5m63 - Revision history

OCA at 18:27, 1 November 2023

OCA — Wed, 01 Nov 2023 18:27:11 GMT

←Older revision		Revision as of 18:27, 1 November 2023
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	<StructureSection load='5m63' size='340' side='right'caption='[[5m63]], [[Resolution\|resolution]] 2.74Å' scene=''>		<StructureSection load='5m63' size='340' side='right'caption='[[5m63]], [[Resolution\|resolution]] 2.74Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5m63]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~European_rabbit European rabbit~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M63 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5M63 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5m63]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Oryctolagus_cuniculus Oryctolagus cuniculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M63 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5M63 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7GW:(2~{R},3~{R},4~{S},5~{S})-2-[BIS(OXIDANYL)METHYL]-5-(HYDROXYMETHYL)OXOLANE-3,4-DIOL'>7GW</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</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]] 2.74Å</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=5m63 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m63 OCA], [~~http~~://pdbe.org/5m63 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5m63 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5m63 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5m63 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7GW:(2~{R},3~{R},4~{S},5~{S})-2-[BIS(OXIDANYL)METHYL]-5-(HYDROXYMETHYL)OXOLANE-3,4-DIOL'>7GW</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</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=5m63 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m63 OCA], [https://pdbe.org/5m63 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5m63 RCSB], [https://www.ebi.ac.uk/pdbsum/5m63 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5m63 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: European rabbit]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Adamo, R]]	+	[[Category: Oryctolagus cuniculus]]
-	[[Category: Berti, F]]	+	[[Category: Adamo R]]
-	[[Category: Carboni, F]]	+	[[Category: Berti F]]
-	[[Category: Malito, E]]	+	[[Category: Carboni F]]
-	[[Category: Margarit~~, I R~~]]	+	[[Category: Malito E]]
-	[[Category: Rappuoli, R]]	+	[[Category: Margarit IR]]
-	[[Category: Veggi, D]]	+	[[Category: Rappuoli R]]
-	~~[[Category: Fab]]~~	+	[[Category: Veggi D]]
-	~~[[Category: Gb]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Oligosaccharide]]~~	+
-	~~[[Category: Vaccine~~]]	+

OCA at 07:59, 3 April 2019

OCA — Wed, 03 Apr 2019 07:59:57 GMT

←Older revision		Revision as of 07:59, 3 April 2019
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	==Crystal structure of group B Streptococcus type III DP2 oligosaccharide bound to Fab NVS-1-19-5==		==Crystal structure of group B Streptococcus type III DP2 oligosaccharide bound to Fab NVS-1-19-5==
-	<StructureSection load='5m63' size='340' side='right' caption='[[5m63]], [[Resolution\|resolution]] 2.74Å' scene=''>	+	<StructureSection load='5m63' size='340' side='right'caption='[[5m63]], [[Resolution\|resolution]] 2.74Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5m63]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M63 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5M63 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5m63]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M63 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5M63 FirstGlance]. <br>
Line 21:		Line 21:
	</StructureSection>		</StructureSection>
	[[Category: European rabbit]]		[[Category: European rabbit]]
		+	[[Category: Large Structures]]
	[[Category: Adamo, R]]		[[Category: Adamo, R]]
	[[Category: Berti, F]]		[[Category: Berti, F]]

OCA at 01:21, 16 November 2017

OCA — Thu, 16 Nov 2017 01:21:25 GMT

←Older revision		Revision as of 01:21, 16 November 2017
Line 3:		Line 3:
	<StructureSection load='5m63' size='340' side='right' caption='[[5m63]], [[Resolution\|resolution]] 2.74Å' scene=''>		<StructureSection load='5m63' size='340' side='right' caption='[[5m63]], [[Resolution\|resolution]] 2.74Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5m63]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M63 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5M63 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5m63]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/European_rabbit European rabbit]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M63 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5M63 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7GW:(2~{R},3~{R},4~{S},5~{S})-2-[BIS(OXIDANYL)METHYL]-5-(HYDROXYMETHYL)OXOLANE-3,4-DIOL'>7GW</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7GW:(2~{R},3~{R},4~{S},5~{S})-2-[BIS(OXIDANYL)METHYL]-5-(HYDROXYMETHYL)OXOLANE-3,4-DIOL'>7GW</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</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=5m63 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m63 OCA], [http://pdbe.org/5m63 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5m63 RCSB], [http://www.ebi.ac.uk/pdbsum/5m63 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5m63 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=5m63 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m63 OCA], [http://pdbe.org/5m63 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5m63 RCSB], [http://www.ebi.ac.uk/pdbsum/5m63 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5m63 ProSAT]</span></td></tr>
Line 20:		Line 20:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: European rabbit]]
	[[Category: Adamo, R]]		[[Category: Adamo, R]]
	[[Category: Berti, F]]		[[Category: Berti, F]]

