› 6f3c

X-ray diffraction
2.3Å resolution

The cytotoxic [Pt(H2bapbpy)] platinum complex interacting with the CGTACG hexamer

Released:
DOI: 10.2210/pdb6f3c/pdb
PDB entry 6f3c coloured by chain, front view.
PDB entry 6f3c coloured by chain, side view.
PDB entry 6f3c coloured by chain, top view.
Source organism: synthetic construct
Primary publication:
Induction of a Four-Way Junction Structure in the DNA Palindromic Hexanucleotide 5'-d(CGTACG)-3' by a Mononuclear Platinum Complex.
van Rixel VHS, Busemann A, Wissingh MF, Hopkins SL, Siewert B, van de Griend C, Siegler MA, Marzo T, Papi F, Ferraroni M, Gratteri P, Bazzicalupi C, Messori L, Bonnet S
Angew Chem Int Ed Engl 58 9378-9382 (2019)
PMID: 31046177

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119871 (preferred)
Entry contents:
2 distinct DNA molecules
Macromolecules (2 distinct):
DNA (5'-D(*GP*TP*AP*CP*G)-3') Chains: B, D
Molecule details ›
Chains: B, D
Length: 6 nucleotides
Theoretical weight: 1.81 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*GP*TP*AP*CP*G)-3') Chains: A, C
Molecule details ›
Chains: A, C
Length: 5 nucleotides
Theoretical weight: 1.52 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand MG 1 x MG
Ligand PT9 2 x PT9
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID30B
Spacegroup: P3221
Unit cell:
a: 30.09Å b: 30.09Å c: 116.99Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.261 0.257 0.292
Expression system: Not provided

Quick links

Citations

1 review citation

Ruthenium(II) Polypyridyl Complexes and Their Use as Probes and Photoreactive Agents for G-quadruplexes Labelling.
Jiang et al. (2022)
8 other articles

1 mention without citation

The Automatic Solution of Macromolecular Crystal Structures via Molecular Replacement Techniques: REMO22 and Its Pipeline.
Carrozzini et al. (2023)