4hxb - Revision history

OCA at 06:48, 3 April 2024

OCA — Wed, 03 Apr 2024 06:48:47 GMT

←Older revision		Revision as of 06:48, 3 April 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4hxb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HXB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HXB FirstGlance]. <br>		<table><tr><td colspan='2'>[[4hxb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HXB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HXB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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]] 2.45Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</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=4hxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hxb OCA], [https://pdbe.org/4hxb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hxb RCSB], [https://www.ebi.ac.uk/pdbsum/4hxb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hxb 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=4hxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hxb OCA], [https://pdbe.org/4hxb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hxb RCSB], [https://www.ebi.ac.uk/pdbsum/4hxb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hxb ProSAT]</span></td></tr>
	</table>		</table>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Monoclonal antibodies 13D9 and 6B9 are both specific for N-propionylated polysialic acid (NPrPSA); however, while 13D9 is protective against meningitis caused by group B meningococci and Escherichia coli capsular type K1 infection, 6B9 is not. The crystal structures of the Fabs from the two antibodies determined at 2.06 and 2.45 A resolutions, respectively, reveal markedly different combining sites, where only the surface of 13D9 is consistent with the recognition of extended helical epitopes known to exist in the capsular polysaccharides of etiological agents of meningitis. Interestingly, complementarity determining region H2 on 13D9 lies in a non-canonical conformation that docking studies show is a critical feature in the generation of negative free energy of binding. Finally, the model of extended NPrPSA decasaccharide bound to 13D9 derived from docking studies is consistent with saturation transfer difference nuclear magnetic resonance experiments. Together, these results provide further evidence that extended epitopes have the ability to break immune tolerance associated with the polysialic acid capsule of these pathogens.
-
-	The antigen-binding site of an N-propionylated polysialic acid-specific antibody protective against group B meningococci is consistent with extended epitopes.,Johal AR, Jarrell HC, Letts JA, Khieu NH, Landry RC, Jachymek W, Yang Q, Jennings HJ, Brisson JR, Evans SV Glycobiology. 2013 Aug;23(8):946-54. doi: 10.1093/glycob/cwt031. Epub 2013 May, 22. PMID:23704298<ref>PMID:23704298</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 4hxb" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 08:23, 9 November 2022

OCA — Wed, 09 Nov 2022 08:23:38 GMT

←Older revision		Revision as of 08:23, 9 November 2022
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	<StructureSection load='4hxb' size='340' side='right'caption='[[4hxb]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='4hxb' size='340' side='right'caption='[[4hxb]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4hxb]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HXB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4HXB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4hxb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HXB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4HXB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hxa\|4hxa]]~~</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=4hxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hxb OCA], [https://pdbe.org/4hxb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4hxb RCSB], [https://www.ebi.ac.uk/pdbsum/4hxb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4hxb 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=4hxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hxb OCA], [~~http~~://pdbe.org/4hxb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4hxb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4hxb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4hxb ProSAT]</span></td></tr>	+
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: Brisson~~, J R~~]]	+	[[Category: Brisson JR]]
-	[[Category: Evans~~, S V~~]]	+	[[Category: Evans SV]]
-	[[Category: Jachymek, W]]	+	[[Category: Jachymek W]]
-	[[Category: Jarrell~~, H C~~]]	+	[[Category: Jarrell HC]]
-	[[Category: Jennings~~, H J~~]]	+	[[Category: Jennings HJ]]
-	[[Category: Johal~~, A R~~]]	+	[[Category: Johal AR]]
-	[[Category: Khieu~~, N H~~]]	+	[[Category: Khieu NH]]
-	[[Category: Landry~~, R C~~]]	+	[[Category: Landry RC]]
-	[[Category: Letts~~, J A~~]]	+	[[Category: Letts JA]]
-	[[Category: Yang, Q]]	+	[[Category: Yang Q]]
-	~~[[Category: Antibody]]~~	+
-	~~[[Category: Carbohydrate-binding]]~~	+
-	~~[[Category: Complementarity determining region]]~~	+
-	~~[[Category: Fab]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 08:12, 27 March 2019

