354D Rna date Oct 01, 1997
title Structure Of Loop E From E. Coli 5s Rrna
authors C.C.Correll, B.Freeborn, P.B.Moore, T.A.Steitz
compound source
Molecule: Rna (5'-R(Cpcpgpapupgpgpupapgpupg)-3'
Chain: A
Engineered: Yes
Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_organelle: Cytosol

Molecule: Rna-Dna (5'-R(Gpcpgpapgpapgpupap)-D(Dg R(Gpc)-3');
Chain: B
Engineered: Yes

Organism_scientific: Escherichia Coli
Organism_taxid: 562
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_organelle: Cytosol
symmetry Space Group: C 1 2 1
R_factor 0.202 R_Free 0.228
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.184 37.654 32.944 90.00 105.90 90.00
method X-Ray Diffractionresolution 1.50 Å
ligand G46, MG enzyme
Primary referenceMetals, motifs, and recognition in the crystal structure of a 5S rRNA domain., Correll CC, Freeborn B, Moore PB, Steitz TA, Cell. 1997 Nov 28;91(5):705-12. PMID:9393863
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (18 Kb) [Save to disk]
  • Biological Unit Coordinates (354d.pdb1.gz) 14 Kb
  • LPC: Ligand-Protein Contacts for 354D
  • CSU: Contacts of Structural Units for 354D
  • Likely Quarternary Molecular Structure file(s) for 354D
  • Retrieve 354D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 354D from S2C, [Save to disk]
  • View 354D 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 354D
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 354D, 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: [354d_A] [354d] [354d_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 354D
  • Community annotation for 354D 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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