Yanping Yin
Cornell University
8 Papers
2 Citations
Yanping Yin is an academic researcher from Cornell University. The author has contributed to research in topics: Molecular dynamics & Protein structure prediction. The author has an hindex of 7, co-authored 8 publications.
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Papers
A unified coarse-grained model of biological macromolecules based on mean-field multipole–multipole interactions
Adam Liwo,Maciej Baranowski,Cezary Czaplewski,Ewa I. Gołaś,Ewa I. Gołaś,Yi He,Dawid Jagieła,Paweł Krupa,Paweł Krupa,Maciej Maciejczyk,Mariusz Makowski,Magdalena A. Mozolewska,Magdalena A. Mozolewska,Andrei Niadzvedtski,Stanisław Ołdziej,Harold A. Scheraga,Adam K. Sieradzan,Rafał Ślusarz,Tomasz K Wirecki,Tomasz K Wirecki,Yanping Yin,Bartłomiej Zaborowski,Bartłomiej Zaborowski +22 more
TL;DR: A unified coarse-grained model of three major classes of biological molecules—proteins, nucleic acids, and polysaccharides—has been developed, based on the observations that the repeated units of biopolymers are highly polar and their charge distributions can be represented crudely as point multipoles.
A new protein nucleic-acid coarse-grained force field based on the UNRES and NARES-2P force fields.
TL;DR: A coarse‐grained model of systems containing proteins and nucleic acids was developed and it was found that the Ku70/Ku80 protein complex plays an active role in DNA repairing and conformational changes of the multiple antibiotic resistance (MarA) protein occurring during DNA binding were identified.
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Alternative approach to protein structure prediction based on sequential similarity of physical properties
TL;DR: It is demonstrated that traditionally defined sequence similarity can be very low for pairs of sequences (which therefore cannot be identified using PSI BLAST), but similarity of physical property distributions results in almost identical 3D structures.
16
Microscopic Physics-Based Models of Proteins and Nucleic Acids
Maciej Baranowski,Cezary Czaplewski,Ewa I. Gołaś,Yi He,Dawid Jagieła,Paweł Krupa,Adam Liwo,Gia G. Maisuradze,Mariusz Makowski,Magdalena A. Mozolewska,Andrei Niadzvedtski,Antti J. Niemi,S. Rackovsky,Rafał Ślusarz,Adam K. Sieradzan,Stanisław Ołdziej,Tomasz K Wirecki,Yanping Yin,Bartłomiej Zaborowski,Harold A. Scheraga +19 more
- 30 Oct 2017
2
Performance of protein-structure predictions with the physics-based UNRES force field in CASP11.
Paweł Krupa,Paweł Krupa,Magdalena A. Mozolewska,Magdalena A. Mozolewska,Marta Wiśniewska,Marta Wiśniewska,Yanping Yin,Yi He,Adam K. Sieradzan,Adam K. Sieradzan,Robert Ganzynkowicz,Agnieszka G. Lipska,Agnieszka G. Lipska,Agnieszka S. Karczyńska,Magdalena J. Ślusarz,Rafał Ślusarz,Artur Giełdoń,Cezary Czaplewski,Dawid Jagieła,Bartłomiej Zaborowski,Harold A. Scheraga,Adam Liwo +21 more
TL;DR: With further improvements of the UNRES force field that are now underway, the physics-based coarse-grained approach to protein-structure prediction will eventually reach global prediction capacity and, consequently, reliability in simulating protein structure and dynamics that are important in biochemical processes.