1dhv - Revision history

OCA at 09:27, 21 July 2021

2021-07-21T09:27:13Z

←Older revision		Revision as of 09:27, 21 July 2021
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	<StructureSection load='1dhv' size='340' side='right'caption='[[1dhv]]' scene=''>		<StructureSection load='1dhv' size='340' side='right'caption='[[1dhv]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=1DHV FirstGlance]. <br>	+	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1DHV 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=1dhv FirstGlance], [~~http~~://www.ebi.ac.uk/pdbsum/1dhv PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=1dhv ProSAT]</span></td></tr>	+	</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=1dhv FirstGlance], [https://www.ebi.ac.uk/pdbsum/1dhv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1dhv ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 10:19, 16 October 2019

2019-10-16T10:19:00Z

←Older revision		Revision as of 10:19, 16 October 2019
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	==SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4==		==SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4==
-	<StructureSection load='1dhv' size='340' side='right' caption='[[1dhv]]' scene=''>	+	<StructureSection load='1dhv' size='340' side='right'caption='[[1dhv]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DHV FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DHV FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Theoretical Model]]		[[Category: Theoretical Model]]
		+	[[Category: Large Structures]]
	[[Category: Fischer, M]]		[[Category: Fischer, M]]
	[[Category: Ge, L]]		[[Category: Ge, L]]

OCA at 08:23, 6 December 2017

2017-12-06T08:23:55Z

←Older revision		Revision as of 08:23, 6 December 2017
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DHV FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DHV 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=1dhv FirstGlance], [http://www.ebi.ac.uk/pdbsum/1dhv 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=1dhv FirstGlance], [http://www.ebi.ac.uk/pdbsum/1dhv PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1dhv ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:50, 11 February 2016

2016-02-11T08:50:30Z

←Older revision		Revision as of 08:50, 11 February 2016
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		+	{{Theoretical_model}}
		+
	==SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4==		==SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4==
	<StructureSection load='1dhv' size='340' side='right' caption='[[1dhv]]' scene=''>		<StructureSection load='1dhv' size='340' side='right' caption='[[1dhv]]' scene=''>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Theoretical Model]]
	[[Category: Fischer, M]]		[[Category: Fischer, M]]
	[[Category: Ge, L]]		[[Category: Ge, L]]

OCA at 09:03, 11 September 2015

2015-09-11T09:03:58Z

←Older revision		Revision as of 09:03, 11 September 2015
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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 1dhv" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 23:27, 22 December 2014

2014-12-22T23:27:33Z

←Older revision		Revision as of 23:27, 22 December 2014
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DHV FirstGlance]. <br>		<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DHV 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=1dhv FirstGlance], [http://www.ebi.ac.uk/pdbsum/1dhv 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=1dhv FirstGlance], [http://www.ebi.ac.uk/pdbsum/1dhv PDBsum]</span></td></tr>
-	<table>	+	</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 06:35, 4 September 2014

2014-09-04T06:35:52Z

←Older revision		Revision as of 06:35, 4 September 2014
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-	~~{{Theoretical_model}}~~	+	==SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4==
		+	<StructureSection load='1dhv' size='340' side='right' caption='[[1dhv]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1DHV 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=1dhv FirstGlance], [http://www.ebi.ac.uk/pdbsum/1dhv PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	By analyzing the human antibody repertoire in terms of structure, amino acid sequence diversity and germline usage, we found that seven V(H) and seven V(L) (four Vkappa and three Vlambda) germline families cover more than 95 % of the human antibody diversity used. A consensus sequence was derived for each family and optimized for expression in Escherichia coli. In order to make all six complementarity determining regions (CDRs) accessible for diversification, the synthetic genes were designed to be modular and mutually compatible by introducing unique restriction endonuclease sites flanking the CDRs. Molecular modeling verified that all canonical classes were present. We could show that all master genes are expressed as soluble proteins in the periplasm of E. coli. A first set of antibody phage display libraries totalling 2x10(9) members was created after cloning the genes in all 49 combinations into a phagemid vector, itself devoid of the restriction sites in question. Diversity was created by replacing the V(H) and V(L) CDR3 regions of the master genes by CDR3 library cassettes, generated from mixed trinucleotides and biased towards natural human antibody CDR3 sequences. The sequencing of 257 members of the unselected libraries indicated that the frequency of correct and thus potentially functional sequences was 61 %. Selection experiments against many antigens yielded a diverse set of binders with high affinities. Due to the modular design of all master genes, either single binders or even pools of binders can now be rapidly optimized without knowledge of the particular sequence, using pre-built CDR cassette libraries. The small number of 49 master genes will allow future improvements to be incorporated quickly, and the separation of the frameworks may help in analyzing why nature has evolved these distinct subfamilies of antibody germline genes.

