Characterization of PRMT 1 from Plasmodium falciparum

Arginine methylation is a post-translational modification that affects many cellular processes in eukaryotes. The malaria parasite Plasmodium falciparum encodes three conserved PRMTs (protein arginine N-methyltransferases). We have determined that PfPRMT1 (P. falciparum PRMT1) has authentic type I PRMT activity to form monomethylarginines and asymmetric dimethylarginines. Compared with mammalian PRMT1s, PfPRMT1 possesses a distinctive N-terminal sequence that is ∼50 amino acids longer and is essential for enzyme activity. Recombinant PfPRMT1 methylated histones H4 and H2A and several conserved substrates involved in RNA metabolism, including fibrillarin, poly(A)-binding protein II, ribosomal protein S2 and a putative splicing factor. Using synthetic peptides and MS, we determined target arginines in several substrates and studied the enzyme kinetics. Whereas the kinetic parameters of recombinant PfPRMT1 on an H4 peptide and S-adenosylmethionine were similar to those of mammalian PRMT1s, PfPRMT1 had much higher substrate-turnover rates. In the histone H4 N-terminus, PfPRMT1 could methylate only Arg, a mark for transcription activation. Western blotting detected dynamic dimethylation of H4-Arg during parasite development, suggesting that histonearginine methylation may play a conserved role in chromatinmediated gene regulation. Consistent with the presence of potential substrates in both the cytoplasm and nucleus, green fluorescent protein-tagged PfPRMT1 and untagged PfPRMT1 were localized in both cellular compartments, with the majority in the cytoplasm. In vitro assays showed that PfPRMT1 could be inhibited by several small-molecule inhibitors, with IC50values in the sub-micromolar range. Most of these compounds also effectively inhibited parasite growth, suggesting that parasite PRMTs are promising targets for developing antiparasitic drugs.

[1]  Christopher J. Tonkin,et al.  Localization of organellar proteins in Plasmodium falciparum using a novel set of transfection vectors and a new immunofluorescence fixation method. , 2004, Molecular and biochemical parasitology.

[2]  M. Madan Babu,et al.  Discovery of the principal specific transcription factors of Apicomplexa and their implication for the evolution of the AP2-integrase DNA binding domains , 2005, Nucleic acids research.

[3]  H. Gehring,et al.  Protein arginine methylation: Cellular functions and methods of analysis. , 2006, Biochimica et biophysica acta.

[4]  Pamela A. Silver,et al.  State of the Arg Protein Methylation at Arginine Comes of Age , 2001, Cell.

[5]  V. Rosário Cloning of naturally occurring mixed infections of malaria parasites. , 1981, Science.

[6]  S. Clarke,et al.  RNA and protein interactions modulated by protein arginine methylation. , 1998, Progress in nucleic acid research and molecular biology.

[7]  D. Fidock,et al.  Transformation with human dihydrofolate reductase renders malaria parasites insensitive to WR99210 but does not affect the intrinsic activity of proguanil. , 1997, Proceedings of the National Academy of Sciences of the United States of America.

[8]  Joan M Hevel,et al.  Substrate profiling of PRMT1 reveals amino acid sequences that extend beyond the "RGG" paradigm. , 2008, Biochemistry.

[9]  Randall W King,et al.  Small Molecule Regulators of Protein Arginine Methyltransferases* , 2004, Journal of Biological Chemistry.

[10]  Thanat Chookajorn,et al.  Epigenetic memory at malaria virulence genes , 2007, Proceedings of the National Academy of Sciences.

[11]  X. Su,et al.  Histone Acetyltransferase Inhibitor Anacardic Acid Causes Changes in Global Gene Expression during In Vitro Plasmodium falciparum Development , 2008, Eukaryotic Cell.

[12]  S. Clarke,et al.  Evolutionarily Divergent Type II Protein Arginine Methyltransferase in Trypanosoma brucei , 2007, Eukaryotic Cell.

[13]  M. Person,et al.  Ribosomal protein S2 is a substrate for mammalian PRMT3 (protein arginine methyltransferase 3). , 2005, The Biochemical journal.

[14]  Jun Miao,et al.  PfGCN5-Mediated Histone H3 Acetylation Plays a Key Role in Gene Expression in Plasmodium falciparum , 2007, Eukaryotic Cell.

[15]  L. Aravind,et al.  Plasmodium Biology Genomic Gleanings , 2003, Cell.

[16]  Gabriele Varani,et al.  The structure and function of small nucleolar ribonucleoproteins , 2007, Nucleic acids research.

[17]  T. Kouzarides,et al.  Methylation at arginine 17 of histone H3 is linked to gene activation , 2002, EMBO reports.

[18]  Sharmistha Pal,et al.  Interplay between chromatin remodelers and protein arginine methyltransferases , 2007, Journal of cellular physiology.

[19]  M. Lai,et al.  Homotypic interaction and multimerization of hepatitis C virus core protein. , 1996, Virology.

[20]  Aaron T. Smith,et al.  Histone-Modifying Complexes Regulate Gene Expression Pertinent to the Differentiation of the Protozoan Parasite Toxoplasma gondii , 2005, Molecular and Cellular Biology.

[21]  Bradley I. Coleman,et al.  Transcriptional control and gene silencing in Plasmodium falciparum , 2008, Cellular microbiology.

