5h47 - Revision history

OCA at 09:14, 20 March 2024

OCA — Wed, 20 Mar 2024 09:14:57 GMT

←Older revision		Revision as of 09:14, 20 March 2024
Line 10:		Line 10:
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/LECF_ASPOR LECF_ASPOR] Lectin that specifically binds to L-fucose and weakly reacts with mannose and N-acetyl-neuraminic acid (PubMed:12092808, PubMed:27318092, PubMed:28041800). Has strongest preference for the alpha-1,6-fucosylated chain (core fucose) on glycoproteins among alpha-1,2-, alpha-1,3-, alpha-1,4-, and alpha-1,6-fucosylated chains (PubMed:17383961, PubMed:19109923). Binds to fucose residues of IgE in mice and human, causing antigen-independent IgE-mediated mast cell activation and anaphylactoid reactions in mice and is possibly implicated in allergic response to Aspergillus oryzae in humans (PubMed:21790704). Induces secretion of pro-inflammatory cytokines IL6 and IL8 implicated in ocular diseases such as mycotic keratitis, probably through its interaction with host toll-like receptors TLR2 and TLR4, followed by up-regulation of pro-inflammatory cytokines (PubMed:28470344).<ref>PMID:12092808</ref> <ref>PMID:17383961</ref> <ref>PMID:19109923</ref> <ref>PMID:21790704</ref> <ref>PMID:27318092</ref> <ref>PMID:28041800</ref> <ref>PMID:28470344</ref>		[https://www.uniprot.org/uniprot/LECF_ASPOR LECF_ASPOR] Lectin that specifically binds to L-fucose and weakly reacts with mannose and N-acetyl-neuraminic acid (PubMed:12092808, PubMed:27318092, PubMed:28041800). Has strongest preference for the alpha-1,6-fucosylated chain (core fucose) on glycoproteins among alpha-1,2-, alpha-1,3-, alpha-1,4-, and alpha-1,6-fucosylated chains (PubMed:17383961, PubMed:19109923). Binds to fucose residues of IgE in mice and human, causing antigen-independent IgE-mediated mast cell activation and anaphylactoid reactions in mice and is possibly implicated in allergic response to Aspergillus oryzae in humans (PubMed:21790704). Induces secretion of pro-inflammatory cytokines IL6 and IL8 implicated in ocular diseases such as mycotic keratitis, probably through its interaction with host toll-like receptors TLR2 and TLR4, followed by up-regulation of pro-inflammatory cytokines (PubMed:28470344).<ref>PMID:12092808</ref> <ref>PMID:17383961</ref> <ref>PMID:19109923</ref> <ref>PMID:21790704</ref> <ref>PMID:27318092</ref> <ref>PMID:28041800</ref> <ref>PMID:28470344</ref>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Selenium-incorporated fucoses (seleno-fucoses) differing in the position of the seleno-substituent were synthesized and applied to the X-ray structural determination of a carbohydrate-lectin complex using single/multi-wavelength anomalous dispersion (SAD/MAD) phasing. The hydroxyl groups at the C-1, -2, -3 and -4 position of fucose were individually substituted with a methylseleno group via a transacetalization reaction using MeSeCH2OBn or by an SN2 reaction with TolSe- equivalents to afford the corresponding MeSe-fucose. The three-dimensional structures of a fucose-binding lectin complexed with several of these MeSe-fucoses have been determined by SAD/MAD phasing by utilizing the diffraction of selenium in the bound MeSe-fucoses.
-
-	Synthesis of seleno-fucose compounds and their application to the X-ray structural determination of carbohydrate-lectin complexes using single/multi-wavelength anomalous dispersion phasing.,Shimabukuro J, Makyio H, Suzuki T, Nishikawa Y, Kawasaki M, Imamura A, Ishida H, Ando H, Kato R, Kiso M Bioorg Med Chem. 2016 Dec 19. pii: S0968-0896(16)31172-5. doi:, 10.1016/j.bmc.2016.12.021. PMID:28041800<ref>PMID:28041800</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5h47" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 07:23, 9 August 2023

