Article Details


Analysis of DNA Damage-Binding Proteins (DDBs) in Arabidopsis thalian a and their Protection of the Plant from UV Radiation

[ Vol. 14 , Issue. 2 ]

Author(s):

Mohamed Ragab Abdel Gawwad, Aida Kadunic, Muhamed Adilović, Aida Hamzi Kaljanac and Aida Maric   Pages 146 - 156 ( 11 )

Abstract:


Objectives: Due to the complexity of DNA-Repair Mechanisms in Plants, this work will give more insights to better understanding the dark DNA-repair mechanism through the interactome analysis of DDBs proteins in plants.

Method: Bioinformatics tools had been used in this work to analyses DNA Damage-Binding proteins; MSA, Phylogenetic tree construction, 3-D structure prediction, Domain analysis, subcellular localization prediction, Interactome analysis and docking sites.

Result: DDB1a and DDB1b are closely related, while DDB2 protein is on the other branch, which further confirms our previous results about the homology present between proteins DDB1a and DDB1b. We found two domains of AtDDB1a and AtDDB1b. These are MMS1_N and CPSF_A; 464 and 314 amino acids long, respectively. AtDDB2 was identified with ten domains – two zinc fingers and five WD40 domains with three simple regions interspersed between them. DDB1a and DDB1b interact with much more proteins when compared to DDB2. In fact, DDB2 shows only 3 high confidence interactions, two of which are with DDB1a and DDB1b. Interesting result is that the only additional protein DDB2 interacts with is CUL4, which is a protein involved in ubiquitination.

Conclusion: This study shed new light to that puzzle through development and analysis of the interactome of DDB proteins. Most importantly, the interaction of E3-ligase-forming complex (AtDDB1 – CUL4 – CSA) was confirmed. This is extremely important since E3-ligase is a key player in DNA repair mechanism. In addition, beside the legendary role of DDBs proteins in DNA-repair mechanism, they play other important roles in negative regulation of abscisic acid ABA and ABA-mediated developmental responses, including inhibition of seed germination, seedling establishment, and root growth.

Keywords:

AtDDB protein, DNA damage, DNA repair mechanism, interactome.

Affiliation:

Genetics and Bioengineering program, Faculty of Engineering and Natural Sciences, International University of Sarajevo, Sarajevo, Genetics and Bioengineering program, Faculty of Engineering and Natural Sciences, International University of Sarajevo, Sarajevo, Genetics and Bioengineering program, Faculty of Engineering and Natural Sciences, International University of Sarajevo, Sarajevo, Genetics and Bioengineering program, Faculty of Engineering and Natural Sciences, International University of Sarajevo, Sarajevo, Genetics and Bioengineering program, Faculty of Engineering and Natural Sciences, International University of Sarajevo, Sarajevo

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