OCA at 05:43, 5 July 2023

OCA — Wed, 05 Jul 2023 05:43:23 GMT

←Older revision		Revision as of 05:43, 5 July 2023
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-	'''Unreleased structure'''

-	The entry ~~8eng~~ is ~~ON HOLD~~	+	==Human PU.1 ETS-Domain (165-270) Bound to d(AATAAGCGGAAGTGGG) with Hemi-methylated CpG (forward strand)==
		+	<StructureSection load='8eng' size='340' side='right'caption='[[8eng]], [[Resolution\|resolution]] 1.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8eng]] is a 3 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=8ENG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8ENG FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.25Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=5CM:5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>5CM</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</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=8eng FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8eng OCA], [https://pdbe.org/8eng PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8eng RCSB], [https://www.ebi.ac.uk/pdbsum/8eng PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8eng ProSAT]</span></td></tr>
		+	</table>
		+	== Disease ==
		+	[https://www.uniprot.org/uniprot/SPI1_HUMAN SPI1_HUMAN] The disease is caused by variants affecting the gene represented in this entry.
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/SPI1_HUMAN SPI1_HUMAN] Pioneer transcription factor, which controls hematopoietic cell fate by decompacting stem cell heterochromatin and allowing other transcription factors to enter otherwise inaccessible genomic sites. Once in open chromatin, can directly control gene expression by binding genetic regulatory elements and can also more broadly influence transcription by recruiting transcription factors, such as interferon regulatory factors (IRFs), to otherwise inaccessible genomic regions (PubMed:23658224, PubMed:33951726). Transcriptionally activates genes important for myeloid and lymphoid lineages, such as CSF1R (By similarity). Transcriptional activation from certain promoters, possibly containing low affinity binding sites, is achieved cooperatively with other transcription factors. FCER1A transactivation is achieved in cooperation with GATA1 (By similarity). May be particularly important for the pro- to pre-B cell transition (PubMed:33951726). Binds (via the ETS domain) onto the purine-rich DNA core sequence 5'-GAGGAA-3', also known as the PU-box (PubMed:33951726). In vitro can bind RNA and interfere with pre-mRNA splicing (By similarity).[UniProtKB:P17433][UniProtKB:Q6BDS1]<ref>PMID:23658224</ref> <ref>PMID:33951726</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The master transcriptional regulator PU.1/Spi-1 engages DNA sites with affinities spanning multiple orders of magnitude. To elucidate this remarkable plasticity, we have characterized 22 high-resolution co-crystallographic PU.1/DNA complexes across the addressable affinity range in myeloid gene transactivation. Over a purine-rich core (such as 5'-GGAA-3') flanked by variable sequences, affinity is negotiated by direct readout on the 5' flank via a critical glutamine (Q226) sidechain and by indirect readout on the 3' flank by sequence-dependent helical flexibility. Direct readout by Q226 dynamically specifies PU.1's characteristic preference for purines and explains the pathogenic mutation Q226E in Waldenstrom macroglobulinemia. The structures also reveal how disruption of Q226 mediates strand-specific inhibition by DNA methylation and the recognition of non-canonical sites, including the authentic binding sequence at the CD11b promoter. A re-synthesis of phylogenetic and structural data on the ETS family, considering the centrality of Q226 in PU.1, unifies the model of DNA selection by ETS proteins.

-	~~Authors~~:	+	DNA selection by the master transcription factor PU.1.,Terrell JR, Taylor SJ, Schneider AL, Lu Y, Vernon TN, Xhani S, Gumpper RH, Luo M, Wilson WD, Steidl U, Poon GMK Cell Rep. 2023 Jun 22;42(7):112671. doi: 10.1016/j.celrep.2023.112671. PMID:37352101<ref>PMID:37352101</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 8eng" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
		+	[[Category: Synthetic construct]]
		+	[[Category: Poon GMK]]
		+	[[Category: Terrell JR]]

OCA at 04:10, 7 June 2023

OCA — Wed, 07 Jun 2023 04:10:53 GMT

←Older revision		Revision as of 04:10, 7 June 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8eng is ON HOLD ~~until Paper Publication~~	+	The entry 8eng is ON HOLD

	Authors:		Authors:

OCA: Protected "8eng" [edit=sysop:move=sysop]

OCA — Thu, 03 Nov 2022 05:20:45 GMT

Protected "8eng" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:20, 3 November 2022

OCA: New page: '''Unreleased structure''' The entry 8eng is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

OCA — Thu, 03 Nov 2022 05:20:41 GMT

New page: '''Unreleased structure''' The entry 8eng is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 8eng is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]

8eng - Revision history

OCA at 05:43, 5 July 2023

OCA at 04:10, 7 June 2023

OCA: Protected "8eng" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8eng is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures