1osx - Revision history

OCA at 18:54, 29 November 2023

2023-11-29T18:54:27Z

←Older revision		Revision as of 18:54, 29 November 2023
Line 1:		Line 1:

	==Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)==		==Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)==
-	<StructureSection load='1osx' size='340' side='right'caption='[[1osx~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='1osx' size='340' side='right'caption='[[1osx]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Human Human~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OSX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OSX FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style='overflow: auto; max-height: 3em;'>[[1mpv\|1mpv]], [[1osg\|1osg]]</div></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([https://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'>[https://proteopedia.org/fgij/fg.htm?mol=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [https://pdbe.org/1osx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [https://www.ebi.ac.uk/pdbsum/1osx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1osx 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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [https://pdbe.org/1osx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [https://www.ebi.ac.uk/pdbsum/1osx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1osx ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[[https://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] Defects in TNFRSF13C are the cause of immunodeficiency common variable type 4 (CVID4) [MIM:[https://omim.org/entry/613494 613494]]; also called antibody deficiency due to BAFFR defect. CVID4 is a primary immunodeficiency characterized by antibody deficiency, hypogammaglobulinemia, recurrent bacterial infections and an inability to mount an antibody response to antigen. The defect results from a failure of B-cell differentiation and impaired secretion of immunoglobulins; the numbers of circulating B-cells is usually in the normal range, but can be low.<ref>PMID:19666484</ref>	+	[https://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN] Defects in TNFRSF13C are the cause of immunodeficiency common variable type 4 (CVID4) [MIM:[https://omim.org/entry/613494 613494]; also called antibody deficiency due to BAFFR defect. CVID4 is a primary immunodeficiency characterized by antibody deficiency, hypogammaglobulinemia, recurrent bacterial infections and an inability to mount an antibody response to antigen. The defect results from a failure of B-cell differentiation and impaired secretion of immunoglobulins; the numbers of circulating B-cells is usually in the normal range, but can be low.<ref>PMID:19666484</ref>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] B-cell receptor specific for TNFSF13B/TALL1/BAFF/BLyS. Promotes the survival of mature B-cells and the B-cell response.<ref>PMID:11591325</ref> <ref>PMID:12387744</ref>	+	[https://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN] B-cell receptor specific for TNFSF13B/TALL1/BAFF/BLyS. Promotes the survival of mature B-cells and the B-cell response.<ref>PMID:11591325</ref> <ref>PMID:12387744</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 28:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cochran~~, A G~~]]	+	[[Category: Cochran AG]]
-	[[Category: Dixit~~, V M~~]]	+	[[Category: Dixit VM]]
-	[[Category: Fairbrother~~, W J~~]]	+	[[Category: Fairbrother WJ]]
-	[[Category: Gordon~~, N C~~]]	+	[[Category: Gordon NC]]
-	[[Category: Hymowitz~~, S G~~]]	+	[[Category: Hymowitz SG]]
-	[[Category: Kelley~~, R F~~]]	+	[[Category: Kelley RF]]
-	[[Category: Pan, B]]	+	[[Category: Pan B]]
-	[[Category: Starovasnik~~, M A~~]]	+	[[Category: Starovasnik MA]]
-	[[Category: Yan, M]]	+	[[Category: Yan M]]
-	[[Category: Yin~~, J P]]~~	+	[[Category: Yin JP]]
-	~~[[Category: Cysteine-rich domain]]~~	+
-	~~[[Category: Extracellular domain]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Tumor necrosis factor receptor~~]]	+

OCA at 08:26, 23 February 2022

2022-02-23T08:26:28Z

OCA at 07:14, 9 December 2020

2020-12-09T07:14:39Z

←Older revision		Revision as of 07:14, 9 December 2020
Line 1:		Line 1:

	==Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)==		==Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)==
-	<StructureSection load='1osx' size='340' side='right' caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='1osx' size='340' side='right'caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1OSX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1OSX FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mpv\|1mpv]], [[1osg\|1osg]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1mpv\|1mpv]], [[1osg\|1osg]]</div></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [http://pdbe.org/1osx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [http://www.ebi.ac.uk/pdbsum/1osx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1osx 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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [http://pdbe.org/1osx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [http://www.ebi.ac.uk/pdbsum/1osx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1osx ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 23:		Line 23:

