Search Results - "Kasprzak, Joanna M."

The architecture of the Schizosaccharomyces pombe CCR4-NOT complex by Ukleja, Marta, Cuellar, Jorge, Siwaszek, Aleksandra, Kasprzak, Joanna M., Czarnocki-Cieciura, Mariusz, Bujnicki, Janusz M., Dziembowski, Andrzej, M. Valpuesta, Jose

“…CCR4-NOT is a large protein complex present both in cytoplasm and the nucleus of eukaryotic cells. Although it is involved in a variety of distinct processes…”
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Molecular evolution of dihydrouridine synthases by Kasprzak, Joanna M, Czerwoniec, Anna, Bujnicki, Janusz M

“…Dihydrouridine (D) is a modified base found in conserved positions in the D-loop of tRNA in Bacteria, Eukaryota, and some Archaea. Despite the abundant…”
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Computational modeling of protein–RNA complex structures by Tuszynska, Irina, Matelska, Dorota, Magnus, Marcin, Chojnowski, Grzegorz, Kasprzak, Joanna M., Kozlowski, Lukasz P., Dunin-Horkawicz, Stanislaw, Bujnicki, Janusz M.

“…Protein–RNA interactions play fundamental roles in many biological processes, such as regulation of gene expression, RNA splicing, and protein synthesis. The…”
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Crystal structure of the Escherichia coli 23S rRNA:m5C methyltransferase RlmI (YccW) reveals evolutionary links between RNA modification enzymes by Sunita, S, Tkaczuk, Karolina L, Purta, Elzbieta, Kasprzak, Joanna M, Douthwaite, Stephen, Bujnicki, Janusz M, Sivaraman, J

“…Methylation is the most common RNA modification in the three domains of life. Transfer of the methyl group from S-adenosyl-l-methionine (AdoMet) to specific…”
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Structural and degradative aspects of ornithine decarboxylase antizyme inhibitor 2 by Ramos-Molina, Bruno, Lambertos, Ana, Lopez-Contreras, Andrés J., Kasprzak, Joanna M., Czerwoniec, Anna, Bujnicki, Janusz M., Cremades, Asunción, Peñafiel, Rafael

“…•AZIN2, unlike ornithine decarboxylase, exists as a monomer in solution.•Conserved residues among AZIN2 orthologs are critical for the binding to antizymes…”
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A combined structural and biochemical approach reveals translocation and stalling of UvrB on the DNA lesion as a mechanism of damage verification in bacterial nucleotide excision repair by Jaciuk, Marcin, Swuec, Paolo, Gaur, Vineet, Kasprzak, Joanna M., Renault, Ludovic, Dobrychłop, Mateusz, Nirwal, Shivlee, Bujnicki, Janusz M., Costa, Alessandro, Nowotny, Marcin

“…•Computational structural model of UvrA—UvrB—DNA complex involved in DNA damage verification in bacterial DNA repair was prepared and corroborated…”
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MODOMICS: a database of RNA modification pathways. 2008 update by Czerwoniec, Anna, Dunin-Horkawicz, Stanislaw, Purta, Elzbieta, Kaminska, Katarzyna H, Kasprzak, Joanna M, Bujnicki, Janusz M, Grosjean, Henri, Rother, Kristian

“…MODOMICS, a database devoted to the systems biology of RNA modification, has been subjected to substantial improvements. It provides comprehensive information…”
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Structural and functional insights into tRNA binding and adenosine N1-methylation by an archaeal Trm10 homologue by Van Laer, Bart, Roovers, Martine, Wauters, Lina, Kasprzak, Joanna M, Dyzma, Michal, Deyaert, Egon, Kumar Singh, Ranjan, Feller, André, Bujnicki, Janusz M, Droogmans, Louis, Versées, Wim

“…Purine nucleosides on position 9 of eukaryal and archaeal tRNAs are frequently modified in vivo by the post-transcriptional addition of a methyl group on their…”
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Structure and intrinsic disorder of the proteins of the Trypanosoma brucei editosome by Czerwoniec, Anna, Kasprzak, Joanna M., Bytner, Patrycja, Dobrychłop, Mateusz, Bujnicki, Janusz M.

