5cqq - Revision history

OCA at 09:09, 20 March 2024

OCA — Wed, 20 Mar 2024 09:09:10 GMT

←Older revision		Revision as of 09:09, 20 March 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CQQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CQQ 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=5cqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cqq OCA], [https://pdbe.org/5cqq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cqq RCSB], [https://www.ebi.ac.uk/pdbsum/5cqq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cqq 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]] 3.1Å</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=5cqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cqq OCA], [https://pdbe.org/5cqq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cqq RCSB], [https://www.ebi.ac.uk/pdbsum/5cqq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cqq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/ZEST_DROME ZEST_DROME] Involved in transvection phenomena (= synapsis-dependent gene expression), where the synaptic pairing of chromosomes carrying genes with which zeste interacts influences the expression of these genes. Zeste binds to DNA and stimulates transcription from a nearby promoter.		[https://www.uniprot.org/uniprot/ZEST_DROME ZEST_DROME] Involved in transvection phenomena (= synapsis-dependent gene expression), where the synaptic pairing of chromosomes carrying genes with which zeste interacts influences the expression of these genes. Zeste binds to DNA and stimulates transcription from a nearby promoter.
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Drosophila Zeste is a DNA binding protein important for chromatin-targeted regulation of gene expression. It is best studied in the context of transvection-a mechanism of interallelic gene regulation involving paired chromosomes-and repression of the expression of white by Zeste mutants. Both of these functions depend on the DNA binding and self-association properties of Zeste, but the underlying structural basis remains unknown. Here we report the crystal structure of the DNA binding domain of Zeste in complex with a 19-bp DNA duplex containing the consensus recognition sequence motif. The structure reveals a helix-turn-helix Myb/homeodomain-like fold with the Zeste-specific insertion sequence forming a short helix and a long loop. Direct base contacts by the major groove binding helix principally account for the sequence-specific recognition, and backbone contacts via the Zeste-specific insertion are mainly responsible for the length requirement and the orientation of DNA. Our structural and biochemical characterizations of the DNA binding property of Zeste uncover an altered DNA binding modality of homeodomain-like proteins, and the structural information should facilitate the unraveling of the intricate mechanism of Zeste in regulation of gene expression.
-
-	Structure of Zeste-DNA Complex Reveals a New Modality of DNA Recognition by Homeodomain-Like Proteins.,Gao GN, Wang M, Yang N, Huang Y, Xu RM J Mol Biol. 2015 Dec 4;427(24):3824-33. doi: 10.1016/j.jmb.2015.10.008. Epub 2015, Oct 21. PMID:26478222<ref>PMID:26478222</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 5cqq" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 12:24, 14 June 2023

OCA — Wed, 14 Jun 2023 12:24:21 GMT

←Older revision		Revision as of 12:24, 14 June 2023
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	<StructureSection load='5cqq' size='340' side='right'caption='[[5cqq]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='5cqq' size='340' side='right'caption='[[5cqq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5CQQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5CQQ 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=5cqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cqq OCA], [~~http~~://pdbe.org/5cqq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5cqq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5cqq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5cqq 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=5cqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cqq OCA], [https://pdbe.org/5cqq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5cqq RCSB], [https://www.ebi.ac.uk/pdbsum/5cqq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5cqq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/ZEST_DROME ZEST_DROME]] Involved in transvection phenomena (= synapsis-dependent gene expression), where the synaptic pairing of chromosomes carrying genes with which zeste interacts influences the expression of these genes. Zeste binds to DNA and stimulates transcription from a nearby promoter.	+	[https://www.uniprot.org/uniprot/ZEST_DROME ZEST_DROME] Involved in transvection phenomena (= synapsis-dependent gene expression), where the synaptic pairing of chromosomes carrying genes with which zeste interacts influences the expression of these genes. Zeste binds to DNA and stimulates transcription from a nearby promoter.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Drosophila melanogaster]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Gao~~, G N~~]]	+	[[Category: Gao GN]]
-	[[Category: Huang, Y]]	+	[[Category: Huang Y]]
-	[[Category: Wang, M]]	+	[[Category: Wang M]]
-	[[Category: Xu~~, R M~~]]	+	[[Category: Xu RM]]
-	[[Category: Yang, N]]	+	[[Category: Yang N]]
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Gene regulation]]~~	+
-	~~[[Category: Protein-dna interaction]]~~	+
-	~~[[Category: Tanscription factor]]~~	+
-	~~[[Category: Transcription-dna complex~~]]	+

OCA at 11:50, 27 March 2020

OCA — Fri, 27 Mar 2020 11:50:28 GMT

←Older revision		Revision as of 11:50, 27 March 2020
Line 1:		Line 1:

	==Crystal structure of the Drosophila Zeste DNA binding domain in complex with DNA==		==Crystal structure of the Drosophila Zeste DNA binding domain in complex with DNA==
-	<StructureSection load='5cqq' size='340' side='right' caption='[[5cqq]], [[Resolution\|resolution]] 3.10Å' scene=''>	+	<StructureSection load='5cqq' size='340' side='right'caption='[[5cqq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CQQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CQQ FirstGlance]. <br>
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Gao, G N]]		[[Category: Gao, G N]]
	[[Category: Huang, Y]]		[[Category: Huang, Y]]

