406D Rna date Jun 22, 1998
title 5'-R(Cpapcpcpgpgpapupgpgpup(Bro) Upcpgpgpup
authors S.A.Shah, A.T.Brunger
compound source
Molecule: Rna (5'-R(Cpapcpcpgpgpapupgpgpup(5bu) Pcpgpgpupg)-3');
Chain: A, E
Engineered: Yes

symmetry Space Group: P 3
R_factor 0.262 R_Free 0.294
crystal
cell
length a length b length c angle alpha angle beta angle gamma
39.627 39.627 91.018 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand 5BU enzyme
Primary referenceThe 1.8 A crystal structure of a statically disordered 17 base-pair RNA duplex: principles of RNA crystal packing and its effect on nucleic acid structure., Shah SA, Brunger AT, J Mol Biol 1999 Jan 29;285(4):1577-88. PMID:9917398
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (56 Kb) [Save to disk]
  • Biological Unit Coordinates (406d.pdb1.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 406D
  • CSU: Contacts of Structural Units for 406D
  • Likely Quarternary Molecular Structure file(s) for 406D
  • Structure Factors (101 Kb)
  • Retrieve 406D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 406D from S2C, [Save to disk]
  • View 406D 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 406D
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 406D, 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: [406d_E] [406d_B] [406d_F] [406d_D] [406d_G] [406d_H] [406d_A] [406d_C] [406d]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 406D
  • Community annotation for 406D 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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