Projects funded by the NCN

Information on the principal investigator and host institution

Information of the project and the call

Keywords

Equipment

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Designer nucleases from a structural and practical point of view

2011/02/A/NZ1/00052

Keywords:

TAL nucleases macromolecular crystallography protein engineering gene targetting Drosophila

Descriptors:

  • NZ1_4: Structural biology
  • NZ1_5: Genetic engineering
  • NZ2_1: Molecular genetics

Panel:

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

Host institution :

Instytut Biochemii i Biofizyki PAN

woj. mazowieckie

Other projects carried out by the institution 

Principal investigator (from the host institution):

prof. Matthias Bochtler 

Number of co-investigators in the project: 6

Call: MAESTRO 1 - announced on 2011-06-15

Amount awarded: 2 500 000 PLN

Project start date (Y-m-d): 2012-05-28

Project end date (Y-m-d): 2017-04-28

Project duration:: 59 months (the same as in the proposal)

Project status: Project settled

Equipment purchased [PL]

  1. MIKROSKOP (8 000 PLN)
  2. WYTRZĄSARKA (3 szt.) (100 000 PLN)
  3. APARAT DO ELEKTROFOREZY BIAŁEK z ZASILACZEM (2 szt.) (10 000 PLN)
  4. Rotor z pokrywą (8 815 PLN)
  5. TERMOCYKLER 96 dołkowy (16 000 PLN)
  6. APARAT DO ELEKTROFOREZY PIONOWEJ (2 szt.) (10 000 PLN)
  7. MIKROINIEKROR + MIKROMANIPULATOR (200 000 PLN)
  8. WIRÓWKA laboratoryjna (2 szt.) (15 000 PLN)
  9. FPLC - system do oczyszczania białek (229 044 PLN)
  10. TERMOMIKSER (11 000 PLN)
  11. WYCIĄGARKA do SZKLANYCH IGIEŁ i formowania mikropipet (30 000 PLN)

