Search Results - "Porebski, Przemyslaw J"

CheckMyMetal: a macromolecular metal‐binding validation tool by Zheng, Heping, Cooper, David R., Porebski, Przemyslaw J., Shabalin, Ivan G., Handing, Katarzyna B., Minor, Wladek

“…Metals are essential in many biological processes, and metal ions are modeled in roughly 40% of the macromolecular structures in the Protein Data Bank (PDB)…”
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Structural and immunologic characterization of bovine, horse, and rabbit serum albumins by Majorek, Karolina A., Porebski, Przemyslaw J., Dayal, Arjun, Zimmerman, Matthew D., Jablonska, Kamila, Stewart, Alan J., Chruszcz, Maksymilian, Minor, Wladek

“…► First crystal structures of animal serum albumins from cattle, horse and rabbit. ► Identification of calcium transport sites on bovine albumin. ►…”
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A public database of macromolecular diffraction experiments by Grabowski, Marek, Langner, Karol M., Cymborowski, Marcin, Porebski, Przemyslaw J., Sroka, Piotr, Zheng, Heping, Cooper, David R., Zimmerman, Matthew D., Elsliger, Marc-André, Burley, Stephen K., Minor, Wladek

“…The low reproducibility of published experimental results in many scientific disciplines has recently garnered negative attention in scientific journals and…”
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Automatic recognition of ligands in electron density by machine learning by Kowiel, Marcin, Brzezinski, Dariusz, Porebski, Przemyslaw J, Shabalin, Ivan G, Jaskolski, Mariusz, Minor, Wladek

“…Abstract Motivation The correct identification of ligands in crystal structures of protein complexes is the cornerstone of structure-guided drug design…”
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Testosterone meets albumin - the molecular mechanism of sex hormone transport by serum albumins by Czub, Mateusz P, Venkataramany, Barat S, Majorek, Karolina A, Handing, Katarzyna B, Porebski, Przemyslaw J, Beeram, Sandya R, Suh, Kyungah, Woolfork, Ashley G, Hage, David S, Shabalin, Ivan G, Minor, Wladek

“…Serum albumin is the most abundant protein in mammalian blood plasma and is responsible for the transport of metals, drugs, and various metabolites, including…”
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Alternaria alternata allergen Alt a 1: A unique β-barrel protein dimer found exclusively in fungi by Chruszcz, Maksymilian, PhD, Chapman, Martin D., PhD, Osinski, Tomasz, MSc, Solberg, Robert, MSc, Demas, Matthew, BSc, Porebski, Przemyslaw J., MSc, Majorek, Karolina A., MSc, Pomés, Anna, PhD, Minor, Wladek, PhD

“…Background Alternaria species is one of the most common molds associated with allergic diseases, and 80% of Alternaria species–sensitive patients produce IgE…”
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Molecular Determinants for Antibody Binding on Group 1 House Dust Mite Allergens by Chruszcz, Maksymilian, Pomés, Anna, Glesner, Jill, Vailes, Lisa D., Osinski, Tomasz, Porebski, Przemyslaw J., Majorek, Karolina A., Heymann, Peter W., Platts-Mills, Thomas A.E., Minor, Wladek, Chapman, Martin D.

“…House dust mites produce potent allergens, Der p 1 and Der f 1, that cause allergic sensitization and asthma. Der p 1 and Der f 1 are cysteine proteases that…”
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Molecular basis for phosphospecific recognition of histone H3 tails by Survivin paralogues at inner centromeres by Niedzialkowska, Ewa, Wang, Fangwei, Porebski, Przemyslaw J, Minor, Wladek, Higgins, Jonathan M G, Stukenberg, P Todd

“…Survivin, a subunit of the chromosome passenger complex (CPC), binds the N-terminal tail of histone H3, which is phosphorylated on T3 by Haspin kinase, and…”
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State-of-the-Art Data Management: Improving the Reproducibility, Consistency, and Traceability of Structural Biology and in Vitro Biochemical Experiments by Cooper, David R, Grabowski, Marek, Zimmerman, Matthew D, Porebski, Przemyslaw J, Shabalin, Ivan G, Woinska, Magdalena, Domagalski, Marcin J, Zheng, Heping, Sroka, Piotr, Cymborowski, Marcin, Czub, Mateusz P, Niedzialkowska, Ewa, Venkataramany, Barat S, Osinski, Tomasz, Fratczak, Zbigniew, Bajor, Jacek, Gonera, Juliusz, MacLean, Elizabeth, Wojciechowska, Kamila, Konina, Krzysztof, Wajerowicz, Wojciech, Chruszcz, Maksymilian, Minor, Wladek