	==See Also==		==See Also==
-	*[[Tumor necrosis factor receptor\|Tumor necrosis factor receptor]]	+	*[[Tumor necrosis factor receptor 3D structures\|Tumor necrosis factor receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 29:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Cochran, A G]]		[[Category: Cochran, A G]]
	[[Category: Dixit, V M]]		[[Category: Dixit, V M]]

OCA at 08:02, 15 February 2018

2018-02-15T08:02:04Z

←Older revision		Revision as of 08:02, 15 February 2018
Line 1:		Line 1:
		+
	==Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)==		==Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)==
	<StructureSection load='1osx' size='340' side='right' caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1osx' size='340' side='right' caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mpv\|1mpv]], [[1osg\|1osg]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mpv\|1mpv]], [[1osg\|1osg]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [http://pdbe.org/1osx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [http://www.ebi.ac.uk/pdbsum/1osx PDBsum]</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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [http://pdbe.org/1osx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [http://www.ebi.ac.uk/pdbsum/1osx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1osx ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==

OCA at 02:11, 10 September 2015

2015-09-10T02:11:46Z

←Older revision		Revision as of 02:11, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1osx' size='340' side='right' caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1osx' size='340' side='right' caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Homo_sapiens Homo sapiens~~]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1OSX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1OSX FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mpv\|1mpv]], [[1osg\|1osg]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mpv\|1mpv]], [[1osg\|1osg]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 ~~Homo sapiens~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [http://www.ebi.ac.uk/pdbsum/1osx PDBsum]</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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [http://pdbe.org/1osx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [http://www.ebi.ac.uk/pdbsum/1osx PDBsum]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
Line 19:		Line 19:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 1osx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Tumor necrosis factor receptor\|Tumor necrosis factor receptor]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Homo sapiens~~]]	+	[[Category: Human]]
	[[Category: Cochran, A G]]		[[Category: Cochran, A G]]
	[[Category: Dixit, V M]]		[[Category: Dixit, V M]]

OCA at 12:57, 18 December 2014

2014-12-18T12:57:48Z

←Older revision		Revision as of 12:57, 18 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_1osx\| PDB=1osx \| SCENE= }}~~	+	==Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)==
-	===Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)===	+	<StructureSection load='1osx' size='340' side='right' caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
-	~~{{ABSTRACT_PUBMED_12755599}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1OSX FirstGlance]. <br>
		+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1mpv\|1mpv]], [[1osg\|1osg]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])</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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [http://www.ebi.ac.uk/pdbsum/1osx PDBsum]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] Defects in TNFRSF13C are the cause of immunodeficiency common variable type 4 (CVID4) [MIM:[http://omim.org/entry/613494 613494]]; also called antibody deficiency due to BAFFR defect. CVID4 is a primary immunodeficiency characterized by antibody deficiency, hypogammaglobulinemia, recurrent bacterial infections and an inability to mount an antibody response to antigen. The defect results from a failure of B-cell differentiation and impaired secretion of immunoglobulins; the numbers of circulating B-cells is usually in the normal range, but can be low.<ref>PMID:19666484</ref>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] B-cell receptor specific for TNFSF13B/TALL1/BAFF/BLyS. Promotes the survival of mature B-cells and the B-cell response.<ref>PMID:11591325</ref> <ref>PMID:12387744</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	BAFF/BLyS, a member of the tumor necrosis family (TNF) superfamily of ligands, is a crucial survival factor for B cells. BAFF binds three receptors, TACI, BCMA, and BR3, with signaling through BR3 being essential for promoting B cell function. Typical TNF receptor (TNFR) family members bind their cognate ligands through interactions with two cysteine-rich domains (CRDs). However, the extracellular domain (ECD) of BR3 consists of only a partial CRD, with cysteine spacing distinct from other modules described previously. Herein, we report the solution structure of the BR3 ECD. A core region of only 19 residues adopts a stable structure in solution. The BR3 fold is analogous to the first half of a canonical TNFR CRD but is stabilized by an additional noncanonical disulfide bond. BAFF-binding determinants were identified by shotgun alanine-scanning mutagenesis of the BR3 ECD expressed on phage. Several of the key BAFF-binding residues are presented from a beta-turn that we have shown previously to be sufficient for ligand binding when transferred to a structured beta-hairpin scaffold [Kayagaki, N., Yan, M., Seshasayee, D., Wang, H., Lee, W., French, D. M., Grewal, I. S., Cochran, A. G., Gordon, N. C., Yin, J., Starovasnik, M. A, and Dixit, V. M. (2002) Immunity 10, 515-524]. Outside of the turn, mutagenesis identifies additional hydrophobic contacts that enhance the BAFF-BR3 interaction. The crystal structure of the minimal hairpin peptide, bhpBR3, in complex with BAFF reveals intimate packing of the six-residue BR3 turn into a cavity on the ligand surface. Thus, BR3 binds BAFF through a highly focused interaction site, unprecedented in the TNFR family.

