3pt6 - Revision history

OCA at 10:43, 21 February 2024

OCA — Wed, 21 Feb 2024 10:43:18 GMT

←Older revision		Revision as of 10:43, 21 February 2024
Line 3:		Line 3:
	<StructureSection load='3pt6' size='340' side='right'caption='[[3pt6]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3pt6' size='340' side='right'caption='[[3pt6]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pt6]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Lk3_transgenic_mice Lk3 transgenic mice~~]. The July 2011 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PT6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pt6]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. The July 2011 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PT6 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=SAH:S~~-~~ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>~~, ~~<scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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]] 3Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>~~[[~~Related_structure~~\|~~Related:~~]]~~</b></td><td class="sblockDat"><div style='overflow: auto~~; ~~max-height: 3em;'>[[3pt9\|3pt9]], [[3pta\|3pta]]</div>~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat"~~>Dnmt1, Dnmt, Met1, Uim ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&~~id=~~10090 LK3 transgenic mice])</td~~><~~/tr>~~	+
-	~~<tr id~~='~~activity'><td class~~=~~"sblockLbl"><b>Activity~~:~~</b~~></td><~~td class~~=~~"sblockDat"><span class~~=~~'plainlinks~~'>~~[https://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37]~~ </~~span~~></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=3pt6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pt6 OCA], [https://pdbe.org/3pt6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pt6 RCSB], [https://www.ebi.ac.uk/pdbsum/3pt6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pt6 ProSAT]</span></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=3pt6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pt6 OCA], [https://pdbe.org/3pt6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pt6 RCSB], [https://www.ebi.ac.uk/pdbsum/3pt6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pt6 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== 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>	+	[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>
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	Maintenance of genomic methylation patterns is mediated primarily by DNA methyltransferase-1 (DNMT1). We have solved structures of mouse DNMT1 composed of CXXC, tandem bromo-adjacent homology (BAH1/2) and methyltransferase domains bound to DNA containing unmethylated CpG sites. The CXXC specifically binds to unmethylated CpG dinucleotide and positions the CXXC-BAH1 linker between the DNA and the active site of DNMT1, thereby preventing de novo methylation. In addition, a loop projecting from BAH2 interacts with the target recognition domain (TRD) of the methyltransferase, stabilizing the TRD in a retracted position, and preventing it from inserting into the DNA major groove. Our studies identify an autoinhibitory mechanism, whereby occlusion of unmethylated CpG dinucleotides from de novo methylation ensures that only hemimethylated CpG dinucleotides gain access to the active site.	+
-		+
-	~~Structure of DNMT1-DNA Complex Reveals a Role for Autoinhibition in Maintenance DNA Methylation.,Song J, Rechkoblit O, Bestor TH, Patel DJ Science. 2010 Dec 16. PMID:21163962<ref>PMID:21163962</ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 3pt6" style="background-color:#fffaf0;"></div~~>	+

	==See Also==		==See Also==
Line 30:		Line 19:
	[[Category: DNA Methylases]]		[[Category: DNA Methylases]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Lk3 transgenic mice~~]]	+	[[Category: Mus musculus]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]
-	[[Category: Patel~~, D J~~]]	+	[[Category: Patel DJ]]
-	[[Category: Song, J]]	+	[[Category: Song J]]
-	~~[[Category: Maintenance dna methylation]]~~	+
-	~~[[Category: Transferase-dna complex~~]]	+

OCA at 08:54, 25 May 2022

OCA — Wed, 25 May 2022 08:54:00 GMT

←Older revision		Revision as of 08:54, 25 May 2022
Line 1:		Line 1:

	==Crystal structure of mouse DNMT1(650-1602) in complex with DNA==		==Crystal structure of mouse DNMT1(650-1602) in complex with DNA==
-	<StructureSection load='3pt6' size='340' side='right' caption='[[3pt6]], [[Resolution\|resolution]] 3.00Å' scene=''>	+	<StructureSection load='3pt6' size='340' side='right'caption='[[3pt6]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pt6]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. The July 2011 RCSB PDB [~~http~~://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [~~http~~://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3PT6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pt6]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. The July 2011 RCSB PDB [https://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [https://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3PT6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3pt9\|3pt9]], [[3pta\|3pta]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3pt9\|3pt9]], [[3pta\|3pta]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Dnmt1, Dnmt, Met1, Uim ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Dnmt1, Dnmt, Met1, Uim ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3pt6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pt6 OCA], [~~http~~://pdbe.org/3pt6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3pt6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3pt6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3pt6 ProSAT]</span></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=3pt6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pt6 OCA], [https://pdbe.org/3pt6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3pt6 RCSB], [https://www.ebi.ac.uk/pdbsum/3pt6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3pt6 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://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>	+	[[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>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 23:

	==See Also==		==See Also==
-	*[[DNA methyltransferase\|DNA methyltransferase]]	+	*[[DNA methyltransferase 3D structures\|DNA methyltransferase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 29:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: DNA Methylases]]		[[Category: DNA Methylases]]
		+	[[Category: Large Structures]]
	[[Category: Lk3 transgenic mice]]		[[Category: Lk3 transgenic mice]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]

