3DA5

Crystal Structure of Piwi/Argonaute/Zwille(PAZ) domain from Thermococcus thioreducens

• PDB DOI: https://doi.org/10.2210/pdb3DA5/pdb

• Classification: RNA BINDING PROTEIN
• Organism(s): Thermococcus thioreducens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-05-28 Released: 2008-07-29 
• Deposition Author(s): Hughes, R.C., Ng, J.D.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 0.267 
• R-Value Work: 0.216 
• R-Value Observed: 0.218 

Starting Model: experimental

Literature

Crystal Structure of Piwi/Argonaute/Zwille(PAZ) domain from Thermococcus thioreducens

Hughes, R.C., Ng, J.D.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 30.87 kDa 
• Atom Count: 2,037 
• Modelled Residue Count: 242 
• Deposited Residue Count: 256 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Argonaute	A, B	128	Thermococcus thioreducens	Mutation(s): 0  Gene Names: Ago-PAZ
UniProt
Find proteins for D0VWU1 (Thermococcus thioreducens) Explore D0VWU1  Go to UniProtKB:  D0VWU1

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.94 Å
• R-Value Free: 0.267 
• R-Value Work: 0.216 
• R-Value Observed: 0.218 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 57.392	α = 90
b = 60.896	β = 90
c = 66.447	γ = 90

Software Package:

Software Name	Purpose
MOLREP	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
HKL-2000	data collection
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-07-29 
Deposition Author(s): Hughes, R.C., Ng, J.D.

Revision History  

• Version 1.0: 2008-07-29
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2023-08-30
  Changes: Data collection, Database references, Refinement description