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Application of Stopped-flow Kinetics Methods to Investigate the Mechanism of Action of a DNA Repair Protein
Published on: March 31, 2010
The MobM relaxase domain of plasmid pMV158: thermal stability and activity upon Mn2+ and specific DNA binding
Fabián Lorenzo-Díaz1, Lubomir Dostál, Miquel Coll
1Centro de Investigaciones Biológicas, CSIC, Ramiro de Maeztu 9, 28040 Madrid, Spain.
Abstract:
Protein MobM, the relaxase involved in conjugative transfer of the streptococcal plasmid pMV158, is the prototype of the MOB(V) superfamily of relaxases. To characterize the DNA-binding and nicking domain of MobM, a truncated version of the protein (MobMN199) encompassing its N-terminal region was designed and the protein was purified. MobMN199 was monomeric in contrast to the dimeric form of the full-length protein, but it kept its nicking activity on pMV158 DNA. The optimal relaxase activity was dependent on Mn(2+) or Mg(2+) cations in a dosage-dependent manner. However, whereas Mn(2+) strongly stabilized MobMN199 against thermal denaturation, no protective effect was observed for Mg(2+). Furthermore, MobMN199 exhibited a high affinity binding for Mn(2+) but not for Mg(2+). We also examined the binding-specificity and affinity of MobMN199 for several substrates of single-stranded DNA encompassing the pMV158 origin of transfer (oriT). The minimal oriT was delimited to a stretch of 26 nt which included an inverted repeat located eight bases upstream of the nick site. The structure of MobMN199 was strongly stabilized by binding to the defined target DNA, indicating the formation of a tight protein-DNA complex. We demonstrate that the oriT recognition by MobMN199 was highly specific and suggest that this protein most probably employs Mn(2+) during pMV158 transfer.
Insights
The MobM relaxase
Area of Science:
- Molecular Biology
- Biochemistry
- Genetics
Background:
- Streptococcal plasmid pMV158 conjugation relies on the MobM relaxase.
- MobM is the prototype relaxase for the MOB(V) superfamily.
- Understanding MobM's DNA-binding and nicking domains is crucial for plasmid transfer mechanisms.
Purpose of the Study:
- To characterize the DNA-binding and nicking domain of MobM.
- To investigate the role of divalent cations (Mn2+ and Mg2+) in MobM activity.
- To define the minimal origin of transfer (oriT) sequence recognized by MobM.
Main Methods:
- Purification of a truncated MobM protein (MobMN199).
- Assays for nicking activity, thermal denaturation, and cation binding.
- DNA-binding specificity and affinity studies using various single-stranded DNA substrates.
Main Results:
- MobMN199 retained nicking activity and was monomeric.
- Optimal activity required Mn2+ or Mg2+; Mn2+ provided superior stabilization and binding.
- The minimal oriT was defined as a 26-nucleotide sequence containing an inverted repeat near the nick site.
- MobMN199 formed a stable complex with the target oriT DNA.
Conclusions:
- MobM's N-terminal domain possesses DNA-binding and nicking capabilities.
- Manganese ions (Mn2+) are likely essential cofactors for MobM during pMV158 transfer.
- Specific recognition of oriT by MobM is critical for conjugative transfer initiation.
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