1kd7 - Revision history

OCA at 07:59, 3 April 2024

OCA — Wed, 03 Apr 2024 07:59:41 GMT

←Older revision		Revision as of 07:59, 3 April 2024
Line 3:		Line 3:
	<StructureSection load='1kd7' size='340' side='right'caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1kd7' size='340' side='right'caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kd7]] is a 6 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kd7]] is a 6 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1KD7 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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [~~http~~://pdbe.org/1kd7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1kd7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1kd7 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]] 2.8Å</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [https://pdbe.org/1kd7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [https://www.ebi.ac.uk/pdbsum/1kd7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1kd7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/TN13B_HUMAN TN13B_HUMAN]] Cytokine that binds to TNFRSF13B/TACI and TNFRSF17/BCMA. TNFSF13/APRIL binds to the same 2 receptors. Together, they form a 2 ligands -2 receptors pathway involved in the stimulation of B- and T-cell function and the regulation of humoral immunity. A third B-cell specific BAFF-receptor (BAFFR/BR3) promotes the survival of mature B-cells and the B-cell response.<ref>PMID:10973284</ref> Isoform 2 seems to inhibit isoform 1 secretion and bioactivity (By similarity).<ref>PMID:10973284</ref>	+	[https://www.uniprot.org/uniprot/TN13B_HUMAN TN13B_HUMAN] Cytokine that binds to TNFRSF13B/TACI and TNFRSF17/BCMA. TNFSF13/APRIL binds to the same 2 receptors. Together, they form a 2 ligands -2 receptors pathway involved in the stimulation of B- and T-cell function and the regulation of humoral immunity. A third B-cell specific BAFF-receptor (BAFFR/BR3) promotes the survival of mature B-cells and the B-cell response.<ref>PMID:10973284</ref> Isoform 2 seems to inhibit isoform 1 secretion and bioactivity (By similarity).<ref>PMID:10973284</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 18:		Line 19:
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1kd7 ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1kd7 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	B cell activating factor (BAFF), a ligand belonging to the tumor necrosis factor (TNF) family, plays a critical role in regulating survival and activation of peripheral B cell populations and has been associated with autoimmune disease. BAFF is known to interact with three receptors, BCMA, TACI and BAFF-R, that have distant similarities with other receptors of the TNF family. We have determined the crystal structure of the TNF-homologous domain of BAFF at 2.8 A resolution. The structure reveals significant differences when compared to other TNF family members, including an unusually long D-E loop that participates in the formation of a deep, concave and negatively charged region in the putative receptor binding site. The BAFF structure was further used to generate a homology model of APRIL, a closely related TNF family ligand that also binds to BCMA and TACI, but not BAFF-R. Analysis of the putative receptor binding sites of BAFF and APRIL suggests that differences in the D-E loop structure and electrostatic surface potentials may be important for determining binding specificities for BCMA, TACI and BAFF-R.
-
-	Crystal structure of extracellular human BAFF, a TNF family member that stimulates B lymphocytes.,Karpusas M, Cachero TG, Qian F, Boriack-Sjodin A, Mullen C, Strauch K, Hsu YM, Kalled SL J Mol Biol. 2002 Feb 1;315(5):1145-54. PMID:11827482<ref>PMID:11827482</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1kd7" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Tumor necrosis factor ligand superfamily 3D structures\|Tumor necrosis factor ligand superfamily 3D structures]]		*[[Tumor necrosis factor ligand superfamily 3D structures\|Tumor necrosis factor ligand superfamily 3D structures]]
-	*[[Tumor necrosis factor receptor 3D structures\|Tumor necrosis factor receptor 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Boriack-Sjodin, A]]	+	[[Category: Boriack-Sjodin A]]
-	[[Category: Cachero~~, T G~~]]	+	[[Category: Cachero TG]]
-	[[Category: Hsu, Y M]]	+	[[Category: Hsu Y-M]]
-	[[Category: Kalled~~, S L~~]]	+	[[Category: Kalled SL]]
-	[[Category: Karpusas, M]]	+	[[Category: Karpusas M]]
-	[[Category: Mullen, C]]	+	[[Category: Mullen C]]
-	[[Category: Qian, F]]	+	[[Category: Qian F]]
-	[[Category: Strauch, K]]	+	[[Category: Strauch K]]
-	~~[[Category: Beta-sheet shandwich]]~~	+
-	~~[[Category: Membrane protein]]~~	+
-	~~[[Category: Tnf~~]]	+

