1PBR

STRUCTURE OF 16S RIBOSOMAL RNA, NMR, MINIMIZED AVERAGE STRUCTURE


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Structure of the A site of Escherichia coli 16S ribosomal RNA complexed with an aminoglycoside antibiotic.

Fourmy, D.Recht, M.I.Blanchard, S.C.Puglisi, J.D.

(1996) Science 274: 1367-1371


  • PubMed Abstract: 
  • Aminoglycoside antibiotics that bind to 30S ribosomal A-site RNA cause misreading of the genetic code and inhibit translocation. The aminoglycoside antibiotic paromomycin binds specifically to an RNA oligonucleotide that contains the 30S subunit A si ...

    Aminoglycoside antibiotics that bind to 30S ribosomal A-site RNA cause misreading of the genetic code and inhibit translocation. The aminoglycoside antibiotic paromomycin binds specifically to an RNA oligonucleotide that contains the 30S subunit A site, and the solution structure of the RNA-paromomycin complex was determined by nuclear magnetic resonance spectroscopy. The antibiotic binds in the major groove of the model A-site RNA within a pocket created by an A-A base pair and a single bulged adenine. Specific interactions occur between aminoglycoside chemical groups important for antibiotic activity and conserved nucleotides in the RNA. The structure explains binding of diverse aminoglycosides to the ribosome, their specific activity against prokaryotic organisms, and various resistance mechanisms, and provides insight into ribosome function.


    Organizational Affiliation

    Department of Chemistry and Biochemistry, Center for Molecular Biology of RNA, University of California, Santa Cruz, CA 95064, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
16S RIBOSOMAL RNAA27N/A
Small Molecules
Ligands 4 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CYY
Query on CYY

Download SDF File 
Download CCD File 
A
2-DEOXYSTREPTAMINE
C6 H14 N2 O3
DTFAJAKTSMLKAT-JDCCYXBGSA-N
 Ligand Interaction
IDG
Query on IDG

Download SDF File 
Download CCD File 
A
O-2,6-DIAMINO-2,6-DIDEOXY-BETA-L-IDOPYRANOSE
C6 H14 N2 O4
SQTHUUHOUPJYLK-BSQWINAVSA-N
 Ligand Interaction
BDR
Query on BDR

Download SDF File 
Download CCD File 
A
BETA-D-RIBOFURANOSYL
C5 H10 O5
HMFHBZSHGGEWLO-TXICZTDVSA-N
 Ligand Interaction
PA1
Query on PA1

Download SDF File 
Download CCD File 
A
2-amino-2-deoxy-alpha-D-glucopyranose
C6 H13 N O5
MSWZFWKMSRAUBD-UKFBFLRUSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1997-09-17
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2013-01-16
    Type: Non-polymer description