6kwk - Revision history

OCA at 10:45, 22 November 2023

OCA — Wed, 22 Nov 2023 10:45:11 GMT

←Older revision		Revision as of 10:45, 22 November 2023
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-	====	+	==Crystal structure of pSLA-1*0401 complex with FMDV-derived epitope MTAHITVPY==
-	<StructureSection load='6kwk' size='340' side='right'caption='[[6kwk]]' scene=''>	+	<StructureSection load='6kwk' size='340' side='right'caption='[[6kwk]], [[Resolution\|resolution]] 2.50Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6kwk]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Foot-and-mouth_disease_virus Foot-and-mouth disease virus] and [https://en.wikipedia.org/wiki/Sus_scrofa Sus scrofa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6KWK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KWK FirstGlance]. <br>
-	</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=6kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwk OCA], [https://pdbe.org/6kwk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kwk RCSB], [https://www.ebi.ac.uk/pdbsum/6kwk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwk ProSAT]</span></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]] 2.5Å</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=6kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwk OCA], [https://pdbe.org/6kwk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kwk RCSB], [https://www.ebi.ac.uk/pdbsum/6kwk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwk ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0F6N4U7_PIG A0A0F6N4U7_PIG]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The micropolymorphism of major histocompatibility complex class I (MHC-I) can greatly alter the plasticity of peptide presentation, but elucidating the underlying mechanism remains a challenge. Here we investigated the impact of the micropolymorphism on peptide presentation of swine MHC-I (termed swine leukocyte antigen class I, SLA-I) molecules via immunopeptidomes that were determined by our newly developed random peptide library combined with the mass spectrometry (MS) de novo sequencing method (termed RPLD-MS) and the corresponding crystal structures. The immunopeptidomes of SLA-104:01, SLA-113:01, and their mutants showed that mutations of residues 156 and 99 could expand and narrow the ranges of peptides presented by SLA-I molecules, respectively. R156A mutation of SLA-104:01 altered the charge properties and enlarged the volume size of pocket D, which eliminated the harsh restriction to accommodate the third (P3) anchor residue of the peptide and expanded the peptide binding scope. Compared with 99(Tyr) of SLA-10401, 99(Phe) of SLA-1*13:01 could not form a conservative hydrogen bond with the backbone of the P3 residues, leading to fewer changes in the pocket properties but a significant decrease in quantitative of immunopeptidomes. This absent force could be compensated by the salt bridge formed by P1-E and 170(Arg). These data illustrate two distinguishing manners that show how micropolymorphism alters the peptide-binding plasticity of SLA-I alleles, verifying the sensitivity and accuracy of the RPLD-MS method for determining the peptide binding characteristics of MHC-I in vitro and helping to more accurately predict and identify MHC-I restricted epitopes.
		+
		+	Peptidomes and Structures Illustrate Two Distinguishing Mechanisms of Alternating the Peptide Plasticity Caused by Swine MHC Class I Micropolymorphism.,Wei X, Wang S, Li Z, Li Z, Qu Z, Wang S, Zou B, Liang R, Xia C, Zhang N Front Immunol. 2021 Feb 26;12:592447. doi: 10.3389/fimmu.2021.592447. eCollection , 2021. PMID:33717070<ref>PMID:33717070</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6kwk" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Beta-2 microglobulin 3D structures\|Beta-2 microglobulin 3D structures]]
		+	*[[MHC 3D structures\|MHC 3D structures]]
		+	*[[MHC I 3D structures\|MHC I 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Foot-and-mouth disease virus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Sus scrofa]]
		+	[[Category: Wang S]]
		+	[[Category: Wei XH]]
		+	[[Category: Xia C]]
		+	[[Category: Zhang NZ]]

OCA at 06:47, 24 March 2021

OCA — Wed, 24 Mar 2021 06:47:29 GMT

←Older revision		Revision as of 06:47, 24 March 2021
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	<StructureSection load='6kwk' size='340' side='right'caption='[[6kwk]]' scene=''>		<StructureSection load='6kwk' size='340' side='right'caption='[[6kwk]]' 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= OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= 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=6kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwk OCA], [~~http~~://pdbe.org/6kwk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6kwk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6kwk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwk ProSAT]</span></td></tr>	+	</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=6kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwk OCA], [https://pdbe.org/6kwk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kwk RCSB], [https://www.ebi.ac.uk/pdbsum/6kwk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwk ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 09:29, 9 September 2020

