5nle - Revision history

OCA at 13:05, 15 November 2023

2023-11-15T13:05:37Z

←Older revision		Revision as of 13:05, 15 November 2023
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	==Chicken GRIFIN (crystallisation pH: 8.0)==		==Chicken GRIFIN (crystallisation pH: 8.0)==
-	<StructureSection load='5nle' size='340' side='right' caption='[[5nle]], [[Resolution\|resolution]] 1.84Å' scene=''>	+	<StructureSection load='5nle' size='340' side='right'caption='[[5nle]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nle]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Chick Chick~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NLE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5NLE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nle]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NLE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NLE FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=LBT:ALPHA-LACTOSE'>LBT</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]] 1.845Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~GRIFIN ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id~~=~~9031 CHICK])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900008:alpha-lactose'>PRD_900008</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=5nle FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nle OCA], [~~http~~://pdbe.org/5nle PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5nle RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5nle PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5nle 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=5nle FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nle OCA], [https://pdbe.org/5nle PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nle RCSB], [https://www.ebi.ac.uk/pdbsum/5nle PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nle ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/F1NZ18_CHICK F1NZ18_CHICK]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 5nle" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5nle" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Galectin 3D structures\|Galectin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Chick~~]]	+	[[Category: Gallus gallus]]
-	[[Category: ~~Romero, A~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Ruiz, F M~~]]	+	[[Category: Romero A]]
-	[[Category: ~~Galectin related protein]]~~	+	[[Category: Ruiz FM]]
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 07:43, 22 February 2018

2018-02-22T07:43:56Z

←Older revision		Revision as of 07:43, 22 February 2018
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	<StructureSection load='5nle' size='340' side='right' caption='[[5nle]], [[Resolution\|resolution]] 1.84Å' scene=''>		<StructureSection load='5nle' size='340' side='right' caption='[[5nle]], [[Resolution\|resolution]] 1.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nle]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NLE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NLE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nle]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Chick Chick]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NLE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NLE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LBT:ALPHA-LACTOSE'>LBT</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LBT:ALPHA-LACTOSE'>LBT</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GRIFIN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9031 CHICK])</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=5nle FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nle OCA], [http://pdbe.org/5nle PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nle RCSB], [http://www.ebi.ac.uk/pdbsum/5nle PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nle ProSAT]</span></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=5nle FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nle OCA], [http://pdbe.org/5nle PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nle RCSB], [http://www.ebi.ac.uk/pdbsum/5nle PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nle ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Chick]]
	[[Category: Romero, A]]		[[Category: Romero, A]]
	[[Category: Ruiz, F M]]		[[Category: Ruiz, F M]]
	[[Category: Galectin related protein]]		[[Category: Galectin related protein]]
	[[Category: Sugar binding protein]]		[[Category: Sugar binding protein]]

OCA at 06:24, 15 February 2018

2018-02-15T06:24:11Z

←Older revision		Revision as of 06:24, 15 February 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 5nle is ~~ON HOLD until Paper~~ Publication	+	==Chicken GRIFIN (crystallisation pH: 8.0)==
		+	<StructureSection load='5nle' size='340' side='right' caption='[[5nle]], [[Resolution\|resolution]] 1.84Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5nle]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NLE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NLE FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=LBT:ALPHA-LACTOSE'>LBT</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=5nle FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nle OCA], [http://pdbe.org/5nle PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nle RCSB], [http://www.ebi.ac.uk/pdbsum/5nle PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nle ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Despite its natural abundance in lenses of vertebrates the physiological function(s) of the galectin-related inter-fiber protein (GRIFIN) is (are) still unclear. The same holds true for the significance of the unique interspecies (fish/birds vs mammals) variability in the capacity to bind lactose. In solution, ultracentrifugation and small angle X-ray scattering (at concentrations up to 9mg/mL) characterize the protein as compact and stable homodimer without evidence for aggregation. The crystal structure of chicken (C-)GRIFIN at seven pH values from 4.2 to 8.5 is reported, revealing compelling stability. Binding of lactose despite the Arg71Val deviation from the sequence signature of galectins matched the otherwise canonical contact pattern with thermodynamics of an enthalpically driven process. Upon lactose accommodation, the side chain of Arg50 is shifted for hydrogen bonding to the 3-hydroxyl of glucose. No evidence for a further ligand-dependent structural alteration was obtained in solution by measuring hydrogen/deuterium exchange mass spectrometrically in peptic fingerprints. The introduction of the Asn48Lys mutation, characteristic for mammalian GRIFINs that have lost lectin activity, lets labeled C-GRIFIN maintain capacity to stain tissue sections. Binding is no longer inhibitable by lactose, as seen for the wild-type protein. These results establish the basis for detailed structure-activity considerations and are a step to complete the structural description of all seven members of the galectin network in chicken.

-	~~Authors~~: Ruiz, ~~F.M.~~, ~~Romero~~, A.	+	Chicken GRIFIN: Structural characterization in crystals and in solution.,Ruiz FM, Gilles U, Ludwig AK, Sehad C, Shiao TC, Garcia Caballero G, Kaltner H, Lindner I, Roy R, Reusch D, Romero A, Gabius HJ Biochimie. 2018 Mar;146:127-138. doi: 10.1016/j.biochi.2017.12.003. Epub 2017 Dec, 15. PMID:29248541<ref>PMID:29248541</ref>

-	~~Description: Chicken GRIFIN (crystallisation pH: 8~~.0)	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
		+	<div class="pdbe-citations 5nle" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Romero, A]]		[[Category: Romero, A]]
-	[[Category: Ruiz, F.M]]	+	[[Category: Ruiz, F M]]
		+	[[Category: Galectin related protein]]
		+	[[Category: Sugar binding protein]]

OCA at 09:37, 19 April 2017

2017-04-19T09:37:34Z

←Older revision		Revision as of 09:37, 19 April 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Ruiz, F.M., Romero, A.		Authors: Ruiz, F.M., Romero, A.

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

2017-04-12T08:08:50Z

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

←Older revision

Revision as of 08:08, 12 April 2017

OCA: New page: '''Unreleased structure''' The entry 5nle is ON HOLD Authors: Ruiz, F.M., Romero, A. Description: Chicken GRIFIN (crystallisation pH: 8.0) Category: Unreleased Structures [[Categor...

2017-04-12T08:08:48Z

New page: '''Unreleased structure''' The entry 5nle is ON HOLD Authors: Ruiz, F.M., Romero, A. Description: Chicken GRIFIN (crystallisation pH: 8.0) Category: Unreleased Structures [[Categor...

New page

'''Unreleased structure'''

The entry 5nle is ON HOLD

Authors: Ruiz, F.M., Romero, A.

Description: Chicken GRIFIN (crystallisation pH: 8.0)
[[Category: Unreleased Structures]]
[[Category: Romero, A]]
[[Category: Ruiz, F.M]]