A5030517518- RNA and protein synthesis mechanisms
- Genomics and Chromatin Dynamics
- Plant Molecular Biology Research
- Cancer-related gene regulation
- Bacterial Genetics and Biotechnology
- Enzyme Structure and Function
- Plant Reproductive Biology
- Polyamine Metabolism and Applications
- Protein Structure and Dynamics
- RNA modifications and cancer
- Bacteriophages and microbial interactions
- Biochemical and Molecular Research
- Cytomegalovirus and herpesvirus research
- Genomics and Phylogenetic Studies
- bioluminescence and chemiluminescence research
- Viral-associated cancers and disorders
- Genetics and Neurodevelopmental Disorders
- Immunodeficiency and Autoimmune Disorders
- Glycosylation and Glycoproteins Research
- Biofuel production and bioconversion
- Microbial Metabolic Engineering and Bioproduction
- Synthesis and Characterization of Heterocyclic Compounds
- Herpesvirus Infections and Treatments
- RNA Research and Splicing
- Chromosomal and Genetic Variations
Institute of Biochemistry and Biophysics, Polish Academy of Sciences
2020
University of Warsaw
2006-2016
In-Q-Tel
2011
Centrum Kopernika Badań Interdyscyplinarnych
2006-2010
BioInfoBank Institute
2009
The Maria Sklodowska-Curie National Research Institute of Oncology
2009
This article presents a comprehensive review of large and highly diverse superfamily nucleotidyltransferase fold proteins by providing global picture about their evolutionary history, sequence-structure diversity fulfilled functional roles. Using top-of-the-line homology detection method combined with transitive searches recognition, we revised the realm these in numerous databases catalogued protein families structures, identified 10 new fold. These include hundreds previously...
Proteins belonging to PD-(D/E)XK phosphodiesterases constitute a functionally diverse superfamily with representatives involved in replication, restriction, DNA repair and tRNA-intron splicing.Their malfunction humans triggers severe diseases, such as Fanconi anemia Xeroderma pigmentosum.To date there have been several attempts identify classify new PD-(D/E)KK using remote homology detection methods.Such efforts are complicated, because the exhibits extreme sequence structural...
Linker (H1) histones play critical roles in chromatin compaction higher eukaryotes. They are also the most variable of histones, with numerous nonallelic variants cooccurring same cell. Plants contain a distinct subclass minor H1 that induced by drought and abscisic acid have been implicated mediating adaptive responses to stress. However, how these facilitate adaptation remains poorly understood. Here, we show single Arabidopsis (Arabidopsis thaliana) stress-inducible variant H1.3 occurs...
FAM46 proteins, encoded in all known animal genomes, belong to the nucleotidyltransferase (NTase) fold superfamily. All four human paralogs (FAM46A, FAM46B, FAM46C, FAM46D) are thought be involved several diseases, with FAM46C reported as a causal driver of multiple myeloma; however, their exact functions remain unknown. By using combination various bioinformatics analyses (e.g. domain architecture, cellular localization) and exhaustive literature database searches expression profiles,...
Abstract Background PD-(D/E)XK nucleases constitute a large and highly diverse superfamily of enzymes that display little sequence similarity despite retaining common core fold few critical active site residues. This makes identification new nuclease families challenging task as they usually escape detection with standard sequence-based methods. We developed modified transitive meta profile search approach to consider the structural diversity more thoroughly we analyzed also lower than...
Methylation is one of the most common chemical modifications biologically active molecules and it occurs in all life forms. Its functional role very diverse involves many essential cellular processes, such as signal transduction, transcriptional control, biosynthesis, metabolism. Here, we provide further insight into enzymatic methylation S. cerevisiae by conducting a comprehensive structural survey methyltransferases encoded its genome. Using distant homology detection fold recognition,...
Linker histones (H1s) are conserved and ubiquitous structural components of eukaryotic chromatin. Multiple non-allelic variants H1, which differ in their DNA/nucleosome binding properties, co-exist animal plant cells have been implicated the control genetic programs during development differentiation. Studies mammals Drosophila revealed diverse post-translational modifications H1s, most unknown function. So far, it is not known how this pattern compares with that H1s from other major...
H1 (or linker) histones are basic nuclear proteins that possess an evolutionarily conserved nucleosome-binding globular domain, GH1. They perform critical functions in determining the accessibility of chromatin DNA to trans-acting factors. In most metazoan species studied so far, linker highly heterogenous, with numerous nonallelic variants cooccurring same cells. The phylogenetic relationships among these as well their structural and functional properties have been relatively established....
ABSTRACT Using Meta-BASIC, a highly sensitive method for detection of distant similarity between proteins, we have identified another potential PD-(D/E)XK endonuclease in human herpesvirus 1 (HHV-1) encoded by the UL24 gene. The universal presence completed herpesviral genomes three major subfamilies, Alphaherpesvirinae , Betaherpesvirinae and Gammaherpesvirinae suggests fundamental role this predicted activity viral life cycle.
Ni(ii) ions are able to hydrolyze Naa-(Ser/Thr) peptide bonds in Naa-(Ser/Thr)-Xaa-His-Zaa sequences. We found that various human transcription factors contain such nickel hydrolytic patterns within C2H2 zinc finger (ZF) domains. demonstrated the hydrolysis on two models, 3rd ZF of Sp1 factor and 1st ZNF302 factor. The experimentally studied reaction rates indicate is likely be an element intracellular toxicity.
Processing of exogenous glycerol esters is an initial step in energy derivation for many bacterial cells. Lipid-rich environments settled by a variety organisms exert strong evolutionary pressure establishing enzymatic pathways involved lipid metabolism. However, certain number enzymes this process remain unknown since they do not share detectable sequence similarity with any known protein domains. Using distant homology detection and fold recognition we predict that transmembrane proteins...
In many cases, at the beginning of a high throughput screening experiment some information about active molecules is already available. Active compounds (such as substrate analogues, natural products and inhibitors related proteins) are often identified in low validation studies on biochemical target. Sometimes additional structural also available from crystallographic protein ligand complexes. addition, or sequence similarity various targets yields novel possibility for drug discovery....