452D Dna date Feb 18, 1999
title Acridine Binding To Dna
authors J.H.Thorpe, A.K.Todd, C.J.Cardin
compound source
Molecule: Dna (5'-D(Cpgptpapcpg)-3')
Chain: A
Engineered: Yes
 Synthetic: Yes
symmetry Space Group: P 64
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
30.161 30.161 39.692 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.60 Å
ligand 9AD, MPD enzyme
Primary referenceMajor groove binding and 'DNA-induced' fit in the intercalation of a derivative of the mixed topoisomerase I/II poison N-(2-(dimethylamino)ethyl)acridine-4-carboxamide (DACA) into DNA: X-ray structure complexed to d(CG(5-BrU)ACG)2 at 1.3-A resolution., Todd AK, Adams A, Thorpe JH, Denny WA, Wakelin LP, Cardin CJ, J Med Chem 1999 Feb 25;42(4):536-40. PMID:10052960
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (10 Kb) [Save to disk]
  • Biological Unit Coordinates (452d.pdb1.gz) 9 Kb
  • LPC: Ligand-Protein Contacts for 452D
  • CSU: Contacts of Structural Units for 452D
  • Likely Quarternary Molecular Structure file(s) for 452D
  • Retrieve 452D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 452D from S2C, [Save to disk]
    • View 452D in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 452D
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 452D, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [452d_A] [452d]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 452D
  • Community annotation for 452D at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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