LABORATORIUM METABOLIZMU BIAŁEK

Pathogen threat proximity shapes host extracellular vesicle production in pre-infection response
Kołodziejska, K., Szczepańska A., Pujol N., Pokrzywa, W. & Turek M.
bioRxiv
doi: 10.1101/2024.11.18.624080

HSP70 inhibits CHIP E3 ligase activity to maintain germline function in Caenorhabditis elegans
Thapa, P., Chikale, R.V.^†, Szulc, N.A.^†, Pandrea, M-T., Sztyler, A., Jaggi, K., Niklewicz, M., Serwa, R. A., Hoppe, T., & Pokrzywa, W.*
Journal of Biological Chemistry
doi: 10.1016/j.jbc.2024.107864

Optogenetic induction of mechanical muscle stress identifies myosin regulatory ubiquitin ligase NHL-1 in C. elegans
Kutzner, C.E., Bauer, K.C., Lackmann, JW., Acton R.J., Sarkar A., Pokrzywa W. & Hoppe T.
Nature Communications
doi: 10.1038/s41467-024-51069-3

Floxuridine supports UPS independent of germline signaling and proteostasis regulators via involvement of detoxification in C. elegans
Dubey, A. A., Sarkar, A., Milcz, K., Szulc, N. A., Thapa, P., Piechota, M., Serwa, R. A., & Pokrzywa, W.*
PLOS Genetics
doi: 10.1371/journal.pgen.1011371

SARS-CoV-2 inhibitory potential of fish oil-derived 2-pyrone compounds by acquiring linoleic acid binding site on the spike protein
Duragkar, N., Chikhale, R., Piechota, M., Danta, C. C., Gandhale, P., Itankar, P., Chikhale, S., Gurav, N., Khan, M. S., Pokrzywa, W., Thapa, P., Bryce, R., & Gurav, S.*
International Journal of Biological Macromolecules
doi: 10.1016/j.ijbiomac.2024.133634

DEGRONOPEDIA: a web server for proteome-wide inspection of degrons
Szulc N.A.*, Stefaniak F., Piechota M., Soszyńska A., Piórkowska G., Cappannini A., Bujnicki J.M., Maniaci C., & Pokrzywa W.*
Nucleic Acids Research
doi: 10.1093/nar/gkae238

Pheromone-based communication influences the production of somatic extracellular vesicles in C. elegans
Szczepańska A^† ., Olek K.^† , Kołodziejska K., Yu J., Tudu Ibrahim A., Adamkiewicz L., Schroeder F.C., Pokrzywa W.* & Turek M.*
Nature Communications
doi: 10.1038/s41467-024-47016-x

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pogrubienie - pracownik Laboratorium Metabolizmu Białek
* autor korespondencyjny
^† równy wkład

SAM, SAH and C. elegans longevity: insights from a partial AHCY deficiency model
Thapa P, Olek K., Kowalska A., Serwa R.A, & Pokrzywa W.*
npj Aging
doi: 10.1038/s41514-023-00125-1 

Lysine deserts and cullin-RING ligase receptors: Navigating untrodden paths in proteostasis
Szulc N.A.*, Piechota M., Biriczova L., Thapa P., & Pokrzywa W.*
iScience
doi: 10.1016/j.isci.2023.108344 

Sterility-Independent Enhancement of Proteasome Function via Floxuridine-Triggered Detoxification in C. elegans
Dubey A.A., Szulc N.A., Piechota M., Serwa R.A. & Pokrzywa W.*
bioRxiv
doi: 10.1101/2023.11.11.566706 

Structural Interaction Fingerprints and Machine Learning for predicting and explaining binding of small molecule ligands to RNA
Szulc N.A.*, Mackiewicz Z., Bujnicki J.M.* & Stefaniak F.*
Briefings in Bioinformatics
doi: 10.1093/bib/bbad187 

