Brand  (β version)

PDB ID: 6F57

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Ligands
Code Name Style Show Link
SAH S-adenosyl-L-homocysteine PoSSuM
Non-standard Residues
Code Name Show
Z 1-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)pyrimidin-2(1h)-one
Glycosylation
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Structure summary

Code : 6F57   PDBj   RCSB PDB   PDBe
Header : transferase/DNA
Title : Crystal structure of DNMT3A-DNMT3L in complex with single CpG-containing DNA
Release Data : 2018-01-31
Compound :
mol_id molecule chains synonym
1 DNA (cytosine-5)-methyltransferase 3A A,D Dnmt3a,DNA methyltransferase HsaIIIA,M.HsaIIIA
ec: 2.1.1.37
mol_id molecule chains
2 DNA (cytosine-5)-methyltransferase 3-like B,C
mol_id molecule chains
3 DNA (5'-D(*AP*GP*AP*GP*CP*GP*CP*AP*TP*G)-3') E,G
mol_id molecule chains
4 DNA (5'-D(*CP*AP*TP*GP*ZP*GP*CP*TP*CP*T)-3') F,H
Source :
mol_id organism_scientific organism_common expression_system
1 Homo sapiens  (taxid:9606) Human Escherichia coli BL21(DE3)  (taxid:469008)
gene: DNMT3A
mol_id organism_scientific organism_common expression_system
2 Homo sapiens  (taxid:9606) Human Escherichia coli BL21(DE3)  (taxid:469008)
gene: DNMT3L
mol_id organism_scientific organism_common
3 Homo sapiens  (taxid:9606) Human
synthetic: yes
mol_id organism_scientific organism_common
4 Homo sapiens  (taxid:9606) Human
synthetic: yes
Authors : Zhang, Z.M., Song, J.
Keywords : DNMT3A, DNMT3L, DNA methylation, DNA binding protein, transferase-DNA complex
Exp. method : X-RAY DIFFRACTION ( 3.098 Å )
Citation :

Structural basis for DNMT3A-mediated de novo DNA methylation.

Zhang, Z.M.,Lu, R.,Wang, P.  et al.
(2018)  Nature  554 : 387 - 391

PubMed: 29414941
DOI: 10.1038/nature25477

Reaction

Chain : A, D
UniProt : Q9Y6K1 (DNM3A_HUMAN)
Reaction: EC: Evidence:
Physiological Direction:
a 2'-deoxycytidine in DNA + S-adenosyl-L-methionine = a 5- methyl-2'-deoxycytidine in DNA + H(+) + S-adenosyl-L-homocysteine 2.1.1.37 PROSITE-ProRule:PRU10018, PubMed:12138111
left-to-right PubMed:12138111
L-cysteinyl-[protein] + S-adenosyl-L-methionine = H(+) + S- adenosyl-L-homocysteine + S-methyl-L-cysteinyl-[protein] - UniProtKB:O88508
left-to-right
Chain : B, C
UniProt : Q9UJW3 (DNM3L_HUMAN)
Reaction : -