1LC4

Crystal Structure of Tobramycin Bound to the Eubacterial 16S rRNA A Site

Structural Biology Knowledgebase: 1LC4 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.54 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.214

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 1LC4

Classification: RNA

Total Structure Weight: 15645.95

Macromolecule Entities
Molecule Chains Length Organism Details
5'-R(*UP*UP*GP*CP*GP*UP*CP*AP*CP*AP*CP*CP*GP*GP*UP*GP*AP*AP*GP*UP*CP*GP*C)-3' A, B 23 synthetic eubacterial 16S RRNA A SITE

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
TOY
Query on TOY

A, B TOBRAMYCIN
5-DIOL, (Synonym)
C18 H37 N5 O9
NLVFBUXFDBBNBW-PBSUHMDJSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.54 Å
  • R-Value Free: 0.264
  • R-Value Work: 0.214
  • Space Group: P 1 21 1
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 46.90 α = 90.00
b = 32.80 β = 107.90
c = 52.00 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2002-04-05
  • Released Date: 2003-04-08
  • Deposition author(s): Vicens, Q., Westhof, E.

Revision History

  • 2012-02-08
    Type: Binding sites and description | Details: Remark 800 was not displayed in file - correct
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4