sysop:move=sysop]

←Older revision

Revision as of 04:09, 17 April 2019

OCA: New page: '''Unreleased structure''' The entry 6ohe is ON HOLD Authors: Klontz, E.H., Sundberg, E.J. Description: Alpha-L-fucosidase AlfC D200A in complex with Fuca(1,6)GlcNAc [[Category: Unrele...

OCA — Wed, 17 Apr 2019 04:09:26 GMT

New page: '''Unreleased structure''' The entry 6ohe is ON HOLD Authors: Klontz, E.H., Sundberg, E.J. Description: Alpha-L-fucosidase AlfC D200A in complex with Fuca(1,6)GlcNAc [[Category: Unrele...

New page

'''Unreleased structure'''

The entry 6ohe is ON HOLD

Authors: Klontz, E.H., Sundberg, E.J.

Description: Alpha-L-fucosidase AlfC D200A in complex with Fuca(1,6)GlcNAc
[[Category: Unreleased Structures]]
[[Category: Sundberg, E.J]]
[[Category: Klontz, E.H]]