OCA at 09:58, 18 October 2017

OCA — Wed, 18 Oct 2017 09:58:40 GMT

←Older revision		Revision as of 09:58, 18 October 2017
Line 1:		Line 1:
		+
	==Crystal structure of the Drosophila Zeste DNA binding domain in complex with DNA==		==Crystal structure of the Drosophila Zeste DNA binding domain in complex with DNA==
	<StructureSection load='5cqq' size='340' side='right' caption='[[5cqq]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='5cqq' size='340' side='right' caption='[[5cqq]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CQQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CQQ 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=5cqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cqq OCA], [http://pdbe.org/5cqq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cqq RCSB], [http://www.ebi.ac.uk/pdbsum/5cqq 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=5cqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cqq OCA], [http://pdbe.org/5cqq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cqq RCSB], [http://www.ebi.ac.uk/pdbsum/5cqq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5cqq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 07:27, 9 December 2015

OCA — Wed, 09 Dec 2015 07:27:08 GMT

←Older revision		Revision as of 07:27, 9 December 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of the Drosophila Zeste DNA binding domain in complex with DNA==
		+	<StructureSection load='5cqq' size='340' side='right' caption='[[5cqq]], [[Resolution\|resolution]] 3.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5cqq]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5CQQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5CQQ 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=5cqq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5cqq OCA], [http://pdbe.org/5cqq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5cqq RCSB], [http://www.ebi.ac.uk/pdbsum/5cqq PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ZEST_DROME ZEST_DROME]] Involved in transvection phenomena (= synapsis-dependent gene expression), where the synaptic pairing of chromosomes carrying genes with which zeste interacts influences the expression of these genes. Zeste binds to DNA and stimulates transcription from a nearby promoter.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Drosophila Zeste is a DNA binding protein important for chromatin-targeted regulation of gene expression. It is best studied in the context of transvection-a mechanism of interallelic gene regulation involving paired chromosomes-and repression of the expression of white by Zeste mutants. Both of these functions depend on the DNA binding and self-association properties of Zeste, but the underlying structural basis remains unknown. Here we report the crystal structure of the DNA binding domain of Zeste in complex with a 19-bp DNA duplex containing the consensus recognition sequence motif. The structure reveals a helix-turn-helix Myb/homeodomain-like fold with the Zeste-specific insertion sequence forming a short helix and a long loop. Direct base contacts by the major groove binding helix principally account for the sequence-specific recognition, and backbone contacts via the Zeste-specific insertion are mainly responsible for the length requirement and the orientation of DNA. Our structural and biochemical characterizations of the DNA binding property of Zeste uncover an altered DNA binding modality of homeodomain-like proteins, and the structural information should facilitate the unraveling of the intricate mechanism of Zeste in regulation of gene expression.

-	~~The entry 5cqq is ON HOLD until Paper Publication~~	+	Structure of Zeste-DNA Complex Reveals a New Modality of DNA Recognition by Homeodomain-Like Proteins.,Gao GN, Wang M, Yang N, Huang Y, Xu RM J Mol Biol. 2015 Dec 4;427(24):3824-33. doi: 10.1016/j.jmb.2015.10.008. Epub 2015, Oct 21. PMID:26478222<ref>PMID:26478222</ref>

-	~~Authors: Gao~~, G.N.~~, Wang, M., Yang, N., Huang, Y., Xu, R.M~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~: ~~Crystal structure of a protein-DNA complex~~	+	<div class="pdbe-citations 5cqq" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Unreleased Structures~~]]	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Gao, G N]]
		+	[[Category: Huang, Y]]
	[[Category: Wang, M]]		[[Category: Wang, M]]
-	[[Category: Xu, R.M]]	+	[[Category: Xu, R M]]
	[[Category: Yang, N]]		[[Category: Yang, N]]
-	[[Category: ~~Gao, G.N~~]]	+	[[Category: Complex]]
-	[[Category: ~~Huang, Y~~]]	+	[[Category: Gene regulation]]
		+	[[Category: Protein-dna interaction]]
		+	[[Category: Tanscription factor]]
		+	[[Category: Transcription-dna complex]]

OCA at 18:50, 5 August 2015

OCA — Wed, 05 Aug 2015 18:50:29 GMT

←Older revision		Revision as of 18:50, 5 August 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Gao, G.N., Wang, M., Yang, N., Huang, Y., Xu, R.M.		Authors: Gao, G.N., Wang, M., Yang, N., Huang, Y., Xu, R.M.

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

OCA — Wed, 29 Jul 2015 13:45:21 GMT

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

←Older revision

Revision as of 13:45, 29 July 2015

OCA: New page: '''Unreleased structure''' The entry 5cqq is ON HOLD Authors: Gao, G.N., Wang, M., Yang, N., Huang, Y., Xu, R.M. Description: Crystal structure of a protein-DNA complex [[Category: Unr...

OCA — Wed, 29 Jul 2015 13:45:20 GMT

New page: '''Unreleased structure''' The entry 5cqq is ON HOLD Authors: Gao, G.N., Wang, M., Yang, N., Huang, Y., Xu, R.M. Description: Crystal structure of a protein-DNA complex [[Category: Unr...

New page

'''Unreleased structure'''

The entry 5cqq is ON HOLD

Authors: Gao, G.N., Wang, M., Yang, N., Huang, Y., Xu, R.M.

Description: Crystal structure of a protein-DNA complex
[[Category: Unreleased Structures]]
[[Category: Wang, M]]
[[Category: Xu, R.M]]
[[Category: Yang, N]]
[[Category: Gao, G.N]]
[[Category: Huang, Y]]