Information in the final report

  • Publication in academic press/journals (17)
  1. Activity and structure of EcoKMcrA
    Authors:
    Czapinska H, Kowalska M, Zagorskaite E, Manakova E, Slyvka A, Xu SY, SiksnysV, Sasnauskas G, Bochtler M
    Academic press:
    Nucleic Acids Research (rok: 2018, tom: 46, strony: 9829-9841), Wydawca: Oxford Journals
    Status:
    Published
    DOI:
    10.1093/nar/gky731 - link to the publication
  2. Crystal Structure and Directed Evolution of Specificity of NlaIV RestrictionEndonuclease.
    Authors:
    Czapinska H, Siwek W, Szczepanowski RH, Bujnicki JM, Bochtler M, Skowronek KJ
    Academic press:
    J Mol Biol (rok: 2019, tom: -, strony: -), Wydawca: Elsevier Ltd.
    Status:
    Published
    DOI:
    10. - link to the publication
  3. Crystal structure of the 5hmC specific endonuclease PvuRts1I
    Authors:
    Kazrani AA, Kowalska M, Czapinska H, Bochtler M
    Academic press:
    Nucleic Acids Research (rok: 2014, tom: 42, strony: 5929-36), Wydawca: Oxford Journals
    Status:
    Published
    DOI:
    10.1093/nar/gku186 - link to the publication
  4. The Y. bercovieri Anbu crystal structure sheds light on the evolution of highly (pseudo)symmetric multimers.
    Authors:
    Piasecka A, Czapinska H, Vielberg MT, Szczepanowski RH, Kiefersauer R, Reed S, Groll M, Bochtler M
    Academic press:
    J Mol Biol (rok: 2018, tom: 430, strony: 611-627), Wydawca: Elsevier Ltd.
    Status:
    Published
    DOI:
    10.1016/j.jmb.2017.11.016 - link to the publication
  5. Type III CRISPR complexes from Thermus thermophilus.
    Authors:
    Szychowska M, Siwek W, Pawolski D, Kazrani AA, Pyrc K, Bochtler M
    Academic press:
    Acta Biochimica Polonica (rok: 2016, tom: 63(2), strony: 377–386), Wydawca: Polskie Towarzystwo Biochemiczne i Komitet Biochemii i Biofizyki PAN
    Status:
    Published
    DOI:
    10.18388/abp.2016_1261 - link to the publication
  6. Crystal structure of themodification-dependent SRA-HNH endonuclease TagI
    Authors:
    Kisiala M, Copelas A, Czapinska H, Xu SY, Bochtler M
    Academic press:
    Nucleic Acids Research (rok: 2018, tom: 46, strony: 9829-41), Wydawca: Oxford Journals
    Status:
    Published
    DOI:
    10.1093/nar/gky781 - link to the publication
  7. DNA demethylation pathways: Additional players and regulators.
    Authors:
    Bochtler M, Kolano A, Xu GL
    Academic press:
    Bioessays (rok: 2017, tom: 39, strony: 45304), Wydawca: WILEY Periodicals, Inc.
    Status:
    Published
    DOI:
    10.1002/bies.201600178 - link to the publication
  8. Nei-like 1 (NEIL1) excises 5-carboxylcytosine directly and stimulates TDG-mediated 5-formyl and 5-carboxylcytosine excision.
    Authors:
    Slyvka A, Mierzejewska K, Bochtler M.
    Academic press:
    Scientific Reports (rok: 2017, tom: 21, strony: 9001), Wydawca: Nature Publishing Group
    Status:
    Published
    DOI:
    10.1038/s41598-017-07458-4 - link to the publication
  9. Structural basis of the TAL effector-DNA interaction.
    Authors:
    Bochtler M
    Academic press:
    Biological Chemistry (rok: 2012, tom: Oct;393(10), strony: 1055-66), Wydawca: W. de Gruyter
    Status:
    Published
    DOI:
    10.1515/hsz-2012-0164 - link to the publication
  10. Structural basis of the methylation specificity of R.DpnI
    Authors:
    Mierzejewska K, Siwek W, Czapinska H, Kaus-Drobek M, Radlinska M, Skowronek K, Bujnicki JM, Dadlez M, Bochtler M
    Academic press:
    Nucleic Acids Research (rok: 2014, tom: 42, strony: 8745-54), Wydawca: Oxford Journals
    Status:
    Published
    DOI:
    10.1093/nar/gku546 - link to the publication
  11. A TALE-inspired computational screen for proteins that contain approximate tandem repeats
    Authors:
    Perycz M, Krwawicz J, Bochtler M
    Academic press:
    PLoS One (rok: 2017, tom: 12(6), strony: not yet), Wydawca: PUBLIC LIBRARY SCIENCE
    Status:
    Published
    DOI:
    10.1371/journal.pone.0179173 - link to the publication
  12. Haloferax volcanii UbaA, catalytic engine for sampylation and sulfur transfer.
    Authors:
    Bochtler M, Piasecka A.
    Academic press:
    FEBS J (rok: 2016, tom: 283, strony: 3563-66), Wydawca: John Wiley & Sons Ltd
    Status:
    Published
    DOI:
    10.1111/febs.13826 - link to the publication
  13. The Bacteroidetes Q-Rule: Pyroglutamate in Signal Peptidase I Substrates
    Authors:
    Bochtler M, Mizgalska D, Veillard F, Nowak ML, Houston J, Veith P, ReynoldsEC, Potempa J
    Academic press:
    Front Microbiol. (rok: 2018, tom: 9, strony: 230), Wydawca: Front Microbiol.
    Status:
    Published
    DOI:
    10.3389/fmicb.2018.00230 - link to the publication
  14. Type II and type V CRISPR effector nucleases from a structural biologist's perspective.
    Authors:
    Fernandes H, Pastor M, Bochtler M
    Academic press:
    Postępy Biochemii (rok: 2016, tom: 62(3), strony: 315-326), Wydawca: Polskie Towarzystwo Biochemiczne, Zarząd Główny
    Status:
    Published
    DOI:
    brak - link to the publication
  15. On the role of steric clashes in methylation control of restriction endonuclease activity.
    Authors:
    Mierzejewska K, Bochtler M, Czapinska H
    Academic press:
    Nucleic Acids Research (rok: 2016, tom: 44, strony: 485-95), Wydawca: Oxford Journals
    Status:
    Published
    DOI:
    10.1093/nar/gkv1341 - link to the publication
  16. Unique mechanism of target recognition by PfoI restrictionendonuclease of the CCGG-family.
    Authors:
    Tamulaitiene G, Manakova E, Jovaisaite V, Tamulaitis G, Grazulis S, BochtlerM, Siksnys V
    Academic press:
    Nucleic Acids Research (rok: 2019, tom: 47, strony: 997-1010), Wydawca: Oxford Journals
    Status:
    Published
    DOI:
    10.1093/nar/gky1137 - link to the publication
  17. Indirect DNA Sequence Readout by LAGLIDADG Homing Endonucleases.
    Authors:
    Bochtler M
    Academic press:
    Structure (rok: 2016, tom: 24(6), strony: 839-840), Wydawca: CellPress
    Status:
    Published
    DOI:
    10.1016/j.str.2016.05.008 - link to the publication

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