“…•We predicted intrinsically disordered regions in T. brucei editosome proteins.•We constructed structural models of editosome proteins.•We identified about 30%…”
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RNA 3D Structure Modeling by Combination of Template-Based Method ModeRNA, Template-Free Folding with SimRNA, and Refinement with QRNAS by Piatkowski, Pawel, Kasprzak, Joanna M, Kumar, Deepak, Magnus, Marcin, Chojnowski, Grzegorz, Bujnicki, Janusz M

“…RNA encompasses an essential part of all known forms of life. The functions of many RNA molecules are dependent on their ability to form complex…”
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The OB-fold proteins of the Trypanosoma brucei editosome execute RNA-chaperone activity by Voigt, Christin, Dobrychłop, Mateusz, Kruse, Elisabeth, Czerwoniec, Anna, Kasprzak, Joanna M, Bytner, Patrycja, Campo, Cristian Del, Leeder, W-Matthias, Bujnicki, Janusz M, Göringer, H Ulrich

“…Abstract Sequence-deficient mitochondrial pre-mRNAs in African trypanosomes are substrates of a U-nucleotide-specific RNA editing reaction to generate…”
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Modeling of Protein-RNA Complex Structures Using Computational Docking Methods by Madan, Bharat, Kasprzak, Joanna M, Tuszynska, Irina, Magnus, Marcin, Szczepaniak, Krzysztof, Dawson, Wayne K, Bujnicki, Janusz M

“…A significant part of biology involves the formation of RNA-protein complexes. X-ray crystallography has added a few solved RNA-protein complexes to the…”
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Virtual screening strategies in drug design – methods and applications by Bielska, Ewa, Lucas, Xavier, Czerwoniec, Anna, M. Kasprzak, Joanna, H. Kaminska, Katarzyna, M. Bujnicki, Janusz

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Crystal structure of a fructokinase homolog from Halothermothrix orenii by Chua, Teck Khiang, Seetharaman, J., Kasprzak, Joanna M., Ng, Cherlyn, Patel, Bharat K.C., Love, Christopher, Bujnicki, Janusz M., Sivaraman, J.

“…Fructokinase (FRK; EC 2.7.1.4) catalyzes the phosphorylation of d-fructose to d-fructose 6-phosphate (F6P). This irreversible and near rate-limiting step is a…”
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Structure and intrinsic disorder of the proteins of theTrypanosoma brucei editosome by Czerwoniec, Anna, Kasprzak, Joanna M., Bytner, Patrycja, Dobrychłop, Mateusz, Bujnicki, Janusz M.

“…Mitochondrial pre‐mRNAs in trypanosomatids undergo RNA editing to be converted into translatable mRNAs. The reaction is characterized by the insertion and…”
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YbeA is the m3Ψ methyltransferase RlmH that targets nucleotide 1915 in 23S rRNA by Purta, Elzbieta, Kaminska, Katarzyna H., Kasprzak, Joanna M., Bujnicki, Janusz M., Douthwaite, Stephen

“…Pseudouridines in the stable RNAs of Bacteria are seldom subjected to further modification. There are 11 pseudouridine (Ψ) sites in Escherichia coli rRNA, and…”
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YbeA is the m 3 Ψ methyltransferase RlmH that targets nucleotide 1915 in 23S rRNA by Purta, Elzbieta, Kaminska, Katarzyna H., Kasprzak, Joanna M., Bujnicki, Janusz M., Douthwaite, Stephen

“…Pseudouridines in the stable RNAs of Bacteria are seldom subjected to further modification. There are 11 pseudouridine (Ψ) sites in Escherichia coli rRNA, and…”
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Crystal Structure of the Escherichia coli 23S rRNA:m 5C Methyltransferase RlmI (YccW) Reveals Evolutionary Links between RNA Modification Enzymes by Sunita, S., Tkaczuk, Karolina L., Purta, Elzbieta, Kasprzak, Joanna M., Douthwaite, Stephen, Bujnicki, Janusz M., Sivaraman, J.

“…Methylation is the most common RNA modification in the three domains of life. Transfer of the methyl group from S-adenosyl- l-methionine (AdoMet) to specific…”
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YbeA is the m3Psi methyltransferase RlmH that targets nucleotide 1915 in 23S rRNA by Purta, Elzbieta, Kaminska, Katarzyna H, Kasprzak, Joanna M, Bujnicki, Janusz M, Douthwaite, Stephen

“…Pseudouridines in the stable RNAs of Bacteria are seldom subjected to further modification. There are 11 pseudouridine (Psi) sites in Escherichia coli rRNA,…”
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