7lfi - Revision history

OCA at 09:20, 25 October 2023

OCA — Wed, 25 Oct 2023 09:20:47 GMT

←Older revision		Revision as of 09:20, 25 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7lfi]] is a 6 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=7LFI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LFI FirstGlance]. <br>		<table><tr><td colspan='2'>[[7lfi]] is a 6 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=7LFI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LFI FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 1.7Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=7lfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lfi OCA], [https://pdbe.org/7lfi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lfi RCSB], [https://www.ebi.ac.uk/pdbsum/7lfi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lfi 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=7lfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lfi OCA], [https://pdbe.org/7lfi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lfi RCSB], [https://www.ebi.ac.uk/pdbsum/7lfi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lfi ProSAT]</span></td></tr>
	</table>		</table>
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	==See Also==		==See Also==
	*[[Beta-2 microglobulin 3D structures\|Beta-2 microglobulin 3D structures]]		*[[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 ==
	<references/>		<references/>

OCA at 09:13, 28 December 2022

OCA — Wed, 28 Dec 2022 09:13:14 GMT

←Older revision		Revision as of 09:13, 28 December 2022
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-	====	+	==MODEL OF MHC CLASS Ib H2-M3 WITH MOUSE ND1 N-TERMINAL HEPTAPEPTIDE REFINED AT 1.70 ANGSTROMS RESOLUTION==
-	<StructureSection load='7lfi' size='340' side='right'caption='[[7lfi]]' scene=''>	+	<StructureSection load='7lfi' size='340' side='right'caption='[[7lfi]], [[Resolution\|resolution]] 1.70Å' 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'>[[7lfi]] is a 6 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=7LFI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LFI 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=7lfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lfi OCA], [https://pdbe.org/7lfi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lfi RCSB], [https://www.ebi.ac.uk/pdbsum/7lfi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lfi 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=FME:N-FORMYLMETHIONINE'>FME</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=7lfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lfi OCA], [https://pdbe.org/7lfi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lfi RCSB], [https://www.ebi.ac.uk/pdbsum/7lfi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lfi ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q31093_MOUSE Q31093_MOUSE]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Presentation of antigenic peptides to T-cell receptors is an essential step in the adaptive immune response. In the mouse the class Ib major histocompatibility complex molecule, H2-M3, presents bacterial- and mitochondrial-derived peptides to T-cell receptors on cytotoxic T cells. Four mitochondrial heptapeptides, differing only at residue 6, form complexes with H2-M3 which can be distinguished by T cells. No structures of relevant receptors are available. To investigate the structural basis for this distinction, crystal structures were determined and molecular dynamics simulations over one microsecond were done for each complex. In the crystal structures of the heptapeptide complexes with H2-M3, presented here, the side chains of the peptide residues at position 6 all point into the H2-M3 binding groove, and are thus inaccessible, so that the very similar structures do not suggest how recognition and initiation of responses by the T cells may occur. However, conformational differences, which could be crucial to T-cell discrimination, appear within one microsecond during molecular dynamics simulations of the four complexes. Specifically, the three C-terminal residues of peptide ligands with alanine or threonine at position 6 partially exit the binding groove; this does not occur in peptide ligands with isoleucine or valine at position 6. Structural changes associated with partial peptide exit from the binding groove, along with relevant peptide binding energetics and immunological results are discussed. Communicated by Ramaswamy H. Sarma.
		+
		+	Structure and dynamics of major histocompatibility class Ib molecule H2-M3 complexed with mitochondrial-derived peptides.,Strand A, Shen ST, Tomchick DR, Wang J, Wang CR, Deisenhofer J J Biomol Struct Dyn. 2022;40(20):10300-10312. doi: 10.1080/07391102.2021.1942214. , Epub 2021 Jun 28. PMID:34176438<ref>PMID:34176438</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7lfi" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Beta-2 microglobulin 3D structures\|Beta-2 microglobulin 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Mus musculus]]
		+	[[Category: Deisenhofer J]]
		+	[[Category: Shen S]]
		+	[[Category: Tomchick DR]]

OCA at 09:54, 14 July 2021

OCA — Wed, 14 Jul 2021 09:54:33 GMT

←Older revision		Revision as of 09:54, 14 July 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7lfi ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7lfi' size='340' side='right'caption='[[7lfi]]' scene=''>
-	~~Authors~~:	+	== 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>
-	~~Description~~:	+	</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=7lfi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lfi OCA], [https://pdbe.org/7lfi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lfi RCSB], [https://www.ebi.ac.uk/pdbsum/7lfi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lfi ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 09:16, 10 February 2021

OCA — Wed, 10 Feb 2021 09:16:12 GMT

←Older revision		Revision as of 09:16, 10 February 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7lfi is ON HOLD	+	The entry 7lfi is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7lfi" [edit=sysop:move=sysop]

OCA — Wed, 27 Jan 2021 06:47:50 GMT

Protected "7lfi" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:47, 27 January 2021

OCA: New page: '''Unreleased structure''' The entry 7lfi is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Jan 2021 06:47:49 GMT

New page: '''Unreleased structure''' The entry 7lfi is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7lfi is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]