3LA5

X-ray crystal structure of mc6 RNA Riboswitch bound to azacytosine

Structural Biology Knowledgebase: 3LA5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.180

Literature

Macromolecules
Sequence Display for 3LA5

Classification: RNA

Total Structure Weight: 23055.72

Macromolecule Entities
Molecule Chains Length Organism Details
Adenosine RIboswitch A 71 Bacillus subtilis

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
5AZ
Query on 5AZ

A 6-amino-1,3,5-triazin-2(1H)-one
5-Azacytosine (Synonym)
C3 H4 N4 O
MFEFTTYGMZOIKO-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
5AZ N/A in BindingDB
N/A in BindingMoad
Kd: 1000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.7 Å
  • R-Value Free: 0.202
  • R-Value Work: 0.180
  • Space Group: P 21 21 2
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 66.85 α = 90.00
b = 125.11 β = 90.00
c = 24.99 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2010-01-06
  • Released Date: 2010-01-26
  • Deposition author(s): Dunstan, M.S., Leys, D.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4