Badaczewska-Dawid AE - Search Results

1

Modeling of Disordered Protein Structures Using Monte Carlo Simulations and Knowledge-Based Statistical Force Fields.

Ciemny MP, Badaczewska-Dawid AE, Pikuzinska M, Kolinski A, Kmiecik S. Ciemny MP, et al. Int J Mol Sci. 2019 Jan 31;20(3):606. doi: 10.3390/ijms20030606. Int J Mol Sci. 2019. PMID: 30708941 Free PMC article. Review.

2

Modeling of Protein Structural Flexibility and Large-Scale Dynamics: Coarse-Grained Simulations and Elastic Network Models.

Kmiecik S, Kouza M, Badaczewska-Dawid AE, Kloczkowski A, Kolinski A. Kmiecik S, et al. Int J Mol Sci. 2018 Nov 6;19(11):3496. doi: 10.3390/ijms19113496. Int J Mol Sci. 2018. PMID: 30404229 Free PMC article. Review.

3

CABS-dock standalone: a toolbox for flexible protein-peptide docking.

Kurcinski M, Pawel Ciemny M, Oleniecki T, Kuriata A, Badaczewska-Dawid AE, Kolinski A, Kmiecik S. Kurcinski M, et al. Bioinformatics. 2019 Oct 15;35(20):4170-4172. doi: 10.1093/bioinformatics/btz185. Bioinformatics. 2019. PMID: 30865258 Free PMC article.

4

Flexible docking of peptides to proteins using CABS-dock.

Kurcinski M, Badaczewska-Dawid A, Kolinski M, Kolinski A, Kmiecik S. Kurcinski M, et al. Protein Sci. 2020 Jan;29(1):211-222. doi: 10.1002/pro.3771. Epub 2019 Nov 11. Protein Sci. 2020. PMID: 31682301 Free PMC article.

5

Computational reconstruction of atomistic protein structures from coarse-grained models.

Badaczewska-Dawid AE, Kolinski A, Kmiecik S. Badaczewska-Dawid AE, et al. Comput Struct Biotechnol J. 2019 Dec 26;18:162-176. doi: 10.1016/j.csbj.2019.12.007. eCollection 2020. Comput Struct Biotechnol J. 2019. PMID: 31969975 Free PMC article. Review.

6

Docking of peptides to GPCRs using a combination of CABS-dock with FlexPepDock refinement.

Badaczewska-Dawid AE, Kmiecik S, Koliński M. Badaczewska-Dawid AE, et al. Brief Bioinform. 2021 May 20;22(3):bbaa109. doi: 10.1093/bib/bbaa109. Brief Bioinform. 2021. PMID: 32520310 Free PMC article.

7

Protocols for All-Atom Reconstruction and High-Resolution Refinement of Protein-Peptide Complex Structures.

Badaczewska-Dawid AE, Khramushin A, Kolinski A, Schueler-Furman O, Kmiecik S. Badaczewska-Dawid AE, et al. Methods Mol Biol. 2020;2165:273-287. doi: 10.1007/978-1-0716-0708-4_16. Methods Mol Biol. 2020. PMID: 32621231

8

Protocols for Fast Simulations of Protein Structure Flexibility Using CABS-Flex and SURPASS.

Badaczewska-Dawid AE, Kolinski A, Kmiecik S. Badaczewska-Dawid AE, et al. Methods Mol Biol. 2020;2165:337-353. doi: 10.1007/978-1-0716-0708-4_20. Methods Mol Biol. 2020. PMID: 32621235

9

Protocols for Rational Design of Protein Solubility and Aggregation Properties Using Aggrescan3D Standalone.

Kuriata A, Badaczewska-Dawid AE, Pujols J, Ventura S, Kmiecik S. Kuriata A, et al. Among authors: badaczewska dawid ae. Methods Mol Biol. 2022;2340:17-40. doi: 10.1007/978-1-0716-1546-1_2. Methods Mol Biol. 2022. PMID: 35167068

10

A3D database: structure-based predictions of protein aggregation for the human proteome.

Badaczewska-Dawid AE, Garcia-Pardo J, Kuriata A, Pujols J, Ventura S, Kmiecik S. Badaczewska-Dawid AE, et al. Bioinformatics. 2022 May 26;38(11):3121-3123. doi: 10.1093/bioinformatics/btac215. Bioinformatics. 2022. PMID: 35445695 Free PMC article.

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