Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 39026.29 
• Atom Count: 2455 
• Residue Count: 345 
• Unique protein chains: 1

1KO9

Native Structure of the Human 8-oxoguanine DNA Glycosylase hOGG1

• DOI: 10.2210/pdb1KO9/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli


• Deposited: 2001-12-20 Released: 2002-01-09 
• Deposition Author(s): Bjoras, M., Seeberg, E., Luna, L., Pearl, L.H., Barrett, T.E.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.252 
• R-Value Work: 0.206 

Literature

Reciprocal "flipping" underlies substrate recognition and catalytic activation by the human 8-oxo-guanine DNA glycosylase.

Bjoras, M., Seeberg, E., Luna, L., Pearl, L.H., Barrett, T.E.

(2002) J.Mol.Biol. 317: 171-177

• PubMed: 11902834 
• DOI: 10.1006/jmbi.2002.5400


• PubMed Abstract: 
  

Both 8oxo-guanine and formamidopyrimidines are major products of oxidative DNA damage that can result in the fixation of transversion mutations following replication if left unrepaired. These lesions are targeted by the N-DNA glycosylase hOgg1, which catalyses excision of the aberrant base followed by cleavage of the phosphate backbone directly 5' to the resultant abasic site in a context, dependent manner. We present the crystal structure of native hOgg1 refined to 2.15 A resolution that reveals a number of highly significant conformational changes on association with DNA that are clearly required for substrate recognition and specificity. Changes of this magnitude appear to be unique to hOgg1 and have not been observed in any of the DNA-glycosylase structures analysed to date where both native and DNA-bound forms are available. It has been possible to identify a mechanism whereby the catalytic residue Lys 249 is "primed" for nucleophilic attack of the N-glycosidic bond.

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Organizational Affiliation: 

Department of Molecular Biology, Institute of Medical Microbiology, University of Oslo, The National Hospital, Norway.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
8-oxoguanine DNA glycosylase	A	345	Homo sapiens	Mutation(s): 0  Gene Names: OGG1 (MMH, MUTM, OGH1)
Find proteins for O15527 (Homo sapiens) Go to Gene View: OGG1 Go to UniProtKB:  O15527

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
SO4	A	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.15 Å
• R-Value Free: 0.252 
• R-Value Work: 0.206 
• Space Group: P 6₅

Unit Cell:

Length (Å)	Angle (°)
a = 105.513	α = 90.00
b = 105.513	β = 90.00
c = 47.597	γ = 120.00

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-12-20 
• Released Date: 2002-01-09 
• Deposition Author(s): Bjoras, M., Seeberg, E., Luna, L., Pearl, L.H., Barrett, T.E.

Revision History 

• Version 1.0: 2002-01-09
  Type: Initial release
• Version 1.1: 2008-04-27
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance