Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 104.12 kDa 
• Atom Count: 6,884 
• Modelled Residue Count: 815 
• Deposited Residue Count: 881 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

 4F3T

Human Argonaute-2 - miR-20a complex

• PDB DOI:  https://doi.org/10.2210/pdb4F3T/pdb
• NDB: NA1773

• Classification: Hydrolase/RNA
• Organism(s): Homo sapiens
• Expression System: Spodoptera frugiperda
• Mutation(s): No 


• Deposited: 2012-05-09 Released: 2012-05-30 
• Deposition Author(s): Elkayam, E., Kuhn, C.-D., Tocilj, A., Joshua-Tor, L.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.254 
• R-Value Work: 0.207 
• R-Value Observed: 0.208 

Literature

The Structure of Human Argonaute-2 in Complex with miR-20a.

Elkayam, E., Kuhn, C.D., Tocilj, A., Haase, A.D., Greene, E.M., Hannon, G.J., Joshua-Tor, L.

(2012) Cell 150: 100-110

• PubMed: 22682761 
• DOI: https://doi.org/10.1016/j.cell.2012.05.017
• Primary Citation of Related Structures:  
  4F3T


• PubMed Abstract: 
  

Argonaute proteins lie at the heart of the RNA-induced silencing complex (RISC), wherein they use small RNA guides to recognize targets. Initial insight into the architecture of Argonautes came from studies of prokaryotic proteins, revealing a crescent-shaped base made up of the amino-terminal, PAZ, middle, and PIWI domains. The recently reported crystal structure of human Argonaute-2 (hAgo2), the "slicer" in RNA interference, in complex with a mixed population of RNAs derived from insect cells provides insight into the architecture of a eukaryotic Argonaute protein with defined biochemical and biological functions. Here, we report the structure of human Ago2 bound to a physiologically relevant microRNA, microRNA-20a, at 2.2 Å resolution. The miRNA is anchored at both ends by the Mid and PAZ domains and makes several kinks and turns along the binding groove. Interestingly, miRNA binding confers remarkable stability on hAgo2, locking this otherwise flexible enzyme into a stable conformation.

---

Organizational Affiliation: 

W. M. Keck Structural Biology Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Protein argonaute-2	A	861	Homo sapiens	Mutation(s): 0  Gene Names: AGO2, Argonaute2, eIF-2C 2, eIF2C 2, EIF2C2, Eukaryotic translation initiation factor 2C 2, hAgo2, Human Argonaute-2, PAZ Piwi domain protein EC: 3.1.26
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UKV8 (Homo sapiens) Explore Q9UKV8  Go to UniProtKB:  Q9UKV8
PHAROS:  Q9UKV8

Entity ID: 2
Molecule	Chains	Length	Organism	Image
RNA (5'-R(P*UP*AP*AP*AP*GP*UP*GP*CP*UP*UP*AP*UP*AP*GP*UP*G*CP*AP*GP*G)-3')	B [auth R]	20	Homo sapiens

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
IPH	C [auth A], D [auth A]	PHENOL C6 H6 O ISWSIDIOOBJBQZ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.25 Å
• R-Value Free: 0.254 
• R-Value Work: 0.207 
• R-Value Observed: 0.208 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.427	α = 90
b = 107.651	β = 106.69
c = 68.718	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SHARP	phasing
SOLOMON	phasing
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-05-30 
Deposition Author(s): Elkayam, E., Kuhn, C.-D., Tocilj, A., Joshua-Tor, L.

Revision History  

• Version 1.0: 2012-05-30
  Type: Initial release
  
• Version 1.1: 2012-07-25
  Changes: Database references
• Version 1.2: 2017-11-15
  Changes: Advisory, Refinement description