“…Efficient and comprehensive data management is an indispensable component of modern scientific research and requires effective tools for all but the most…”
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The Integrated Resource for Reproducibility in Macromolecular Crystallography: Experiences of the first four years by Grabowski, Marek, Cymborowski, Marcin, Porebski, Przemyslaw J., Osinski, Tomasz, Shabalin, Ivan G., Cooper, David R., Minor, Wladek

“…It has been increasingly recognized that preservation and public accessibility of primary experimental data are cornerstones necessary for the reproducibility…”
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Serum albumins—Unusual allergens by Chruszcz, Maksymilian, Mikolajczak, Katarzyna, Mank, Nicholas, Majorek, Karolina A., Porebski, Przemyslaw J., Minor, Wladek

“…Albumins are multifunctional proteins present in the blood serum of animals. They can bind and transport a wide variety of ligands which they accommodate due…”
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Detect, correct, retract: How to manage incorrect structural models by Wlodawer, Alexander, Dauter, Zbigniew, Porebski, Przemyslaw J., Minor, Wladek, Stanfield, Robyn, Jaskolski, Mariusz, Pozharski, Edwin, Weichenberger, Christian X., Rupp, Bernhard

“…The massive technical and computational progress of biomolecular crystallography has generated some adverse side effects. Most crystal structure models,…”
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Structural Analysis of a Putative Aminoglycoside N-Acetyltransferase from Bacillus anthracis by Klimecka, Maria M., Chruszcz, Maksymilian, Font, Jose, Skarina, Tatiana, Shumilin, Igor, Onopryienko, Olena, Porebski, Przemyslaw J., Cymborowski, Marcin, Zimmerman, Matthew D., Hasseman, Jeremy, Glomski, Ian J., Lebioda, Lukasz, Savchenko, Alexei, Edwards, Aled, Minor, Wladek

“…For the last decade, worldwide efforts for the treatment of anthrax infection have focused on developing effective vaccines. Patients that are already infected…”
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Molstack: A platform for interactive presentations of electron density and cryo‐EM maps and their interpretations by Porebski, Przemyslaw J., Bokota, Grzegorz, Venkataramany, Barat S., Minor, Wladek

“…In the Special Issue on Tools for Protein Science in 2018, we presented Molstack: a concept of a cloud‐based platform for sharing electron density maps and…”
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Molstack—Interactive visualization tool for presentation, interpretation, and validation of macromolecules and electron density maps by Porebski, Przemyslaw J., Sroka, Piotr, Zheng, Heping, Cooper, David R., Minor, Wladek

“…Our understanding of the world of biomolecular structures is based upon the interpretation of macromolecular models, of which ∼90% are an interpretation of…”
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Recognizing and validating ligands with CheckMyBlob by Brzezinski, Dariusz, Porebski, Przemyslaw J, Kowiel, Marcin, Macnar, Joanna M, Minor, Wladek

“…Abstract Structure-guided drug design depends on the correct identification of ligands in crystal structures of protein complexes. However, the interpretation…”
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Refining the macromolecular model - achieving the best agreement with the data from X-ray diffraction experiment by Shabalin, Ivan G., Porebski, Przemyslaw J., Minor, Wladek

“…Refinement of macromolecular X-ray crystal structures involves using complex software with hundreds of different settings. The complexity of underlying…”
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Protein purification and crystallization artifacts: The tale usually not told by Niedzialkowska, Ewa, Gasiorowska, Olga, Handing, Katarzyna B., Majorek, Karolina A., Porebski, Przemyslaw J., Shabalin, Ivan G., Zasadzinska, Ewelina, Cymborowski, Marcin, Minor, Wladek

“…The misidentification of a protein sample, or contamination of a sample with the wrong protein, may be a potential reason for the non‐reproducibility of…”
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Crystal structure of thebaine 6-O-demethylase from the morphine biosynthesis pathway by Kluza, Anna, Niedzialkowska, Ewa, Kurpiewska, Katarzyna, Wojdyla, Zuzanna, Quesne, Matthew, Kot, Ewa, Porebski, Przemyslaw J., Borowski, Tomasz

“…Thebaine 6-O-demethylase (T6ODM) from Papaver somniferum (opium poppy), which belongs to the non-heme 2-oxoglutarate/Fe(II)-dependent dioxygenases (ODD)…”
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Databases, Repositories, and Other Data Resources in Structural Biology by Zheng, Heping, Porebski, Przemyslaw J, Grabowski, Marek, Cooper, David R, Minor, Wladek

“…Structural biology, like many other areas of modern science, produces an enormous amount of primary, derived, and "meta" data with a high demand on data…”
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