1mqk - Revision history

OCA at 08:39, 10 April 2024

OCA — Wed, 10 Apr 2024 08:39:49 GMT

←Older revision		Revision as of 08:39, 10 April 2024
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	<StructureSection load='1mqk' size='340' side='right'caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>		<StructureSection load='1mqk' size='340' side='right'caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1mqk]] is a 2 chain structure with sequence from [https://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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MQK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MQK 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;'>[[1ar1\|1ar1]]~~, [[~~1qle~~\|~~1qle~~]]~~</div>~~</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]] 1.28Å</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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [https://pdbe.org/1mqk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [https://www.ebi.ac.uk/pdbsum/1mqk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mqk 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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [https://pdbe.org/1mqk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [https://www.ebi.ac.uk/pdbsum/1mqk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mqk ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/KV5A4_MOUSE KV5A4_MOUSE]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</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=1mqk 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=1mqk ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The antibody Fv fragment 7E2 has previously been employed in the induced crystallization of the integral membrane protein cytochrome c oxidase from Paracoccus denitrificans. The 1.3 A X-ray structure of the uncomplexed antibody fragment reveals conserved water networks on the surfaces of the framework regions. A novel consensus motif for water coordination, XX(S/T), is found along the edges of the beta-sandwich, where a water molecule forms hydrogen bonds to the carbonyl O atom of a residue at position N and the OG hydroxyl groups of conserved serines or threonines at position N + 2. Multiple conformations were found in the hydrophobic core for residues IleL21, LeuL33 and the disulfide bridges. An internal water molecule that is compatible with only one of the three packing states of the V(L) core suggests local 'breathing' of the variable domain. TrpH47, a conserved key residue of the V(H)/V(L) interface, is crucially involved in the formation of the antigen-binding site by adopting a novel conformation that specifically stabilizes the non-canonical CDR-L3 loop. Finally, a comparison with 7E2-cytochrome c oxidase complexes demonstrates that binding of this membrane-bound antigen proceeds without major conformational changes of the 7E2 antibody fragment.
-
-	1.3 A X-ray structure of an antibody Fv fragment used for induced membrane-protein crystallization.,Essen LO, Harrenga A, Ostermeier C, Michel H Acta Crystallogr D Biol Crystallogr. 2003 Apr;59(Pt 4):677-87. Epub 2003, Mar 25. PMID:12657787<ref>PMID:12657787</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 1mqk" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]		*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
-	[[Category: Essen, L O]]	+	[[Category: Essen L-O]]
-	[[Category: Harrenga, A]]	+	[[Category: Harrenga A]]
-	[[Category: Michel, H]]	+	[[Category: Michel H]]
-	[[Category: Ostermeier, C]]	+	[[Category: Ostermeier C]]
-	~~[[Category: Antibody]]~~	+
-	~~[[Category: Cytochrome c oxidase]]~~	+
-	~~[[Category: High-resolution structure]]~~	+
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Membrane protein~~]]	+

OCA at 08:54, 21 April 2021

OCA — Wed, 21 Apr 2021 08:54:53 GMT

←Older revision		Revision as of 08:54, 21 April 2021
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	<StructureSection load='1mqk' size='340' side='right'caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>		<StructureSection load='1mqk' size='340' side='right'caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1MQK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1mqk]] is a 2 chain structure with sequence from [https://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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1MQK FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ar1\|1ar1]], [[1qle\|1qle]]</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;'>[[1ar1\|1ar1]], [[1qle\|1qle]]</div></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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [~~http~~://pdbe.org/1mqk PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/1mqk PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1mqk 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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [https://pdbe.org/1mqk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [https://www.ebi.ac.uk/pdbsum/1mqk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1mqk ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 13:18, 17 July 2019

OCA — Wed, 17 Jul 2019 13:18:18 GMT

←Older revision		Revision as of 13:18, 17 July 2019
Line 1:		Line 1:

