5csg - Revision history

OCA at 11:22, 10 January 2024

2024-01-10T11:22:51Z

←Older revision		Revision as of 11:22, 10 January 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5csg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CSG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CSG FirstGlance]. <br>		<table><tr><td colspan='2'>[[5csg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CSG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CSG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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]] 1.5Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</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=5csg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5csg OCA], [https://pdbe.org/5csg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5csg RCSB], [https://www.ebi.ac.uk/pdbsum/5csg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5csg 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=5csg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5csg OCA], [https://pdbe.org/5csg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5csg RCSB], [https://www.ebi.ac.uk/pdbsum/5csg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5csg ProSAT]</span></td></tr>
	</table>		</table>

OCA at 12:26, 14 June 2023

2023-06-14T12:26:05Z

←Older revision		Revision as of 12:26, 14 June 2023
Line 1:		Line 1:

	==The crystal structure of beta2-microglobulin R97Q mutant==		==The crystal structure of beta2-microglobulin R97Q mutant==
-	<StructureSection load='5csg' size='340' side='right' caption='[[5csg]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='5csg' size='340' side='right'caption='[[5csg]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5csg]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CSG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5CSG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5csg]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CSG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CSG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2yxf\|2yxf]]</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=5csg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5csg OCA], [https://pdbe.org/5csg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5csg RCSB], [https://www.ebi.ac.uk/pdbsum/5csg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5csg ProSAT]</span></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">B2M, CDABP0092, HDCMA22P ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=5csg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5csg OCA], [~~http~~://pdbe.org/5csg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5csg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5csg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5csg ProSAT]</span></td></tr>	+
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Defects in B2M are the cause of hypercatabolic hypoproteinemia (HYCATHYP) [MIM:[~~http~~://omim.org/entry/241600 241600]]. Affected individuals show marked reduction in serum concentrations of immunoglobulin and albumin, probably due to rapid degradation.<ref>PMID:16549777</ref> Note=Beta-2-microglobulin may adopt the fibrillar configuration of amyloid in certain pathologic states. The capacity to assemble into amyloid fibrils is concentration dependent. Persistently high beta(2)-microglobulin serum levels lead to amyloidosis in patients on long-term hemodialysis.<ref>PMID:3532124</ref> <ref>PMID:1336137</ref> <ref>PMID:7554280</ref> <ref>PMID:4586824</ref> <ref>PMID:8084451</ref> <ref>PMID:12119416</ref> <ref>PMID:12796775</ref> <ref>PMID:16901902</ref> <ref>PMID:16491088</ref> <ref>PMID:17646174</ref> <ref>PMID:18835253</ref> <ref>PMID:18395224</ref> <ref>PMID:19284997</ref>	+	[https://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN] Defects in B2M are the cause of hypercatabolic hypoproteinemia (HYCATHYP) [MIM:[https://omim.org/entry/241600 241600]. Affected individuals show marked reduction in serum concentrations of immunoglobulin and albumin, probably due to rapid degradation.<ref>PMID:16549777</ref> Note=Beta-2-microglobulin may adopt the fibrillar configuration of amyloid in certain pathologic states. The capacity to assemble into amyloid fibrils is concentration dependent. Persistently high beta(2)-microglobulin serum levels lead to amyloidosis in patients on long-term hemodialysis.<ref>PMID:3532124</ref> <ref>PMID:1336137</ref> <ref>PMID:7554280</ref> <ref>PMID:4586824</ref> <ref>PMID:8084451</ref> <ref>PMID:12119416</ref> <ref>PMID:12796775</ref> <ref>PMID:16901902</ref> <ref>PMID:16491088</ref> <ref>PMID:17646174</ref> <ref>PMID:18835253</ref> <ref>PMID:18395224</ref> <ref>PMID:19284997</ref>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.	+	[https://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 24:		Line 22:

	==See Also==		==See Also==
-	*[[Beta-2 microglobulin\|Beta-2 microglobulin]]	+	*[[Beta-2 microglobulin 3D structures\|Beta-2 microglobulin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Bolognesi, M~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Ricagno, S]]~~	+	[[Category: Bolognesi M]]
-	~~[[Category: Rosa,~~ M de]]	+	[[Category: Ricagno S]]
-	[[Category: ~~Amyloidosis~~]]	+	[[Category: De Rosa M]]
-	[[Category: ~~Beta-2 microglobulin]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Immunoglobulin-like]]~~	+
-	~~[[Category: Room temperature~~]]	+