OCA — Wed, 09 Sep 2020 09:29:25 GMT

←Older revision		Revision as of 09:29, 9 September 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6kwk ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6kwk' size='340' side='right'caption='[[6kwk]]' scene=''>
-	~~Authors~~: ~~Wei, X~~.H.~~, Wang, S~~.~~, Zhang, N~~.Z.~~, Xia, C~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of pSLA-1*0401 complex with FMDV-derived epitope MTAHITVPY~~	+	</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=6kwk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwk OCA], [http://pdbe.org/6kwk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6kwk RCSB], [http://www.ebi.ac.uk/pdbsum/6kwk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwk ProSAT]</span></td></tr>
-	[~~[Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[~~[Category~~: ~~Xia~~, C]]	+	__TOC__
-	[~~[Category~~: ~~Wang, S~~]]	+	</StructureSection>
-	[[Category: ~~Wei, X.H~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Zhang, N.~~Z]]	+	[[Category: Z-disk]]

OCA at 04:27, 19 August 2020

OCA — Wed, 19 Aug 2020 04:27:10 GMT

←Older revision		Revision as of 04:27, 19 August 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Wei, X.H., Wang, S., Zhang, N.Z., Xia, C.		Authors: Wei, X.H., Wang, S., Zhang, N.Z., Xia, C.
Line 7:		Line 7:
	Description: Crystal structure of pSLA-1*0401 complex with FMDV-derived epitope MTAHITVPY		Description: Crystal structure of pSLA-1*0401 complex with FMDV-derived epitope MTAHITVPY
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Zhang, N.Z]]
-	[[Category: Wang, S]]
	[[Category: Xia, C]]		[[Category: Xia, C]]
		+	[[Category: Wang, S]]
	[[Category: Wei, X.H]]		[[Category: Wei, X.H]]
		+	[[Category: Zhang, N.Z]]

OCA at 08:04, 12 August 2020

OCA — Wed, 12 Aug 2020 08:04:50 GMT

←Older revision		Revision as of 08:04, 12 August 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6kwk is ON HOLD ~~until Paper Publication~~	+	The entry 6kwk is ON HOLD

	Authors: Wei, X.H., Wang, S., Zhang, N.Z., Xia, C.		Authors: Wei, X.H., Wang, S., Zhang, N.Z., Xia, C.

-	Description: ~~The landscape~~ of ~~divergent peptide presentation leading by micropolymorphism in MHC I peptide~~-~~binding cleft~~	+	Description: Crystal structure of pSLA-1*0401 complex with FMDV-derived epitope MTAHITVPY
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Xia, C]]
-	[[Category: Wei, X.H]]
	[[Category: Zhang, N.Z]]		[[Category: Zhang, N.Z]]
	[[Category: Wang, S]]		[[Category: Wang, S]]
		+	[[Category: Xia, C]]
		+	[[Category: Wei, X.H]]

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

OCA — Wed, 02 Oct 2019 06:53:36 GMT

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

←Older revision

Revision as of 06:53, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6kwk is ON HOLD until Paper Publication Authors: Wei, X.H., Wang, S., Zhang, N.Z., Xia, C. Description: The landscape of divergent peptide presenta...

OCA — Wed, 02 Oct 2019 06:53:34 GMT

New page: '''Unreleased structure''' The entry 6kwk is ON HOLD until Paper Publication Authors: Wei, X.H., Wang, S., Zhang, N.Z., Xia, C. Description: The landscape of divergent peptide presenta...

New page

'''Unreleased structure'''

The entry 6kwk is ON HOLD until Paper Publication

Authors: Wei, X.H., Wang, S., Zhang, N.Z., Xia, C.

Description: The landscape of divergent peptide presentation leading by micropolymorphism in MHC I peptide-binding cleft
[[Category: Unreleased Structures]]
[[Category: Xia, C]]
[[Category: Wei, X.H]]
[[Category: Zhang, N.Z]]
[[Category: Wang, S]]