6p4b - Revision history

OCA at 07:22, 11 October 2023

2023-10-11T07:22:54Z

←Older revision		Revision as of 07:22, 11 October 2023
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	<StructureSection load='6p4b' size='340' side='right'caption='[[6p4b]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='6p4b' size='340' side='right'caption='[[6p4b]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6p4b]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Chick Chick~~] and [~~http~~://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P4B OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6P4B FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6p4b]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P4B OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6P4B FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=CL:CHLORIDE+ION'>CL</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]] 1.9Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>LC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~10090 LK3 transgenic mice]), LYZ ([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=CL:CHLORIDE+ION'>CL</scene></td></tr>
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b></td><td class="sblockDat"><span class='plainlinks~~'>~~[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17]~~ </~~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=6p4b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p4b OCA], [https://pdbe.org/6p4b PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6p4b RCSB], [https://www.ebi.ac.uk/pdbsum/6p4b PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6p4b 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=6p4b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p4b OCA], [~~http~~://pdbe.org/6p4b PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6p4b RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6p4b PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6p4b ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~LYSC_CHICK LYSC_CHICK~~]] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</ref>	+	[https://www.uniprot.org/uniprot/A0A0E4B213_MOUSE A0A0E4B213_MOUSE]
	<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: ~~Chick~~]]	+	[[Category: Gallus gallus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice]]~~	+	[[Category: Mus musculus]]
-	~~[[Category: Lysozyme~~]]	+	[[Category: Christ D]]
-	[[Category: Christ, D]]	+	[[Category: Langley DB]]
-	[[Category: Langley~~, D B]]~~	+
-	~~[[Category: Antigen-antibody]]~~	+
-	~~[[Category: Fab]]~~	+
-	~~[[Category: Hel2x-flex]]~~	+
-	~~[[Category: Hydrolase-immune system complex]]~~	+
-	~~[[Category: Hyhel10-4x~~]]	+

OCA at 12:43, 16 December 2020

2020-12-16T12:43:43Z

←Older revision		Revision as of 12:43, 16 December 2020
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	==HyHEL10 fab variant HyHEL10-4x (heavy chain mutations L4F, Y33H, S56N, and Y58F) bound to hen egg lysozyme variant HEL2x-flex (mutations R21Q, R73E, C76S, and C94S)==		==HyHEL10 fab variant HyHEL10-4x (heavy chain mutations L4F, Y33H, S56N, and Y58F) bound to hen egg lysozyme variant HEL2x-flex (mutations R21Q, R73E, C76S, and C94S)==
-	<StructureSection load='6p4b' size='340' side='right'caption='[[6p4b]]' scene=''>	+	<StructureSection load='6p4b' size='340' side='right'caption='[[6p4b]], [[Resolution\|resolution]] 1.90Å' 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=6P4B OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6P4B FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6p4b]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Chick Chick] and [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P4B OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6P4B 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=6p4b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p4b OCA], [http://pdbe.org/6p4b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6p4b RCSB], [http://www.ebi.ac.uk/pdbsum/6p4b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6p4b 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=CL:CHLORIDE+ION'>CL</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">LC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice]), LYZ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9031 CHICK])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Lysozyme Lysozyme], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.17 3.2.1.17] </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=6p4b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p4b OCA], [http://pdbe.org/6p4b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6p4b RCSB], [http://www.ebi.ac.uk/pdbsum/6p4b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6p4b ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/LYSC_CHICK LYSC_CHICK]] Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents. Has bacteriolytic activity against M.luteus.<ref>PMID:22044478</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Conformational diversity and self-cross-reactivity of antigens have been correlated with evasion from neutralizing antibody responses. We utilized single cell B cell sequencing, biolayer interferometry and X-ray crystallography to trace mutation selection pathways where the antibody response must resolve cross-reactivity between foreign and self-proteins bearing near-identical contact surfaces, but differing in conformational flexibility. Recurring antibody mutation trajectories mediate long-range rearrangements of framework (FW) and complementarity determining regions (CDRs) that increase binding site conformational diversity. These antibody mutations decrease affinity for self-antigen 19-fold and increase foreign affinity 67-fold, to yield a more than 1,250-fold increase in binding discrimination. These results demonstrate how conformational diversity in antigen and antibody does not act as a barrier, as previously suggested, but rather facilitates high affinity and high discrimination between foreign and self.
		+
		+	Conformational diversity facilitates antibody mutation trajectories and discrimination between foreign and self-antigens.,Burnett DL, Schofield P, Langley DB, Jackson J, Bourne K, Wilson E, Porebski BT, Buckle AM, Brink R, Goodnow CC, Christ D Proc Natl Acad Sci U S A. 2020 Sep 8;117(36):22341-22350. doi:, 10.1073/pnas.2005102117. Epub 2020 Aug 27. PMID:32855302<ref>PMID:32855302</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6p4b" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Lysozyme 3D structures\|Lysozyme 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Chick]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Christ D]]	+	[[Category: Lk3 transgenic mice]]
-	[[Category: Langley DB]]	+	[[Category: Lysozyme]]
		+	[[Category: Christ, D]]
		+	[[Category: Langley, D B]]
		+	[[Category: Antigen-antibody]]
		+	[[Category: Fab]]
		+	[[Category: Hel2x-flex]]
		+	[[Category: Hydrolase-immune system complex]]
		+	[[Category: Hyhel10-4x]]

