5GQ9

Crystal structure of Thermus thermophilus Argonaute in complex with g1C siDNA and DNA target


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.189

Literature

Macromolecules
Sequence Display for 5GQ9

Classification: DNA BINDING PROTEIN / DNA

Total Structure Weight: 176324.08


Macromolecule Entities
Molecule Chains Length Organism Details
Thermus thermophilus Argonaute A, B 685 Thermus thermophilus Details: Some residues are missing due to disorder in the coordinate.
Gene Name(s): TT_P0026
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG
Macromolecule Entities
Molecule Chains Length Organism Details
DNA (5'-D(P*CP*GP*AP*GP*GP*TP*AP*GP*TP*AP*GP*GP*TP*TP*GP*T)-3') C, E 21 Thermus thermophilus The last five nucleotides are missing due to disorder.
DNA (5'-D(P*AP*CP*AP*AP*CP*CP*TP*AP*CP*TP*AP*CP*CP*TP*CP*G)-3') D, F 16 Thermus thermophilus

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

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

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.7 Å
  • R-Value Free: 0.237
  • R-Value Work: 0.189
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 111.83 α = 90.00
b = 116.50 β = 90.00
c = 161.02 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2016-08-06
  • Released Date: 2017-08-09
  • Deposition author(s): Zhao, H., Sheng, G., Wang, Y.

Revision History

  • Version 1_0: 2017-08-09

    Type: Initial release

  • Version 1_1: 2017-10-18

    Type: Author supporting evidence, Structure summary