4G0P

Crystal Structure of Arabidopsis thaliana AGO1 MID domain in complex with UMP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.216
  • R-Value Work: 0.175

Literature

Macromolecules
Sequence Display for 4G0P

Classification: GENE REGULATION

Total Structure Weight: 16763.34

Macromolecule Entities
Molecule Chains Length Organism Details
Protein argonaute 1 A 147 Arabidopsis thaliana Fragment: MID domain, UNP residues 593-738
Gene Name(s): AGO1 Gene View At1g48410 F11A17.3 T1N15.2
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 1 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
U5P
Query on U5P

A URIDINE-5'-MONOPHOSPHATE
C9 H13 N2 O9 P
DJJCXFVJDGTHFX-XVFCMESISA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
U5P N/A in BindingDB
Kd: 980000 nM  BindingMOAD
Kd: 980000 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.216
  • R-Value Work: 0.175
  • Space Group: P 21 21 21

Unit Cell:

Length (Å) Angle (°)
a = 37.29 α = 90.00
b = 60.84 β = 90.00
c = 69.08 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2012-07-09
  • Released Date: 2012-07-25
  • Deposition author(s): Frank, F., Hauver, J., Sonenberg, N., Nagar, B.

Revision History

  • 2012-08-29
    Type: Database references
  • 2012-09-12
    Type: Database references