Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

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

Macromolecule Content

• Total Structure Weight: 39380.79 
• Atom Count: 2352 
• Residue Count: 296 
• Unique protein chains: 1
• Unique nucleic acid chains: 1

3AAF

Structure of WRN RQC domain bound to double-stranded DNA

• DOI: 10.2210/pdb3AAF/pdb
• NDB: NA0357

• Classification: DNA BINDING PROTEIN/DNA
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2009-11-16 Released: 2010-02-16 
• Deposition Author(s): Kitano, K., Hakoshima, T.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.244 
• R-Value Work: 0.212 

Literature

Structural basis for DNA strand separation by the unconventional winged-helix domain of RecQ helicase WRN

Kitano, K., Kim, S.Y., Hakoshima, T.

(2010) Structure 18: 177-187

• PubMed: 20159463 
• DOI: 10.1016/j.str.2009.12.011


• PubMed Abstract: 
  

The RecQ family of DNA helicases including WRN (Werner syndrome protein) and BLM (Bloom syndrome protein) protects the genome against deleterious changes. Here we report the cocrystal structure of the RecQ C-terminal (RQC) domain of human WRN bound to a DNA duplex. In the complex, the RQC domain specifically interacted with a blunt end of the duplex and, surprisingly, unpaired a Watson-Crick base pair in the absence of an ATPase domain. The beta wing, an extended hairpin motif that is characteristic of winged-helix motifs, was used as a "separating knife" to wedge between the first and second base pairs, whereas the recognition helix, a principal component of helix-turn-helix motifs that are usually embedded within DNA grooves, was unprecedentedly excluded from the interaction. Our results demonstrate a function of the winged-helix motif central to the helicase reaction, establishing the first structural paradigm concerning the DNA structure-specific activities of the RecQ helicases.

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Organizational Affiliation: 

Structural Biology Laboratory, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara 630-0192, Japan. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Werner syndrome ATP-dependent helicase	A, B	134	Homo sapiens	Mutation(s): 0  Gene Names: WRN (RECQ3, RECQL2) EC: 3.6.4.12
Find proteins for Q14191 (Homo sapiens) Go to Gene View: WRN Go to UniProtKB:  Q14191

Entity ID: 2
Molecule	Chains	Length	Organism
DNA (5'-D(*AP*CP*CP*CP*TP*AP*AP*TP*TP*AP*GP*GP*GP*T)-3')	C,D	14	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ACT	A, B	ACETATE ION C2 H3 O2 QTBSBXVTEAMEQO-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.9 Å
• R-Value Free: 0.244 
• R-Value Work: 0.212 
• Space Group: P 4₃ 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 84.077	α = 90.00
b = 84.077	β = 90.00
c = 145.291	γ = 90.00

Software Package:

Software Name	Purpose
HKL-2000	data reduction
HKL-2000	data scaling
HKL-2000	data collection
REFMAC	refinement
SHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2009-11-16 
• Released Date: 2010-02-16 
• Deposition Author(s): Kitano, K., Hakoshima, T.

Revision History 

• Version 1.0: 2010-02-16
  Type: Initial release
• Version 1.1: 2011-07-13
  Type: Advisory, Refinement description, Version format compliance