OCA at 12:58, 4 May 2017

OCA — Thu, 04 May 2017 12:58:43 GMT

←Older revision		Revision as of 12:58, 4 May 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5m63 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of group B Streptococcus type III DP2 oligosaccharide bound to Fab NVS-1-19-5==
		+	<StructureSection load='5m63' size='340' side='right' caption='[[5m63]], [[Resolution\|resolution]] 2.74Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5m63]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5M63 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5M63 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7GW:(2~{R},3~{R},4~{S},5~{S})-2-[BIS(OXIDANYL)METHYL]-5-(HYDROXYMETHYL)OXOLANE-3,4-DIOL'>7GW</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SIA:O-SIALIC+ACID'>SIA</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=5m63 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5m63 OCA], [http://pdbe.org/5m63 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5m63 RCSB], [http://www.ebi.ac.uk/pdbsum/5m63 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5m63 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Despite substantial progress in the prevention of group B Streptococcus (GBS) disease with the introduction of intrapartum antibiotic prophylaxis, this pathogen remains a leading cause of neonatal infection. Capsular polysaccharide conjugate vaccines have been tested in phase I/II clinical studies, showing promise for further development. Mapping of epitopes recognized by protective antibodies is crucial for understanding the mechanism of action of vaccines and for enabling antigen design. In this study, we report the structure of the epitope recognized by a monoclonal antibody with opsonophagocytic activity and representative of the protective response against type III GBS polysaccharide. The structure and the atomic-level interactions were determined by saturation transfer difference (STD)-NMR and X-ray crystallography using oligosaccharides obtained by synthetic and depolymerization procedures. The GBS PSIII epitope is made by six sugars. Four of them derive from two adjacent repeating units of the PSIII backbone and two of them from the branched galactose-sialic acid disaccharide contained in this sequence. The sialic acid residue establishes direct binding interactions with the functional antibody. The crystal structure provides insight into the molecular basis of antibody-carbohydrate interactions and confirms that the conformational epitope is not required for antigen recognition. Understanding the structural basis of immune recognition of capsular polysaccharide epitopes can aid in the design of novel glycoconjugate vaccines.

-	~~Authors~~:	+	Structure of a protective epitope of group B Streptococcus type III capsular polysaccharide.,Carboni F, Adamo R, Fabbrini M, De Ricco R, Cattaneo V, Brogioni B, Veggi D, Pinto V, Passalacqua I, Oldrini D, Rappuoli R, Malito E, Margarit IYR, Berti F Proc Natl Acad Sci U S A. 2017 Apr 24. pii: 201701885. doi:, 10.1073/pnas.1701885114. PMID:28439022<ref>PMID:28439022</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5m63" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Adamo, R]]
		+	[[Category: Berti, F]]
		+	[[Category: Carboni, F]]
		+	[[Category: Malito, E]]
		+	[[Category: Margarit, I R]]
		+	[[Category: Rappuoli, R]]
		+	[[Category: Veggi, D]]
		+	[[Category: Fab]]
		+	[[Category: Gb]]
		+	[[Category: Immune system]]
		+	[[Category: Oligosaccharide]]
		+	[[Category: Vaccine]]

OCA at 13:16, 2 January 2017

OCA — Mon, 02 Jan 2017 13:16:00 GMT

←Older revision		Revision as of 13:16, 2 January 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5m63 is ON HOLD	+	The entry 5m63 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5m63" [edit=sysop:move=sysop]

OCA — Wed, 02 Nov 2016 16:02:22 GMT

Protected "5m63" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:02, 2 November 2016

OCA: New page: '''Unreleased structure''' The entry 5m63 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 02 Nov 2016 16:02:20 GMT

New page: '''Unreleased structure''' The entry 5m63 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5m63 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]