1dbk - Revision history

OCA at 09:49, 20 March 2024

2024-03-20T09:49:09Z

←Older revision		Revision as of 09:49, 20 March 2024
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	<StructureSection load='1dbk' size='340' side='right'caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='1dbk' size='340' side='right'caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DBK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dbk]] is a 2 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=1DBK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DBK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</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]] 3Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [https://pdbe.org/1dbk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [https://www.ebi.ac.uk/pdbsum/1dbk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dbk 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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [https://pdbe.org/1dbk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [https://www.ebi.ac.uk/pdbsum/1dbk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dbk ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/IGHG1_MOUSE IGHG1_MOUSE]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 17:		Line 20:
	</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=1dbk 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=1dbk ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Two major unanswered questions concerning the specificity of antibodies are: how do structurally different antigens bind with high affinity to the same antibody, and what are the limits of the antibody combining site complementarity and flexibility that contribute to such crossreactivity? We report here a comparative analysis of the X-ray structures of five conformationally different steroids in complex with the Fab' fragment of an anti-progesterone antibody DB3 at 2.7 A. This antibody is unable to complement completely the shape of the hydrophobic antigen so that crossreactivity occurs with other ligands without major structural rearrangements of the binding site. Antigen specificity can be explained through conserved interactions of DB3 with the steroid D-ring, whereas some of the crossreactivity is realized through different binding orientations of the steroid skeleton that place the A-ring into alternative pockets on the antibody surface. The restricted gene usage of the VGAM3.8 family in the generation of anti-progesterone monoclonal antibodies may be explained by the specific interaction of VH hallmark residues with the steroid D-ring. This first detailed structure of steroid interactions with a protein could be applied to the understanding of general mechanisms of steroid recognition as well as in the design of specific binding sites for small hydrophobic ligands.
-
-	Molecular basis of crossreactivity and the limits of antibody-antigen complementarity.,Arevalo JH, Taussig MJ, Wilson IA Nature. 1993 Oct 28;365(6449):859-63. PMID:8413674<ref>PMID:8413674</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1dbk" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 31:		Line 25:
	*[[Sandbox 20009\|Sandbox 20009]]		*[[Sandbox 20009\|Sandbox 20009]]
	*[[3D structures of non-human antibody\|3D structures of non-human antibody]]		*[[3D structures of non-human antibody\|3D structures of non-human antibody]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Arevalo, J H~~]]	+	[[Category: Mus musculus]]
-	[[Category: ~~Wilson, I A~~]]	+	[[Category: Arevalo JH]]
-	[[Category: ~~Immunoglobulin~~]]	+	[[Category: Wilson IA]]

OCA at 18:24, 10 March 2021

2021-03-10T18:24:20Z

←Older revision		Revision as of 18:24, 10 March 2021
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	<StructureSection load='1dbk' size='340' side='right'caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='1dbk' size='340' side='right'caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1DBK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DBK FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene></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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [~~http~~://pdbe.org/1dbk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1dbk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1dbk 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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [https://pdbe.org/1dbk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [https://www.ebi.ac.uk/pdbsum/1dbk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dbk ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 29:		Line 29:
	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Sandbox 20009\|Sandbox 20009]]
		+	*[[3D structures of non-human antibody\|3D structures of non-human antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 00:19, 6 June 2019

2019-06-06T00:19:07Z

←Older revision		Revision as of 00:19, 6 June 2019
Line 1:		Line 1:

	==MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY==		==MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY==
-	<StructureSection load='1dbk' size='340' side='right' caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='1dbk' size='340' side='right'caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>
Line 11:		Line 11:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/db/1dbk_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/db/1dbk_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 28:		Line 28:

	==See Also==		==See Also==
-	*[[3D structures ~~of antibody~~\|3D structures ~~of antibody~~]]	+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Arevalo, J H]]		[[Category: Arevalo, J H]]
	[[Category: Wilson, I A]]		[[Category: Wilson, I A]]
	[[Category: Immunoglobulin]]		[[Category: Immunoglobulin]]

OCA at 04:14, 30 August 2017

2017-08-30T04:14:00Z

←Older revision		Revision as of 04:14, 30 August 2017
Line 1:		Line 1:
		+
	==MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY==		==MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY==
	<StructureSection load='1dbk' size='340' side='right' caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='1dbk' size='340' side='right' caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene></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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [http://pdbe.org/1dbk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [http://www.ebi.ac.uk/pdbsum/1dbk 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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [http://pdbe.org/1dbk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [http://www.ebi.ac.uk/pdbsum/1dbk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1dbk ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 14:		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=1dbk ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 28:

	==See Also==		==See Also==
-	*[[~~Antibody~~\|~~Antibody~~]]	+	*[[3D structures of antibody\|3D structures of antibody]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Lk3 transgenic mice]]
	[[Category: Arevalo, J H]]		[[Category: Arevalo, J H]]
	[[Category: Wilson, I A]]		[[Category: Wilson, I A]]
	[[Category: Immunoglobulin]]		[[Category: Immunoglobulin]]