OCA at 06:55, 27 May 2020

2020-05-27T06:55:37Z

←Older revision		Revision as of 06:55, 27 May 2020
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-	'''Unreleased structure'''

-	~~The entry 6p4b is ON HOLD until Paper Publication~~	+	==HyHEL10 fab variant HyHEL10-4x (heavy chain mutations L4F, Y33H, S56N, and Y58F) bound to hen egg lysozyme variant HEL2x-flex (mutations R21Q, R73E, C76S, and C94S)==
-		+	<StructureSection load='6p4b' size='340' side='right'caption='[[6p4b]]' scene=''>
-	~~Authors: Langley, D.B., Christ, D.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6P4B OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6P4B FirstGlance]. <br>
-	~~Description:~~ HyHEL10 fab variant HyHEL10-4x (heavy chain mutations L4F, Y33H, S56N, and Y58F) bound to hen egg lysozyme variant HEL2x-flex (mutations R21Q, R73E, C76S, and C94S)	+	</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=6p4b FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6p4b OCA], [http://pdbe.org/6p4b PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6p4b RCSB], [http://www.ebi.ac.uk/pdbsum/6p4b PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6p4b ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Langley~~, D.B]]	+	__TOC__
-	[[Category: Christ, D]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Christ D]]
		+	[[Category: Langley DB]]

OCA at 04:00, 12 June 2019

2019-06-12T04:00:45Z

←Older revision		Revision as of 04:00, 12 June 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6p4b is ON HOLD	+	The entry 6p4b is ON HOLD until Paper Publication

	Authors: Langley, D.B., Christ, D.		Authors: Langley, D.B., Christ, D.

OCA: Protected "6p4b" [edit=sysop:move=sysop]

2019-06-05T21:13:09Z

Protected "6p4b" [edit=sysop:move=sysop]

←Older revision

Revision as of 21:13, 5 June 2019

OCA: New page: '''Unreleased structure''' The entry 6p4b is ON HOLD Authors: Langley, D.B., Christ, D. Description: HyHEL10 fab variant HyHEL10-4x (heavy chain mutations L4F, Y33H, S56N, and Y58F) bo...

2019-06-05T21:13:07Z

New page: '''Unreleased structure''' The entry 6p4b is ON HOLD Authors: Langley, D.B., Christ, D. Description: HyHEL10 fab variant HyHEL10-4x (heavy chain mutations L4F, Y33H, S56N, and Y58F) bo...

New page

'''Unreleased structure'''

The entry 6p4b is ON HOLD

Authors: Langley, D.B., Christ, D.

Description: HyHEL10 fab variant HyHEL10-4x (heavy chain mutations L4F, Y33H, S56N, and Y58F) bound to hen egg lysozyme variant HEL2x-flex (mutations R21Q, R73E, C76S, and C94S)
[[Category: Unreleased Structures]]
[[Category: Langley, D.B]]
[[Category: Christ, D]]