1R4D Dna date Oct 06, 2003
title Solution Structure Of The Chimeric Ld Dna Oligonucleotide D(C8metgcgc(L)G(L)Cgcg)2
authors I.Cherrak, O.Mauffret, F.Santamaria, B.Rayner, A.Hocquet, M.Ghomi S.Fermandjian
compound source
Molecule: 5'-D(Cp(8mg)Pcpgp(0dc)P(0dg)Pcpgpcpg)-3
Chain: A, B
Engineered: Yes
Other_details: Chimeric And Modified Ld Strand 5'-D(C8metg G(L)Cgcg)
 Synthetic: Yes
methodSolution NMR
ligand 0DC, 0DG, 8MG enzyme
Primary referenceL-nucleotides and 8-methylguanine of d(C1m8G2C3G4C5LG6LC7G8C9G10)2 act cooperatively to promote a left-handed helix under physiological salt conditions., Cherrak I, Mauffret O, Santamaria F, Hocquet A, Ghomi M, Rayner B, Fermandjian S, Nucleic Acids Res 2003 Dec 1;31(23):6986-95. PMID:14627831
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (123 Kb) [Save to disk]
  • Biological Unit Coordinates (1r4d.pdb1.gz) 12 Kb
  • LPC: Ligand-Protein Contacts for 1R4D
  • CSU: Contacts of Structural Units for 1R4D
  • Original NMR restraints for 1R4D from PDB
  • Retrieve 1R4D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R4D from S2C, [Save to disk]
    • View 1R4D 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 1R4D
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 1R4D, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1r4d_A] [1r4d] [1r4d_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 1R4D
  • Community annotation for 1R4D 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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