Search Results - "Sieradzan, Adam"

NARall: a novel tool for reconstruction of the all-atom structure of nucleic acids from heavily coarse-grained model.

Authors: Golon, Łukasz Sieradzan, Adam K.

Source: Chemical Papers. May2023, Vol. 77 Issue 5, p2437-2445. 9p.

Theoretical Investigation of the Coronavirus SARS-CoV-2 (COVID-19) Infection Mechanism and Selectivity.

Authors: Biskupek, Iga Sieradzan, Adam Czaplewski, Cezary et al.

Source: Molecules. Apr2022, Vol. 27 Issue 7, p2080-2080. 11p.

In Vitro Bioactivity Evaluation of IL‐4 and SDF‐1 Mimicking Peptides Engineered to Enhance Skeletal Muscle Reconstruction.

Authors: Michalska, Zuzanna Ostaszewska, Anna Fularczyk, Martyna et al.

Source: Journal of Biomedical Materials Research, Part A; Mar2025, Vol. 113 Issue 3, p1-21, 21p

Long‐time scale simulations of virus‐like particles from three human‐norovirus strains.

Authors: Lipska, Agnieszka G. Sieradzan, Adam K. Czaplewski, Cezary et al.

Source: Journal of Computational Chemistry. 6/15/2023, Vol. 44 Issue 16, p1470-1483. 14p.

Subjects: Virus-like particles, Noroviruses, Molecular dynamics, Surface strains, Gastroenteritis

Optimization of parallel implementation of UNRES package for coarse‐grained simulations to treat large proteins.

Authors: Sieradzan, Adam K. Sans‐Duñó, Jordi Lubecka, Emilia A. et al.

Source: Journal of Computational Chemistry. 2/5/2023, Vol. 44 Issue 4, p602-625. 24p.

Subjects: Molecular dynamics, Dihedral angles, Proteins

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A new protein nucleic‐acid coarse‐grained force field based on the UNRES and NARES‐2P force fields.

Authors: Sieradzan, Adam K. Giełdoń, Artur Yin, Yanping et al.

Source: Journal of Computational Chemistry. 10/30/2018, Vol. 39 Issue 28, p2360-2370. 11p.

Subjects: Nucleic acids, Energy conservation, Molecular dynamics, Crystal structure, Protein structure

Evaluation of the scale-consistent UNRES force field in template-free prediction of protein structures in the CASP13 experiment.

Authors: Lubecka, Emilia A. Karczyńska, Agnieszka S. Lipska, Agnieszka G. et al.

Source: Journal of Molecular Graphics & Modelling; Nov2019, Vol. 92, p154-166, 13p

Acridinium Chemiluminogenic Labels—Synthesis, Analytical Performance, and Mechanism of Light Generation—A Comparison in View of Biomedical Diagnostics.

Authors: Krzymiński, Karol Zadykowicz, Beata Czechowska, Justyna et al.

Source: Molecules. Mar2026, Vol. 31 Issue 6, p1041. 22p.

Shielding effect in protein folding.

Authors: Sieradzan, Adam K. Lipska, Agnieszka G. Lubecka, Emilia A.

Source: Journal of Molecular Graphics & Modelling. Jan2018, Vol. 79, p118-132. 15p.

Subjects: Protein folding, Protein stability, Hydrogen bonding, Hydration, Substituents (Chemistry)

A general method for the derivation of the functional forms of the effective energy terms in coarse-grained energy functions of polymers. III. Determination of scale-consistent backbone-local and correlation potentials in the UNRES force field and force-field calibration and validation

Authors: Liwo, Adam Sieradzan, Adam K. Lipska, Agnieszka G. et al.

Source: Journal of Chemical Physics. 4/21/2019, Vol. 150 Issue 15, pN.PAG-N.PAG. 24p. 4 Color Photographs, 6 Diagrams, 2 Charts, 8 Graphs.

Structural Characterization of Covalently Stabilized Human Cystatin C Oligomers.

Authors: Chrabąszczewska, Magdalena Sieradzan, Adam K. Rodziewicz-Motowidło, Sylwia et al.

Source: International Journal of Molecular Sciences. Aug2020, Vol. 21 Issue 16, p5860-5860. 1p.

What Makes Telomeres Unique?

Authors: Sieradzan, Adam K. Krupa, Paweł Wales, David J.

Source: Journal of Physical Chemistry B. 3/16/2017, Vol. 121 Issue 10, p2207-2219. 13p.

Subjects: Telomeres, Nucleotide sequence, Chromosomes, Candida, Nucleic acids, Molecular dynamics

Introduction of steered molecular dynamics into UNRES coarse-grained simulations package.

Authors: Sieradzan, Adam K. Jakubowski, Rafał

Source: Journal of Computational Chemistry. 3/30/2017, Vol. 38 Issue 8, p553-562. 10p.

Subjects: Molecular dynamics, Simulation methods & models, Atomic force microscopy, Molecular force constants, Ostwald ripening

Evaluation of LIGHT-derived peptides to disrupt the HVEM/LIGHT immune checkpoint.

Authors: Ciura, Piotr Gumpelmair, Simon Rodziewicz-Motowidło, Sylwia et al.

Source: Scientific Reports. 11/17/2025, Vol. 15 Issue 1, p1-14. 14p.

Introduction of periodic boundary conditions into UNRES force field.

Authors: Sieradzan, Adam K.¹

Source: Journal of Computational Chemistry. May2015, Vol. 36 Issue 12, p940-946. 7p.

Subjects: Boundary value problems, Molecular force constants, Simulation methods & models, Comparative studies, Electrostatic interaction

A general method for the derivation of the functional forms of the effective energy terms in coarse-grained energy functions of polymers. I. Backbone potentials of coarse-grained polypeptide chains.

Authors: Sieradzan, Adam K. Makowski, Mariusz Augustynowicz, Antoni et al.

Source: Journal of Chemical Physics. 2017, Vol. 146 Issue 12, p1-27. 27p. 8 Diagrams, 1 Chart, 4 Graphs.

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Multi-GPU UNRES for scalable coarse-grained simulations of very large protein systems.

Authors: Ocetkiewicz, Krzysztof M. Czaplewski, Cezary Krawczyk, Henryk et al.

Source: Computer Physics Communications; May2024, Vol. 298, pN.PAG-N.PAG, 1p