4da4: Difference between revisions

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[[Image:4da4.png|left|200px]]


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==Structure of mouse DNMT1 (731-1602) bound to hemimethylated CpG DNA==
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<StructureSection load='4da4' size='340' side='right'caption='[[4da4]], [[Resolution|resolution]] 2.60&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[4da4]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DA4 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4DA4 FirstGlance]. <br>
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.6&#8491;</td></tr>
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<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=C49:4-THIO,5-FLUORO,5-METHYL-2-DEOXY-CYTIDINE-5-MONOPHOSPHATE'>C49</scene>, <scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
{{STRUCTURE_4da4|  PDB=4da4  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=4da4 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4da4 OCA], [https://pdbe.org/4da4 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4da4 RCSB], [https://www.ebi.ac.uk/pdbsum/4da4 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4da4 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/DNMT1_MOUSE DNMT1_MOUSE] Methylates CpG residues. Preferentially methylates hemimethylated DNA. Associates with DNA replication sites in S phase maintaining the methylation pattern in the newly synthesized strand, that is essential for epigenetic inheritance. Associates with chromatin during G2 and M phases to maintain DNA methylation independently of replication. It is responsible for maintaining methylation patterns established in development. DNA methylation is coordinated with methylation of histones. Mediates transcriptional repression by direct binding to HDAC2. In association with DNMT3B and via the recruitment of CTCFL/BORIS, involved in activation of BAG1 gene expression by modulating dimethylation of promoter histone H3 at H3K4 and H3K9.<ref>PMID:11290321</ref> <ref>PMID:15550930</ref> <ref>PMID:17576694</ref>
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== Publication Abstract from PubMed ==
DNMT1, the major maintenance DNA methyltransferase in animals, helps to regulate gene expression, genome imprinting, and X-chromosome inactivation. We report on the crystal structure of a productive covalent mouse DNMT1(731-1602)-DNA complex containing a central hemimethylated CpG site. The methyl group of methylcytosine is positioned within a shallow hydrophobic concave surface, whereas the cytosine on the target strand is looped out and covalently anchored within the catalytic pocket. The DNA is distorted at the hemimethylated CpG step, with side chains from catalytic and recognition loops inserting through both grooves to fill an intercalation-type cavity associated with a dual base flip-out on partner strands. Structural and biochemical data establish how a combination of active and autoinhibitory mechanisms ensures the high fidelity of DNMT1-mediated maintenance DNA methylation.


===Structure of mouse DNMT1 (731-1602) bound to hemimethylated CpG DNA===
Structure-based mechanistic insights into DNMT1-mediated maintenance DNA methylation.,Song J, Teplova M, Ishibe-Murakami S, Patel DJ Science. 2012 Feb 10;335(6069):709-12. PMID:22323818<ref>PMID:22323818</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 4da4" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_22323818}}, adds the Publication Abstract to the page
*[[DNA methyltransferase 3D structures|DNA methyltransferase 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 22323818 is the PubMed ID number.
== References ==
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<references/>
{{ABSTRACT_PUBMED_22323818}}
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</StructureSection>
==About this Structure==
[[Category: Large Structures]]
[[4da4]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4DA4 OCA].
 
==Reference==
<ref group="xtra">PMID:022323818</ref><references group="xtra"/>
[[Category: Mus musculus]]
[[Category: Mus musculus]]
[[Category: Patel, D J.]]
[[Category: Patel DJ]]
[[Category: Song, J.]]
[[Category: Song J]]
[[Category: Covalent complex]]
[[Category: Maintenance dna methylation]]
[[Category: Transferase-dna complex]]
Retrieved from "https://proteopedia.org/4da4"