5nnd - Revision history

OCA at 13:12, 15 November 2023

OCA — Wed, 15 Nov 2023 13:12:20 GMT

←Older revision		Revision as of 13:12, 15 November 2023
Line 1:		Line 1:

	==Crystal Structure of the first bromodomain of human BRD4 in complex with a diacetylated histone 4 peptide (H3K9ac/K14ac)==		==Crystal Structure of the first bromodomain of human BRD4 in complex with a diacetylated histone 4 peptide (H3K9ac/K14ac)==
-	<StructureSection load='5nnd' size='340' side='right' caption='[[5nnd]], [[Resolution\|resolution]] 1.82Å' scene=''>	+	<StructureSection load='5nnd' size='340' side='right'caption='[[5nnd]], [[Resolution\|resolution]] 1.82Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nnd]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NND OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5NND FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nnd]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NND OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NND FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=EDO:~~1~~,2-ETHANEDIOL'>EDO</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]] 1.82Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=ALY:N(6)-ACETYLLYSINE'>ALY</scene>, <scene name='pdbligand=~~SEP~~:~~PHOSPHOSERINE~~'>~~SEP~~</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ALY:N(6)-ACETYLLYSINE'>ALY</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">BRD4, HUNK1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])~~</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=5nnd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nnd OCA], [https://pdbe.org/5nnd PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5nnd RCSB], [https://www.ebi.ac.uk/pdbsum/5nnd PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5nnd ProSAT]</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=5nnd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nnd OCA], [~~http~~://pdbe.org/5nnd PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5nnd RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5nnd PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5nnd ProSAT]</span></td></tr>	+
	</table>		</table>
	== Disease ==		== Disease ==
-	[~~[http~~://www.uniprot.org/uniprot/BRD4_HUMAN BRD4_HUMAN]] Note=A chromosomal aberration involving BRD4 is found in a rare, aggressive, and lethal carcinoma arising in midline organs of young people. Translocation t(15;19)(q14;p13) with NUT which produces a BRD4-NUT fusion protein.<ref>PMID:12543779</ref> <ref>PMID:11733348</ref>	+	[https://www.uniprot.org/uniprot/BRD4_HUMAN BRD4_HUMAN] Note=A chromosomal aberration involving BRD4 is found in a rare, aggressive, and lethal carcinoma arising in midline organs of young people. Translocation t(15;19)(q14;p13) with NUT which produces a BRD4-NUT fusion protein.<ref>PMID:12543779</ref> <ref>PMID:11733348</ref>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/BRD4_HUMAN BRD4_HUMAN]] Plays a role in a process governing chromosomal dynamics during mitosis (By similarity).	+	[https://www.uniprot.org/uniprot/BRD4_HUMAN BRD4_HUMAN] Plays a role in a process governing chromosomal dynamics during mitosis (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 21:
	</div>		</div>
	<div class="pdbe-citations 5nnd" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5nnd" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Bromodomain-containing protein 3D structures\|Bromodomain-containing protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Homo sapiens]]
-	[[Category: ~~Arrowsmith, C H~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Bountra, C~~]]	+	[[Category: Arrowsmith CH]]
-	[[Category: ~~Delft, F von~~]]	+	[[Category: Bountra C]]
-	[[Category: Edwards~~, A M~~]]	+	[[Category: Edwards AM]]
-	[[Category: Filippakopoulos, P]]	+	[[Category: Filippakopoulos P]]
-	[[Category: Picaud, S]]	+	[[Category: Picaud S]]
-	[[Category: Pike~~, A C.W~~]]	+	[[Category: Pike ACW]]
-	[[Category: ~~Bromodomain]]~~	+	[[Category: Von Delft F]]
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Transcription~~]]	+

OCA at 08:29, 26 December 2018

OCA — Wed, 26 Dec 2018 08:29:03 GMT

←Older revision		Revision as of 08:29, 26 December 2018
Line 13:		Line 13:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/BRD4_HUMAN BRD4_HUMAN]] Plays a role in a process governing chromosomal dynamics during mitosis (By similarity).		[[http://www.uniprot.org/uniprot/BRD4_HUMAN BRD4_HUMAN]] Plays a role in a process governing chromosomal dynamics during mitosis (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Targeting bromodomains (BRDs) of the bromo-and-extra-terminal (BET) family offers opportunities for therapeutic intervention in cancer and other diseases. Here, we profile the interactomes of BRD2, BRD3, BRD4, and BRDT following treatment with the pan-BET BRD inhibitor JQ1, revealing broad rewiring of the interaction landscape, with three distinct classes of behavior for the 603 unique interactors identified. A group of proteins associate in a JQ1-sensitive manner with BET BRDs through canonical and new binding modes, while two classes of extra-terminal (ET)-domain binding motifs mediate acetylation-independent interactions. Last, we identify an unexpected increase in several interactions following JQ1 treatment that define negative functions for BRD3 in the regulation of rRNA synthesis and potentially RNAPII-dependent gene expression that result in decreased cell proliferation. Together, our data highlight the contributions of BET protein modules to their interactomes allowing for a better understanding of pharmacological rewiring in response to JQ1.
		+
		+	Interactome Rewiring Following Pharmacological Targeting of BET Bromodomains.,Lambert JP, Picaud S, Fujisawa T, Hou H, Savitsky P, Uuskula-Reimand L, Gupta GD, Abdouni H, Lin ZY, Tucholska M, Knight JDR, Gonzalez-Badillo B, St-Denis N, Newman JA, Stucki M, Pelletier L, Bandeira N, Wilson MD, Filippakopoulos P, Gingras AC Mol Cell. 2018 Dec 13. pii: S1097-2765(18)30948-1. doi:, 10.1016/j.molcel.2018.11.006. PMID:30554943<ref>PMID:30554943</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5nnd" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 20:43, 2 December 2018

OCA — Sun, 02 Dec 2018 20:43:45 GMT

←Older revision		Revision as of 20:43, 2 December 2018
Line 3:		Line 3:
	<StructureSection load='5nnd' size='340' side='right' caption='[[5nnd]], [[Resolution\|resolution]] 1.82Å' scene=''>		<StructureSection load='5nnd' size='340' side='right' caption='[[5nnd]], [[Resolution\|resolution]] 1.82Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5nnd]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NND OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NND FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5nnd]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NND OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NND FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ALY:N(6)-ACETYLLYSINE'>ALY</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ALY:N(6)-ACETYLLYSINE'>ALY</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">BRD4, HUNK1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 HUMAN])</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=5nnd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nnd OCA], [http://pdbe.org/5nnd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nnd RCSB], [http://www.ebi.ac.uk/pdbsum/5nnd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nnd ProSAT]</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=5nnd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nnd OCA], [http://pdbe.org/5nnd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nnd RCSB], [http://www.ebi.ac.uk/pdbsum/5nnd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nnd ProSAT]</span></td></tr>
	</table>		</table>
Line 16:		Line 17:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Arrowsmith, C H]]		[[Category: Arrowsmith, C H]]
	[[Category: Bountra, C]]		[[Category: Bountra, C]]