OCA at 10:36, 16 September 2020

OCA — Wed, 16 Sep 2020 10:36:19 GMT

←Older revision		Revision as of 10:36, 16 September 2020
Line 1:		Line 1:

	==Crystal structure of an extracellular domain fragment of human BAFF==		==Crystal structure of an extracellular domain fragment of human BAFF==
-	<StructureSection load='1kd7' size='340' side='right' caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>	+	<StructureSection load='1kd7' size='340' side='right'caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kd7]] is a 6 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kd7]] is a 6 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>
-	</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://pdbe.org/1kd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kd7 ProSAT]</span></td></tr>	+	</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://pdbe.org/1kd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kd7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 29:		Line 29:

	==See Also==		==See Also==
-	*[[Tumor necrosis factor ligand superfamily\|Tumor necrosis factor ligand superfamily]]	+	*[[Tumor necrosis factor ligand superfamily 3D structures\|Tumor necrosis factor ligand superfamily 3D structures]]
-	*[[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 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Human]]		[[Category: Human]]
		+	[[Category: Large Structures]]
	[[Category: Boriack-Sjodin, A]]		[[Category: Boriack-Sjodin, A]]
	[[Category: Cachero, T G]]		[[Category: Cachero, T G]]

OCA at 07:49, 12 December 2018

OCA — Wed, 12 Dec 2018 07:49:55 GMT

←Older revision		Revision as of 07:49, 12 December 2018
Line 3:		Line 3:
	<StructureSection load='1kd7' size='340' side='right' caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1kd7' size='340' side='right' caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kd7]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kd7]] is a 6 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>
	</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://pdbe.org/1kd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kd7 ProSAT]</span></td></tr>		</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://pdbe.org/1kd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kd7 ProSAT]</span></td></tr>
	</table>		</table>
Line 12:		Line 12:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kd/1kd7_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kd/1kd7_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 35:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Boriack-Sjodin, A]]		[[Category: Boriack-Sjodin, A]]
	[[Category: Cachero, T G]]		[[Category: Cachero, T G]]

OCA at 01:22, 10 March 2017

OCA — Fri, 10 Mar 2017 01:22:47 GMT

←Older revision		Revision as of 01:22, 10 March 2017
Line 27:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1kd7" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1kd7" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Tumor necrosis factor ligand superfamily\|Tumor necrosis factor ligand superfamily]]
		+	*[[Tumor necrosis factor receptor\|Tumor necrosis factor receptor]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 11:07, 1 February 2017

OCA — Wed, 01 Feb 2017 11:07:18 GMT

←Older revision		Revision as of 11:07, 1 February 2017
Line 1:		Line 1:
		+
	==Crystal structure of an extracellular domain fragment of human BAFF==		==Crystal structure of an extracellular domain fragment of human BAFF==
	<StructureSection load='1kd7' size='340' side='right' caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1kd7' size='340' side='right' caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kd7]] is a 6 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kd7]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>
-	</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://pdbe.org/1kd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum]</span></td></tr>	+	</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://pdbe.org/1kd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1kd7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 26:		Line 27:
	</div>		</div>
	<div class="pdbe-citations 1kd7" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 1kd7" style="background-color:#fffaf0;"></div>
-
-	==See Also==
-	*[[Tumor necrosis factor receptor\|Tumor necrosis factor receptor]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Human]]
	[[Category: Boriack-Sjodin, A]]		[[Category: Boriack-Sjodin, A]]
	[[Category: Cachero, T G]]		[[Category: Cachero, T G]]
-	[[Category: Hsu, Y-M]]	+	[[Category: Hsu, Y M]]
	[[Category: Kalled, S L]]		[[Category: Kalled, S L]]
	[[Category: Karpusas, M]]		[[Category: Karpusas, M]]

OCA at 12:42, 7 February 2016

OCA — Sun, 07 Feb 2016 12:42:37 GMT

←Older revision		Revision as of 12:42, 7 February 2016
Line 15:		Line 15:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=1kd7 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 01:36, 10 September 2015

OCA — Thu, 10 Sep 2015 01:36:24 GMT

←Older revision		Revision as of 01:36, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='1kd7' size='340' side='right' caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>		<StructureSection load='1kd7' size='340' side='right' caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1kd7]] is a 6 chain structure with 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1kd7]] is a 6 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>
-	</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum]</span></td></tr>	+	</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://pdbe.org/1kd7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 25:		Line 25:
	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 1kd7" 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: Boriack-Sjodin, A]]		[[Category: Boriack-Sjodin, A]]
	[[Category: Cachero, T G]]		[[Category: Cachero, T G]]