	==Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2==		==Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2==
-	<StructureSection load='1mqk' size='340' side='right' caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>	+	<StructureSection load='1mqk' size='340' side='right'caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK FirstGlance]. <br>		<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK 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/mq/1mqk_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/mq/1mqk_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 monoclonal antibody~~\|3D structures ~~of monoclonal antibody~~]]	+	*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: Essen, L O]]		[[Category: Essen, L O]]

OCA at 11:07, 12 October 2017

OCA — Thu, 12 Oct 2017 11:07:37 GMT

←Older revision		Revision as of 11:07, 12 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2==		==Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2==
	<StructureSection load='1mqk' size='340' side='right' caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>		<StructureSection load='1mqk' size='340' side='right' caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK FirstGlance]. <br>		<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ar1\|1ar1]], [[1qle\|1qle]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ar1\|1ar1]], [[1qle\|1qle]]</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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [http://pdbe.org/1mqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [http://www.ebi.ac.uk/pdbsum/1mqk 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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [http://pdbe.org/1mqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [http://www.ebi.ac.uk/pdbsum/1mqk PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1mqk ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 27:		Line 28:

	==See Also==		==See Also==
-	*[[~~Monoclonal Antibody~~\|~~Monoclonal Antibody~~]]	+	*[[3D structures of monoclonal antibody\|3D structures of monoclonal antibody]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:29, 8 February 2016

OCA — Mon, 08 Feb 2016 18:29:29 GMT

←Older revision		Revision as of 18:29, 8 February 2016
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	<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=1mqk ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 14:15, 10 September 2015

OCA — Thu, 10 Sep 2015 14:15:08 GMT

←Older revision		Revision as of 14:15, 10 September 2015
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	<StructureSection load='1mqk' size='340' side='right' caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>		<StructureSection load='1mqk' size='340' side='right' caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ar1\|1ar1]], [[1qle\|1qle]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ar1\|1ar1]], [[1qle\|1qle]]</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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [http://www.ebi.ac.uk/pdbsum/1mqk 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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [http://pdbe.org/1mqk PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [http://www.ebi.ac.uk/pdbsum/1mqk PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	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 1mqk" 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: Essen, L O]]		[[Category: Essen, L O]]
	[[Category: Harrenga, A]]		[[Category: Harrenga, A]]

OCA at 16:42, 5 January 2015

OCA — Mon, 05 Jan 2015 16:42:14 GMT

←Older revision		Revision as of 16:42, 5 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK FirstGlance]. <br>		<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ar1\|1ar1]], [[1qle\|1qle]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ar1\|1ar1]], [[1qle\|1qle]]</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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [http://www.ebi.ac.uk/pdbsum/1mqk 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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [http://www.ebi.ac.uk/pdbsum/1mqk PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
-	[[Category: Essen, L O.]]	+	[[Category: Essen, L O]]
-	[[Category: Harrenga, A.]]	+	[[Category: Harrenga, A]]
-	[[Category: Michel, H.]]	+	[[Category: Michel, H]]
-	[[Category: Ostermeier, C.]]	+	[[Category: Ostermeier, C]]
	[[Category: Antibody]]		[[Category: Antibody]]
	[[Category: Cytochrome c oxidase]]		[[Category: Cytochrome c oxidase]]