OCA — Wed, 27 Mar 2019 08:12:14 GMT

←Older revision		Revision as of 08:12, 27 March 2019
Line 1:		Line 1:

	==Crystal structure of 6B9 FAB==		==Crystal structure of 6B9 FAB==
-	<StructureSection load='4hxb' size='340' side='right' caption='[[4hxb]], [[Resolution\|resolution]] 2.45Å' scene=''>	+	<StructureSection load='4hxb' size='340' side='right'caption='[[4hxb]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4hxb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HXB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HXB FirstGlance]. <br>		<table><tr><td colspan='2'>[[4hxb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HXB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HXB FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Brisson, J R]]		[[Category: Brisson, J R]]

OCA at 12:13, 11 August 2016

OCA — Thu, 11 Aug 2016 12:13:44 GMT

←Older revision		Revision as of 12:13, 11 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of 6B9 FAB==		==Crystal structure of 6B9 FAB==
	<StructureSection load='4hxb' size='340' side='right' caption='[[4hxb]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='4hxb' size='340' side='right' caption='[[4hxb]], [[Resolution\|resolution]] 2.45Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hxa\|4hxa]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hxa\|4hxa]]</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=4hxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hxb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hxb RCSB], [http://www.ebi.ac.uk/pdbsum/4hxb PDBsum]</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=4hxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hxb OCA], [http://pdbe.org/4hxb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4hxb RCSB], [http://www.ebi.ac.uk/pdbsum/4hxb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4hxb ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4hxb" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 14:22, 4 January 2015

OCA — Sun, 04 Jan 2015 14:22:30 GMT

←Older revision		Revision as of 14:22, 4 January 2015
Line 1:		Line 1:
-	~~{{STRUCTURE_4hxb\| PDB~~=4hxb \| ~~SCENE~~= }}	+	==Crystal structure of 6B9 FAB==
-	===~~Crystal~~ structure ~~of 6B9 FAB~~===	+	<StructureSection load='4hxb' size='340' side='right' caption='[[4hxb]], [[Resolution\|resolution]] 2.45Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23704298}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4hxb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HXB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4HXB FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4hxa\|4hxa]]</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=4hxb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4hxb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4hxb RCSB], [http://www.ebi.ac.uk/pdbsum/4hxb PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Monoclonal antibodies 13D9 and 6B9 are both specific for N-propionylated polysialic acid (NPrPSA); however, while 13D9 is protective against meningitis caused by group B meningococci and Escherichia coli capsular type K1 infection, 6B9 is not. The crystal structures of the Fabs from the two antibodies determined at 2.06 and 2.45 A resolutions, respectively, reveal markedly different combining sites, where only the surface of 13D9 is consistent with the recognition of extended helical epitopes known to exist in the capsular polysaccharides of etiological agents of meningitis. Interestingly, complementarity determining region H2 on 13D9 lies in a non-canonical conformation that docking studies show is a critical feature in the generation of negative free energy of binding. Finally, the model of extended NPrPSA decasaccharide bound to 13D9 derived from docking studies is consistent with saturation transfer difference nuclear magnetic resonance experiments. Together, these results provide further evidence that extended epitopes have the ability to break immune tolerance associated with the polysialic acid capsule of these pathogens.

