404D Dna-Rna Hybrid date Jun 12, 1998
title Crystal Structure Of The Rnadna Hybrid R(Gaagagaagc). D(Gct
authors G.Conn, T.Brown, G.A.Leonard
compound source
Molecule: 5'-R(Gpapapgpapgpapapgpc)-3'
Chain: A
Engineered: Yes
 Synthetic: Yes

Molecule: 5'-D(Gpcptptpcptpcptptpc)-3'
Chain: B
Engineered: Yes
Synthetic: Yes
symmetry Space Group: P 21 21 21
R_factor 0.184 R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
25.720 45.550 47.810 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
Primary referenceThe crystal structure of the RNA/DNA hybrid r(GAAGAGAAGC). d(GCTTCTCTTC) shows significant differences to that found in solution., Conn GL, Brown T, Leonard GA, Nucleic Acids Res 1999 Jan 15;27(2):555-61. PMID:9862980
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (12 Kb) [Save to disk]
  • Biological Unit Coordinates (404d.pdb1.gz) 8 Kb
  • CSU: Contacts of Structural Units for 404D
  • Likely Quarternary Molecular Structure file(s) for 404D
  • Retrieve 404D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 404D from S2C, [Save to disk]
    • View 404D 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 404D
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 404D, from MSDmotif at EBI
  • Structure summary from SCOR (Structural Classification of RNA)
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [404d] [404d_A] [404d_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 404D
  • Community annotation for 404D 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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