5j4t - Revision history

OCA at 10:48, 6 September 2023

OCA — Wed, 06 Sep 2023 10:48:31 GMT

←Older revision

Revision as of 10:48, 6 September 2023

OCA at 07:29, 10 June 2020

OCA — Wed, 10 Jun 2020 07:29:33 GMT

←Older revision		Revision as of 07:29, 10 June 2020
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	==Structure of tetrameric jacalin complexed with GlcNAc beta-(1,3) Gal-beta-OMe==		==Structure of tetrameric jacalin complexed with GlcNAc beta-(1,3) Gal-beta-OMe==
-	<StructureSection load='5j4t' size='340' side='right' caption='[[5j4t]], [[Resolution\|resolution]] 1.94Å' scene=''>	+	<StructureSection load='5j4t' size='340' side='right'caption='[[5j4t]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5j4t]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Artocarpus_integer Artocarpus integer]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J4T OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5J4T FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5j4t]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Artocarpus_integer Artocarpus integer]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J4T OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5J4T FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MBG:METHYL-BETA-GALACTOSE'>MBG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MBG:METHYL-BETA-GALACTOSE'>MBG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ugw\|1ugw]], [[1jac\|1jac]], [[1kuj\|1kuj]], [[1ws5\|1ws5]], [[1ws4\|1ws4]], [[1uh0\|1uh0]], [[1m26\|1m26]], [[1ugx\|1ugx]], [[1uh1\|1uh1]], [[1ugy\|1ugy]], [[1ku8\|1ku8]], [[4r6n\|4r6n]], [[4r6o\|4r6o]], [[4r6p\|4r6p]], [[4r6q\|4r6q]], [[4r6r\|4r6r]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ugw\|1ugw]], [[1jac\|1jac]], [[1kuj\|1kuj]], [[1ws5\|1ws5]], [[1ws4\|1ws4]], [[1uh0\|1uh0]], [[1m26\|1m26]], [[1ugx\|1ugx]], [[1uh1\|1uh1]], [[1ugy\|1ugy]], [[1ku8\|1ku8]], [[4r6n\|4r6n]], [[4r6o\|4r6o]], [[4r6p\|4r6p]], [[4r6q\|4r6q]], [[4r6r\|4r6r]]</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=5j4t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j4t OCA], [http://pdbe.org/5j4t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5j4t RCSB], [http://www.ebi.ac.uk/pdbsum/5j4t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5j4t 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=5j4t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j4t OCA], [http://pdbe.org/5j4t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5j4t RCSB], [http://www.ebi.ac.uk/pdbsum/5j4t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5j4t ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	==See Also==		==See Also==
-	*[[Agglutinin\|Agglutinin]]	+	*[[Agglutinin 3D structures\|Agglutinin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Artocarpus integer]]		[[Category: Artocarpus integer]]
		+	[[Category: Large Structures]]
	[[Category: Abhinav, K V]]		[[Category: Abhinav, K V]]
	[[Category: Sharma, K]]		[[Category: Sharma, K]]

OCA at 09:25, 10 March 2017

OCA — Fri, 10 Mar 2017 09:25:06 GMT

←Older revision		Revision as of 09:25, 10 March 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5j4t is ~~ON HOLD until Paper~~ Publication	+	==Structure of tetrameric jacalin complexed with GlcNAc beta-(1,3) Gal-beta-OMe==
		+	<StructureSection load='5j4t' size='340' side='right' caption='[[5j4t]], [[Resolution\|resolution]] 1.94Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5j4t]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Artocarpus_integer Artocarpus integer]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5J4T OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5J4T FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MBG:METHYL-BETA-GALACTOSE'>MBG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ugw\|1ugw]], [[1jac\|1jac]], [[1kuj\|1kuj]], [[1ws5\|1ws5]], [[1ws4\|1ws4]], [[1uh0\|1uh0]], [[1m26\|1m26]], [[1ugx\|1ugx]], [[1uh1\|1uh1]], [[1ugy\|1ugy]], [[1ku8\|1ku8]], [[4r6n\|4r6n]], [[4r6o\|4r6o]], [[4r6p\|4r6p]], [[4r6q\|4r6q]], [[4r6r\|4r6r]]</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=5j4t FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5j4t OCA], [http://pdbe.org/5j4t PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5j4t RCSB], [http://www.ebi.ac.uk/pdbsum/5j4t PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5j4t ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LECA_ARTIN LECA_ARTIN]] D-galactose-specific lectin, binds the T-antigen structure Gal-beta1,3-GalNAc (Thomsen-Friedenreich-antigen-specific lectin). Potent and selective stimulant of distinct T- and B-cell functions. Shows a unique ability to specifically recognize IgA-1 from human serum. [[http://www.uniprot.org/uniprot/LECB3_ARTIN LECB3_ARTIN]] D-galactose-specific lectin, binds the T-antigen structure Gal-beta1,3-GalNAc (Thomsen-Friedenreich-antigen-specific lectin). Potent and selective stimulant of distinct T- and B-cell functions. Shows a unique ability to specifically recognize IgA-1 from human serum.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Crystal structures of jacalin in complex with GlcNAc beta-(1,3) Gal-beta-OMe and Gal beta-(1,3) Gal-beta-OMe have been determined. The binding of the ligands to jacalin is similar to that of analogous alpha-substituted disaccharides. However, the beta-substituted beta-(1,3) linked disaccharides get distorted at the anomeric center and the glycosidic linkage. The distortion results in higher internal energies of the ligands leading to lower affinity to the lectin. This confirms the possibility of using ligand distortion as a strategy for modulating binding affinity. Unlike in the case of beta-substituted monosaccharides bound to jacalin, where a larger distortion at the anomeric center was observed, smaller distortions are distributed among two centers in the structures of the two beta-substituted beta-(1,3) linked disaccharides presented here. These disaccharides, like the unsubstituted and alpha-substituted counterparts, bind jacalin with the reducing Gal at the primary binding site, indicating that the lower binding affinity of beta-substituted disaccharides is not enough to overcome the intrinsic propensity of Gal beta-(1,3) Gal-based disaccharides to bind jacalin with the reducing sugar at the primary site. (c) 2017 IUBMB Life, 69(2):72-78, 2017.

-	~~Authors~~:	+	Distortion of the ligand molecule as a strategy for modulating binding affinity: Further studies involving complexes of jacalin with beta-substituted disaccharides.,Abhinav KV, Sharma K, Surolia A, Vijayan M IUBMB Life. 2017 Feb;69(2):72-78. doi: 10.1002/iub.1593. Epub 2017 Jan 23. PMID:28111895<ref>PMID:28111895</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5j4t" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Agglutinin\|Agglutinin]]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Artocarpus integer]]
		+	[[Category: Abhinav, K V]]
		+	[[Category: Sharma, K]]
		+	[[Category: Surolia, A]]
		+	[[Category: Vijayan, M]]
		+	[[Category: Beta-prism i fold]]
		+	[[Category: Galactose specific lectin]]
		+	[[Category: Plant lectin]]
		+	[[Category: Post translational proteolysis]]
		+	[[Category: Reducing and non-reducing sugar]]
		+	[[Category: Sugar binding protein]]
		+	[[Category: T-antigen binding protein]]

OCA at 15:03, 15 May 2016

OCA — Sun, 15 May 2016 15:03:10 GMT

←Older revision		Revision as of 15:03, 15 May 2016
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	The entry 5j4t is ON HOLD until Paper Publication		The entry 5j4t is ON HOLD until Paper Publication

-	Authors: ~~Abhinav, K.V., Sharma, K., Surolia, A., Vijayan, M.~~	+	Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Vijayan, M]]
-	[[Category: Abhinav, K.V]]
-	[[Category: Sharma, K]]
-	[[Category: Surolia, A]]

OCA: Protected "5j4t" [edit=sysop:move=sysop]

OCA — Wed, 11 May 2016 01:27:42 GMT

Protected "5j4t" [edit=sysop:move=sysop]

←Older revision

Revision as of 01:27, 11 May 2016

OCA: New page: '''Unreleased structure''' The entry 5j4t is ON HOLD until Paper Publication Authors: Abhinav, K.V., Sharma, K., Surolia, A., Vijayan, M. Description: [[Category: Unreleased Structure...

OCA — Wed, 11 May 2016 01:27:41 GMT

New page: '''Unreleased structure''' The entry 5j4t is ON HOLD until Paper Publication Authors: Abhinav, K.V., Sharma, K., Surolia, A., Vijayan, M. Description: [[Category: Unreleased Structure...

New page

'''Unreleased structure'''

The entry 5j4t is ON HOLD until Paper Publication

Authors: Abhinav, K.V., Sharma, K., Surolia, A., Vijayan, M.

Description:
[[Category: Unreleased Structures]]
[[Category: Vijayan, M]]
[[Category: Abhinav, K.V]]
[[Category: Sharma, K]]
[[Category: Surolia, A]]