3C65 | pdb_00003c65

Crystal Structure of Bacillus stearothermophilus UvrC 5' endonuclease domain

• PDB DOI: https://doi.org/10.2210/pdb3C65/pdb

• Classification: HYDROLASE
• Organism(s): Geobacillus kaustophilus (strain HTA426)
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2008-02-02 Released: 2008-08-05 
• Deposition Author(s): Pakotiprapha, D., Bowman, B.R., Mueller, A.A., Inuzuka, Y., Verdine, G.L.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.221 (Depositor), 0.221 (DCC) 
• R-Value Work: 
  0.204 (Depositor), 0.204 (DCC) 

Literature

Crystal Structure of Bacillus stearothermophilus UvrC 5' endonuclease domain

Pakotiprapha, D., Bowman, B.R., Mueller, A.A., Inuzuka, Y., Verdine, G.L.

To be published.

Biological Assembly 1  

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

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

Macromolecule Content 

• Total Structure Weight: 25.87 kDa 
• Atom Count: 1,274 
• Modeled Residue Count: 152 
• Deposited Residue Count: 226 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
UvrABC system protein C	A	226	N/A	Mutation(s): 0  Gene Names: uvrC
UniProt
Find proteins for Q5KWH6 (Geobacillus kaustophilus (strain HTA426)) Explore Q5KWH6  Go to UniProtKB:  Q5KWH6

Small Molecules

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: 1.90 Å
• R-Value Free:  0.221 (Depositor), 0.221 (DCC) 
• R-Value Work:  0.204 (Depositor), 0.204 (DCC) 

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 81.779	α = 90
b = 81.779	β = 90
c = 58.583	γ = 120

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLOMON	phasing
CNS	refinement
PDB_EXTRACT	data extraction
SHARP	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2008-08-05 
Deposition Author(s): Pakotiprapha, D., Bowman, B.R., Mueller, A.A., Inuzuka, Y., Verdine, G.L.

Revision History  

• Version 1.0: 2008-08-05
  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: 2024-11-13
  Changes: Data collection, Database references, Derived calculations, Structure summary