Projects funded by the NCN

Information on the principal investigator and host institution

Information of the project and the call

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Identification and comprehensive classification of nucleases including human nucleases

2014/15/B/NZ1/03357

Keywords:

nucleases protein classification protein structure and function prediction distant homology detection novel nucleases human

Descriptors:

  • NZ1_4: Structural biology
  • NZ2_7: Bioinformatics
  • ST6_13: Bioinformatics, biocomputing, DNA and molecular computation

Panel:

NZ1 - Molecular biology, structural biology, biotechnology: molecular biology, structural biology, biotechnology

Host institution :

Uniwersytet Warszawski, Centrum Nowych Technologii Uniwersytetu Warszawskiego

woj. mazowieckie

Other projects carried out by the institution 

Principal investigator (from the host institution):

dr hab. Krzysztof Ginalski 

Number of co-investigators in the project: 5

Call: OPUS 8 - announced on 2014-09-15

Amount awarded: 900 820 PLN

Project start date (Y-m-d): 2015-11-02

Project end date (Y-m-d): 2019-03-22

Project duration:: 36 months (the same as in the proposal)

Project status: Project completed

Information in the final report

  • Publication in academic press/journals (15)
  1. Fungal lifestyle reflected in serine protease repertoire
    Authors:
    Muszewska, A., Stepniewska-Dziubinska, M.M., Steczkiewicz, K., Pawlowska, J., Dziedzic A., Ginalski, K.
    Academic press:
    Scientific Reports (rok: 2017, tom: 7, strony: 9147), Wydawca: Nature Publishing Group
    Status:
    Published
    DOI:
    10.1038/s41598-017-09644-w - link to the publication
  2. Phylogeny-based systematization of Arabidopsis proteins with histone H1 globular domain
    Authors:
    Kotlinski, M., Knizewski, L., Muszewska, A., Rutowicz, K., Lirski, M., Schmidt, A., Baroux, C., Ginalski, K., Jerzmanowski, A.
    Academic press:
    Plant Physiology (rok: 2017, tom: 174, strony: 27-34), Wydawca: American Society of Plant Biologists
    Status:
    Published
    DOI:
    10.1104/pp.16.00214 - link to the publication
  3. Ssb1 and Ssb2 cooperate to regulate mouse hematopoietic stem and progenitor cells by resolving replicative stress
    Authors:
    Shi, W., Vu, T., Boucher, D., Biernacka, A., Nde, J., Pandita, R.K., Straube, J., Boyle, G.M., Al-Ejeh, F., Nag, P., Jeffery, J., Harris, J.L., Bain, A.L., Grzelak, M., Skrzypczak, M., Mitra, A., Dojer, N., Crosetto, N., Cloonan, N., Becherel, O.J., Finnie, J., Skaar, J.R., Walkley, C.R., Pandita, T.K., Rowicka, M., Ginalski, K., Lane, S.W., Khanna, K.K.
    Academic press:
    Blood (rok: 2017, tom: 129, strony: 2479-2492), Wydawca: American Society of Hematology
    Status:
    Published
    DOI:
    10.1182/blood-2016-06-725093 - link to the publication
  4. Structural, biochemical, and evolutionary characterization of glyoxylate/hydroxypyruvate reductases shows their division into two distinct subfamilies
    Authors:
    Kutner, J., Shabalin, I.G., Matelska, D., Handing, K.B., Gasiorowska, O., Sroka, P., Gorna, M.W., Ginalski, K., Wozniak, K., Minor, W.
    Academic press:
    Biochemistry (rok: 2018, tom: 57, strony: 963-977), Wydawca: American Chemical Society
    Status:
    Published
    DOI:
    10.1021/acs.biochem.7b01137 - link to the publication
  5. Systematic classification of the His-Me finger superfamily
    Authors:
    Jablonska, J., Matelska, D., Steczkiewicz, K., Ginalski, K.
    Academic press:
    Nucleic Acids Research (rok: 2017, tom: 45, strony: 11479-11494), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gkx924 - link to the publication
  6. Biochemical and structural bioinformatics studies of fungal CutA nucleotidyltransferases explain their unusual specificity towards CTP and increased tendency for cytidine incorporation at the 3'-terminal positions of synthesized tails
    Authors:
    Kobylecki, K., Kuchta, K., Dziembowski, A., Ginalski, K., Tomecki, R.
    Academic press:
    RNA (rok: 2017, tom: 23, strony: 1902-1926), Wydawca: Cold Spring Harbor Laboratory Press
    Status:
    Published
    DOI:
    10.117 - link to the publication
  7. Comparative genomic analysis of Staphylococcus lugdunensis shows a closed pan-genome and multiple barriers to horizontal gene transfer
    Authors:
    Argemi, X., Matelska, D., Ginalski, K., Riegel, P., Hansmann, Y., Bloom, J., Pestel-Caron, M., Dahyot, S., Lebeurre, J., Prevost, G.
    Academic press:
    BMC Genomics (rok: 2018, tom: 19, strony: 621), Wydawca: BioMed Central
    Status:
    Published
    DOI:
    10.1186/s12864-018-4978-1 - link to the publication
  8. FAM46 proteins are novel eukaryotic non-canonical poly(A) polymerases
    Authors:
    Kuchta, K., Muszewska, A., Knizewski, L., Steczkiewicz, K., Wyrwicz, L.S., Pawlowski, K., Rychlewski, L., Ginalski, K.
    Academic press:
    Nucleic Acids Research (rok: 2016, tom: 44, strony: 3534-3548), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gkw222 - link to the publication
  9. Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase
    Authors:
    Matelska, D., Shabalin, I.G., Jablonska, J., Domagalski, M.J., Kutner, J., Ginalski, K., Minor, W.
    Academic press:
    BMC Evolutionary Biology (rok: 2018, tom: 18, strony: 199), Wydawca: BioMed Central
    Status:
    Published
    DOI:
    10.1186/s12862-018-1309-8 - link to the publication
  10. Diverse cap-binding properties of Drosophila eIF4E isoforms
    Authors:
    Zuberek, J., Kuchta, K., Hermandez, G., Sonenberg, N., Ginalski, K.
    Academic press:
    Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics (rok: 2016, tom: 1864, strony: 1292-1303), Wydawca: Elsevier
    Status:
    Published
    DOI:
    10.1016/j.bbapap.2016.06.015 - link to the publication
  11. Predicting proteome dynamics using gene expression data
    Authors:
    Kuchta, K., Towpik, J., Biernacka, A., Kutner, J., Kudlicki, A., Ginalski, K., Rowicka, M.
    Academic press:
    Scientific Reports (rok: 2018, tom: 8, strony: 13866), Wydawca: Nature Publishing Group
    Status:
    Published
    DOI:
    10.1038/s41598-018-31752-4 - link to the publication
  12. Towards engineering novel PE-based immunotoxins by targeting them to the nucleus
    Authors:
    Borowiec, M., Gorzkiewicz, M., Grzesik, J., Walczak-Drzewiecka, A., Salkowska, A., Rodakowska, E., Steczkiewicz, K., Rychlewski, L., Dastych, J., Ginalski, K.
    Academic press:
    Toxins (rok: 2016, tom: 8, strony: E321), Wydawca: Multidisciplinary Digital Publishing Institute
    Status:
    Published
    DOI:
    10.3390/toxins8110321 - link to the publication
  13. Comprehensive classification of the PIN domain-like superfamily
    Authors:
    Matelska, D., Steczkiewicz, K., Ginalski, K.
    Academic press:
    Nucleic Acids Research (rok: 2017, tom: 45, strony: 6995-7020), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gkx494 - link to the publication
  14. Cut-and-paste transposons in fungi with diverse lifestyles
    Authors:
    Muszewska, A., Steczkiewicz, K., Stepniewska-Dziubinska, M., Ginalski, K.
    Academic press:
    Genome Biology and Evolution (rok: 2017, tom: 9, strony: 3463-3477), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/gbe/evx261 - link to the publication
  15. Genome-wide co-localization of active EGFR and downstream ERK pathway kinases mirrors mitogen-inducible RNA polymerase 2 genomic occupancy
    Authors:
    Mikula, M., Skrzypczak, M., Goryca, K., Paczkowska, K., Ledwon, J.K., Statkiewicz, M., Kulecka, M., Grzelak, M., Dabrowska, M., Kuklinska, U., Karczmarski, J., Rumienczyk, I., Jastrzebski, K., Miaczynska, M., Ginalski, K., Bomsztyk, K., Ostrowski, J.
    Academic press:
    Nucleic Acids Research (rok: 2016, tom: 44, strony: 10150-10164), Wydawca: Oxford University Press
    Status:
    Published
    DOI:
    10.1093/nar/gkw763 - link to the publication

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