Biological Assembly 1  

 3D View: Structure | Electron Density

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 18642.46 
• Atom Count: 1125 
• Residue Count: 159 
• Unique protein chains: 1

2NRR

Crystal structure of the C-terminal RNAseH endonuclase domain of UvrC

• DOI: 10.2210/pdb2NRR/pdb

• Classification: HYDROLASE
• Organism(s): Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)
• Expression System: Escherichia coli


• Deposited: 2006-11-02 Released: 2007-02-06 
• Deposition Author(s): Karakas, E., Truglio, J.J., Kisker, C.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.2 Å
• R-Value Free: 0.218 
• R-Value Work: 0.183 

Literature

Structure of the C-terminal half of UvrC reveals an RNase H endonuclease domain with an Argonaute-like catalytic triad.

Karakas, E., Truglio, J.J., Croteau, D., Rhau, B., Wang, L., Van Houten, B., Kisker, C.

(2007) Embo J. 26: 613-622

• PubMed: 17245438 
• DOI: 10.1038/sj.emboj.7601497
• Primary Citation of Related Structures:  
  2NRZ, 2NRX, 2NRW, 2NRV, 2NRT


• PubMed Abstract: 
  

Removal and repair of DNA damage by the nucleotide excision repair pathway requires two sequential incision reactions, which are achieved by the endonuclease UvrC in eubacteria. Here, we describe the crystal structure of the C-terminal half of UvrC, which contains the catalytic domain responsible for 5' incision and a helix-hairpin-helix-domain that is implicated in DNA binding. Surprisingly, the 5' catalytic domain shares structural homology with RNase H despite the lack of sequence homology and contains an uncommon DDH triad. The structure also reveals two highly conserved patches on the surface of the protein, which are not related to the active site. Mutations of residues in one of these patches led to the inability of the enzyme to bind DNA and severely compromised both incision reactions. Based on our results, we suggest a model of how UvrC forms a productive protein-DNA complex to excise the damage from DNA.

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Organizational Affiliation: 

Department of Pharmacological Sciences, State University of New York at Stony Brook, Stony Brook, NY, USA.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
UvrABC system protein C	A	159	Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)	Mutation(s): 0  Gene Names: uvrC
Find proteins for Q9WYA3 (Thermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099)) Go to UniProtKB:  Q9WYA3

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.2 Å
• R-Value Free: 0.218 
• R-Value Work: 0.183 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length (Å)	Angle (°)
a = 38.048	α = 90.00
b = 46.516	β = 90.00
c = 84.501	γ = 90.00

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2006-11-02 
• Released Date: 2007-02-06 
• Deposition Author(s): Karakas, E., Truglio, J.J., Kisker, C.

Revision History 

• Version 1.0: 2007-02-06
  Type: Initial release
• Version 1.1: 2008-05-01
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance
• Version 1.3: 2017-10-18
  Type: Refinement description