OCA — Wed, 09 Aug 2023 07:23:15 GMT

←Older revision		Revision as of 07:23, 9 August 2023
Line 3:		Line 3:
	<StructureSection load='5h47' size='340' side='right'caption='[[5h47]], [[Resolution\|resolution]] 2.30Å' scene=''>		<StructureSection load='5h47' size='340' side='right'caption='[[5h47]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h47]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Aspor Aspor~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H47 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5H47 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h47]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Aspergillus_oryzae_RIB40 Aspergillus oryzae RIB40]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H47 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5H47 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=FSW:(2S~~,~~3S,4R,5S,6R)-6-METHOXY-~~2~~-METHYL-5-METHYLSELANYL-OXANE-~~3~~,4-DIOL'>FSW</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]] 2.3Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5eo7\|5eo7]], [[5eo8\|5eo8]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FSW:(2S,3S,4R,5S,6R)-6-METHOXY-2-METHYL-5-METHYLSELANYL-OXANE-3,4-DIOL'>FSW</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">AO090001000189 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=510516 ASPOR])~~</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=5h47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h47 OCA], [https://pdbe.org/5h47 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5h47 RCSB], [https://www.ebi.ac.uk/pdbsum/5h47 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5h47 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=5h47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h47 OCA], [~~http~~://pdbe.org/5h47 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5h47 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5h47 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5h47 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/LECF_ASPOR LECF_ASPOR] Lectin that specifically binds to L-fucose and weakly reacts with mannose and N-acetyl-neuraminic acid (PubMed:12092808, PubMed:27318092, PubMed:28041800). Has strongest preference for the alpha-1,6-fucosylated chain (core fucose) on glycoproteins among alpha-1,2-, alpha-1,3-, alpha-1,4-, and alpha-1,6-fucosylated chains (PubMed:17383961, PubMed:19109923). Binds to fucose residues of IgE in mice and human, causing antigen-independent IgE-mediated mast cell activation and anaphylactoid reactions in mice and is possibly implicated in allergic response to Aspergillus oryzae in humans (PubMed:21790704). Induces secretion of pro-inflammatory cytokines IL6 and IL8 implicated in ocular diseases such as mycotic keratitis, probably through its interaction with host toll-like receptors TLR2 and TLR4, followed by up-regulation of pro-inflammatory cytokines (PubMed:28470344).<ref>PMID:12092808</ref> <ref>PMID:17383961</ref> <ref>PMID:19109923</ref> <ref>PMID:21790704</ref> <ref>PMID:27318092</ref> <ref>PMID:28041800</ref> <ref>PMID:28470344</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Aspor~~]]	+	[[Category: Aspergillus oryzae RIB40]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kato, R]]	+	[[Category: Kato R]]
-	[[Category: Makyio, H]]	+	[[Category: Makyio H]]
-	[[Category: Nishikawa, Y]]	+	[[Category: Nishikawa Y]]
-	~~[[Category: Aspergillus oryzae]]~~	+
-	~~[[Category: Lectin]]~~	+
-	~~[[Category: Phaing]]~~	+
-	~~[[Category: Seleno-fucose]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 06:52, 20 May 2020

OCA — Wed, 20 May 2020 06:52:11 GMT

←Older revision		Revision as of 06:52, 20 May 2020
Line 1:		Line 1:

	==Crystal structure of AOL complexed with 2-MeSe-Fuc==		==Crystal structure of AOL complexed with 2-MeSe-Fuc==
-	<StructureSection load='5h47' size='340' side='right' caption='[[5h47]], [[Resolution\|resolution]] 2.30Å' scene=''>	+	<StructureSection load='5h47' size='340' side='right'caption='[[5h47]], [[Resolution\|resolution]] 2.30Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5h47]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H47 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5H47 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5h47]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Aspor Aspor]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H47 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5H47 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FSW:(2S,3S,4R,5S,6R)-6-METHOXY-2-METHYL-5-METHYLSELANYL-OXANE-3,4-DIOL'>FSW</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FSW:(2S,3S,4R,5S,6R)-6-METHOXY-2-METHYL-5-METHYLSELANYL-OXANE-3,4-DIOL'>FSW</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5eo7\|5eo7]], [[5eo8\|5eo8]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5eo7\|5eo7]], [[5eo8\|5eo8]]</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5h47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h47 OCA], [http://pdbe.org/5h47 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h47 RCSB], [http://www.ebi.ac.uk/pdbsum/5h47 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h47 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">AO090001000189 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=510516 ASPOR])</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=5h47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h47 OCA], [http://pdbe.org/5h47 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h47 RCSB], [http://www.ebi.ac.uk/pdbsum/5h47 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h47 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Aspor]]
		+	[[Category: Large Structures]]
	[[Category: Kato, R]]		[[Category: Kato, R]]
	[[Category: Makyio, H]]		[[Category: Makyio, H]]

