5XPA

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 9'U10' on the target strand


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.215 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Crystal structure of T. thermophilus Argonaute protein complexed with a bulge 4A5 on the guide strand

Sheng, G.Gogakos, T.Wang, J.Zhao, H.Serganov, A.Juranek, S.Tuschl, T.Patel, J.D.Wang, Y.

To be published.

Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Uncharacterized protein Ago
A
685Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039)Mutation(s): 1 
Find proteins for Q746M7 (Thermus thermophilus (strain HB27 / ATCC BAA-163 / DSM 7039))
Go to UniProtKB:  Q746M7
Entity ID: 2
MoleculeChainsLengthOrganism
DNA (5'-D(P*TP*GP*AP*GP*GP*TP*AP*GP*TP*AP*GP*GP*TP*TP*GP*TP*AP*TP*AP*GP*T)-3')C21Thermus thermophilus
Entity ID: 3
MoleculeChainsLengthOrganism
RNA (5'-R(P*AP*UP*AP*CP*AP*AP*CP*CP*GP*UP*UP*CP*UP*AP*CP*UP*CP*CP*G)-3')D20Thermus thermophilus
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MG
Query on MG

Download SDF File 
Download CCD File 
A
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.281 
  • R-Value Work: 0.215 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 109.134α = 90.00
b = 109.134β = 90.00
c = 184.685γ = 90.00
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data processing
PHASERphasing
HKL-2000data scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Natural Science Foundation of ChinaChina31571335
Natural Science Foundation of ChinaChina31630015
Natural Science Foundation of ChinaChina91440201
Chinese Ministry of Science and TechChina2014CB910102

Revision History 

  • Version 1.0: 2018-04-18
    Type: Initial release