OCA at 20:34, 4 August 2016

OCA — Thu, 04 Aug 2016 20:34:39 GMT

←Older revision		Revision as of 20:34, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of mouse DNMT1(650-1602) in complex with DNA==		==Crystal structure of mouse DNMT1(650-1602) in complex with DNA==
	<StructureSection load='3pt6' size='340' side='right' caption='[[3pt6]], [[Resolution\|resolution]] 3.00Å' scene=''>		<StructureSection load='3pt6' size='340' side='right' caption='[[3pt6]], [[Resolution\|resolution]] 3.00Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3pt6]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Mus_musculus Mus musculus~~]. The July 2011 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PT6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3pt6]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Lk3_transgenic_mice Lk3 transgenic mice]. The July 2011 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PT6 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3pt9\|3pt9]], [[3pta\|3pta]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3pt9\|3pt9]], [[3pta\|3pta]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Dnmt1, Dnmt, Met1, Uim ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 ~~Mus musculus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Dnmt1, Dnmt, Met1, Uim ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 LK3 transgenic mice])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3pt6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pt6 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pt6 RCSB], [http://www.ebi.ac.uk/pdbsum/3pt6 PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3pt6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pt6 OCA], [http://pdbe.org/3pt6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3pt6 RCSB], [http://www.ebi.ac.uk/pdbsum/3pt6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3pt6 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 19:		Line 20:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 3pt6" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 27:		Line 29:
	</StructureSection>		</StructureSection>
	[[Category: DNA Methylases]]		[[Category: DNA Methylases]]
-	[[Category: ~~Mus musculus~~]]	+	[[Category: Lk3 transgenic mice]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]
	[[Category: Patel, D J]]		[[Category: Patel, D J]]

OCA at 12:55, 25 December 2014

OCA — Thu, 25 Dec 2014 12:55:57 GMT

←Older revision		Revision as of 12:55, 25 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3pt6.~~png~~\|~~left~~\|~~200px~~]]	+	==Crystal structure of mouse DNMT1(650-1602) in complex with DNA==
		+	<StructureSection load='3pt6' size='340' side='right' caption='[[3pt6]], [[Resolution\|resolution]] 3.00Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3pt6]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. The July 2011 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3PT6 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3pt9\|3pt9]], [[3pta\|3pta]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">Dnmt1, Dnmt, Met1, Uim ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=10090 Mus musculus])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/DNA_(cytosine-5-)-methyltransferase DNA (cytosine-5-)-methyltransferase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.1.1.37 2.1.1.37] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3pt6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3pt6 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3pt6 RCSB], [http://www.ebi.ac.uk/pdbsum/3pt6 PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://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>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Maintenance of genomic methylation patterns is mediated primarily by DNA methyltransferase-1 (DNMT1). We have solved structures of mouse DNMT1 composed of CXXC, tandem bromo-adjacent homology (BAH1/2) and methyltransferase domains bound to DNA containing unmethylated CpG sites. The CXXC specifically binds to unmethylated CpG dinucleotide and positions the CXXC-BAH1 linker between the DNA and the active site of DNMT1, thereby preventing de novo methylation. In addition, a loop projecting from BAH2 interacts with the target recognition domain (TRD) of the methyltransferase, stabilizing the TRD in a retracted position, and preventing it from inserting into the DNA major groove. Our studies identify an autoinhibitory mechanism, whereby occlusion of unmethylated CpG dinucleotides from de novo methylation ensures that only hemimethylated CpG dinucleotides gain access to the active site.

-	~~{{STRUCTURE_3pt6\| PDB=3pt6 \| SCENE= }}~~	+	Structure of DNMT1-DNA Complex Reveals a Role for Autoinhibition in Maintenance DNA Methylation.,Song J, Rechkoblit O, Bestor TH, Patel DJ Science. 2010 Dec 16. PMID:21163962<ref>PMID:21163962</ref>

-	~~===Crystal structure of mouse DNMT1(650-1602) in complex with DNA===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21163962}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3pt6]] is~~ a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. The July 2011 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the ~~Month] feature on ''DNA Methylases'' by David Goodsell is [http://dx~~.~~doi~~.~~org/10~~.~~2210~~/~~rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA].~~	+

	==See Also==		==See Also==
	*[[DNA methyltransferase\|DNA methyltransferase]]		*[[DNA methyltransferase\|DNA methyltransferase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021163962<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: DNA Methylases]]		[[Category: DNA Methylases]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
	[[Category: RCSB PDB Molecule of the Month]]		[[Category: RCSB PDB Molecule of the Month]]
-	[[Category: Patel, D J.]]	+	[[Category: Patel, D J]]
-	[[Category: Song, J.]]	+	[[Category: Song, J]]
	[[Category: Maintenance dna methylation]]		[[Category: Maintenance dna methylation]]
	[[Category: Transferase-dna complex]]		[[Category: Transferase-dna complex]]

OCA at 16:55, 20 October 2012

OCA — Sat, 20 Oct 2012 16:55:41 GMT

←Older revision		Revision as of 16:55, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3pt6]] is a 6 chain structure ~~of [[DNA methyltransferase]]~~ with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. The July 2011 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA].	+	[[3pt6]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. The July 2011 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA].