OCA at 23:35, 25 January 2017

OCA — Wed, 25 Jan 2017 23:35:20 GMT

←Older revision		Revision as of 23:35, 25 January 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5h47 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of AOL complexed with 2-MeSe-Fuc==
		+	<StructureSection load='5h47' size='340' side='right' caption='[[5h47]], [[Resolution\|resolution]] 2.30Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5h47]] is a 12 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5H47 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5H47 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FSW:(2S,3S,4R,5S,6R)-6-METHOXY-2-METHYL-5-METHYLSELANYL-OXANE-3,4-DIOL'>FSW</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5eo7\|5eo7]], [[5eo8\|5eo8]]</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5h47 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5h47 OCA], [http://pdbe.org/5h47 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5h47 RCSB], [http://www.ebi.ac.uk/pdbsum/5h47 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5h47 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Selenium-incorporated fucoses (seleno-fucoses) differing in the position of the seleno-substituent were synthesized and applied to the X-ray structural determination of a carbohydrate-lectin complex using single/multi-wavelength anomalous dispersion (SAD/MAD) phasing. The hydroxyl groups at the C-1, -2, -3 and -4 position of fucose were individually substituted with a methylseleno group via a transacetalization reaction using MeSeCH2OBn or by an SN2 reaction with TolSe- equivalents to afford the corresponding MeSe-fucose. The three-dimensional structures of a fucose-binding lectin complexed with several of these MeSe-fucoses have been determined by SAD/MAD phasing by utilizing the diffraction of selenium in the bound MeSe-fucoses.

-	~~Authors: Kato, R~~., ~~Nishikawa~~, Y., ~~Makyio~~, H.	+	Synthesis of seleno-fucose compounds and their application to the X-ray structural determination of carbohydrate-lectin complexes using single/multi-wavelength anomalous dispersion phasing.,Shimabukuro J, Makyio H, Suzuki T, Nishikawa Y, Kawasaki M, Imamura A, Ishida H, Ando H, Kato R, Kiso M Bioorg Med Chem. 2016 Dec 19. pii: S0968-0896(16)31172-5. doi:, 10.1016/j.bmc.2016.12.021. PMID:28041800<ref>PMID:28041800</ref>

-	~~Description: Crystal structure~~ of ~~AOL complexed with 2~~-~~MeSe~~-~~Fuc~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5h47" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Kato, R]]
	[[Category: Makyio, H]]		[[Category: Makyio, H]]
	[[Category: Nishikawa, Y]]		[[Category: Nishikawa, Y]]
-	[[Category: ~~Kato, R~~]]	+	[[Category: Aspergillus oryzae]]
		+	[[Category: Lectin]]
		+	[[Category: Phaing]]
		+	[[Category: Seleno-fucose]]
		+	[[Category: Sugar binding protein]]

OCA: Protected "5h47" [edit=sysop:move=sysop]

OCA — Fri, 09 Dec 2016 13:43:00 GMT

Protected "5h47" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:43, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5h47 is ON HOLD until Paper Publication Authors: Kato, R., Nishikawa, Y., Makyio, H. Description: Crystal structure of AOL complexed with 2-MeSe-Fu...

OCA — Fri, 09 Dec 2016 13:42:59 GMT

New page: '''Unreleased structure''' The entry 5h47 is ON HOLD until Paper Publication Authors: Kato, R., Nishikawa, Y., Makyio, H. Description: Crystal structure of AOL complexed with 2-MeSe-Fu...

New page

'''Unreleased structure'''

The entry 5h47 is ON HOLD until Paper Publication

Authors: Kato, R., Nishikawa, Y., Makyio, H.

Description: Crystal structure of AOL complexed with 2-MeSe-Fuc
[[Category: Unreleased Structures]]
[[Category: Makyio, H]]
[[Category: Nishikawa, Y]]
[[Category: Kato, R]]