OCA at 13:21, 11 September 2015

2015-09-11T13:21:04Z

←Older revision		Revision as of 13:21, 11 September 2015
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	<StructureSection load='1dbk' size='340' side='right' caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='1dbk' size='340' side='right' caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mus_musculus Mus musculus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene></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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [http://www.ebi.ac.uk/pdbsum/1dbk 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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [http://pdbe.org/1dbk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [http://www.ebi.ac.uk/pdbsum/1dbk PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 24:		Line 24:
	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 1dbk" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 31:		Line 32:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mus musculus~~]]	+	[[Category: Lk3 transgenic mice]]
	[[Category: Arevalo, J H]]		[[Category: Arevalo, J H]]
	[[Category: Wilson, I A]]		[[Category: Wilson, I A]]
	[[Category: Immunoglobulin]]		[[Category: Immunoglobulin]]

OCA at 21:38, 22 December 2014

2014-12-22T21:38:12Z

←Older revision		Revision as of 21:38, 22 December 2014
Line 32:		Line 32:
	</StructureSection>		</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: Arevalo, J H.]]	+	[[Category: Arevalo, J H]]
-	[[Category: Wilson, I A.]]	+	[[Category: Wilson, I A]]
	[[Category: Immunoglobulin]]		[[Category: Immunoglobulin]]

OCA at 06:52, 10 October 2014

2014-10-10T06:52:25Z

←Older revision		Revision as of 06:52, 10 October 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>		<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene></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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [http://www.ebi.ac.uk/pdbsum/1dbk 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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [http://www.ebi.ac.uk/pdbsum/1dbk PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 06:44, 4 September 2014

2014-09-04T06:44:42Z

←Older revision		Revision as of 06:44, 4 September 2014
Line 1:		Line 1:
-	[[~~Image~~:1dbk.~~png\|left~~\|200px]]	+	==MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY==
		+	<StructureSection load='1dbk' size='340' side='right' caption='[[1dbk]], [[Resolution\|resolution]] 3.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1dbk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DBK FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ANO:5-BETA-ANDROSTANE-3,17-DIONE'>ANO</scene><br>
		+	<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=1dbk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1dbk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1dbk RCSB], [http://www.ebi.ac.uk/pdbsum/1dbk 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/db/1dbk_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 ==
		+	Two major unanswered questions concerning the specificity of antibodies are: how do structurally different antigens bind with high affinity to the same antibody, and what are the limits of the antibody combining site complementarity and flexibility that contribute to such crossreactivity? We report here a comparative analysis of the X-ray structures of five conformationally different steroids in complex with the Fab' fragment of an anti-progesterone antibody DB3 at 2.7 A. This antibody is unable to complement completely the shape of the hydrophobic antigen so that crossreactivity occurs with other ligands without major structural rearrangements of the binding site. Antigen specificity can be explained through conserved interactions of DB3 with the steroid D-ring, whereas some of the crossreactivity is realized through different binding orientations of the steroid skeleton that place the A-ring into alternative pockets on the antibody surface. The restricted gene usage of the VGAM3.8 family in the generation of anti-progesterone monoclonal antibodies may be explained by the specific interaction of VH hallmark residues with the steroid D-ring. This first detailed structure of steroid interactions with a protein could be applied to the understanding of general mechanisms of steroid recognition as well as in the design of specific binding sites for small hydrophobic ligands.

-	~~{{STRUCTURE_1dbk\| PDB=1dbk \| SCENE= }}~~	+	Molecular basis of crossreactivity and the limits of antibody-antigen complementarity.,Arevalo JH, Taussig MJ, Wilson IA Nature. 1993 Oct 28;365(6449):859-63. PMID:8413674<ref>PMID:8413674</ref>

-	~~===MOLECULAR BASIS OF CROSS-REACTIVITY AND THE LIMITS OF ANTIBODY-ANTIGEN COMPLEMENTARITY===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_8413674}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[1dbk]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Mus_musculus Mus musculus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA].~~	+

	==See Also==		==See Also==
	*[[Antibody\|Antibody]]		*[[Antibody\|Antibody]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:008413674<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Arevalo, J H.]]		[[Category: Arevalo, J H.]]
	[[Category: Wilson, I A.]]		[[Category: Wilson, I A.]]
	[[Category: Immunoglobulin]]		[[Category: Immunoglobulin]]

OCA at 19:11, 20 October 2012

2012-10-20T19:11:28Z

←Older revision		Revision as of 19:11, 20 October 2012
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	==About this Structure==		==About this Structure==
-	[[1dbk]] is a 2 chain structure ~~of [[Antibody]]~~ with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA].	+	[[1dbk]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DBK OCA].

	==See Also==		==See Also==

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

2012-07-27T06:34:26Z

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

←Older revision

Revision as of 06:34, 27 July 2012