6u6k - Revision history

OCA at 07:44, 11 October 2023

OCA — Wed, 11 Oct 2023 07:44:54 GMT

←Older revision		Revision as of 07:44, 11 October 2023
Line 1:		Line 1:

-	====	+	==BRD4-BD1 in complex with the cyclic peptide 3.1_3==
-	<StructureSection load='6u6k' size='340' side='right'caption='[[6u6k]]' scene=''>	+	<StructureSection load='6u6k' size='340' side='right'caption='[[6u6k]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6u6k]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6U6K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6U6K 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=6u6k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u6k OCA], [https://pdbe.org/6u6k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6u6k RCSB], [https://www.ebi.ac.uk/pdbsum/6u6k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6u6k 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]] 1.7Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACE:ACETYL+GROUP'>ACE</scene>, <scene name='pdbligand=ALY:N(6)-ACETYLLYSINE'>ALY</scene>, <scene name='pdbligand=NH2:AMINO+GROUP'>NH2</scene></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=6u6k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u6k OCA], [https://pdbe.org/6u6k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6u6k RCSB], [https://www.ebi.ac.uk/pdbsum/6u6k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6u6k ProSAT]</span></td></tr>
	</table>		</table>
		+	== Disease ==
		+	[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 ==
		+	[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;">
		+	== Publication Abstract from PubMed ==
		+	Cyclic peptide library screening technologies show immense promise for identifying drug leads and chemical probes for challenging targets. However, the structural and functional diversity encoded within such libraries is largely undefined. We have systematically profiled the affinity, selectivity, and structural features of library-derived cyclic peptides selected to recognize three closely related targets: the acetyllysine-binding bromodomain proteins BRD2, -3, and -4. We report affinities as low as 100 pM and specificities of up to 10(6)-fold. Crystal structures of 13 peptide-bromodomain complexes reveal remarkable diversity in both structure and binding mode, including both alpha-helical and beta-sheet structures as well as bivalent binding modes. The peptides can also exhibit a high degree of structural preorganization. Our data demonstrate the enormous potential within these libraries to provide diverse binding modes against a single target, which underpins their capacity to yield highly potent and selective ligands.
		+
		+	Cyclic peptides can engage a single binding pocket through highly divergent modes.,Patel K, Walport LJ, Walshe JL, Solomon PD, Low JKK, Tran DH, Mouradian KS, Silva APG, Wilkinson-White L, Norman A, Franck C, Matthews JM, Guss JM, Payne RJ, Passioura T, Suga H, Mackay JP Proc Natl Acad Sci U S A. 2020 Oct 27;117(43):26728-26738. doi: , 10.1073/pnas.2003086117. Epub 2020 Oct 12. PMID:33046654<ref>PMID:33046654</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6u6k" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Bromodomain-containing protein 3D structures\|Bromodomain-containing protein 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Synthetic construct]]
		+	[[Category: Mackay JP]]
		+	[[Category: Patel K]]
		+	[[Category: Walport LJ]]
		+	[[Category: Walshe JL]]

OCA at 14:56, 3 March 2021

OCA — Wed, 03 Mar 2021 14:56:06 GMT

←Older revision		Revision as of 14:56, 3 March 2021
Line 3:		Line 3:
	<StructureSection load='6u6k' size='340' side='right'caption='[[6u6k]]' scene=''>		<StructureSection load='6u6k' size='340' side='right'caption='[[6u6k]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	</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=6u6k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u6k OCA], [~~http~~://pdbe.org/6u6k PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6u6k RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6u6k PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6u6k 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=6u6k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u6k OCA], [https://pdbe.org/6u6k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6u6k RCSB], [https://www.ebi.ac.uk/pdbsum/6u6k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6u6k ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 06:20, 19 August 2020

OCA — Wed, 19 Aug 2020 06:20:36 GMT

←Older revision		Revision as of 06:20, 19 August 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6u6k ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6u6k' size='340' side='right'caption='[[6u6k]]' scene=''>
-	~~Authors~~: ~~Patel, K~~.~~, Walshe, J~~.L.~~, Walport, L~~.J.~~, Mackay, J~~.P.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~BRD4-BD1 in complex with the cyclic peptide 3~~.~~1_3~~	+	</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=6u6k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6u6k OCA], [http://pdbe.org/6u6k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6u6k RCSB], [http://www.ebi.ac.uk/pdbsum/6u6k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6u6k ProSAT]</span></td></tr>
-	[~~[Category~~: ~~Unreleased Structures]~~]	+	</table>
-	[~~[Category~~: ~~Mackay, J~~.P]]	+	__TOC__
-	[~~[Category~~: ~~Walport~~, L.J]]	+	</StructureSection>
-	[[Category: ~~Patel, K~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Walshe, J.L~~]]	+	[[Category: Z-disk]]

OCA at 13:41, 11 December 2019

OCA — Wed, 11 Dec 2019 13:41:14 GMT

←Older revision		Revision as of 13:41, 11 December 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6u6k is ON HOLD	+	The entry 6u6k is ON HOLD until Paper Publication

	Authors: Patel, K., Walshe, J.L., Walport, L.J., Mackay, J.P.		Authors: Patel, K., Walshe, J.L., Walport, L.J., Mackay, J.P.
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	Description: BRD4-BD1 in complex with the cyclic peptide 3.1_3		Description: BRD4-BD1 in complex with the cyclic peptide 3.1_3
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Walport, L.J]]
-	[[Category: Walshe, J.L]]
	[[Category: Mackay, J.P]]		[[Category: Mackay, J.P]]
		+	[[Category: Walport, L.J]]
	[[Category: Patel, K]]		[[Category: Patel, K]]
		+	[[Category: Walshe, J.L]]

OCA: Protected "6u6k" [edit=sysop:move=sysop]

OCA — Wed, 02 Oct 2019 08:18:01 GMT

Protected "6u6k" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:18, 2 October 2019

OCA: New page: '''Unreleased structure''' The entry 6u6k is ON HOLD Authors: Patel, K., Walshe, J.L., Walport, L.J., Mackay, J.P. Description: BRD4-BD1 in complex with the cyclic peptide 3.1_3 [[Cate...

OCA — Wed, 02 Oct 2019 08:18:00 GMT

New page: '''Unreleased structure''' The entry 6u6k is ON HOLD Authors: Patel, K., Walshe, J.L., Walport, L.J., Mackay, J.P. Description: BRD4-BD1 in complex with the cyclic peptide 3.1_3 [[Cate...

New page

'''Unreleased structure'''

The entry 6u6k is ON HOLD

Authors: Patel, K., Walshe, J.L., Walport, L.J., Mackay, J.P.

Description: BRD4-BD1 in complex with the cyclic peptide 3.1_3
[[Category: Unreleased Structures]]
[[Category: Walport, L.J]]
[[Category: Walshe, J.L]]
[[Category: Mackay, J.P]]
[[Category: Patel, K]]