4LX5

X-ray crystal structure of the M6" riboswitch aptamer bound to pyrimido[4,5-d]pyrimidine-2,4-diamine (PPDA)

Structural Biology Knowledgebase: 4LX5 SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.13 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.199

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 4LX5

Classification: RNA

Total Structure Weight: 22944.94

Macromolecule Entities
Molecule Chains Length Organism Details
Mutated adenine riboswitch aptamer A 71 Vibrio vulnificus

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
29G
Query on 29G

A pyrimido[4,5-d]pyrimidine-2,4-diamine
C6 H6 N6
CEXXKZCAMOMPLI-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.13 Å
  • R-Value Free: 0.257
  • R-Value Work: 0.199
  • Space Group: P 21 21 2

Unit Cell:

Length (Å) Angle (°)
a = 49.05 α = 90.00
b = 149.71 β = 90.00
c = 24.40 γ = 90.00

Structure Validation

View Full Validation Report



Entry History

Deposition Data

  • Deposited Date: 2013-07-29
  • Released Date: 2014-07-16
  • Deposition author(s): Dunstan, M.S., Leys, D

Revision History

  • 2014-08-20
    Type: Citation | Details: Citation update