› 5cdb

X-ray diffraction
1.7Å resolution

Structure of the complex of a bimolecular human telomeric DNA with a 13-diphenylalkyl Berberine derivative

Released:
DOI: 10.2210/pdb5cdb/pdb
PDB entry 5cdb coloured by chain, front view.
PDB entry 5cdb coloured by chain, side view.
PDB entry 5cdb coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Solution and Solid-State Analysis of Binding of 13-Substituted Berberine Analogues to Human Telomeric G-quadruplexes.
Ferraroni M, Bazzicalupi C, Papi F, Fiorillo G, Guamán-Ortiz LM, Nocentini A, Scovassi AI, Lombardi P, Gratteri P
Chem Asian J 11 1107-15 (2016)
PMID: 26865223

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-118471 (preferred)
Entry contents:
1 distinct DNA molecule
Macromolecule:
human telomeric DNA Chains: A, B
Molecule details ›
Chains: A, B
Length: 12 nucleotides
Theoretical weight: 3.77 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand K 2 x K
Ligand 50B 1 x 50B
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P41212
Unit cell:
a: 41.132Å b: 41.132Å c: 71.204Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.234 0.231 0.284
Expression system: Not provided

Quick links

Citations

9 citation in other articles

Specifically targeting mixed-type dimeric G-quadruplexes using berberine dimers.
Li et al. (2017)
8 more

5 mentions without citation

The Immunoimaging Toolbox.
Mayer et al. (2018)
4 more