In silico analysis of the profilaggrin sequence indicates alterations in the stability, degradation route, and intracellular protein fate in filaggrin null mutation carriers
Paul A.A.^†, Szulc N.A.^†, Kobiela A., Brown S.J., Pokrzywa W.* & Owsiak-Gutowska D.*
Frontiers in Molecular Biosciences
doi: 10.3389/fmolb.2023.1105678 

SAH and C. elegans Longevity: Insights from an AHCY Deficiency Model
Thapa P., Banasiak K., Serwa R. & Pokrzywa W.*
Research Square
doi: 10.21203/rs.3.rs-2855835/v1

Impaired iron recycling fr om erythrocytes is an early hallmark of aging
Slusarczyk P., Mandal P.K., Zurawska G., Niklewicz M., Chouhan K., Mahadeva R., Jończy A., Macias M., Szybinska A., Cybulska-Lubak M., Krawczyk O., Herman S., Mikula M., Serwa R., Lenartowicz M., Pokrzywa W. & Mleczko-Sanecka K.
eLife
doi: 10.7554/eLife.79196 

Lysine-deficient proteome can be regulated through non-canonical ubiquitination and ubiquitin-independent proteasomal degradation
Szulc N.A.*, Piechota M., Thapa P., & Pokrzywa W.*
bioRxiv
doi: 10.1101/2023.01.18.524605

Structural Interaction Finrprints and Machine Learning for predicting and explaining binding of small molecule ligands to RNA
Szulc N.A.*, Mackiewicz Z., Bujnicki J.M.* & Stefaniak F.*
bioRxiv
doi: 10.1101/2023.01.11.523582 

Preparation of Caenorhabditis elegans for Scoring of Muscle-derived Exophers
Banasiak K.*, Turek M.* & Pokrzywa W.*
Bio-protocol
doi: 10.21769/BioProtoc.4586 

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pogrubienie - pracownik Laboratorium Metabolizmu Białek
* autor korespondencyjny
^† równy wkład

Pheromone-dependent olfaction bidirectionally regulates muscle extracellular vesicles formation
Banasiak K., Szczepańska A., Kołodziejska K., Tudu Ibrahim A., Pokrzywa W.* & Turek M.*
bioRxiv
doi: 10.1101/2022.12.22.521669 

In silico analysis of the profilaggrin sequence indicates alterations in the stability, degradation route, and intracellular protein fate in filaggrin null mutation carriers
Paul A.A.^†, Szulc N.A.^†, Kobiela A., Brown S.J., Pokrzywa W.* & Owsiak-Gutowska D.*
Research Square
doi: 10.21203/rs.3.rs-2302890/v1

A novel de novo FEM1C variant is linked to neurodevelopmental disorder with absent speech, pyramidal signs, and limb ataxia
Dubey A.A.^†, Krygier M.^†, Szulc N.A.^†, Rutkowska K., Kosinska J., Pollak A., Rydzanicz M., Kmiec T., Mazurkiewicz-Beldzinska M., Pokrzywa W.* & Ploski R.*
Human Molecular Genetics
doi: 10.1093/hmg/ddac276

A dimer-monomer sw itch controls CHIP-dependent substrate ubiquitylation and processing
Balaji V., Müller L., Lorenz R., Kevei E., Zhang W.H., Santiago U., Gebauer J., Llamas E., Vilchez D., Camacho C.J., Pokrzywa W. & Hoppe T.
Molecular Cell
doi: 10.1016/j.molcel.2022.08.003 

Ferritin-mediated iron detoxification promotes hypothermia survival in Caenorhabditis elegans and murine neurons
Pekec T., Lewandowski J., Komur A.A., Sobańska D., Guo Y., Świtońska-Kurkowska K., Małecki J.M., Dubey A.A., Pokrzywa W, Frankowski M., Figiel M. & Ciosk R.
Nature Communications
doi: 10.1038/s41467-022-32500-z 

