6kwo - Revision history

OCA at 10:45, 22 November 2023

2023-11-22T10:45:21Z

←Older revision		Revision as of 10:45, 22 November 2023
Line 1:		Line 1:

-	====	+	==Crystal structure of pSLA-1*1301 complex with mutant epitope ESDTVGWSW==
-	<StructureSection load='6kwo' size='340' side='right'caption='[[6kwo]]' scene=''>	+	<StructureSection load='6kwo' size='340' side='right'caption='[[6kwo]], [[Resolution\|resolution]] 1.80Å' 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'>[[6kwo]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Neuraminidase_deficient_flu_strains Neuraminidase deficient flu strains] 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=6KWO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6KWO 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=6kwo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwo OCA], [https://pdbe.org/6kwo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kwo RCSB], [https://www.ebi.ac.uk/pdbsum/6kwo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwo 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]] 1.803Å</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=6kwo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwo OCA], [https://pdbe.org/6kwo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kwo RCSB], [https://www.ebi.ac.uk/pdbsum/6kwo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwo ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B1PJU7_PIG B1PJU7_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 6kwo" 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: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Neuraminidase deficient flu strains]]
		+	[[Category: Sus scrofa]]
		+	[[Category: Wang S]]
		+	[[Category: Wei XH]]
		+	[[Category: Xia C]]
		+	[[Category: Zhang NZ]]

OCA at 06:47, 24 March 2021

2021-03-24T06:47:37Z

←Older revision		Revision as of 06:47, 24 March 2021
Line 3:		Line 3:
	<StructureSection load='6kwo' size='340' side='right'caption='[[6kwo]]' scene=''>		<StructureSection load='6kwo' size='340' side='right'caption='[[6kwo]]' 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=6kwo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwo OCA], [~~http~~://pdbe.org/6kwo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6kwo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6kwo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwo 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=6kwo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwo OCA], [https://pdbe.org/6kwo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6kwo RCSB], [https://www.ebi.ac.uk/pdbsum/6kwo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwo ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 09:29, 9 September 2020

2020-09-09T09:29:34Z

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

-	~~The entry~~ 6kwo ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6kwo' size='340' side='right'caption='[[6kwo]]' 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*1301 complex with mutant epitope ESDTVGWSW~~	+	</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=6kwo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6kwo OCA], [http://pdbe.org/6kwo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6kwo RCSB], [http://www.ebi.ac.uk/pdbsum/6kwo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6kwo ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[~~[Category~~: ~~Zhang~~, N.Z]]	+	__TOC__
-	[~~[Category~~: ~~Wang~~, S]]	+	</StructureSection>
-	[[Category: ~~Xia, C~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Wei, X.H~~]]	+	[[Category: Z-disk]]

OCA at 08:05, 12 August 2020

2020-08-12T08:05:01Z

←Older revision		Revision as of 08:05, 12 August 2020
Line 5:		Line 5:
	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*1301 complex with mutant epitope ESDTVGWSW
	[[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 "6kwo" [edit=sysop:move=sysop]

2019-10-02T06:53:55Z

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

←Older revision

Revision as of 06:53, 2 October 2019

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

2019-10-02T06:53:54Z

New page: '''Unreleased structure''' The entry 6kwo 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 6kwo 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]]