OCA at 15:43, 18 October 2023

OCA — Wed, 18 Oct 2023 15:43:16 GMT

←Older revision		Revision as of 15:43, 18 October 2023
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-	====	+	==Crystal structure of TFAM (mitochondrial transcription factor A) bridging two non-sequence specific DNA substrates==
-	<StructureSection load='7lbw' size='340' side='right'caption='[[7lbw]]' scene=''>	+	<StructureSection load='7lbw' size='340' side='right'caption='[[7lbw]], [[Resolution\|resolution]] 2.84Å' 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'>[[7lbw]] is a 6 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=7LBW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7LBW 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=7lbw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lbw OCA], [https://pdbe.org/7lbw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lbw RCSB], [https://www.ebi.ac.uk/pdbsum/7lbw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lbw 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]] 2.84Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=PEG:DI(HYDROXYETHYL)ETHER'>PEG</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=7lbw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lbw OCA], [https://pdbe.org/7lbw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lbw RCSB], [https://www.ebi.ac.uk/pdbsum/7lbw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lbw ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/TFAM_HUMAN TFAM_HUMAN] Binds to the mitochondrial light strand promoter and functions in mitochondrial transcription regulation. Required for accurate and efficient promoter recognition by the mitochondrial RNA polymerase. Promotes transcription initiation from the HSP1 and the light strand promoter by binding immediately upstream of transcriptional start sites. Is able to unwind DNA. Bends the mitochondrial light strand promoter DNA into a U-turn shape via its HMG boxes. Required for maintenance of normal levels of mitochondrial DNA. May play a role in organizing and compacting mitochondrial DNA.<ref>PMID:1737790</ref> <ref>PMID:20410300</ref> <ref>PMID:19304746</ref> <ref>PMID:22037172</ref> <ref>PMID:22037171</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Mitochondrial transcription factor A (TFAM) plays a critical role in mitochondrial transcription initiation and mitochondrial DNA (mtDNA) packaging. Both functions require DNA binding, but in one case TFAM must recognize a specific promoter sequence, while packaging requires coating of mtDNA by association with non sequence-specific regions. The mechanisms by which TFAM achieves both sequence-specific and non sequence-specific recognition have not yet been determined. Existing crystal structures of TFAM bound to DNA allowed us to identify two guanine-specific interactions that are established between TFAM and the bound DNA. These interactions are observed when TFAM is bound to both specific promoter sequences and non-sequence specific DNA. These interactions are established with two guanine bases separated by 10 random nucleotides (GN10G). Our biochemical results demonstrate that the GN10G consensus is essential for transcriptional initiation and contributes to facilitating TFAM binding to DNA substrates. Furthermore, we report a crystal structure of TFAM in complex with a non sequence-specific sequence containing a GN10G consensus. The structure reveals a unique arrangement in which TFAM bridges two DNA substrates while maintaining the GN10G interactions. We propose that the GN10G consensus is key to facilitate the interaction of TFAM with DNA.
		+
		+	A minimal motif for sequence recognition by mitochondrial transcription factor A (TFAM).,Choi WS, Garcia-Diaz M Nucleic Acids Res. 2022 Jan 11;50(1):322-332. doi: 10.1093/nar/gkab1230. PMID:34928349<ref>PMID:34928349</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7lbw" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Z-~~disk~~]]	+	[[Category: Synthetic construct]]
		+	[[Category: Choi WS]]
		+	[[Category: Garcia-Diaz M]]

OCA at 07:28, 19 January 2022

OCA — Wed, 19 Jan 2022 07:28:44 GMT

←Older revision		Revision as of 07:28, 19 January 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7lbw ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='7lbw' size='340' side='right'caption='[[7lbw]]' scene=''>
-	~~Authors~~:	+	== 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~~:	+	</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=7lbw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7lbw OCA], [https://pdbe.org/7lbw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7lbw RCSB], [https://www.ebi.ac.uk/pdbsum/7lbw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7lbw ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 12:37, 3 November 2021

OCA — Wed, 03 Nov 2021 12:37:21 GMT

←Older revision		Revision as of 12:37, 3 November 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

OCA at 04:02, 6 October 2021

OCA — Wed, 06 Oct 2021 04:02:32 GMT

←Older revision		Revision as of 04:02, 6 October 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7lbw is ON HOLD ~~until Paper Publication~~	+	The entry 7lbw is ON HOLD

	Authors:		Authors:

OCA at 08:41, 17 February 2021

OCA — Wed, 17 Feb 2021 08:41:31 GMT

←Older revision		Revision as of 08:41, 17 February 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Wed, 20 Jan 2021 06:54:09 GMT

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

←Older revision

Revision as of 06:54, 20 January 2021

OCA: New page: '''Unreleased structure''' The entry 7lbw is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 20 Jan 2021 06:54:08 GMT

New page: '''Unreleased structure''' The entry 7lbw is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7lbw is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]