OCA at 14:47, 18 October 2023

OCA — Wed, 18 Oct 2023 14:47:15 GMT

←Older revision		Revision as of 14:47, 18 October 2023
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	==Crystal structure of MBP-fused human APOBEC1==		==Crystal structure of MBP-fused human APOBEC1==
-	<StructureSection load='6x91' size='340' side='right'caption='[[6x91]]' scene=''>	+	<StructureSection load='6x91' size='340' side='right'caption='[[6x91]], [[Resolution\|resolution]] 3.51Å' 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=6X91 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6X91 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6x91]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6X91 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6X91 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=6x91 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x91 OCA], [~~http~~://pdbe.org/6x91 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6x91 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6x91 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6x91 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]] 3.51Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CAC:CACODYLATE+ION'>CAC</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=PRD_900001:alpha-maltose'>PRD_900001</scene>, <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=6x91 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x91 OCA], [https://pdbe.org/6x91 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6x91 RCSB], [https://www.ebi.ac.uk/pdbsum/6x91 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6x91 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/MALE_ECOLI MALE_ECOLI] Involved in the high-affinity maltose membrane transport system MalEFGK. Initial receptor for the active transport of and chemotaxis toward maltooligosaccharides.[https://www.uniprot.org/uniprot/ABEC1_HUMAN ABEC1_HUMAN] Cytidine deaminase catalyzing the cytidine to uridine postranscriptional editing of a variety of mRNAs (PubMed:30844405). Form complexes with cofactors that confer differential editing activity and selectivity. Responsible for the postranscriptional editing of a CAA codon for Gln to a UAA codon for stop in the apolipoprotein B mRNA (PubMed:24916387). Also involved in CGA (Arg) to UGA (Stop) editing in the NF1 mRNA (PubMed:11727199). May also play a role in the epigenetic regulation of gene expression by participating in DNA demethylation (By similarity).[UniProtKB:P51908]<ref>PMID:11727199</ref> <ref>PMID:24916387</ref> <ref>PMID:30844405</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	APOBEC1 (APO1), a member of AID/APOBEC nucleic acid cytosine deaminase family, can edit apolipoprotein B mRNA to regulate cholesterol metabolism. This APO1 RNA editing activity requires a cellular cofactor to achieve tight regulation. However, no cofactors are required for deamination on DNA by APO1 and other AID/APOBEC members, and aberrant deamination on genomic DNA by AID/APOBEC deaminases has been linked to cancer. Here, we present the crystal structure of APO1, which reveals a typical APOBEC deaminase core structure, plus a unique well-folded C-terminal domain that is highly hydrophobic. This APO1 C-terminal hydrophobic domain (A1HD) interacts to form a stable dimer mainly through hydrophobic interactions within the dimer interface to create a four-stranded beta-sheet positively charged surface. Structure-guided mutagenesis within this and other regions of APO1 clarified the importance of the A1HD in directing RNA and cofactor interactions, providing insights into the structural basis of selectivity on DNA or RNA substrates.
		+
		+	The structure of APOBEC1 and insights into its RNA and DNA substrate selectivity.,Wolfe AD, Li S, Goedderz C, Chen XS NAR Cancer. 2020 Dec;2(4):zcaa027. doi: 10.1093/narcan/zcaa027. Epub 2020 Oct 9. PMID:33094286<ref>PMID:33094286</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6x91" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli]]
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Chen XS]]		[[Category: Chen XS]]
	[[Category: Li S-X]]		[[Category: Li S-X]]
	[[Category: Wolfe AD]]		[[Category: Wolfe AD]]

OCA at 06:37, 9 December 2020

OCA — Wed, 09 Dec 2020 06:37:12 GMT

←Older revision		Revision as of 06:37, 9 December 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6x91 is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of MBP-fused human APOBEC1==
-		+	<StructureSection load='6x91' size='340' side='right'caption='[[6x91]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6X91 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6X91 FirstGlance]. <br>
-	~~Description~~:	+	</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=6x91 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6x91 OCA], [http://pdbe.org/6x91 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6x91 RCSB], [http://www.ebi.ac.uk/pdbsum/6x91 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6x91 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Chen XS]]
		+	[[Category: Li S-X]]
		+	[[Category: Wolfe AD]]

OCA at 10:44, 8 July 2020

OCA — Wed, 08 Jul 2020 10:44:09 GMT

←Older revision		Revision as of 10:44, 8 July 2020
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6x91 is ON HOLD	+	The entry 6x91 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6x91" [edit=sysop:move=sysop]

OCA — Wed, 10 Jun 2020 05:00:01 GMT

Protected "6x91" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:00, 10 June 2020

OCA: New page: '''Unreleased structure''' The entry 6x91 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 10 Jun 2020 04:59:59 GMT

New page: '''Unreleased structure''' The entry 6x91 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6x91 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

6x91 - Revision history

OCA at 14:47, 18 October 2023

OCA at 06:37, 9 December 2020

OCA at 10:44, 8 July 2020

OCA: Protected "6x91" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6x91 is ON HOLD Authors: Description: Category: Unreleased Structures