Brand  (β version)

PDB ID: 1Y9H

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Ligands
Code Name Style Show Link
BAP 1,2,3-trihydroxy-1,2,3,4-tetrahydrobenzo[a]pyrene PoSSuM
Non-standard Residues
Code Name Show
5CM 5-methyl-2'-deoxy-cytidine-5'-monophosphate
Glycosylation
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Modification
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Structure summary

Code : 1Y9H   PDBj   RCSB PDB   PDBe
Header : DNA
Title : Methylation of cytosine at C5 in a CpG sequence context causes a conformational switch of a benzo[a]pyrene diol epoxide-N2-guanine adduct in DNA from a minor groove alignment to intercalation with base displacement
Release Data : 2005-03-22
Compound :
mol_id molecule chains
1 5'-D(*CP*CP*AP*TP*(5CM)P*(BPG)P*CP*TP*AP*CP*C)-3' A
mol_id molecule chains
2 5'-D(*GP*GP*TP*AP*GP*CP*GP*AP*TP*GP*G)-3' B
Source :
mol_id organism_scientific
1
synthetic: yes
other_details: BP ATTACHED TO G6, Methylation of C5
mol_id organism_scientific
2
synthetic: yes
Authors : Zhang, N., Lin, C., Huang, X., Kolbanovskiy, A., Hingerty, B.E., Amin, S., Broyde, S., Geacintov, N.E., Patel, D.J.
Keywords : conformational switch, cytosine methylation, p53 mutation hot spot, DNA adduct, benzo[a]pyrene, BPDE, DNA
Exp. method : SOLUTION NMR
Citation :

Methylation of cytosine at C5 in a CpG sequence context causes a conformational switch of a benzo[a]pyrene diol epoxide-N2-guanine adduct in DNA from a minor groove alignment to intercalation with base displacement.

Zhang, N.,Lin, C.,Huang, X.  et al.
(2005)  J.Mol.Biol.  346 : 951 - 965

PubMed: 15701509
DOI: 10.1016/j.jmb.2004.12.027