A heterotypic assembly mechanism regulates CHIP E3 ligase activity
Das, A., Thapa, P., Santiago, U., Shanmugam, N., Banasiak, K., Dabrowska, K., Nolte, H., Szulc, N.A., Gathungu, R. M., Cysewski, D., Krueger, M., Dadlez, M., Nowotny, M., Camacho, C. J., Hoppe, T., & Pokrzywa, W.*
EMBO Journal
doi: 10.15252/embj.2021109566 

fingeRNAt - a novel tool for high-throughput analysis of nucleic acid-ligand interactions
Szulc, N.A.*, Mackiewicz, Z., Bujnicki,* J.M., & Stefaniak F.*
PLOS Computational Biology
doi: 10.1371/journal.pcbi.1009783 

DEGRONOPEDIA - a web server for proteome-wide inspection of degrons
Szulc N.A.*, Stefaniak F., Piechota M., Cappannini A., Bujnicki J.M. & Pokrzywa W.*
bioRxiv
doi: 10.1101/2022.05.19.492622 

CHIP ubiquitin ligase is involved in the nucleolar stress management
Piechota M.*, Biriczova L.^†, Kowalski K.^†, Szulc N.A. & Pokrzywa W.*
bioRxiv
doi: 10.1101/2022.05.17.492288

A novel de novo FEM1C variant is linked to neurodevelopmental disorder with absent speech, pyramidal signs, and limb ataxia
Dubey A.A.^†, Krygier M.^†, Szulc N.A.^†, Rutkowska K., Kosinska J., Pollak A., Rydzanicz M., Kmiec T., Mazurkiewicz-Beldzinska M., Pokrzywa W.* & Ploski R.*
bioRxiv
doi: 10.1101/2022.04.24.489208

Impaired iron recycling from erythrocytes is an early iron-dependent hallmark of aging
Mandal, P. K., Slusarczyk P., Zurawska G., Cybulska M., Krawczyk O., Mikula M., Herman S., Lenartowicz M., Serwa R., Pokrzywa W., & Mleczko-Sanecka K.
bioRxiv
doi: 10.1101/2022.01.16.476518

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pogrubienie - pracownik Laboratorium Metabolizmu Białek
* autor korespondencyjny
^† równy wkład

fingeRNAt - a novel tool for high-throughput analysis of nucleic acid-ligand interactions
Szulc, N.A.*, Mackiewicz, Z., Bujnicki, J.M.*, & Stefaniak F.*
bioRxiv
doi: 10.1101/2021.12.23.474073 

Heterotypic assembly mechanism regulates CHIP E3 ligase activity
Das, A., Thapa, P., Santiago, U., Shanmugam, N., Banasiak, K., Dabrowska, K., Nolte, H., Szulc, N.A., Gathungu, R. M., Cysewski, D., Krueger, M., Dadlez, M., Nowotny, M., Camacho, C. J., Hoppe, T., & Pokrzywa, W.*
bioRxiv
doi: 10.1101/2021.08.20.457118 

Muscle-derived exophers promote reproductive fitness
Turek, M., Banasiak, K., Piechota, M., Shanmugam, N., Macias, M., Śliwińska, M. A., Niklewicz, M., Kowalski, K., Nowak, N., Chacinska, A., & Pokrzywa, W.*
EMBO reports
doi: 10.15252/embr.202052071 

Maintaining proteostasis under mechanical stress
Höhfeld, J., Benzing, T., Bloch, W., Fürst, D.O., Gehlert, S., Hesse, M., Hoffmann, B., Hoppe, T., Huesgen, P.F., Köhn, M., Kolanus, W., Merkel, R., Niessen, C. M., Pokrzywa, W., Rinschen, M.M., Wachten, D., & Warscheid, B.
EMBO reports
doi: 10.15252/embr.202152507 

The dose-dependent pleiotropic effects of the UBB⁺¹ ubiquitin mutant
Banasiak, K., Szulc, N.A., & Pokrzywa, W.*
Frontiers in Molecular Biosciences
doi: 10.3389/fmolb.2021.650730

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pogrubienie - pracownik Laboratorium Metabolizmu Białek
* autor korespondencyjny

