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. 2022 Dec 22;127(1):425–426. doi: 10.1021/acs.jpcb.2c08574

Correction to “Origin of Correlations between Local Conformational States of Consecutive Amino-Acid Residues and Their Role in Shaping Protein Structures and in Allostery”

Celina Sikorska, Adam Liwo
PMCID: PMC9841556  PMID: 36548477

The authors regret that errors were made in the derivation of eq 3C, which also affect the final form of eq 6C but not that of eq 4. These errors do not change the conclusions of the paper, because the corrected eq 6C still expresses a multitorsional potential that is a product of cosines of virtual-bond dihedrals along a folded chain segment except that there are sines and not cosines of the first and the last dihedral, respectively, while cosines only appeared in the incorrect equation. Thus, the corrected expression still corresponds to directing the chain before and after a folded (in most cases a helical) chain segment.

The corrected eqs 3C and 6C are below. To keep correspondence with the original paper, they are labeled 3C and 6C, respectively. The revised derivation of both equations is provided in the Supporting Information.

graphic file with name jp2c08574_m001.jpg 3C
graphic file with name jp2c08574_m002.jpg 6C

where

graphic file with name jp2c08574_m003.jpg

In eqs 3C and 6C, m is the number of Cα atoms in the segment (the length of the segment), k is the index of the first residue of the segment, θi is the planar angle between Inline graphic, Inline graphic, and Inline graphic, and γi is the dihedral angle defined by atoms Inline graphic, Inline graphic, Inline graphic, and Inline graphic. The angles Φi and Inline graphic are phase angles and the coefficients Ci depend on the kind of respective amino-acid residues and the neighboring residues.

Following the correction, eq 18C, which expresses the multitorsional energy term corresponding to a folded chain segment, Inline graphic, which we recommend to introduce to coarse-grained force fields, is replaced by eq 18C.

graphic file with name jp2c08574_m013.jpg 18C

where M is the multiplicity of the respective term and the coefficients bi,M are parameters.

Acknowledgments

This work was supported by grant UMO-2021/40/Q/ST4/00035 from the National Science Centre of Poland (Narodowe Centrum Nauki) (to A.L.) and by the Marsden Fund Council from Government funding, administered by the Royal Society of New Zealand (grant number MFP-21-UOA-069) (to C.S.). Computational resources were provided by (a) the Centre of Informatics – Tricity Academic Supercomputer & Network (CI TASK) in Gdańsk (b) the Interdisciplinary Center of Mathematical and Computer Modeling (ICM) the University of Warsaw under grants No. GA71-23, (c) the Academic Computer Centre Cyfronet AGH in Krakow under grants unres19 and unres2021, and (d) our 796-processor Beowulf cluster at the Faculty of Chemistry, University of Gdańsk.

Supporting Information Available

The Supporting Information is available free of charge at https://pubs.acs.org/doi/10.1021/acs.jpcb.2c08574.

  • Correction to “Derivation of the lowest-order term in multitorsional potentials” and “Derivation of eq 6C” (PDF)

Supplementary Material

jp2c08574_si_001.pdf (76.9KB, pdf)

Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Supplementary Materials

jp2c08574_si_001.pdf (76.9KB, pdf)

Articles from The Journal of Physical Chemistry. B are provided here courtesy of American Chemical Society

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