6P45

Crystal structure of the G-quadruplex formed by (TGGGT)4 in complex with N-methylmesoporphryin IX

  • Classification: DNA
  • Organism(s): Tetrahymena thermophila
  • Mutation(s): No 

  • Deposited: 2019-05-26 Released: 2020-05-27 
  • Deposition Author(s): Yatsunyk, L.A., Lin, L.Y.
  • Funding Organization(s): National Institutes of Health/National Center for Research Resources (NIH/NCRR)

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.34 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.200 

wwPDB Validation 3D Report Full Report



Literature

Biophysical and X-ray structural characterization of the (GGGTT)3GGG G-quadruplex in complex with N-methylmesoporphryin IX

Yatsunyk, L.A.Lin, L.Y.Powell, B.

To be published.

Macromolecules
  • Find similar nucleic acids by: Sequence   |   Structure
Entity ID: 1
MoleculeChainsLengthOrganism
DNA (5'-D(P*TP*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*GP*GP*GP*T)-3')A, B20Tetrahymena thermophila
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MMP
Query on MMP

Download CCD File 
A, B
N-METHYLMESOPORPHYRIN
C35 H40 N4 O4
YNWHQWMCLCANDI-YIYRCNGCSA-N
 Ligand Interaction
K
Query on K

Download CCD File 
A, B
POTASSIUM ION
K
NPYPAHLBTDXSSS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.34 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.200 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 59.28α = 90
b = 59.28β = 90
c = 63.332γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata scaling
XDSdata reduction
PHASERphasing
Cootmodel building

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Center for Research Resources (NIH/NCRR)United States1R15CA208676-01A1

Revision History 

  • Version 1.0: 2020-05-27
    Type: Initial release