428D Dna date Sep 28, 1998
title Structure Of The Potassium Form Of Cgcgaattcgcg: Dna Deforma Electrostatic Collapse Around Small Cations
authors X.Shui, C.C.Sines, L.Mcfail-Isom, D.Vanderveer, L.D.Williams
compound source
Molecule: Dna (5'-D(Cpgpcpgpapaptptpcpgpcpg)-3'
Chain: A, B
Engineered: Yes
Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.218 R_Free 0.282
crystal
cell
length a length b length c angle alpha angle beta angle gamma
25.296 40.244 65.939 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand MG, SPM enzyme
Primary referenceStructure of the potassium form of CGCGAATTCGCG: DNA deformation by electrostatic collapse around inorganic cations., Shui X, Sines CC, McFail-Isom L, VanDerveer D, Williams LD, Biochemistry 1998 Dec 1;37(48):16877-87. PMID:9836580
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (16 Kb) [Save to disk]
  • Biological Unit Coordinates (428d.pdb1.gz) 12 Kb
  • LPC: Ligand-Protein Contacts for 428D
  • CSU: Contacts of Structural Units for 428D
  • Likely Quarternary Molecular Structure file(s) for 428D
  • Structure Factors (76 Kb)
  • Retrieve 428D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 428D from S2C, [Save to disk]
  • Re-refined 428d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 428D 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 428D
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 428D, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [428d] [428d_B] [428d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 428D
  • Community annotation for 428D at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

  • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science