-	~~[[Image~~:~~1dhv~~.~~png\|left\|200px]]~~	+	Fully synthetic human combinatorial antibody libraries (HuCAL) based on modular consensus frameworks and CDRs randomized with trinucleotides.,Knappik A, Ge L, Honegger A, Pack P, Fischer M, Wellnhofer G, Hoess A, Wolle J, Pluckthun A, Virnekas B J Mol Biol. 2000 Feb 11;296(1):57-86. PMID:10656818<ref>PMID:10656818</ref>

-	~~{{STRUCTURE_1dhv\| PDB=1dhv \| SCENE= }}~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	==~~=SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4===~~	+	== References ==
-		+	<references/>
-	~~{{ABSTRACT_PUBMED_10656818}}~~	+	__TOC__
-		+	</StructureSection>
-	~~==Reference~~==	+
-	<~~ref group="xtra">PMID:010656818<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Fischer, M]]		[[Category: Fischer, M]]
	[[Category: Ge, L]]		[[Category: Ge, L]]

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

2012-10-21T08:47:38Z

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

←Older revision

Revision as of 08:47, 21 October 2012

OCA at 08:47, 21 October 2012

2012-10-21T08:47:34Z

←Older revision		Revision as of 08:47, 21 October 2012
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	{{Theoretical_model}}		{{Theoretical_model}}
-	~~{{Seed}}~~	+
	[[Image:1dhv.png\|left\|200px]]		[[Image:1dhv.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_1dhv", creates the "Structure Box" on the page.
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-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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	{{STRUCTURE_1dhv\| PDB=1dhv \| SCENE= }}		{{STRUCTURE_1dhv\| PDB=1dhv \| SCENE= }}

	===SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4===		===SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_10656818}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 10656818 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_10656818}}		{{ABSTRACT_PUBMED_10656818}}
-
-	==About this Structure==
-	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DHV OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~10656818~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:010656818</ref><references group="xtra"/>
	[[Category: Fischer, M]]		[[Category: Fischer, M]]
	[[Category: Ge, L]]		[[Category: Ge, L]]
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	[[Category: Wellnhofer, G]]		[[Category: Wellnhofer, G]]
	[[Category: Woelle, J]]		[[Category: Woelle, J]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Apr 8 06:57:04 2010''

OCA at 03:57, 8 April 2010

2010-04-08T03:57:05Z

←Older revision		Revision as of 03:57, 8 April 2010
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-	~~'''Theoretical Model'''~~	+	{{Theoretical_model}}
		+	{{Seed}}
		+	[[Image:1dhv.png\|left\|200px]]

-	The ~~entry 1DHV is a Theoretical Model titled 'SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY~~ (~~HUCAL~~) ~~FRAMEWORK VH 4'~~.	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_1dhv", 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_1dhv\| PDB=1dhv \| SCENE= }}

-	~~[[Category:Theoretical Model]]~~	+	===SYNTHETIC HUMAN COMBINATORIAL ANTIBODY LIBRARY (HUCAL) FRAMEWORK VH 4===


-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Jul 30 09~~:49:~~20 2008~~''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_10656818}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 10656818 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_10656818}}
		+
		+	==About this Structure==
		+	Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1DHV OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:10656818</ref><references group="xtra"/>
		+	[[Category: Fischer, M]]
		+	[[Category: Ge, L]]
		+	[[Category: Hoess, A]]
		+	[[Category: Honegger, A]]
		+	[[Category: Knappik, A]]
		+	[[Category: Pack, P]]
		+	[[Category: Pluckthun, A]]
		+	[[Category: Virnekaes, B]]
		+	[[Category: Wellnhofer, G]]
		+	[[Category: Woelle, J]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Apr 8 06:57:04 2010''