-	~~==Disease==~~	+	BAFF/BLyS receptor 3 comprises a minimal TNF receptor-like module that encodes a highly focused ligand-binding site.,Gordon NC, Pan B, Hymowitz SG, Yin J, Kelley RF, Cochran AG, Yan M, Dixit VM, Fairbrother WJ, Starovasnik MA Biochemistry. 2003 May 27;42(20):5977-83. PMID:12755599<ref>PMID:12755599</ref>
-	~~[[http:~~/~~/www~~.~~uniprot~~.~~org/uniprot/TR13C_HUMAN TR13C_HUMAN]] Defects in TNFRSF13C are the cause of immunodeficiency common variable type 4~~ (~~CVID4~~) ~~[MIM~~:[http://omim.org/entry/613494 613494]]; also called antibody deficiency due to BAFFR defect. CVID4 is a primary immunodeficiency characterized by antibody deficiency, hypogammaglobulinemia, recurrent bacterial infections and an inability to mount an antibody response to antigen. The defect results from a failure of B-~~cell differentiation and impaired secretion of immunoglobulins; the numbers of circulating B-cells is usually in the normal range, but can be low~~.<ref>PMID:~~19666484~~</ref>	+

-	~~==Function==~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[http:~~/~~/www~~.~~uniprot~~.~~org/uniprot/TR13C_HUMAN TR13C_HUMAN]] B-cell receptor specific for TNFSF13B/TALL1/BAFF/BLyS. Promotes the survival~~ of ~~mature B-cells and the B-cell response~~.<~~ref~~>~~PMID:11591325~~</~~ref~~>~~<ref>PMID:12387744</ref>~~	+	</div>
-		+	== References ==
-	==~~About this Structure==~~	+	<references/>
-	[[1osx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA].	+	__TOC__
-		+	</StructureSection>
-	~~==Reference~~==	+
-	~~<ref group="xtra">PMID:012755599</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Cochran, A G.]]	+	[[Category: Cochran, A G]]
-	[[Category: Dixit, V M.]]	+	[[Category: Dixit, V M]]
-	[[Category: Fairbrother, W J.]]	+	[[Category: Fairbrother, W J]]
-	[[Category: Gordon, N C.]]	+	[[Category: Gordon, N C]]
-	[[Category: Hymowitz, S G.]]	+	[[Category: Hymowitz, S G]]
-	[[Category: Kelley, R F.]]	+	[[Category: Kelley, R F]]
-	[[Category: Pan, B.]]	+	[[Category: Pan, B]]
-	[[Category: Starovasnik, M A.]]	+	[[Category: Starovasnik, M A]]
-	[[Category: Yan, M.]]	+	[[Category: Yan, M]]
-	[[Category: Yin, J P.]]	+	[[Category: Yin, J P]]
	[[Category: Cysteine-rich domain]]		[[Category: Cysteine-rich domain]]
	[[Category: Extracellular domain]]		[[Category: Extracellular domain]]
	[[Category: Immune system]]		[[Category: Immune system]]
	[[Category: Tumor necrosis factor receptor]]		[[Category: Tumor necrosis factor receptor]]

OCA at 20:21, 24 March 2013

2013-03-24T20:21:07Z

←Older revision		Revision as of 20:21, 24 March 2013
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-	[[Image:1osx.png\|left\|200px]]
-
	{{STRUCTURE_1osx\| PDB=1osx \| SCENE= }}		{{STRUCTURE_1osx\| PDB=1osx \| SCENE= }}
-
	===Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)===		===Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)===
		+	{{ABSTRACT_PUBMED_12755599}}

