397D Rna date Apr 30, 1998
title A 1.3 A Resolution Crystal Structure Of The Hiv-1 Trans-Acti Response Region Rna Stem Reveals A Metal Ion-Dependent Bulg Conformation
authors J.A.Ippolito, T.A.Steitz
compound source
Molecule: Rna (5'-R(Gpgpcpcpapgpapupcpupgpapgp 3');
Chain: A
Engineered: Yes
 Synthetic: Yes

Molecule: Rna (5'-R(Gpcpupcpupcpupgpgpcpcpc)-3'
Chain: B
Engineered: Yes
Synthetic: Yes
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
27.100 27.100 31.600 69.20 77.50 63.00
method X-Ray Diffractionresolution 1.30 Å
ligand CA enzyme
Primary referenceA 1.3-A resolution crystal structure of the HIV-1 trans-activation response region RNA stem reveals a metal ion-dependent bulge conformation., Ippolito JA, Steitz TA, Proc Natl Acad Sci U S A 1998 Aug 18;95(17):9819-24. PMID:9707559
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (34 Kb) [Save to disk]
  • Biological Unit Coordinates (397d.pdb1.gz) 30 Kb
  • LPC: Ligand-Protein Contacts for 397D
  • CSU: Contacts of Structural Units for 397D
  • Likely Quarternary Molecular Structure file(s) for 397D
  • Structure Factors (159 Kb)
  • Retrieve 397D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 397D from S2C, [Save to disk]
  • Re-refined 397d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 397D 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 397D
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 397D, 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: [397d] [397d_A] [397d_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 397D
  • Community annotation for 397D 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