5b3n - Revision history

OCA at 15:59, 8 November 2023

OCA — Wed, 08 Nov 2023 15:59:05 GMT

←Older revision		Revision as of 15:59, 8 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5b3n]] is a 1 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=5B3N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B3N FirstGlance]. <br>		<table><tr><td colspan='2'>[[5b3n]] is a 1 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=5B3N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B3N FirstGlance]. <br>
-	</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=5b3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b3n OCA], [https://pdbe.org/5b3n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b3n RCSB], [https://www.ebi.ac.uk/pdbsum/5b3n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b3n 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]] 1.94Å</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=5b3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b3n OCA], [https://pdbe.org/5b3n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b3n RCSB], [https://www.ebi.ac.uk/pdbsum/5b3n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b3n ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	==See Also==		==See Also==
	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
-	*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]
	*[[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 ==

OCA at 06:37, 31 May 2023

OCA — Wed, 31 May 2023 06:37:47 GMT

←Older revision		Revision as of 06:37, 31 May 2023
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	<StructureSection load='5b3n' size='340' side='right'caption='[[5b3n]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='5b3n' size='340' side='right'caption='[[5b3n]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5b3n]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B3N OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5B3N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5b3n]] is a 1 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=5B3N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B3N 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=5b3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b3n OCA], [~~http~~://pdbe.org/5b3n PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5b3n RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5b3n PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5b3n 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=5b3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b3n OCA], [https://pdbe.org/5b3n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b3n RCSB], [https://www.ebi.ac.uk/pdbsum/5b3n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b3n ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	*[[Antibody 3D structures\|Antibody 3D structures]]		*[[Antibody 3D structures\|Antibody 3D structures]]
	*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]		*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]
		+	*[[3D structures of non-human antibody\|3D structures of non-human antibody]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Horikoshi, N~~]]	+	[[Category: Mus musculus]]
-	[[Category: ~~Kujirai, T~~]]	+	[[Category: Horikoshi N]]
-	[[Category: ~~Kurumizaka, H~~]]	+	[[Category: Kujirai T]]
-	[[Category: ~~Histone modification]]~~	+	[[Category: Kurumizaka H]]
-	~~[[Category: Immune system]]~~	+
-	~~[[Category: Intrabody]]~~	+
-	~~[[Category: Scfv~~]]	+

OCA at 08:45, 11 March 2020

OCA — Wed, 11 Mar 2020 08:45:52 GMT

←Older revision		Revision as of 08:45, 11 March 2020
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	==The crystal structure of anti-H4K20me1_scFv, 15F11==		==The crystal structure of anti-H4K20me1_scFv, 15F11==
-	<StructureSection load='5b3n' size='340' side='right' caption='[[5b3n]], [[Resolution\|resolution]] 1.94Å' scene=''>	+	<StructureSection load='5b3n' size='340' side='right'caption='[[5b3n]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5b3n]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B3N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B3N FirstGlance]. <br>		<table><tr><td colspan='2'>[[5b3n]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B3N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B3N FirstGlance]. <br>
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	</div>		</div>
	<div class="pdbe-citations 5b3n" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5b3n" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Horikoshi, N]]		[[Category: Horikoshi, N]]
	[[Category: Kujirai, T]]		[[Category: Kujirai, T]]

