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PDBsum entry 2xzf

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protein dna_rna ligands metals links
Hydrolase/DNA PDB id
2xzf
Jmol
Contents
Protein chain
266 a.a.
DNA/RNA
Ligands
GOL
Metals
_ZN
Waters ×489
PDB id:
2xzf
Name: Hydrolase/DNA
Title: Crystal structure of a complex between the wild-type lactococcus lactis fpg (mutm) and an oxidized pyrimidine containing DNA at 293k
Structure: Formamidopyrimidine-DNA glycosylase. Chain: a. Synonym: fapy-DNA glycosylase. Engineered: yes. 5'-d( Cp Tp Cp Tp Tp Tp Vetp Tp Tp Tp Cp Tp Cp Gp chain: b. 5'-d( Gp Ap Gp Ap Ap Ap Cp Ap Ap Ap Gp Ap Gp Cp)- chain: c
Source: Lactococcus lactis subsp. Cremoris. Organism_taxid: 1359. Expressed in: escherichia coli. Expression_system_taxid: 562. Synthetic: yes. Synthetic construct. Organism_taxid: 32630. Organism_taxid: 32630
Resolution:
1.80Å     R-factor:   0.161     R-free:   0.191
Authors: Y.V.Lebihan,M.A.Izquierdo,F.Coste,F.Culard,T.H.Gehrke,K.Essa P.Aller,T.Carrel,B.Castaing
Key ref: Y.V.Le Bihan et al. (2011). 5-Hydroxy-5-methylhydantoin DNA lesion, a molecular trap for DNA glycosylases. Nucleic Acids Res, 39, 6277-6290. PubMed id: 21486746 DOI: 10.1093/nar/gkr215
Date:
25-Nov-10     Release date:   05-Oct-11    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chain
Pfam   ArchSchema ?
P42371  (FPG_LACLC) -  Formamidopyrimidine-DNA glycosylase
Seq:
Struc:
273 a.a.
266 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Enzyme reactions 
   Enzyme class 1: E.C.3.2.2.23  - DNA-formamidopyrimidine glycosylase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Hydrolysis of DNA containing ring-opened N(7)-methylguanine residues, releasing 2,6-diamino-4-hydroxy-5-(N-methyl)formamidopyrimide.
   Enzyme class 2: E.C.4.2.99.18  - DNA-(apurinic or apyrimidinic site) lyase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: The C-O-P bond 3' to the apurinic or apyrimidinic site in DNA is broken by a beta-elimination reaction, leaving a 3'-terminal unsaturated sugar and a product with a terminal 5'-phosphate.
Note, where more than one E.C. class is given (as above), each may correspond to a different protein domain or, in the case of polyprotein precursors, to a different mature protein.
 Gene Ontology (GO) functional annotation 
  GO annot!
  Biological process     metabolic process   6 terms 
  Biochemical function     catalytic activity     12 terms  

 

 
DOI no: 10.1093/nar/gkr215 Nucleic Acids Res 39:6277-6290 (2011)
PubMed id: 21486746  
 
 
5-Hydroxy-5-methylhydantoin DNA lesion, a molecular trap for DNA glycosylases.
Y.V.Le Bihan, M.Angeles Izquierdo, F.Coste, P.Aller, F.Culard, T.H.Gehrke, K.Essalhi, T.Carell, B.Castaing.
 
  ABSTRACT  
 
No abstract given.