OCA at 05:21, 16 May 2018

OCA — Wed, 16 May 2018 05:21:13 GMT

←Older revision		Revision as of 05:21, 16 May 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5nnd ~~is ON HOLD until Paper Publication~~	+	==Crystal Structure of the first bromodomain of human BRD4 in complex with a diacetylated histone 4 peptide (H3K9ac/K14ac)==
-		+	<StructureSection load='5nnd' size='340' side='right' caption='[[5nnd]], [[Resolution\|resolution]] 1.82Å' scene=''>
-	~~Authors~~: ~~Filippakopoulos, P~~., ~~Picaud~~, S., ~~Pike, A~~.C.W., ~~von Delft, F~~., ~~Arrowsmith, C~~.H., ~~Edwards, A~~.M., ~~Bountra, C~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5nnd]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NND OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NND FirstGlance]. <br>
-	~~Description~~: ~~Crystal Structure of the first bromodomain of human~~ BRD4 in ~~complex with~~ a ~~diacetylated histone 4 peptide~~ (~~H3K9ac/K14ac~~)	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=ALY:N(6)-ACETYLLYSINE'>ALY</scene>, <scene name='pdbligand=SEP:PHOSPHOSERINE'>SEP</scene></td></tr>
-	[[Category: ~~Pike~~, A.C.W]]	+	<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=5nnd FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5nnd OCA], [http://pdbe.org/5nnd PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5nnd RCSB], [http://www.ebi.ac.uk/pdbsum/5nnd PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5nnd ProSAT]</span></td></tr>
-	[[Category: ~~Arrowsmith~~, C.H]]	+	</table>
-	[[Category: ~~Von~~ Delft, F]]	+	== Disease ==
		+	[[http://www.uniprot.org/uniprot/BRD4_HUMAN BRD4_HUMAN]] Note=A chromosomal aberration involving BRD4 is found in a rare, aggressive, and lethal carcinoma arising in midline organs of young people. Translocation t(15;19)(q14;p13) with NUT which produces a BRD4-NUT fusion protein.<ref>PMID:12543779</ref> <ref>PMID:11733348</ref>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/BRD4_HUMAN BRD4_HUMAN]] Plays a role in a process governing chromosomal dynamics during mitosis (By similarity).
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Arrowsmith, C H]]
		+	[[Category: Bountra, C]]
		+	[[Category: Delft, F von]]
		+	[[Category: Edwards, A M]]
		+	[[Category: Filippakopoulos, P]]
	[[Category: Picaud, S]]		[[Category: Picaud, S]]
-	[[Category: ~~Filippakopoulos~~, P]]	+	[[Category: Pike, A C.W]]
-	[[Category: ~~Edwards, A.M~~]]	+	[[Category: Bromodomain]]
-	[[Category: ~~Bountra, C~~]]	+	[[Category: Complex]]
		+	[[Category: Transcription]]

OCA at 09:29, 4 May 2017

OCA — Thu, 04 May 2017 09:29:43 GMT

←Older revision		Revision as of 09:29, 4 May 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Filippakopoulos, P., Picaud, S., Pike, A.C.W., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C.		Authors: Filippakopoulos, P., Picaud, S., Pike, A.C.W., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C.

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

OCA — Wed, 19 Apr 2017 09:41:22 GMT

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

←Older revision

Revision as of 09:41, 19 April 2017

OCA: New page: '''Unreleased structure''' The entry 5nnd is ON HOLD Authors: Filippakopoulos, P., Picaud, S., Pike, A.C.W., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C. Description: Cr...

OCA — Wed, 19 Apr 2017 09:41:21 GMT

New page: '''Unreleased structure''' The entry 5nnd is ON HOLD Authors: Filippakopoulos, P., Picaud, S., Pike, A.C.W., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C. Description: Cr...

New page

'''Unreleased structure'''

The entry 5nnd is ON HOLD

Authors: Filippakopoulos, P., Picaud, S., Pike, A.C.W., von Delft, F., Arrowsmith, C.H., Edwards, A.M., Bountra, C.

Description: Crystal Structure of the first bromodomain of human BRD4 in complex with a diacetylated histone 4 peptide (H3K9ac/K14ac)
[[Category: Unreleased Structures]]
[[Category: Pike, A.C.W]]
[[Category: Arrowsmith, C.H]]
[[Category: Von Delft, F]]
[[Category: Picaud, S]]
[[Category: Filippakopoulos, P]]
[[Category: Edwards, A.M]]
[[Category: Bountra, C]]