-	~~{{ABSTRACT_PUBMED_12755599}}~~	+	==Disease==
		+	[[http://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] Defects in TNFRSF13C are the cause of immunodeficiency common variable type 4 (CVID4) [MIM:[http://omim.org/entry/613494 613494]]; also called antibody deficiency due to BAFFR defect. CVID4 is a primary immunodeficiency characterized by antibody deficiency, hypogammaglobulinemia, recurrent bacterial infections and an inability to mount an antibody response to antigen. The defect results from a failure of B-cell differentiation and impaired secretion of immunoglobulins; the numbers of circulating B-cells is usually in the normal range, but can be low.<ref>PMID:19666484</ref>
		+
		+	==Function==
		+	[[http://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] B-cell receptor specific for TNFSF13B/TALL1/BAFF/BLyS. Promotes the survival of mature B-cells and the B-cell response.<ref>PMID:11591325</ref><ref>PMID:12387744</ref>

	==About this Structure==		==About this Structure==
Line 11:		Line 13:

	==Reference==		==Reference==
-	<ref group="xtra">PMID:012755599</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012755599</ref><references group="xtra"/><references/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Cochran, A G.]]		[[Category: Cochran, A G.]]

OCA: Protected "1osx" [edit=sysop:move=sysop]

2012-12-12T22:16:24Z

Protected "1osx" [edit=sysop:move=sysop]

←Older revision

Revision as of 22:16, 12 December 2012

OCA at 22:16, 12 December 2012

2012-12-12T22:16:09Z

←Older revision		Revision as of 22:16, 12 December 2012
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-	{{Seed}}
	[[Image:1osx.png\|left\|200px]]		[[Image:1osx.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1osx", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_1osx\| PDB=1osx \| SCENE= }}		{{STRUCTURE_1osx\| PDB=1osx \| SCENE= }}

	===Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)===		===Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_12755599}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 12755599 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_12755599}}		{{ABSTRACT_PUBMED_12755599}}

	==About this Structure==		==About this Structure==
-	~~1OSX is a~~ [[~~Single protein~~]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA].	+	[[1osx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA].

	==Reference==		==Reference==
-	BAFF/BLyS receptor 3 comprises a minimal TNF receptor-like module that encodes a highly focused ligand-binding site., Gordon NC, Pan B, Hymowitz SG, Yin J, Kelley RF, Cochran AG, Yan M, Dixit VM, Fairbrother WJ, Starovasnik MA, Biochemistry. 2003 May 27;42(20):5977-83. PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~12755599 12755599]~~	+	<ref group="xtra">PMID:012755599</ref><references group="xtra"/>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Single protein]]
	[[Category: Cochran, A G.]]		[[Category: Cochran, A G.]]
	[[Category: Dixit, V M.]]		[[Category: Dixit, V M.]]
Line 38:		Line 25:
	[[Category: Cysteine-rich domain]]		[[Category: Cysteine-rich domain]]
	[[Category: Extracellular domain]]		[[Category: Extracellular domain]]
		+	[[Category: Immune system]]
	[[Category: Tumor necrosis factor receptor]]		[[Category: Tumor necrosis factor receptor]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 16:55:30 2008''

OCA at 13:55, 27 July 2008

2008-07-27T13:55:32Z

←Older revision		Revision as of 13:55, 27 July 2008
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-	[[Image:1osx.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:1osx.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_1osx\| PDB=1osx \| SCENE= }}		{{STRUCTURE_1osx\| PDB=1osx \| SCENE= }}

-	~~'''~~Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)~~'''~~	+	===Solution Structure of the Extracellular Domain of BLyS Receptor 3 (BR3)===