	==See Also==		==See Also==

OCA at 23:16, 26 July 2012

OCA — Thu, 26 Jul 2012 23:16:08 GMT

←Older revision		Revision as of 23:16, 26 July 2012
Line 1:		Line 1:
	[[Image:3pt6.png\|left\|200px]]		[[Image:3pt6.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3pt6", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_3pt6\| PDB=3pt6 \| SCENE= }}		{{STRUCTURE_3pt6\| PDB=3pt6 \| SCENE= }}

	===Crystal structure of mouse DNMT1(650-1602) in complex with DNA===		===Crystal structure of mouse DNMT1(650-1602) in complex with DNA===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21163962}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21163962 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21163962}}		{{ABSTRACT_PUBMED_21163962}}

	==About this Structure==		==About this Structure==
-	[[3pt6]] 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=3PT6 OCA].	+	[[3pt6]] is a 6 chain structure of [[DNA methyltransferase]] with sequence from [http://en.wikipedia.org/wiki/Mus_musculus Mus musculus]. The July 2011 RCSB PDB [http://pdb.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/index.html Molecule of the Month] feature on ''DNA Methylases'' by David Goodsell is [http://dx.doi.org/10.2210/rcsb_pdb/mom_2011_7 10.2210/rcsb_pdb/mom_2011_7]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3PT6 OCA].
		+
		+	==See Also==
		+	*[[DNA methyltransferase\|DNA methyltransferase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~21163962~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021163962</ref><references group="xtra"/>
		+	[[Category: DNA Methylases]]
	[[Category: Mus musculus]]		[[Category: Mus musculus]]
		+	[[Category: RCSB PDB Molecule of the Month]]
	[[Category: Patel, D J.]]		[[Category: Patel, D J.]]
	[[Category: Song, J.]]		[[Category: Song, J.]]
		+	[[Category: Maintenance dna methylation]]
		+	[[Category: Transferase-dna complex]]

OCA at 07:18, 30 March 2011

OCA — Wed, 30 Mar 2011 07:18:54 GMT

←Older revision		Revision as of 07:18, 30 March 2011
Line 1:		Line 1:
-	[[Image:3pt6.~~jpg~~\|left\|200px]]	+	[[Image:3pt6.png\|left\|200px]]

	<!--		<!--
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	[[Category: Patel, D J.]]		[[Category: Patel, D J.]]
	[[Category: Song, J.]]		[[Category: Song, J.]]
-	[[Category: Maintenance dna methylation]]
-	[[Category: Transferase-dna complex]]

OCA: Protected "3pt6" [edit=sysop:move=sysop]

OCA — Wed, 29 Dec 2010 18:41:21 GMT

Protected "3pt6" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:41, 29 December 2010

OCA at 18:41, 29 December 2010

OCA — Wed, 29 Dec 2010 18:41:20 GMT

←Older revision		Revision as of 18:41, 29 December 2010
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3pt6.jpg\|left\|200px]]

-	The ~~entry 3pt6~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3pt6", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3pt6\| PDB=3pt6 \| SCENE= }}

-	~~Authors: Song, J., Patel, D.J.~~	+	===Crystal structure of mouse DNMT1(650-1602) in complex with DNA===

-	Description: Structure of DNMT1-DNA complex reveals a role for autoinhibition in maintenance DNA methylation

-	~~''Page seeded by~~ [http://oca.weizmann.ac.il/oca OCA ] ~~on Wed Dec 15 08~~:25:~~18 2010''~~	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21163962}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21163962 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21163962}}
		+
		+	==About this Structure==
		+	[[3pt6]] 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=3PT6 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:21163962</ref><references group="xtra"/>
		+	[[Category: Mus musculus]]
		+	[[Category: Patel, D J.]]
		+	[[Category: Song, J.]]
		+	[[Category: Maintenance dna methylation]]
		+	[[Category: Transferase-dna complex]]

OCA at 05:12, 15 December 2010

OCA — Wed, 15 Dec 2010 05:12:58 GMT

←Older revision		Revision as of 05:12, 15 December 2010
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	The entry 3pt6 is ON HOLD		The entry 3pt6 is ON HOLD

-	Authors: Song, J~~., Rechkoblit, O., Bestor, T.H~~., Patel, D.J.	+	Authors: Song, J., Patel, D.J.

	Description: Structure of DNMT1-DNA complex reveals a role for autoinhibition in maintenance DNA methylation		Description: Structure of DNMT1-DNA complex reveals a role for autoinhibition in maintenance DNA methylation

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec ~~8 11~~:33:50 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Dec 15 08:25:18 2010''