DNA methyltransferase: Difference between revisions

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== Structural highlights ==
== Structural highlights ==


The <scene name='46/467277/Cv/7'>active site of methyladenine DNMT contains the methyl donor SAM</scene>.
The <scene name='46/467277/Cv/8'>active site of methyladenine DNMT contains the methyl donor SAM</scene>.
</StructureSection>
 
== 3D Structures of DNA methyltransferase ==
== 3D Structures of DNA methyltransferase ==
[[DNA methyltransferase 3D structures]]


Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
</StructureSection>
{{#tree:id=OrganizedByTopic|openlevels=0|
 
*Methylguanine DNMT
 
**[[1sfe]] – O6-methylguanine DNMT C terminal – ''Escherichia coli''
 
**[[1qnt]], [[1eh6]], [[3llr]] - hO6-methylguanine DNMT – human
 
**[[1t38]] - hO6-methylguanine DNMT (mutant) + DNA
 
**[[1t39]], [[1yfh]] - hO6-methylguanine DNMT + DNA
 
**[[1eh7]] - hO6-methylguanine DNMT methylated
 
**[[1eh8]] - hO6-methylguanine DNMT benzylated<br />
**[[1mgt]] - O6-methylguanine DNMT – ''Thermococcus kodakarensis''<br />
**[[1wrj]] - O6-methylguanine DNMT  - ''Sulfolobus tokodaii''
 
**[[2g7h]] - O6-methylguanine DNMT – ''Methanocaldococcus jannaschii''
 
**[[2kif]], [[2kim]] - O6-methylguanine DNMT – ''Vibrio parahaemolyticus'' - NMR<br />
**[[4bhb]], [[4bhc]], [[4wxd]], [[4wxc]] - MtO6-methylguanine DNMT (mutant) – ''Mycobacterium tuberculosis''<br />
**[[4wx9]] - MtO6-methylguanine DNMT (mutant) + modified DNA<br />
**[[4zyg]], [[4zye]] - O6-methylguanine DNMT – ''Sulfolobus solfataricus''<br />
**[[5llq]], [[4zyh]] - O6-methylguanine DNMT (mutant) <br />
**[[4zyd]] - O6-methylguanine DNMT (mutant) + modified DNA<br />
 
*Methylcytosine DNMT
 
**[[2qrv]] - h-cytosine DNMT
 
**[[3epz]] - h-cytosine DNMT replecation foci-targeting sequence
 
**[[3flg]] - h-cytosine DNMT ADD domain
 
**[[3a1a]] - h-cytosine DNMT PWWP domain
 
**[[1g55]] - h-cytosine DNMT2 (mutant)<br />
**[[3qkj]] - h-cytosine DNMT 3β<br />
 
**[[2uyc]], [[2uyh]], [[2uz4]] - Hh-cytosine DNMT (mutant) + DNA + SAH
 
**[[3a1b]], [[4qbq]] - h-cytosine DNMT ADD domain + histone H3<br />
**[[4qbr]], [[4qbs]] - h-cytosine DNMT ADD domain (mutant) + histone H3<br />
**[[5ciu]] - h-cytosine DNMT residues 206-355 + histone H3.2<br />
**[[4yoc]] - h-cytosine DNMT residues 600-1600 + ubiquitin carboxyl-terminal hydrolase 7<br />
**[[4z97]], [[4z96]] - h-cytosine DNMT residues 1097-1129 + ubiquitin carboxyl-terminal hydrolase 7<br />
**[[5ydr]] - h-cytosine DNMT RFTS domain residues 351-599 + ubiquitin<br />
**[[5wvo]] - h-cytosine DNMT RFTS domain + ubiquitin + histone H3.1<br />
**[[4wxx]] - h-cytosine DNMT residues 351-1600 + SAH<br />
**[[4u7p]] - h-cytosine DNMT 3A residues 455-912 + h-cytosine DNMT 3-like residues 178-379  + SAH<br />
**[[6f57]], [[5yx2]] - h-cytosine DNMT 3A residues 628-912 + h-cytosine DNMT 3-like residues 178-379  + DNA + SAH + pyrimidine derivative<br />
**[[4u7t]] - h-cytosine DNMT 3A residues 455-912 + h-cytosine DNMT 3-like residues 178-379  + histone 3.3 + SAH<br />
**[[3av4]], [[1khc]] - m-cytosine DNMT – mouse<br />
**[[5wy1]] - m-cytosine DNMT (mutant) <br />
**[[5guv]], [[5gut]] - m-cytosine DNMT residues 731-1600 (mutant) <br />
**[[3pt6]], [[3pt9]], [[4da4]] – m-cytosine DNMT + DNA
**[[3av5]] - m-cytosine DNMT + SAH
 
**[[3av6]] - m-cytosine DNMT + SAM
 
**[[3swr]] - h-cytosine DNMT + sinefungin
 
**[[1boo]] - cytosine DNMT (mutant) – ''Proteus vulgaris''<br />
**[[3qv2]] - cytosine DNMT + SAH – ''Entamoeba histolytica''<br />
**[[2uyc]], [[2uyh]], [[2uz4]], [[1fjx]] – Hh-cytosine DNMT (mutant) + DNA + SAH - ''Haemophilus haemolyticus''<br />
**[[2c7o]], [[2c7p]], [[2c7q]], [[2c7r]], [[3pta]] – Hh-cytosine DNMT + DNA + S-adenonosyl cysteine<br />
**[[1hmy]] – Hh-cytosine Haeiii DNMT + SAM
 
**[[1m0e]] - Hh-cytosine DNMT (mutant) + DNA + inhibitor
 
**[[2i9k]] - Hh-cytosine DNMT (mutant) + DNA
 
**[[2hr1]] - Hh-cytosine DNMT + DNA + ADOHCY
 
**[[2z6q]], [[2z6u]], [[2zcj]] - Hh-cytosine DNMT (mutant) + DNA + ADOHCY
 
**[[1svu]] - Hh-cytosine DNMT (mutant)<br />
**[[4fsx]] – c-cytosine DNMT + SAH – corn<br />
**[[4ft2]], [[4ft4]] – c-cytosine DNMT + histone H3 peptide<br />
**[[4h0n]] - cytosine DNMT (mutant) – ''Spodoptera frugiperda''<br/>
**[[6fdf]] - cytosine DNMT2 + SAH – fission yeast<br/>
 
*Methyladenine DNMT
 
**[[1nw5]] – RsN6-adenine DNMT + SAM – ''Rhodobacter sphaeroides''
 
**[[1nw6]] - RsN6-adenine DNMT + sinefungin<br />
**[[1nw7]] - RsN6-adenine DNMT + SAH<br />
**[[1nw8]] - RsN6-adenine DNMT (mutant)<br />
**[[5hek]] - HpN6-adenine DNMT – ''Helicobacter pylori''<br />
**[[5hfj]] - HpN6-adenine DNMT + SAM<br />
 
**[[2ibs]], [[2ibt]], [[2ih2]], [[2ih4]], [[2ih5]], [[2np6]], [[2np7]], [[1g38]] - Ta-adenine DNMT Taqi + DNA + cofactor analog – ''Thermus aquaticus''<br />
**[[1aqi]] – Ta-adenine DNMT Taqi + SAH<br />
**[[1aqj]] – Ta-adenine DNMT Taqi + sinefungin<br />
**[[2adm]] - Ta-adenine DNMT Taqi + SAM<br />
**[[1g60]] - adenine DNMT + SAM – ''Moraxella bovis''<br />
**[[4rtj]], [[4rtl]], [[4rto]] - Ec-adenine DNMT + DNA + sinefungin<br />
**[[4rtk]] - Ec-adenine DNMT + DNA + SAH<br />
**[[4gbe]] - Ec-adenine DNMT + SAH<br />
**[[4gol]], [[4gom]], [[4gon]], [[4goo]] - Ec-adenine DNMT + SAM derivative<br />
**[[4rtm]], [[4rtp]], [[4rtr]], [[4rts]] - Ec-adenine DNMT + DNA + AdoMet<br />
**[[4rtn]], [[4rtq]] - Ec-adenine DNMT + DNA + AdoHcy<br />
 
