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Solution NMR

Stereochemistry Modulates Stability of Reduced Inter-Strand Cross-Links Arising From R- and S-alpha-methyl-gamma-OH-1,N2-propano-2'-Deoxyguanine in the 5'-CpG-3' DNA Sequence

Released:
DOI: 10.2210/pdb2hmd/pdb
PDB entry 2hmd coloured by chain, front view.
PDB entry 2hmd coloured by chain, side view.
PDB entry 2hmd coloured by chain, top view.
Source organism: Synthetic construct
Primary publication:
Stereochemistry modulates the stability of reduced interstrand cross-links arising from R- and S-alpha-CH3-gamma-OH-1,N2-propano-2'-deoxyguanosine in the 5'-CpG-3' DNA sequence.
Cho YJ, Kozekov ID, Harris TM, Rizzo CJ, Stone MP
Biochemistry 46 2608-21 (2007)
PMID: 17305317

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-115351 (preferred)
Entry contents:
2 distinct DNA molecules
Macromolecules (2 distinct):
DNA dodecamer with interstrand cross-link Chain: A
Molecule details ›
Chain: A
Length: 12 nucleotides
Theoretical weight: 3.69 KDa
Source organism: Synthetic construct
Expression system: Not provided
DNA dodecamer with interstrand cross-link Chain: B
Molecule details ›
Chain: B
Length: 12 nucleotides
Theoretical weight: 3.69 KDa
Source organism: Synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand 2EG 2 x 2EG

Experiments and Validation Details

Entry percentile scores
Refinement method: distance geometry; simulated annealing; molecular dynamics; matrix relaxation
Expression system: Not provided

Quick links

Citations

4 review citations

Reactive species and DNA damage in chronic inflammation: reconciling chemical mechanisms and biological fates.
Lonkar et al. (2011)
3 more

4 mentions without citation

Cellular response to DNA interstrand crosslinks: the Fanconi anemia pathway.
Lopez-Martinez et al. (2016)
3 more