455D Dna date Mar 04, 1999
title A6a18 Inter-Strand Dithiobis(Propane)-Crosslinked Dodecamer (Cgcgaattcgcg)2
authors T.K.Chiu, M.Kaczor-Grzeskowiak, R.E.Dickerson
compound source
Molecule: Dna (5'-D(Cpgpcpgpap(Ssp)Aptptpcpgpcp
Chain: A, B
Engineered: Yes
Other_details: Complexed With Thiopropane
Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.208 R_Free 0.276
crystal
cell
length a length b length c angle alpha angle beta angle gamma
24.544 39.303 66.964 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.43 Å
ligand MG, SSP enzyme
Primary referenceAbsence of minor groove monovalent cations in the crosslinked dodecamer C-G-C-G-A-A-T-T-C-G-C-G., Chiu TK, Kaczor-Grzeskowiak M, Dickerson RE, J Mol Biol 1999 Sep 24;292(3):589-608. PMID:10497024
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (17 Kb) [Save to disk]
  • Biological Unit Coordinates (455d.pdb1.gz) 13 Kb
  • LPC: Ligand-Protein Contacts for 455D
  • CSU: Contacts of Structural Units for 455D
  • Likely Quarternary Molecular Structure file(s) for 455D
  • Structure Factors (68 Kb)
  • Retrieve 455D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 455D from S2C, [Save to disk]
  • Re-refined 455d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 455D 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 455D
  • 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 455D, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [455d_A] [455d] [455d_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 455D
  • Community annotation for 455D 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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