Oleinikov_et_al_2023

Supplementary data

Interactions of nucleosomes with acidic patch binding peptides: a combined structural bioinformatics, molecular modeling, fluorescence polarization, and single molecule FRET study

Pavel D. Oleinikov, Anastasiia S. Fedulova, Grigoriy A. Armeev, Nikita A. Motorin, Lovepreet Singh-Palchevskaia, Anastasiia L. Sivkina, Pavel G. Feskin, Grigorii S. Glukhov, Dmitry A. Afonin, Galina A. Komarova, Mikhail P. Kirpichnikov, Vasily M. Studitsky, Alexey V. Feofanov and Alexey K. Shaytan

GitHub repository

https://github.com/intbio/Oleinikov_et_al_2023

Interactive viewer of different nucleosome peptide and nucleosome protein structures

Interactive preview of MD trajectories

• LANA_1-22-NCP, 1 run -Nucleosome core particle with LANA_1-22 (PDB ID 1ZLA)
• LANA_1-22-NCP, 2 run -Nucleosome core particle with LANA_1-22, 2nd run (PDB ID 1ZLA)
• LANA_1-22-NCP, 3 run -Nucleosome core particle with LANA_1-22, 3rd run (PDB ID 1ZLA)
• LANA_4-17-NCP -Nucleosome core particle with LANA_4-17, LANA ends are truncated (PDB ID 1ZLA)
• CENP-C_motif-NCP, 1 run -Nucleosome core particle with CENP-C_motif (PDB ID 4X23/1KX5)
• CENP-C_motif-NCP, 2 run -Nucleosome core particle with CENP-C_motif, 2nd run (PDB ID 4X23/1KX5)
• Reference trajectory - NCP_Free - Free nucleosome core particle (PDB ID 1KX5)

  Trajectory files

• LANA_1-22-NCP, 1 run - Nucleosome core particle with LANA_1-22 (PDB ID 1ZLA) pdb, xtc
• LANA_1-22-NCP, 2 run - Nucleosome core particle with LANA_1-22, 2nd run (PDB ID 1ZLA) pdb, xtc
• LANA_1-22-NCP, 3 run - Nucleosome core particle with LANA_1-22, 3rd run (PDB ID 1ZLA) pdb, xtc
• LANA_4-17-NCP - Nucleosome core particle with LANA_4-17, LANA ends are truncated (PDB ID 1ZLA) pdb, xtc
• CENP-C_motif-NCP, 1 run - Nucleosome core particle with CENP-C_motif (PDB ID 4X23/1KX5) pdb, xtc
• CENP-C_motif-NCP, 2 run - Nucleosome core particle with CENP-C_motif, 2nd run (PDB ID 4X23/1KX5) pdb, xtc

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