[22]  A. Jacobson,et al.  Poly(A)-binding proteins: multifunctional scaffolds for the post-transcriptional control of gene expression , 2003, Genome Biology.

[23]  Karine Prat,et al.  Prediction of the general transcription factors associated with RNA polymerase II in Plasmodium falciparum: conserved features and differences relative to other eukaryotes , 2005, BMC Genomics.

[24]  Xiaodong Cheng,et al.  Crystal structure of the conserved core of protein arginine methyltransferase PRMT3 , 2000, The EMBO journal.

[25]  Axel Imhof,et al.  Identification of a specific inhibitor of the histone methyltransferase SU(VAR)3-9 , 2005, Nature chemical biology.

[26]  W. Trager,et al.  Human malaria parasites in continuous culture. , 1976, Science.

[27]  Mark T Bedford,et al.  Arginine methylation an emerging regulator of protein function. , 2005, Molecular cell.

[28]  Andrew R. Gehrke,et al.  Specific DNA-binding by Apicomplexan AP2 transcription factors , 2008, Proceedings of the National Academy of Sciences.

[29]  Xing Zhang,et al.  Structure of the predominant protein arginine methyltransferase PRMT1 and analysis of its binding to substrate peptides. , 2003, Structure.

[30]  L. Cui,et al.  The malaria parasite Plasmodium falciparum histones: organization, expression, and acetylation. , 2006, Gene.

[31]  P. Silver,et al.  PRMT3 is a ribosomal protein methyltransferase that affects the cellular levels of ribosomal subunits , 2004, The EMBO journal.

[32]  Won-Kyung Cho,et al.  PRMT5, Which Forms Distinct Homo-oligomers, Is a Member of the Protein-arginine Methyltransferase Family* , 2001, The Journal of Biological Chemistry.

[33]  A. Perreault,et al.  Regulation of the Nuclear Poly(A)-binding Protein by Arginine Methylation in Fission Yeast* , 2007, Journal of Biological Chemistry.

[34]  T. Wellems,et al.  Transformation of malaria parasites by the spontaneous uptake and expression of DNA from human erythrocytes. , 2001, Nucleic acids research.

[35]  C. D. Krause,et al.  Protein arginine methyltransferases: evolution and assessment of their pharmacological and therapeutic potential. , 2007, Pharmacology & therapeutics.

[36]  E. Wahle,et al.  Unusual Sites of Arginine Methylation in Poly(A)-binding Protein II and in Vitro Methylation by Protein Arginine Methyltransferases PRMT1 and PRMT3* , 1999, The Journal of Biological Chemistry.

[37]  Sharmistha Pal,et al.  Human SWI/SNF-Associated PRMT5 Methylates Histone H3 Arginine 8 and Negatively Regulates Expression of ST7 and NM23 Tumor Suppressor Genes , 2004, Molecular and Cellular Biology.

[38]  C. Allis,et al.  Histone arginine methylation and its dynamic regulation. , 2006, Frontiers in bioscience : a journal and virtual library.

[39]  Jiangkai Lin,et al.  Effect of vimentin on reactive gliosis: in vitro and in vivo analysis. , 2004, Journal of neurotrauma.

[40]  C. Allis,et al.  Methylation of Histone H4 at Arginine 3 Facilitating Transcriptional Activation by Nuclear Hormone Receptor , 2001, Science.

[41]  Rangeetha J Naik,et al.  DNA organization by the apicoplast-targeted bacterial histone-like protein of Plasmodium falciparum , 2008, Nucleic acids research.

[42]  C. H. Lin,et al.  Protein N-arginine methylation in adenosine dialdehyde-treated lymphoblastoid cells. , 1998, Archives of biochemistry and biophysics.

[43]  R. Roeder,et al.  Ordered Cooperative Functions of PRMT1, p300, and CARM1 in Transcriptional Activation by p53 , 2004, Cell.

[44]  Thanat Chookajorn,et al.  Mutually exclusive var gene expression in the malaria parasite: multiple layers of regulation. , 2008, Trends in parasitology.

[45]  Alisson M. Gontijo,et al.  5′ flanking region of var genes nucleate histone modification patterns linked to phenotypic inheritance of virulence traits in malaria parasites , 2007, Molecular microbiology.

[46]  Brian D. Strahl,et al.  Methylation of histone H4 at arginine 3 occurs in vivo and is mediated by the nuclear receptor coactivator PRMT1 , 2001, Current Biology.

[47]  D. Aswad,et al.  Methylation of histone H3 by coactivator-associated arginine methyltransferase 1. , 2001, Biochemistry.

[48]  D. Aswad,et al.  Peptides with sequences similar to glycine, arginine-rich motifs in proteins interacting with RNA are efficiently recognized by methyltransferase(s) modifying arginine in numerous proteins. , 1993, The Journal of biological chemistry.

[49]  Pamela A. Silver,et al.  The structure and oligomerization of the yeast arginine methyltransferase, Hmt1 , 2000, Nature Structural Biology.

[50]  Qi Fan,et al.  Histone lysine methyltransferases and demethylases in Plasmodium falciparum. , 2008, International journal for parasitology.

[51]  Xing Zhang,et al.  Protein arginine methyltransferase 1: positively charged residues in substrate peptides distal to the site of methylation are important for substrate binding and catalysis. , 2007, Biochemistry.

[52]  Qi Fan,et al.  Characterization of PRMT1 from Plasmodium falciparum. , 2009, The Biochemical journal.