OCA at 13:54, 5 October 2016

OCA — Wed, 05 Oct 2016 13:54:49 GMT

←Older revision		Revision as of 13:54, 5 October 2016
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	</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=5b3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b3n OCA], [http://pdbe.org/5b3n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b3n RCSB], [http://www.ebi.ac.uk/pdbsum/5b3n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5b3n 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=5b3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b3n OCA], [http://pdbe.org/5b3n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b3n RCSB], [http://www.ebi.ac.uk/pdbsum/5b3n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5b3n ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Eukaryotic gene expression is regulated in the context of chromatin. Dynamic changes in post-translational histone modification are thought to play key roles in fundamental cellular functions such as regulation of the cell cycle, development, and differentiation. To elucidate the relationship between histone modifications and cellular functions, it is important to monitor the dynamics of modifications in single living cells. A genetically encoded probe called mintbody (modification-specific intracellular antibody), which is a single-chain variable fragment tagged with a fluorescent protein, has been proposed as a useful visualization tool. However, the efficacy of intracellular expression of antibody fragments has been limited, in part due to different environmental conditions in the cytoplasm compared to the endoplasmic reticulum where secreted proteins such as antibodies are folded. In this study, we have developed a new mintbody specific for histone H4 Lys20 monomethylation (H4K20me1). The specificity of the H4K20me1-mintbody in living cells was verified using yeast mutants and mammalian cells in which this target modification was diminished. Expression of the H4K20me1-mintbody allowed us to monitor the oscillation of H4K20me1 levels during the cell cycle. Moreover, dosage-compensated X chromosomes were visualized using the H4K20me1-mintbody in mouse and nematode cells. Using X-ray crystallography and mutational analyses, we identified critical amino acids that contributed to stabilization and/or proper folding of the mintbody. Taken together, these data provide important implications for future studies aimed at developing functional intracellular antibodies. Specifically, the H4K20me1-mintbody provides a powerful tool to track this particular histone modification in living cells and organisms.
		+
		+	A Genetically Encoded Probe for Live-Cell Imaging of H4K20 Monomethylation.,Sato Y, Kujirai T, Arai R, Asakawa H, Ohtsuki C, Horikoshi N, Yamagata K, Ueda J, Nagase T, Haraguchi T, Hiraoka Y, Kimura A, Kurumizaka H, Kimura H J Mol Biol. 2016 Aug 14. pii: S0022-2836(16)30305-9. doi:, 10.1016/j.jmb.2016.08.010. PMID:27534817<ref>PMID:27534817</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5b3n" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 13:45, 21 September 2016

OCA — Wed, 21 Sep 2016 13:45:30 GMT

←Older revision		Revision as of 13:45, 21 September 2016
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-	'''Unreleased structure'''

-	The ~~entry~~ 5b3n is ~~ON HOLD until Paper Publication~~	+	==The crystal structure of anti-H4K20me1_scFv, 15F11==
-		+	<StructureSection load='5b3n' size='340' side='right' caption='[[5b3n]], [[Resolution\|resolution]] 1.94Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5b3n]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B3N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B3N FirstGlance]. <br>
-	~~Description~~:	+	</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=5b3n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b3n OCA], [http://pdbe.org/5b3n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b3n RCSB], [http://www.ebi.ac.uk/pdbsum/5b3n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5b3n ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Horikoshi, N]]
		+	[[Category: Kujirai, T]]
		+	[[Category: Kurumizaka, H]]
		+	[[Category: Histone modification]]
		+	[[Category: Immune system]]
		+	[[Category: Intrabody]]
		+	[[Category: Scfv]]

OCA at 11:06, 15 May 2016

OCA — Sun, 15 May 2016 11:06:36 GMT

←Older revision		Revision as of 11:06, 15 May 2016
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	The entry 5b3n is ON HOLD until Paper Publication		The entry 5b3n is ON HOLD until Paper Publication

-	Authors: ~~Kujirai, T., Horikoshi, N., Kurumizaka, H.~~	+	Authors:

	Description:		Description:
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kujirai, T]]
-	[[Category: Kurumizaka, H]]
-	[[Category: Horikoshi, N]]

OCA: Protected "5b3n" [edit=sysop:move=sysop]

OCA — Tue, 10 May 2016 20:56:11 GMT

Protected "5b3n" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:56, 10 May 2016

OCA: New page: '''Unreleased structure''' The entry 5b3n is ON HOLD until Paper Publication Authors: Kujirai, T., Horikoshi, N., Kurumizaka, H. Description: Category: Unreleased Structures [[Cat...

OCA — Tue, 10 May 2016 20:56:10 GMT

New page: '''Unreleased structure''' The entry 5b3n is ON HOLD until Paper Publication Authors: Kujirai, T., Horikoshi, N., Kurumizaka, H. Description: Category: Unreleased Structures [[Cat...

New page

'''Unreleased structure'''

The entry 5b3n is ON HOLD until Paper Publication

Authors: Kujirai, T., Horikoshi, N., Kurumizaka, H.

Description:
[[Category: Unreleased Structures]]
[[Category: Kujirai, T]]
[[Category: Kurumizaka, H]]
[[Category: Horikoshi, N]]