-	~~==Overview==~~	+	<!--
-	~~BAFF/BLyS~~, a member of the tumor necrosis family (TNF) superfamily of ligands, is a crucial survival factor for B cells. BAFF binds three receptors, TACI, BCMA, and BR3, with signaling through BR3 being essential for promoting B cell function. Typical TNF receptor (TNFR) family members bind their cognate ligands through interactions with two cysteine-rich domains (CRDs). However, the extracellular domain (ECD) of BR3 consists of only a partial CRD, with cysteine spacing distinct from other modules described previously. Herein, we report the solution structure of the BR3 ECD. A core region of only 19 residues adopts a stable structure in solution. The BR3 fold is analogous to the first half of a canonical TNFR CRD but is stabilized by an additional noncanonical disulfide bond. BAFF-binding determinants were identified by shotgun alanine-scanning mutagenesis of the BR3 ECD expressed on ~~phage~~. Several of the key BAFF-binding residues are presented from a beta-turn that we have shown previously to be sufficient for ligand binding when transferred to a structured beta-hairpin scaffold [Kayagaki, N.~~, Yan, M., Seshasayee, D., Wang, H., Lee, W., French, D. M., Grewal, I. S., Cochran, A. G., Gordon, N. C., Yin, J., Starovasnik, M. A, and Dixit, V. M. (2002~~) ~~Immunity 10~~, ~~515-524]. Outside of~~ the ~~turn, mutagenesis identifies additional hydrophobic contacts that enhance the BAFF-BR3 interaction~~. ~~The crystal structure of the minimal hairpin peptide, bhpBR3, in complex with BAFF reveals intimate packing of the six~~-~~residue BR3 turn into a cavity on the ligand surface. Thus, BR3 binds BAFF through a highly focused interaction site, unprecedented in the TNFR family.~~	+	The line below this paragraph, {{ABSTRACT_PUBMED_12755599}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 12755599 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_12755599}}

	==About this Structure==		==About this Structure==
-	1OSX is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA].	+	1OSX is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA].

	==Reference==		==Reference==
Line 35:		Line 39:
	[[Category: Extracellular domain]]		[[Category: Extracellular domain]]
	[[Category: Tumor necrosis factor receptor]]		[[Category: Tumor necrosis factor receptor]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sat May 3 04~~:14:36 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Jul 27 16:55:30 2008''

←Older revision		Revision as of 08:26, 23 February 2022
Line 3:		Line 3:
	<StructureSection load='1osx' size='340' side='right'caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='1osx' size='340' side='right'caption='[[1osx]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1OSX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1osx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human Human]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1OSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1OSX FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1mpv\|1mpv]], [[1osg\|1osg]]</div></td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1mpv\|1mpv]], [[1osg\|1osg]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">TNFRSF13C OR BAFFR OR BR3 ([https://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~~://proteopedia.org/fgij/fg.htm?mol=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [~~http~~://pdbe.org/1osx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1osx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1osx 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=1osx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1osx OCA], [https://pdbe.org/1osx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1osx RCSB], [https://www.ebi.ac.uk/pdbsum/1osx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1osx ProSAT]</span></td></tr>
	</table>		</table>
	== Disease ==		== Disease ==
-	[[~~http~~://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] Defects in TNFRSF13C are the cause of immunodeficiency common variable type 4 (CVID4) [MIM:[~~http~~://omim.org/entry/613494 613494]]; also called antibody deficiency due to BAFFR defect. CVID4 is a primary immunodeficiency characterized by antibody deficiency, hypogammaglobulinemia, recurrent bacterial infections and an inability to mount an antibody response to antigen. The defect results from a failure of B-cell differentiation and impaired secretion of immunoglobulins; the numbers of circulating B-cells is usually in the normal range, but can be low.<ref>PMID:19666484</ref>	+	[[https://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] Defects in TNFRSF13C are the cause of immunodeficiency common variable type 4 (CVID4) [MIM:[https://omim.org/entry/613494 613494]]; also called antibody deficiency due to BAFFR defect. CVID4 is a primary immunodeficiency characterized by antibody deficiency, hypogammaglobulinemia, recurrent bacterial infections and an inability to mount an antibody response to antigen. The defect results from a failure of B-cell differentiation and impaired secretion of immunoglobulins; the numbers of circulating B-cells is usually in the normal range, but can be low.<ref>PMID:19666484</ref>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] B-cell receptor specific for TNFSF13B/TALL1/BAFF/BLyS. Promotes the survival of mature B-cells and the B-cell response.<ref>PMID:11591325</ref> <ref>PMID:12387744</ref>	+	[[https://www.uniprot.org/uniprot/TR13C_HUMAN TR13C_HUMAN]] B-cell receptor specific for TNFSF13B/TALL1/BAFF/BLyS. Promotes the survival of mature B-cells and the B-cell response.<ref>PMID:11591325</ref> <ref>PMID:12387744</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==