The ubiquitin-conjugating enzyme UBE2K determines neurogenic potential through histone H3 in human embryonic stem cells
Fatima, A., Irmak, D., Noormohammadi, A., Rinschen, M.M., Das, A., Leidecker, O., Schindler, C., Sánchez-Gaya, V., Wagle, P., Pokrzywa, W., Hoppe, T., Rada-Iglesias, A., & Vilchez, D.
Communications Biology
doi: 10.1038/s42003-020-0984-3 

Ubiquitin signaling regulates RNA biogenesis, processing, and metabolism
Thapa, P., Shanmugam, N., & Pokrzywa, W.*
BioEssays
doi: 10.1002/bies.201900171

CHIP ubiquitylates NOXA and induces its lysosomal degradation in response to DNA damage
Albert, M.-C., Brinkmann, K., Pokrzywa, W., Günther, S. D., Krönke, M., Hoppe, T., & Kashkar, H.
Cell Death & Disease
doi: 10.1038/s41419-020-02923-x 

Bioshell 3.0: Library for processing structural biology data
Macnar, J.M., Szulc, N.A., Kryś, J.D., Badaczewska-Dawid, A.E., & Gront, D.
Biomolecules
doi: 10.3390/biom10030461 

Pathogenic variants in the myosin chaperone UNC-45B cause progressive myopathy with eccentric cores
Donkervoort, S., Kutzner, C. E., Hu, Y., Lornage, X., Rendu, J., Stojkovic, T., Baets, J., Neuhaus, S.B., Tanboon, J., Maroofian, R., Bolduc, V., Mroczek, M., Conijn, S., Kuntz, N. L., Töpf, A., Monges, S., Lubieniecki, F., McCarty, R. M., Chao, K. R., Governali, S., Böhm, J., Boonyapisit, K., Malfatti, E., Sangruchi, T., Horkayne-Szakaly, I., Hedberg-Oldfors, C., Efthymiou, S., Noguchi, S., Djeddi, S., Iida, A., di Rosa, G., Fiorillo, C., Salpietro, V., Darin, N., Faure, J., Houlden, H., Oldfors, A., Nishino, I., de Ridder, W., Straub, V., Pokrzywa, W., Laporte, J., Foley, R., Romero, N.B., Ottenheijm, C., Hoppe, T., & Bönnemann, C.G.
The American Journal of Human Genetics
doi: 10.1016/j.ajhg.2020.11.002

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pogrubienie - pracownik Laboratorium Metabolizmu Białek
* autor korespondencyjny

Ubiquitylation pathways in insulin signaling and organismal homeostasis
Balaji, V.^†, Pokrzywa, W.^†, & Hoppe, T.
BioEssays
doi: 10.1002/bies.201700223 

The ubiquitin ligase UBR5 suppresses proteostasis collapse in pluripotent stem cells from Huntington’s disease patients
Koyuncu, S., Saez, I., Lee, H. J., Gutierrez-Garcia, R., Pokrzywa, W., Fatima, A., Hoppe, T., & Vilchez, D.
Nature Communications
doi: 10.1038/s41467-018-05320-3

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pogrubienie - pracownik Laboratorium Metabolizmu Białek
^† równy wkład

Chaperone-directed ubiquitylation maintains proteostasis at the expense of longevity
Pokrzywa, W., Lorenz, R., & Hoppe, T.
Worm
doi: 10.1080/21624054.2017.137140 

CHIPped balance of proteostasis and longevity
Pokrzywa, W., & Hoppe, T.
Oncotarget
doi: 10.18632/oncotarget.22101 

Repair or destruction - an intimate liaison between ubiquitin ligases and molecular chaperones in proteostasis
Kevei, É.^†, Pokrzywa, W.^†, & Hoppe, T.
FEBS Letters
doi: 10.1002/1873-3468.12750

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pogrubienie - pracownik Laboratorium Metabolizmu Białek
† równy wkład