7ezj - Revision history

OCA at 17:06, 29 November 2023

2023-11-29T17:06:48Z

←Older revision		Revision as of 17:06, 29 November 2023
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-	====	+	==Crystal structure of p73 DNA binding domain complex bound with 1 bp and 2 bp spacer DNA response elements.==
-	<StructureSection load='7ezj' size='340' side='right'caption='[[7ezj]]' scene=''>	+	<StructureSection load='7ezj' size='340' side='right'caption='[[7ezj]], [[Resolution\|resolution]] 2.90Å' 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'>[[7ezj]] is a 32 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=7EZJ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7EZJ 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=7ezj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ezj OCA], [https://pdbe.org/7ezj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ezj RCSB], [https://www.ebi.ac.uk/pdbsum/7ezj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ezj 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]] 2.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7ezj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ezj OCA], [https://pdbe.org/7ezj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ezj RCSB], [https://www.ebi.ac.uk/pdbsum/7ezj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ezj ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/P73_HUMAN P73_HUMAN] Participates in the apoptotic response to DNA damage. Isoforms containing the transactivation domain are pro-apoptotic, isoforms lacking the domain are anti-apoptotic and block the function of p53 and transactivating p73 isoforms. May be a tumor suppressor protein.<ref>PMID:11753569</ref> <ref>PMID:10203277</ref> <ref>PMID:18174154</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	p73 belongs to p53 family transcription factor activating more than 50% of cell fate p53 target genes involved in cell cycle, apoptosis, DNA damage response alongside neuronal system development and differentiation by binding to 20-bp response elements (REs) having sequence motif (PPPC-A/T-T/A-GYYY) where P-purines and Y-pyrimidines with each 10-bp separated by minimum 0 to 13-bp spacer. The promiscuous nature of recognizing both cell fate and development genes and the underlying RE selectivity mechanism by p73 is not well understood. Here, we report the molecular details of p73 recognizing the REs using the crystal structure of p73 DNA binding domain (DBD) in complex with 12 base pair DNA sequence 5'-cAGGCATGCCTg-3' and molecular dynamics simulations with six different p53 natural promoter sequences. Each 20-base pair natural promoter forms a different major/minor groove due to the presence of nucleotides A/T, A/C, G/G, T/T and G/T at positions 3, 8, 13, 18 uniquely recognized by p73 key residues Lys138 and Arg268. The loops L1 and L3 bearing these residues influence inter-and intra-dimer interfaces interactions and hence p73 forms a unique tetramer with each natural promoter sequence. Structural features of the DNA and the spacing between half-sites influence p73 tetramerization and its transactivation function.
		+
		+	Deciphering the mechanism of p73 recognition of p53 response elements using the crystal structure of p73-DNA complexes and computational studies.,Koley T, Chowdhury SR, Kushwaha T, Kumar M, Inampudi KK, Kaur P, Singh TP, Viadiu H, Ethayathulla AS Int J Biol Macromol. 2022 May 1;206:40-50. doi: 10.1016/j.ijbiomac.2022.02.108. , Epub 2022 Feb 23. PMID:35217090<ref>PMID:35217090</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7ezj" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[P73\|P73]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Ethayathulla AS]]
		+	[[Category: Kaur P]]
		+	[[Category: Koley T]]
		+	[[Category: Kumar M]]
		+	[[Category: Roy Chowdhury S]]
		+	[[Category: Singh TP]]
		+	[[Category: Viadiu H]]

OCA at 09:44, 13 April 2022

2022-04-13T09:44:55Z

←Older revision		Revision as of 09:44, 13 April 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7ezj ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7ezj' size='340' side='right'caption='[[7ezj]]' scene=''>
-	~~Authors~~: ~~Koley, T~~.~~, Roy Chowdhury, S~~.~~, Kumar, M~~.~~, Kaur, P~~.~~, Singh, T~~.P.~~, Viadiu, H., Ethayathulla, A.S~~.	+	== 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>
-	~~Description~~: ~~Crystal structure of p73 DNA binding domain complex bound with 1 bp and 2 bp spacer DNA response elements.~~	+	</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=7ezj FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7ezj OCA], [https://pdbe.org/7ezj PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7ezj RCSB], [https://www.ebi.ac.uk/pdbsum/7ezj PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7ezj ProSAT]</span></td></tr>
-	[~~[Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[~~[Category~~: ~~Roy Chowdhury~~, ~~S]]~~	+	__TOC__
-	[~~[Category~~: ~~Koley~~, ~~T]]~~	+	</StructureSection>
-	[~~[Category~~: ~~Singh, T~~.P]]	+	[[Category: Large Structures]]
-	[~~[Category~~: ~~Ethayathulla, A~~.S]]	+	[[Category: Z-disk]]
-	[~~[Category~~: ~~Viadiu, H]~~]	+
-	[[Category: ~~Kaur, P~~]]	+
-	[[Category: ~~Kumar, M~~]]	+

OCA at 02:22, 2 July 2021

2021-07-02T02:22:35Z

←Older revision		Revision as of 02:22, 2 July 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7ezj is ON HOLD	+	The entry 7ezj is ON HOLD until Paper Publication

	Authors: Koley, T., Roy Chowdhury, S., Kumar, M., Kaur, P., Singh, T.P., Viadiu, H., Ethayathulla, A.S.		Authors: Koley, T., Roy Chowdhury, S., Kumar, M., Kaur, P., Singh, T.P., Viadiu, H., Ethayathulla, A.S.

OCA: Protected "7ezj" [edit=sysop:move=sysop]

2021-06-09T11:01:05Z

Protected "7ezj" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:01, 9 June 2021

OCA: New page: '''Unreleased structure''' The entry 7ezj is ON HOLD Authors: Koley, T., Roy Chowdhury, S., Kumar, M., Kaur, P., Singh, T.P., Viadiu, H., Ethayathulla, A.S. Description: Crystal struct...

2021-06-09T11:01:04Z

New page: '''Unreleased structure''' The entry 7ezj is ON HOLD Authors: Koley, T., Roy Chowdhury, S., Kumar, M., Kaur, P., Singh, T.P., Viadiu, H., Ethayathulla, A.S. Description: Crystal struct...

New page

'''Unreleased structure'''

The entry 7ezj is ON HOLD

Authors: Koley, T., Roy Chowdhury, S., Kumar, M., Kaur, P., Singh, T.P., Viadiu, H., Ethayathulla, A.S.

Description: Crystal structure of p73 DNA binding domain complex bound with 1 bp and 2 bp spacer DNA response elements.
[[Category: Unreleased Structures]]
[[Category: Roy Chowdhury, S]]
[[Category: Koley, T]]
[[Category: Singh, T.P]]
[[Category: Ethayathulla, A.S]]
[[Category: Viadiu, H]]
[[Category: Kaur, P]]
[[Category: Kumar, M]]