Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 8.58 kDa 
• Atom Count: 770 
• Modelled Residue Count: 76 
• Deposited Residue Count: 77 
• Unique protein chains: 1

2RHF

D. radiodurans RecQ HRDC domain 3

• PDB DOI: 10.2210/pdb2RHF/pdb

• Classification: HYDROLASE
• Organism(s): Deinococcus radiodurans R1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-10-09 Released: 2008-04-22 
• Deposition Author(s): Keck, J.L., Killoran, M.P.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.194 
• R-Value Work: 0.177 
• R-Value Observed: 0.178 

Literature

Structure and function of the regulatory C-terminal HRDC domain from Deinococcus radiodurans RecQ.

Killoran, M.P., Keck, J.L.

(2008) Nucleic Acids Res 36: 3139-3149

• PubMed: 18411208 
• DOI: 10.1093/nar/gkn143
• Primary Citation of Related Structures:  
  2RHF


• PubMed Abstract: 
  

RecQ helicases are critical for maintaining genome integrity in organisms ranging from bacteria to humans by participating in a complex network of DNA metabolic pathways. Their diverse cellular functions require specialization and coordination of multiple protein domains that integrate catalytic functions with DNA-protein and protein-protein interactions. The RecQ helicase from Deinococcus radiodurans (DrRecQ) is unusual among RecQ family members in that it has evolved to utilize three 'Helicase and RNaseD C-terminal' (HRDC) domains to regulate its activity. In this report, we describe the high-resolution structure of the C-terminal-most HRDC domain of DrRecQ. The structure reveals unusual electrostatic surface features that distinguish it from other HRDC domains. Mutation of individual residues in these regions affects the DNA binding affinity of DrRecQ and its ability to unwind a partial duplex DNA substrate. Taken together, the results suggest the unusual electrostatic surface features of the DrRecQ HRDC domain may be important for inter-domain interactions that regulate structure-specific DNA binding and help direct DrRecQ to specific recombination/repair sites.

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Organizational Affiliation: 

Department of Biomolecular Chemistry, University of Wisconsin School of Medicine and Public Health, Madison, WI 53706-1532, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA helicase RecQ	A	77	Deinococcus radiodurans R1	Mutation(s): 0  Gene Names: recQ, DR_1289 EC: 3.6.4.12
UniProt
Find proteins for Q9RUU2 (Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)) Explore Q9RUU2  Go to UniProtKB:  Q9RUU2

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PO4	B [auth A]	PHOSPHATE ION O4 P NBIIXXVUZAFLBC-UHFFFAOYSA-K

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.10 Å
• R-Value Free: 0.194 
• R-Value Work: 0.177 
• R-Value Observed: 0.178 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 49.978	α = 90
b = 49.978	β = 90
c = 83.61	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
ADSC	data collection
MOSFLM	data reduction
SCALA	data scaling
DM	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2007-10-09 
• Released Date: 2008-04-22 
Deposition Author(s): Keck, J.L., Killoran, M.P.

Revision History  

• Version 1.0: 2008-04-22
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Source and taxonomy, Version format compliance