5x4a - Revision history

OCA at 07:53, 22 November 2023

OCA — Wed, 22 Nov 2023 07:53:44 GMT

←Older revision		Revision as of 07:53, 22 November 2023
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	<StructureSection load='5x4a' size='340' side='right'caption='[[5x4a]], [[Resolution\|resolution]] 3.40Å' scene=''>		<StructureSection load='5x4a' size='340' side='right'caption='[[5x4a]], [[Resolution\|resolution]] 3.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x4a]] is a 12 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Sinularia_lochmodes Sinularia lochmodes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X4A OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5X4A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x4a]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Sinularia_lochmodes Sinularia lochmodes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X4A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5X4A FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~"><~~scene name~~='~~pdbligand~~=~~GLA~~:~~ALPHA+D-GALACTOSE'~~>~~GLA~~</~~scene~~>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</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]] 3.4Å</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=5x4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x4a OCA], [~~http~~://pdbe.org/5x4a PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5x4a RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5x4a PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5x4a ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</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=5x4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x4a OCA], [https://pdbe.org/5x4a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5x4a RCSB], [https://www.ebi.ac.uk/pdbsum/5x4a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5x4a ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A4CYJ6_9CNID A4CYJ6_9CNID]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Sinularia lochmodes]]		[[Category: Sinularia lochmodes]]
-	[[Category: Kita, A]]	+	[[Category: Kita A]]
-	[[Category: Miki, K]]	+	[[Category: Miki K]]
-	~~[[Category: Coral lectin]]~~	+
-	~~[[Category: Forssman antigen tetrasaccharide]]~~	+
-	~~[[Category: Sll-2]]~~	+
-	~~[[Category: Sugar binding protein]]~~	+
-	~~[[Category: Symbiosis~~]]	+

OCA at 07:24, 7 October 2020

OCA — Wed, 07 Oct 2020 07:24:51 GMT

←Older revision		Revision as of 07:24, 7 October 2020
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	==SLL-2-Forssman antigen tetrasaccharides complex==		==SLL-2-Forssman antigen tetrasaccharides complex==
-	<StructureSection load='5x4a' size='340' side='right' caption='[[5x4a]], [[Resolution\|resolution]] 3.40Å' scene=''>	+	<StructureSection load='5x4a' size='340' side='right'caption='[[5x4a]], [[Resolution\|resolution]] 3.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5x4a]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Sinularia_lochmodes Sinularia lochmodes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X4A OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5X4A FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5x4a]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Sinularia_lochmodes Sinularia lochmodes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X4A OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5X4A FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=~~A2G~~:~~N-ACETYL-2-DEOXY-2-AMINO~~-GALACTOSE'>~~A2G~~</scene>, <scene name='pdbligand=~~GAL~~:~~BETA~~-D-GALACTOSE'>~~GAL~~</scene>, <scene name='pdbligand=~~GLA~~:~~ALPHA+~~D-GALACTOSE'>~~GLA~~</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></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=5x4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x4a OCA], [http://pdbe.org/5x4a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x4a RCSB], [http://www.ebi.ac.uk/pdbsum/5x4a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x4a 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=5x4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x4a OCA], [http://pdbe.org/5x4a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x4a RCSB], [http://www.ebi.ac.uk/pdbsum/5x4a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x4a ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 5x4a" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5x4a" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Galactose-binding lectin\|Galactose-binding lectin]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Sinularia lochmodes]]		[[Category: Sinularia lochmodes]]
	[[Category: Kita, A]]		[[Category: Kita, A]]

