Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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

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

Macromolecule Content

• Total Structure Weight: 21.80 kDa 
• Atom Count: 1587 
• Modelled Residue Count: 183 
• Deposited Residue Count: 199 
• Unique protein chains: 1

2C2Q

The crystal structure of mismatch specific uracil-DNA glycosylase (MUG) from Deinococcus radiodurans. Inactive mutant Asp93Ala.

• DOI: 10.2210/pdb2C2Q/pdb

• Classification: HYDROLASE
• Organism(s): Deinococcus radiodurans R1
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): Yes 


• Deposited: 2005-09-29 Released: 2005-10-18 
• Deposition Author(s): Moe, E., Leiros, I., Smalas, A.O., McSweeney, S.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.244 
• R-Value Work: 0.208 
• R-Value Observed: 0.209 

Literature

The Crystal Structure of Mismatch Specific Uracil-DNA Glycosylase (Mug) from Deinococcus Radiodurans Reveals a Novel Catalytic Residue and Broad Substrate Specificity

Moe, E., Leiros, I., Smalas, A.O., Mcsweeney, S.

(2006) J Biol Chem 281: 569

• PubMed: 16223719 
• DOI: 10.1074/jbc.M508032200
• Primary Citation of Related Structures:  
  2C2Q, 2C2P


• PubMed Abstract: 
  

Deinococcus radiodurans is extremely resistant to the effects of ionizing radiation. The source of the radiation resistance is not known, but an expansion of specific protein families related to stress response and damage control has been observed. DNA repair enzymes are among the expanded protein families in D. radiodurans, and genes encoding five different uracil-DNA glycosylases are identified in the genome. Here we report the three-dimensional structure of the mismatch-specific uracil-DNA glycosylase (MUG) from D. radiodurans (drMUG) to a resolution of 1.75 angstroms. Structural analyses suggest that drMUG possesses a novel catalytic residue, Asp-93. Activity measurements show that drMUG has a modified and broadened substrate specificity compared with Escherichia coli MUG. The importance of Asp-93 for activity was confirmed by structural analysis and abolished activity for the mutant drMUGD93A. Two other microorganisms, Bradyrhizobium japonicum and Rhodopseudomonas palustris, possess genes that encode MUGs with the highest sequence identity to drMUG among all of the bacterial MUGs examined. A phylogenetic analysis indicates that these three MUGs form a new MUG/thymidine-DNA glycosylase subfamily, here called the MUG2 family. We suggest that the novel catalytic residue (Asp-93) has evolved to provide drMUG with broad substrate specificity to increase the DNA repair repertoire of D. radiodurans.

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Organizational Affiliation: 

Norwegian Structural Biology Centre, University of Tromsø, N-9037 Tromsø, Norway.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
G/U MISMATCH-SPECIFIC DNA GLYCOSYLASE	A	199	Deinococcus radiodurans R1	Mutation(s): 1  Gene Names: DR_0715 EC: 3.2.2
Find proteins for Q9RWF4 (Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / LMG 4051 / NBRC 15346 / NCIMB 9279 / R1 / VKM B-1422)) Explore Q9RWF4  Go to UniProtKB:  Q9RWF4

Small Molecules

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.244 
• R-Value Work: 0.208 
• R-Value Observed: 0.209 
• Space Group: P 6

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.491	α = 90
b = 102.491	β = 90
c = 37.576	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
SCALA	data scaling
MOLREP	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2005-09-29 
• Released Date: 2005-10-18 
Deposition Author(s): Moe, E., Leiros, I., Smalas, A.O., McSweeney, S.

Revision History  

• Version 1.0: 2005-10-18
  Type: Initial release
  
• Version 1.1: 2011-05-07
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance