5xcu - Revision history

OCA at 07:59, 22 November 2023

OCA — Wed, 22 Nov 2023 07:59:48 GMT

←Older revision		Revision as of 07:59, 22 November 2023
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	<StructureSection load='5xcu' size='340' side='right'caption='[[5xcu]], [[Resolution\|resolution]] 2.45Å' scene=''>		<StructureSection load='5xcu' size='340' side='right'caption='[[5xcu]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xcu]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XCU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5XCU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xcu]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XCU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5XCU FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.454Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5xcs\|5xcs]], [[5xcv\|5xcv]], [[5xcq\|5xcq]], [[5xcx\|5xcx]], [[5xct\|5xct]], [[5xcr\|5xcr]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=5xcu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xcu OCA], [~~http~~://pdbe.org/5xcu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5xcu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5xcu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5xcu 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=5xcu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xcu OCA], [https://pdbe.org/5xcu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5xcu RCSB], [https://www.ebi.ac.uk/pdbsum/5xcu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5xcu ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Arimori, T~~]]	+	[[Category: Mus musculus]]
-	[[Category: ~~Takagi, J~~]]	+	[[Category: Arimori T]]
-	[[Category: ~~Antibody fragment]]~~	+	[[Category: Takagi J]]
-	~~[[Category: Fv-clasp]]~~	+
-	~~[[Category: Immune system~~]]	+

OCA at 06:46, 14 October 2020

OCA — Wed, 14 Oct 2020 06:46:18 GMT

←Older revision		Revision as of 06:46, 14 October 2020
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	==Crystal structure of 12CA5 Fv-clasp fragment with its antigen peptide==		==Crystal structure of 12CA5 Fv-clasp fragment with its antigen peptide==
-	<StructureSection load='5xcu' size='340' side='right' caption='[[5xcu]], [[Resolution\|resolution]] 2.45Å' scene=''>	+	<StructureSection load='5xcu' size='340' side='right'caption='[[5xcu]], [[Resolution\|resolution]] 2.45Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5xcu]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XCU OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5XCU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5xcu]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XCU OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5XCU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5xcs\|5xcs]], [[5xcv\|5xcv]], [[5xcq\|5xcq]], [[5xcx\|5xcx]], [[5xct\|5xct]], [[5xcr\|5xcr]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5xcs\|5xcs]], [[5xcv\|5xcv]], [[5xcq\|5xcq]], [[5xcx\|5xcx]], [[5xct\|5xct]], [[5xcr\|5xcr]]</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=5xcu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xcu OCA], [http://pdbe.org/5xcu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xcu RCSB], [http://www.ebi.ac.uk/pdbsum/5xcu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xcu ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5xcu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xcu OCA], [http://pdbe.org/5xcu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xcu RCSB], [http://www.ebi.ac.uk/pdbsum/5xcu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xcu ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Arimori, T]]		[[Category: Arimori, T]]
	[[Category: Takagi, J]]		[[Category: Takagi, J]]

OCA at 09:31, 4 October 2017

OCA — Wed, 04 Oct 2017 09:31:24 GMT

←Older revision		Revision as of 09:31, 4 October 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5xcu is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of 12CA5 Fv-clasp fragment with its antigen peptide==
		+	<StructureSection load='5xcu' size='340' side='right' caption='[[5xcu]], [[Resolution\|resolution]] 2.45Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5xcu]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5XCU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5XCU FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5xcs\|5xcs]], [[5xcv\|5xcv]], [[5xcq\|5xcq]], [[5xcx\|5xcx]], [[5xct\|5xct]], [[5xcr\|5xcr]]</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=5xcu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5xcu OCA], [http://pdbe.org/5xcu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5xcu RCSB], [http://www.ebi.ac.uk/pdbsum/5xcu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5xcu ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Antibody fragments are frequently used as a "crystallization chaperone" to aid structural analysis of complex macromolecules that are otherwise crystallization resistant, but conventional fragment formats have not been designed for this particular application. By fusing an anti-parallel coiled-coil structure derived from the SARAH domain of human Mst1 kinase to the variable region of an antibody, we succeeded in creating a novel chimeric antibody fragment of approximately 37 kDa, termed "Fv-clasp," which exhibits excellent crystallization compatibility while maintaining the binding ability of the original IgG molecule. The "clasp" and the engineered disulfide bond at the bottom of the Fv suppressed the internal mobility of the fragment and shielded hydrophobic residues, likely contributing to the high heat stability and the crystallizability of the Fv-clasp. Finally, Fv-clasp antibodies showed superior "chaperoning" activity over conventional Fab fragments, and facilitated the structure determination of an ectodomain fragment of integrin alpha6beta1.

-	~~Authors~~:	+	Fv-clasp: An Artificially Designed Small Antibody Fragment with Improved Production Compatibility, Stability, and Crystallizability.,Arimori T, Kitago Y, Umitsu M, Fujii Y, Asaki R, Tamura-Kawakami K, Takagi J Structure. 2017 Sep 6. pii: S0969-2126(17)30264-2. doi:, 10.1016/j.str.2017.08.011. PMID:28919443<ref>PMID:28919443</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5xcu" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Arimori, T]]
		+	[[Category: Takagi, J]]
		+	[[Category: Antibody fragment]]
		+	[[Category: Fv-clasp]]
		+	[[Category: Immune system]]

OCA at 12:02, 19 April 2017

OCA — Wed, 19 Apr 2017 12:02:46 GMT

←Older revision		Revision as of 12:02, 19 April 2017
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5xcu is ON HOLD	+	The entry 5xcu is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5xcu" [edit=sysop:move=sysop]

OCA — Wed, 05 Apr 2017 12:30:03 GMT

Protected "5xcu" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:30, 5 April 2017

OCA: New page: '''Unreleased structure''' The entry 5xcu is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 05 Apr 2017 12:29:59 GMT

New page: '''Unreleased structure''' The entry 5xcu is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5xcu is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]