OCA at 16:04, 28 September 2014

OCA — Sun, 28 Sep 2014 16:04:22 GMT

←Older revision		Revision as of 16:04, 28 September 2014
Line 1:		Line 1:
-	[[~~Image:~~1mqk.~~png~~\|~~left~~\|200px]]	+	==Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2==
		+	<StructureSection load='1mqk' size='340' side='right' caption='[[1mqk]], [[Resolution\|resolution]] 1.28Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[1mqk]] 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=1MQK OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1MQK FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1ar1\|1ar1]], [[1qle\|1qle]]</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=1mqk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1mqk OCA], [http://www.rcsb.org/pdb/explore.do?structureId=1mqk RCSB], [http://www.ebi.ac.uk/pdbsum/1mqk 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/mq/1mqk_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 ==
		+	The antibody Fv fragment 7E2 has previously been employed in the induced crystallization of the integral membrane protein cytochrome c oxidase from Paracoccus denitrificans. The 1.3 A X-ray structure of the uncomplexed antibody fragment reveals conserved water networks on the surfaces of the framework regions. A novel consensus motif for water coordination, XX(S/T), is found along the edges of the beta-sandwich, where a water molecule forms hydrogen bonds to the carbonyl O atom of a residue at position N and the OG hydroxyl groups of conserved serines or threonines at position N + 2. Multiple conformations were found in the hydrophobic core for residues IleL21, LeuL33 and the disulfide bridges. An internal water molecule that is compatible with only one of the three packing states of the V(L) core suggests local 'breathing' of the variable domain. TrpH47, a conserved key residue of the V(H)/V(L) interface, is crucially involved in the formation of the antigen-binding site by adopting a novel conformation that specifically stabilizes the non-canonical CDR-L3 loop. Finally, a comparison with 7E2-cytochrome c oxidase complexes demonstrates that binding of this membrane-bound antigen proceeds without major conformational changes of the 7E2 antibody fragment.

-	~~{{STRUCTURE_1mqk\| PDB=1mqk \| SCENE= }}~~	+	1.3 A X-ray structure of an antibody Fv fragment used for induced membrane-protein crystallization.,Essen LO, Harrenga A, Ostermeier C, Michel H Acta Crystallogr D Biol Crystallogr. 2003 Apr;59(Pt 4):677-87. Epub 2003, Mar 25. PMID:12657787<ref>PMID:12657787</ref>

-	~~===Crystal structure~~ of the ~~unliganded Fv-fragment~~ of ~~the anti-cytochrome C oxidase antibody 7E2===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

-	~~{{ABSTRACT_PUBMED_12657787}}~~	+	==See Also==
-		+	*[[Monoclonal Antibody\|Monoclonal Antibody]]
-	==~~About this Structure~~==	+	== References ==
-	[[~~1mqk~~]] 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=1MQK OCA].	+	<references/>
-		+	__TOC__
-	==~~Reference~~==	+	</StructureSection>
-	<~~ref group="xtra">PMID:012657787<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Essen, L O.]]		[[Category: Essen, L O.]]

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

OCA — Wed, 05 Dec 2012 20:59:35 GMT

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

←Older revision

Revision as of 20:59, 5 December 2012

OCA at 20:59, 5 December 2012

OCA — Wed, 05 Dec 2012 20:59:32 GMT

←Older revision		Revision as of 20:59, 5 December 2012
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-	{{Seed}}
	[[Image:1mqk.png\|left\|200px]]		[[Image:1mqk.png\|left\|200px]]

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	{{STRUCTURE_1mqk\| PDB=1mqk \| SCENE= }}		{{STRUCTURE_1mqk\| PDB=1mqk \| SCENE= }}

	===Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2===		===Crystal structure of the unliganded Fv-fragment of the anti-cytochrome C oxidase antibody 7E2===

-
-	<!--
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	{{ABSTRACT_PUBMED_12657787}}		{{ABSTRACT_PUBMED_12657787}}

	==About this Structure==		==About this Structure==
-	~~1MQK~~ is a 2 ~~chains~~ structure ~~of sequences~~ 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=1MQK OCA].	+	[[1mqk]] 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=1MQK OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~12657787~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:012657787</ref><references group="xtra"/>
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: Essen, L O.]]		[[Category: Essen, L O.]]
Line 32:		Line 20:
	[[Category: Cytochrome c oxidase]]		[[Category: Cytochrome c oxidase]]
	[[Category: High-resolution structure]]		[[Category: High-resolution structure]]
		+	[[Category: Immune system]]
	[[Category: Membrane protein]]		[[Category: Membrane protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 01:32:35 2009''