OCA at 15:11, 24 December 2014

OCA — Wed, 24 Dec 2014 15:11:27 GMT

←Older revision		Revision as of 15:11, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1kd7]] is a 6 chain structure with 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>		<table><tr><td colspan='2'>[[1kd7]] is a 6 chain structure with 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum]</span></td></tr>	+	</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=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/TN13B_HUMAN TN13B_HUMAN]] Cytokine that binds to TNFRSF13B/TACI and TNFRSF17/BCMA. TNFSF13/APRIL binds to the same 2 receptors. Together, they form a 2 ligands -2 receptors pathway involved in the stimulation of B- and T-cell function and the regulation of humoral immunity. A third B-cell specific BAFF-receptor (BAFFR/BR3) promotes the survival of mature B-cells and the B-cell response.<ref>PMID:10973284</ref> Isoform 2 seems to inhibit isoform 1 secretion and bioactivity (By similarity).<ref>PMID:10973284</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 28:		Line 30:
	</StructureSection>		</StructureSection>
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
-	[[Category: Boriack-Sjodin, A.]]	+	[[Category: Boriack-Sjodin, A]]
-	[[Category: Cachero, T G.]]	+	[[Category: Cachero, T G]]
-	[[Category: Hsu, Y-M.]]	+	[[Category: Hsu, Y-M]]
-	[[Category: Kalled, S L.]]	+	[[Category: Kalled, S L]]
-	[[Category: Karpusas, M.]]	+	[[Category: Karpusas, M]]
-	[[Category: Mullen, C.]]	+	[[Category: Mullen, C]]
-	[[Category: Qian, F.]]	+	[[Category: Qian, F]]
-	[[Category: Strauch, K.]]	+	[[Category: Strauch, K]]
	[[Category: Beta-sheet shandwich]]		[[Category: Beta-sheet shandwich]]
	[[Category: Membrane protein]]		[[Category: Membrane protein]]
	[[Category: Tnf]]		[[Category: Tnf]]

OCA at 12:33, 28 September 2014

OCA — Sun, 28 Sep 2014 12:33:50 GMT

←Older revision		Revision as of 12:33, 28 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1kd7.~~png\|left~~\|200px]]	+	==Crystal structure of an extracellular domain fragment of human BAFF==
		+	<StructureSection load='1kd7' size='340' side='right' caption='[[1kd7]], [[Resolution\|resolution]] 2.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1kd7]] is a 6 chain structure with 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=1KD7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1KD7 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1kd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1kd7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1kd7 RCSB], [http://www.ebi.ac.uk/pdbsum/1kd7 PDBsum]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/kd/1kd7_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	B cell activating factor (BAFF), a ligand belonging to the tumor necrosis factor (TNF) family, plays a critical role in regulating survival and activation of peripheral B cell populations and has been associated with autoimmune disease. BAFF is known to interact with three receptors, BCMA, TACI and BAFF-R, that have distant similarities with other receptors of the TNF family. We have determined the crystal structure of the TNF-homologous domain of BAFF at 2.8 A resolution. The structure reveals significant differences when compared to other TNF family members, including an unusually long D-E loop that participates in the formation of a deep, concave and negatively charged region in the putative receptor binding site. The BAFF structure was further used to generate a homology model of APRIL, a closely related TNF family ligand that also binds to BCMA and TACI, but not BAFF-R. Analysis of the putative receptor binding sites of BAFF and APRIL suggests that differences in the D-E loop structure and electrostatic surface potentials may be important for determining binding specificities for BCMA, TACI and BAFF-R.

-	~~{{STRUCTURE_1kd7\| PDB=1kd7 \| SCENE= }}~~	+	Crystal structure of extracellular human BAFF, a TNF family member that stimulates B lymphocytes.,Karpusas M, Cachero TG, Qian F, Boriack-Sjodin A, Mullen C, Strauch K, Hsu YM, Kalled SL J Mol Biol. 2002 Feb 1;315(5):1145-54. PMID:11827482<ref>PMID:11827482</ref>

-	~~===Crystal structure~~ of ~~an extracellular domain fragment of human BAFF===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_11827482}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[1kd7]] is a 6 chain structure with 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=1KD7 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:011827482<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Boriack-Sjodin, A.]]		[[Category: Boriack-Sjodin, A.]]

OCA: Protected "1kd7" [edit=sysop:move=sysop]

OCA — Wed, 05 Dec 2012 20:50:07 GMT

Protected "1kd7" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:50, 5 December 2012