OCA at 04:25, 21 September 2017

OCA — Thu, 21 Sep 2017 04:25:10 GMT

←Older revision		Revision as of 04:25, 21 September 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5x4a is ~~ON HOLD until Paper~~ Publication	+	==SLL-2-Forssman antigen tetrasaccharides complex==
		+	<StructureSection load='5x4a' size='340' side='right' caption='[[5x4a]], [[Resolution\|resolution]] 3.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5x4a]] is a 12 chain structure with sequence from [http://en.wikipedia.org/wiki/Sinularia_lochmodes Sinularia lochmodes]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5X4A OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5X4A FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=A2G:N-ACETYL-2-DEOXY-2-AMINO-GALACTOSE'>A2G</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=NGA:N-ACETYL-D-GALACTOSAMINE'>NGA</scene></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=5x4a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5x4a OCA], [http://pdbe.org/5x4a PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5x4a RCSB], [http://www.ebi.ac.uk/pdbsum/5x4a PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5x4a ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A symbiosis-related lectin, SLL-2, from the octocoral Sinularia lochmodes, distributes densely on the cell surface of microalgae, Symbiodinium sp., an endosymbiotic dinoflagellate of the coral, and is also shown to be a chemical cue that transforms dinoflagellates into a non-motile (coccoid) symbiotic state. SLL-2 binds to the sugar chain of the molecule similar to Forssman antigen pentasaccharide (GalNAcalpha1-3GalNAcbeta1-3 Galalpha1-4 Galbeta1-4Glc) on the surface of microalgae with high affinity. Here we report the crystal structure of the complex between SLL-2 and Forssman antigen tetrasaccharide (GalNAcalpha1-3GalNAcbeta1-3 Galalpha1-4 Galbeta) at 3.4 A resolution. In an asymmetric unit of the crystal, there are two hexameric molecules with totally twelve sugar recognition sites. At the nine in twelve sites, the first and second saccharides of the Forssman antigen tetrasaccharide bind directly to galactopyranoside binding site of SLL-2, whereas the third and fourth saccharides have no interaction with the SLL-2 hexameric molecule that binds the first saccharide. The sugar chain bends at alpha-1,4-glycosidic linkage between the third and fourth saccharides toward the position that we defined as a pyranoside binding site in the crystal structure of the complex between SLL-2 and GalNAc. The structure allowed us to suggest a possible binding mode of the Forssman antigen pentasaccharide to SLL-2. These observations support our hypothesis that the binding of SLL-2 to the cell surface sugars of zooxanthella in a unique manner might trigger some physiological changes of the cell to adapt symbiosis with the host coral.

-	~~Authors: Kita~~, A., ~~Miki~~, K.	+	Crystal structure of octocoral lectin SLL-2 complexed with Forssman antigen tetrasaccharide.,Kita A, Jimbo M, Sakai R, Morimoto Y, Takeuchi R, Tanaka H, Takahashi T, Miki K Glycobiology. 2017 May 16. doi: 10.1093/glycob/cwx043. PMID:28510705<ref>PMID:28510705</ref>

-	~~Description: SLL~~-2-~~Forssman antigen tetrasaccharides complex~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	[[Category: ~~Miki, K~~]]	+	<div class="pdbe-citations 5x4a" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Sinularia lochmodes]]
	[[Category: Kita, A]]		[[Category: Kita, A]]
		+	[[Category: Miki, K]]
		+	[[Category: Coral lectin]]
		+	[[Category: Forssman antigen tetrasaccharide]]
		+	[[Category: Sll-2]]
		+	[[Category: Sugar binding protein]]
		+	[[Category: Symbiosis]]

OCA at 20:10, 15 March 2017

OCA — Wed, 15 Mar 2017 20:10:03 GMT

←Older revision		Revision as of 20:10, 15 March 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5x4a is ON HOLD	+	The entry 5x4a is ON HOLD until Paper Publication

	Authors: Kita, A., Miki, K.		Authors: Kita, A., Miki, K.
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	Description: SLL-2-Forssman antigen tetrasaccharides complex		Description: SLL-2-Forssman antigen tetrasaccharides complex
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kita, A]]
	[[Category: Miki, K]]		[[Category: Miki, K]]
		+	[[Category: Kita, A]]

OCA: Protected "5x4a" [edit=sysop:move=sysop]

OCA — Thu, 09 Mar 2017 15:43:54 GMT

Protected "5x4a" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:43, 9 March 2017

OCA: New page: '''Unreleased structure''' The entry 5x4a is ON HOLD Authors: Kita, A., Miki, K. Description: SLL-2-Forssman antigen tetrasaccharides complex Category: Unreleased Structures [[Cate...

OCA — Thu, 09 Mar 2017 15:43:53 GMT

New page: '''Unreleased structure''' The entry 5x4a is ON HOLD Authors: Kita, A., Miki, K. Description: SLL-2-Forssman antigen tetrasaccharides complex Category: Unreleased Structures [[Cate...

New page

'''Unreleased structure'''

The entry 5x4a is ON HOLD

Authors: Kita, A., Miki, K.

Description: SLL-2-Forssman antigen tetrasaccharides complex
[[Category: Unreleased Structures]]
[[Category: Kita, A]]
[[Category: Miki, K]]