6t99 - Revision history

OCA at 12:58, 24 January 2024

OCA — Wed, 24 Jan 2024 12:58:10 GMT

←Older revision		Revision as of 12:58, 24 January 2024
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	<StructureSection load='6t99' size='340' side='right'caption='[[6t99]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='6t99' size='340' side='right'caption='[[6t99]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6t99]] is a 9 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_solanacearum"_smith_1896 "bacillus~~ solanacearum~~" smith 1896~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T99 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6T99 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6t99]] is a 9 chain structure with sequence from [https://en.wikipedia.org/wiki/Ralstonia_solanacearum Ralstonia solanacearum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T99 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6T99 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=MFU:ALPHA~~-~~L-METHYL-FUCOSE'>MFU</scene>~~, ~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 2.7Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~RSP795_21825, RSP799_05830, RSP822_19650, RUN39_v1_50103 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=305 "Bacillus solanacearum" Smith 1896])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MFU:ALPHA-L-METHYL-FUCOSE'>MFU</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=6t99 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t99 OCA], [~~http~~://pdbe.org/6t99 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6t99 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6t99 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6t99 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=6t99 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t99 OCA], [https://pdbe.org/6t99 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6t99 RCSB], [https://www.ebi.ac.uk/pdbsum/6t99 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6t99 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0S4TLR1_RALSL A0A0S4TLR1_RALSL]
	<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 solanacearum smith 1896]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Houser, J~~]]	+	[[Category: Ralstonia solanacearum]]
-	[[Category: ~~Kozmon, S~~]]	+	[[Category: Houser J]]
-	[[Category: ~~Wimmerova, M~~]]	+	[[Category: Kozmon S]]
-	[[Category: ~~Beta-propeller]]~~	+	[[Category: Wimmerova M]]
-	~~[[Category: Fucose-binding]]~~	+
-	~~[[Category: Lectin]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 10:00, 12 August 2020

OCA — Wed, 12 Aug 2020 10:00:37 GMT

←Older revision		Revision as of 10:00, 12 August 2020
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	==Crystal structrue of RSL W31YW76Y lectin mutant in complex with alpha-methylfucoside==		==Crystal structrue of RSL W31YW76Y lectin mutant in complex with alpha-methylfucoside==
-	<StructureSection load='6t99' size='340' side='right'caption='[[6t99]]' scene=''>	+	<StructureSection load='6t99' size='340' side='right'caption='[[6t99]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T99 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6T99 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6t99]] is a 9 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_solanacearum"_smith_1896 "bacillus solanacearum" smith 1896]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T99 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6T99 FirstGlance]. <br>
-	</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=6t99 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t99 OCA], [http://pdbe.org/6t99 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t99 RCSB], [http://www.ebi.ac.uk/pdbsum/6t99 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t99 ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MFU:ALPHA-L-METHYL-FUCOSE'>MFU</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">RSP795_21825, RSP799_05830, RSP822_19650, RUN39_v1_50103 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=305 "Bacillus solanacearum" Smith 1896])</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=6t99 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t99 OCA], [http://pdbe.org/6t99 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t99 RCSB], [http://www.ebi.ac.uk/pdbsum/6t99 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t99 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The molecular recognition of carbohydrates by proteins plays a key role in many biological processes including immune response, pathogen entry into a cell and cell-cell adhesion (e.g., in cancer metastasis). Carbohydrates interact with proteins mainly through hydrogen bonding, metal-ion-mediated interaction and non-polar dispersion interactions. The role of dispersion-driven CH-pi interactions (stacking) in protein-carbohydrate recognition has been underestimated for a long time considering the polar interactions to be the main forces for saccharide interactions. However, over the last few years it turns out that non-polar interactions are equally important. In this study we analyzed the CH-pi interactions employing bioinformatics (data mining, structural analysis), several experimental (ITC, X-ray crystallography) and computational techniques. The Protein Data Bank (PDB) has been used as a source of structural data. PDB contains over 12 000 protein complexes with carbohydrates. Stacking interactions are very frequently present in such complexes (about 39% of identified structures). The calculations and the ITC measurement results suggest that the CH-pi stacking contribution to the overall binding energy ranges from 4 kcal/mol up to 8 kcal/mol. All the results show that the stacking CH-pi interactions in protein-carbohydrate complexes can be considered to be a driving force of the binding in such complexes.
		+
		+	The CH-pi interaction in protein - carbohydrate binding: Bioinformatics and in vitro quantification.,Houser J, Kozmon S, Mishra D, Hammerova Z, Wimmerova M, Koca J Chemistry. 2020 Mar 24. doi: 10.1002/chem.202000593. PMID:32208534<ref>PMID:32208534</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6t99" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus solanacearum smith 1896]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Houser J]]	+	[[Category: Houser, J]]
-	[[Category: Kozmon S]]	+	[[Category: Kozmon, S]]
-	[[Category: Wimmerova M]]	+	[[Category: Wimmerova, M]]
		+	[[Category: Beta-propeller]]
		+	[[Category: Fucose-binding]]
		+	[[Category: Lectin]]
		+	[[Category: Sugar binding protein]]

OCA at 05:44, 22 April 2020

OCA — Wed, 22 Apr 2020 05:44:19 GMT

←Older revision		Revision as of 05:44, 22 April 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6t99 is ~~ON HOLD until Paper Publication~~	+	==Crystal structrue of RSL W31YW76Y lectin mutant in complex with alpha-methylfucoside==
-		+	<StructureSection load='6t99' size='340' side='right'caption='[[6t99]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T99 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6T99 FirstGlance]. <br>
-	~~Description~~:	+	</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=6t99 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t99 OCA], [http://pdbe.org/6t99 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t99 RCSB], [http://www.ebi.ac.uk/pdbsum/6t99 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t99 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Houser J]]
		+	[[Category: Kozmon S]]
		+	[[Category: Wimmerova M]]

OCA: Protected "6t99" [edit=sysop:move=sysop]

OCA — Wed, 06 Nov 2019 05:11:04 GMT

Protected "6t99" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:11, 6 November 2019

OCA: New page: '''Unreleased structure''' The entry 6t99 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Wed, 06 Nov 2019 05:11:02 GMT

New page: '''Unreleased structure''' The entry 6t99 is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6t99 is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]