OCA at 05:47, 27 June 2018

2018-06-27T05:47:10Z

←Older revision		Revision as of 05:47, 27 June 2018
Line 3:		Line 3:
	<StructureSection load='5csg' size='340' side='right' caption='[[5csg]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5csg' size='340' side='right' caption='[[5csg]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5csg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CSG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CSG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5csg]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CSG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CSG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2yxf\|2yxf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2yxf\|2yxf]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">B2M, CDABP0092, HDCMA22P ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=5csg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5csg OCA], [http://pdbe.org/5csg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5csg RCSB], [http://www.ebi.ac.uk/pdbsum/5csg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5csg 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=5csg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5csg OCA], [http://pdbe.org/5csg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5csg RCSB], [http://www.ebi.ac.uk/pdbsum/5csg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5csg ProSAT]</span></td></tr>
	</table>		</table>
Line 12:		Line 13:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.		[[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Spontaneous aggregation of folded and soluble native proteins in vivo is still a poorly understood process. A prototypic example is the D76N mutant of beta-2 microglobulin (beta2m) that displays an aggressive aggregation propensity. Here we investigate the dynamics of beta2m by X-ray crystallography, solid-state NMR, and molecular dynamics simulations to unveil the effects of the D76N mutation. Taken together, our data highlight the presence of minor disordered substates in crystalline beta2m. The destabilization of the outer strands of D76N beta2m accounts for the increased aggregation propensity. Furthermore, the computational modeling reveals a network of interactions with residue D76 as a keystone: this model allows predicting the stability of several point mutants. Overall, our study shows how the study of intrinsic dynamics in crystallo can provide crucial answers on protein stability and aggregation propensity. The comprehensive approach here presented may well be suited for the study of other folded amyloidogenic proteins.
		+
		+	Conformational dynamics in crystals reveal the molecular bases for D76N beta-2 microglobulin aggregation propensity.,Le Marchand T, de Rosa M, Salvi N, Sala BM, Andreas LB, Barbet-Massin E, Sormanni P, Barbiroli A, Porcari R, Sousa Mota C, de Sanctis D, Bolognesi M, Emsley L, Bellotti V, Blackledge M, Camilloni C, Pintacuda G, Ricagno S Nat Commun. 2018 Apr 25;9(1):1658. doi: 10.1038/s41467-018-04078-y. PMID:29695721<ref>PMID:29695721</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5csg" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Beta-2 microglobulin\|Beta-2 microglobulin]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Bolognesi, M]]		[[Category: Bolognesi, M]]
	[[Category: Ricagno, S]]		[[Category: Ricagno, S]]

OCA at 16:19, 10 August 2016

2016-08-10T16:19:48Z

←Older revision		Revision as of 16:19, 10 August 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 5csg is ~~ON HOLD until Paper Publication~~	+	==The crystal structure of beta2-microglobulin R97Q mutant==
-		+	<StructureSection load='5csg' size='340' side='right' caption='[[5csg]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~Authors~~: ~~de Rosa~~, M., ~~Bolognesi~~, M., ~~Ricagno~~, S.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5csg]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CSG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CSG FirstGlance]. <br>
-	~~Description~~: ~~The crystal structure~~ of ~~beta2~~-microglobulin ~~R97Q mutant~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[2yxf\|2yxf]]</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=5csg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5csg OCA], [http://pdbe.org/5csg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5csg RCSB], [http://www.ebi.ac.uk/pdbsum/5csg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5csg ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Defects in B2M are the cause of hypercatabolic hypoproteinemia (HYCATHYP) [MIM:[http://omim.org/entry/241600 241600]]. Affected individuals show marked reduction in serum concentrations of immunoglobulin and albumin, probably due to rapid degradation.<ref>PMID:16549777</ref> Note=Beta-2-microglobulin may adopt the fibrillar configuration of amyloid in certain pathologic states. The capacity to assemble into amyloid fibrils is concentration dependent. Persistently high beta(2)-microglobulin serum levels lead to amyloidosis in patients on long-term hemodialysis.<ref>PMID:3532124</ref> <ref>PMID:1336137</ref> <ref>PMID:7554280</ref> <ref>PMID:4586824</ref> <ref>PMID:8084451</ref> <ref>PMID:12119416</ref> <ref>PMID:12796775</ref> <ref>PMID:16901902</ref> <ref>PMID:16491088</ref> <ref>PMID:17646174</ref> <ref>PMID:18835253</ref> <ref>PMID:18395224</ref> <ref>PMID:19284997</ref>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/B2MG_HUMAN B2MG_HUMAN]] Component of the class I major histocompatibility complex (MHC). Involved in the presentation of peptide antigens to the immune system.
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bolognesi, M]]
	[[Category: Ricagno, S]]		[[Category: Ricagno, S]]
-	[[Category: De Rosa, M]]	+	[[Category: Rosa, M de]]
-	[[Category: ~~Bolognesi, M~~]]	+	[[Category: Amyloidosis]]
		+	[[Category: Beta-2 microglobulin]]
		+	[[Category: Immune system]]
		+	[[Category: Immunoglobulin-like]]
		+	[[Category: Room temperature]]

OCA: Protected "5csg" [edit=sysop:move=sysop]

2015-07-29T13:49:45Z

Protected "5csg" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:49, 29 July 2015

OCA: New page: '''Unreleased structure''' The entry 5csg is ON HOLD until Paper Publication Authors: de Rosa, M., Bolognesi, M., Ricagno, S. Description: The crystal structure of beta2-microglobulin ...

2015-07-29T13:49:44Z

New page: '''Unreleased structure''' The entry 5csg is ON HOLD until Paper Publication Authors: de Rosa, M., Bolognesi, M., Ricagno, S. Description: The crystal structure of beta2-microglobulin ...

New page

'''Unreleased structure'''

The entry 5csg is ON HOLD until Paper Publication

Authors: de Rosa, M., Bolognesi, M., Ricagno, S.

Description: The crystal structure of beta2-microglobulin R97Q mutant
[[Category: Unreleased Structures]]
[[Category: Ricagno, S]]
[[Category: De Rosa, M]]
[[Category: Bolognesi, M]]