*HhaI DNA methyltransferase
 
**[[1fjx]], [[2hmy]] – HhHDMT + SAM – ''Haemophilus haemolyticus'' <BR />
**[[1svu]] – HhHDMT (mutant) + SAH  <BR />
**[[1hmy]], [[1mht]], [[3mht]], [[4mht]], [[5mht]], [[7mht]], [[8mht]], [[2hr1]], [[3eeo]] – HhHDMT + DNA + SAH  <BR />
**[[2i9k]], [[2z6a]], [[2z6u]], [[2zcj]] – HhHDMT (mutant) + DNA + SAH  <BR />
**[[6mht]] – HhHDMT + DNA + SAH + thiodeoxycytidine <BR />
**[[9mht]] – HhHDMT + DNA + SAH + abasic dideoxyribose <BR />
**[[1skm]] – HhHDMT + DNA + SAH + bicyclohexane <BR />
**[[10mh]] – HhHDMT + DNA + SAH + dihydroazacytosine <BR />
**[[1m0e]] – HhHDMT + DNA + SAH + zebularine <BR />
**[[2c7o]], [[2c7p]], [[2c7q]] – HhHDMT + DNA + SAH + methyl cytosine + aminopurine <BR />
**[[2c7r]] – HhHDMT (mutant) + DNA + SAH + methyl cytosine + aminopurine <BR />
**[[2z6q]] – HhHDMT (mutant) + DNA + SAH + deoxycytidine  <BR />
**[[2uyc]], [[2uyh]], [[2uz4]] – HhHDMT (mutant) + DNA + SAH + methyl cytosine <BR />
 
*DNA methyltransferase
 
**[[4onj]] – tHDMT catalytic domain + sinefungin – tobacco <BR />
**[[4onq]] – tHDMT catalytic domain (mutant) + sinefungin <BR />
 
}}


== References ==
== References ==

Latest revision as of 11:39, 12 June 2019

Function

DNA methyltransferase (DNMT) catalyzes the transfer of methyl group to DNA. Methylation is essential for gene expression. DNMT uses S-adenosyl methionine (SAM) as the methyl donor. The SAM analog S-adenosyl homocysteine (SAH) is a powerful inhibitor of DNMT.

  • Methylguanine DNMT repairs the DNA lesion O6-methylguanine to guanine.[1]
  • Methylcytosine DNMT methylates the 5 position of cytosine. [2]
  • Methyladenine DNMT methylates the 6 position of adenine. [3]
  • HhaI DNA methyltransferase (HDMT), a DNMT from Haemophilus haemolyticus recognizes the 5’-GCGC-3’ DNA sequence and methylates the first cytosine to convert it to 5-methylcytosine. The SAM serves as the methyl donor in the reaction and is converted to to S-adenosyl-L-homocysteine (SAH) by the reaction[4].

Relevance

DNMT inhibitors are being tested in cancer therapy.

Disease

The human ICF disorder is caused by mutations in DNMT 3B.

Structural highlights

The .

3D Structures of DNA methyltransferase

DNA methyltransferase 3D structures


Adenine DNMT complex with SAM and Cl- ion (PDB code 1nw5).

Drag the structure with the mouse to rotate

ReferencesReferences

  1. ↑ Kaina B, Christmann M, Naumann S, Roos WP. MGMT: key node in the battle against genotoxicity, carcinogenicity and apoptosis induced by alkylating agents. DNA Repair (Amst). 2007 Aug 1;6(8):1079-99. Epub 2007 May 7. PMID:17485253 doi:http://dx.doi.org/10.1016/j.dnarep.2007.03.008
  2. ↑ Kumar S, Cheng X, Klimasauskas S, Mi S, Posfai J, Roberts RJ, Wilson GG. The DNA (cytosine-5) methyltransferases. Nucleic Acids Res. 1994 Jan 11;22(1):1-10. PMID:8127644
  3. ↑ Thomas CB, Scavetta RD, Gumport RI, Churchill ME. Structures of liganded and unliganded RsrI N6-adenine DNA methyltransferase: a distinct orientation for active cofactor binding. J Biol Chem. 2003 Jul 11;278(28):26094-101. Epub 2003 May 4. PMID:12732637 doi:http://dx.doi.org/10.1074/jbc.M303751200
  4. ↑ Sankpal UT, Rao DN. Structure, function, and mechanism of HhaI DNA methyltransferases. Crit Rev Biochem Mol Biol. 2002;37(3):167-97. PMID:12139442 doi:http://dx.doi.org/10.1080/10409230290771492

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Michal Harel, Alexander Berchansky
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