-	~~==About this Structure==~~	+	The antigen-binding site of an N-propionylated polysialic acid-specific antibody protective against group B meningococci is consistent with extended epitopes.,Johal AR, Jarrell HC, Letts JA, Khieu NH, Landry RC, Jachymek W, Yang Q, Jennings HJ, Brisson JR, Evans SV Glycobiology. 2013 Aug;23(8):946-54. doi: 10.1093/glycob/cwt031. Epub 2013 May, 22. PMID:23704298<ref>PMID:23704298</ref>
-	~~[[4hxb]]~~ is ~~a 2 chain structure~~ with ~~sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mus_musculus Mus musculus]~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=4HXB OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:023704298</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: Brisson, J R.]]	+	[[Category: Brisson, J R]]
-	[[Category: Evans, S V.]]	+	[[Category: Evans, S V]]
-	[[Category: Jachymek, W.]]	+	[[Category: Jachymek, W]]
-	[[Category: Jarrell, H C.]]	+	[[Category: Jarrell, H C]]
-	[[Category: Jennings, H J.]]	+	[[Category: Jennings, H J]]
-	[[Category: Johal, A R.]]	+	[[Category: Johal, A R]]
-	[[Category: Khieu, N H.]]	+	[[Category: Khieu, N H]]
-	[[Category: Landry, R C.]]	+	[[Category: Landry, R C]]
-	[[Category: Letts, J A.]]	+	[[Category: Letts, J A]]
-	[[Category: Yang, Q.]]	+	[[Category: Yang, Q]]
	[[Category: Antibody]]		[[Category: Antibody]]
	[[Category: Carbohydrate-binding]]		[[Category: Carbohydrate-binding]]

OCA at 12:53, 24 July 2013

OCA — Wed, 24 Jul 2013 12:53:20 GMT

←Older revision		Revision as of 12:53, 24 July 2013
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4hxb\| PDB=4hxb \| SCENE= }}
		+	===Crystal structure of 6B9 FAB===
		+	{{ABSTRACT_PUBMED_23704298}}

-	~~The entry~~ 4hxb is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4hxb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4HXB OCA].

-	~~Authors~~: ~~Johal~~, A.R., Jarrell, H.C., ~~Khieu, N.~~H~~., Letts,~~ J.A., Landry, R.C., ~~Jachymek, W~~., Yang, Q.~~, Jennings, H.J., Brisson, J.R., Evans, S.V.~~	+	==Reference==
-		+	<ref group="xtra">PMID:023704298</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of 6B9 FAB~~	+	[[Category: Mus musculus]]
		+	[[Category: Brisson, J R.]]
		+	[[Category: Evans, S V.]]
		+	[[Category: Jachymek, W.]]
		+	[[Category: Jarrell, H C.]]
		+	[[Category: Jennings, H J.]]
		+	[[Category: Johal, A R.]]
		+	[[Category: Khieu, N H.]]
		+	[[Category: Landry, R C.]]
		+	[[Category: Letts, J A.]]
		+	[[Category: Yang, Q.]]
		+	[[Category: Antibody]]
		+	[[Category: Carbohydrate-binding]]
		+	[[Category: Complementarity determining region]]
		+	[[Category: Fab]]
		+	[[Category: Immune system]]

OCA: Protected "4hxb" [edit=sysop:move=sysop]

OCA — Wed, 21 Nov 2012 09:08:46 GMT

Protected "4hxb" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:08, 21 November 2012

OCA: New page: '''Unreleased structure''' The entry 4hxb is ON HOLD until Paper Publication Authors: Johal, A.R., Jarrell, H.C., Khieu, N.H., Letts, J.A., Landry, R.C., Jachymek, W., Yang, Q., Jenning...

OCA — Wed, 21 Nov 2012 09:08:45 GMT

New page: '''Unreleased structure''' The entry 4hxb is ON HOLD until Paper Publication Authors: Johal, A.R., Jarrell, H.C., Khieu, N.H., Letts, J.A., Landry, R.C., Jachymek, W., Yang, Q., Jenning...

New page

'''Unreleased structure'''

The entry 4hxb is ON HOLD until Paper Publication

Authors: Johal, A.R., Jarrell, H.C., Khieu, N.H., Letts, J.A., Landry, R.C., Jachymek, W., Yang, Q., Jennings, H.J., Brisson, J.R., Evans, S.V.

Description: Crystal structure of 6B9 FAB