Elucidating the role of catalytic amino acid residues in the peptide-mediated silica oligomerization reaction mechanism

Hare, Stephanie R.; Pfaendtner, Jim

doi:10.1039/D1CP04542C

Title: Elucidating the role of catalytic amino acid residues in the peptide-mediated silica oligomerization reaction mechanism

Journal Article · 09 February 2022 · Physical Chemistry Chemical Physics. PCCP

DOI: https://doi.org/10.1039/D1CP04542C · OSTI ID:1842395

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Department of Chemical Engineering, University of Washington, Seattle, Washington 98195, USA
Department of Chemical Engineering, University of Washington, Seattle, Washington 98195, USA, Physical Science Division, Pacific Northwest National Laboratory, Richmond, Washington 99354, USA

This manuscript explores the reaction mechanisms of peptide-based biomineralization processes. Charged sidechains are known to play a role in silicate oligomerization, but the underlying mechanisms and energy landscapes have not been determined.

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Sponsoring Organization:: USDOE

Grant/Contract Number:: AC02-05CH11231; SC0019483

OSTI ID:: 1842395

Journal Information:: Physical Chemistry Chemical Physics. PCCP, Journal Name: Physical Chemistry Chemical Physics. PCCP Journal Issue: 6 Vol. 24; ISSN 1463-9076; ISSN PPCPFQ

Publisher:: Royal Society of Chemistry (RSC)Copyright Statement

Country of Publication:: United Kingdom

Language:: English

References (24)

Silica Nanostructures Produced Using Diatom Peptides with Designed Post‐Translational Modifications Wallace, Andrea K.; Chanut, Nicolas; Voigt, Christopher A. Advanced Functional Materials, Vol. 30, Issue 30 https://doi.org/10.1002/adfm.202000849	journal	June 2020
Biomimetic Growth of Ultrathin Silica Sheets Using Artificial Amphiphilic Peptides Lutz, Helmut; Jaeger, Vance; Berger, Rüdiger Advanced Materials Interfaces, Vol. 2, Issue 17 https://doi.org/10.1002/admi.201500282	journal	September 2015
Analyzing Reaction Rates with the Distortion/Interaction-Activation Strain Model Bickelhaupt, F. Matthias; Houk, Kendall N. Angewandte Chemie International Edition, Vol. 56, Issue 34 https://doi.org/10.1002/anie.201701486	journal	July 2017
Guanidinium Group Remains Protonated in a Strongly Basic Arginine Solution Xu, Bo; Jacobs, Michael I.; Kostko, Oleg ChemPhysChem, Vol. 18, Issue 12 https://doi.org/10.1002/cphc.201700197	journal	May 2017
A sequence-function analysis of the silica precipitating silaffin R5 peptide: SILAFFIN R5 IN SILICA PRECIPITATION Lechner, Carolin C.; Becker, Christian F. W. Journal of Peptide Science, Vol. 20, Issue 2 https://doi.org/10.1002/psc.2577	journal	January 2014
Intrinsic reaction coordinate: Calculation, bifurcation, and automated search Maeda, Satoshi; Harabuchi, Yu; Ono, Yuriko International Journal of Quantum Chemistry, Vol. 115, Issue 5 https://doi.org/10.1002/qua.24757	journal	September 2014
Multifaceted Application of Silica Nanoparticles. A Review Jeelani, Peerzada Gh; Mulay, Prajakta; Venkat, Rajesh Silicon, Vol. 12, Issue 6 https://doi.org/10.1007/s12633-019-00229-y	journal	July 2019
Effect of some amino acids and peptides on silicic acid polymerization Coradin, Thibaud; Livage, Jacques Colloids and Surfaces B: Biointerfaces, Vol. 21, Issue 4 https://doi.org/10.1016/S0927-7765(01)00143-6	journal	August 2001
A new hybrid exchange–correlation functional using the Coulomb-attenuating method (CAM-B3LYP) Yanai, Takeshi; Tew, David P.; Handy, Nicholas C. Chemical Physics Letters, Vol. 393, Issue 1-3, p. 51-57 https://doi.org/10.1016/j.cplett.2004.06.011	journal	July 2004
Programmable stimuli-responsive polypeptides for biomimetic synthesis of silica nanocomposites and enzyme self-immobilization Lin, Yuanqing; Jin, Wenhui; Qiu, Yue International Journal of Biological Macromolecules, Vol. 134 https://doi.org/10.1016/j.ijbiomac.2019.05.159	journal	August 2019
p K _a Values in the Undergraduate Curriculum: What Is the Real p K _a of Water? Silverstein, Todd P.; Heller, Stephen T. Journal of Chemical Education, Vol. 94, Issue 6 https://doi.org/10.1021/acs.jchemed.6b00623	journal	April 2017
Quantum Mechanical Continuum Solvation Models Tomasi, Jacopo; Mennucci, Benedetta; Cammi, Roberto Chemical Reviews, Vol. 105, Issue 8 https://doi.org/10.1021/cr9904009	journal	August 2005
Interactions of Amino-Containing Peptides with Sodium Silicate and Colloidal Silica: A Biomimetic Approach of Silicification Coradin, Thibaud; Durupthy, Olivier; Livage, Jacques Langmuir, Vol. 18, Issue 6 https://doi.org/10.1021/la011106q	journal	March 2002
Molecular Dynamics Simulations of Peptides at the Air–Water Interface: Influencing Factors on Peptide-Templated Mineralization Jain, Alok; Jochum, Mara; Peter, Christine Langmuir, Vol. 30, Issue 51 https://doi.org/10.1021/la503549q	journal	December 2014
Biomimetic Silica Nanoparticles Prepared by a Combination of Solid-Phase Imprinting and Ostwald Ripening Piletska, Elena; Yawer, Heersh; Canfarotta, Francesco Scientific Reports, Vol. 7, Issue 1 https://doi.org/10.1038/s41598-017-12007-0	journal	September 2017
Towards an understanding of (bio)silicification: the role of amino acids and lysine oligomers in silicification Belton, David; Paine, Gary; Patwardhan, Siddharth V. Journal of Materials Chemistry, Vol. 14, Issue 14 https://doi.org/10.1039/b401882f	journal	January 2004
The role of water in silicate oligomerization reaction Trinh, Thuat T.; Jansen, Antonius P. J.; van Santen, Rutger A. Physical Chemistry Chemical Physics, Vol. 11, Issue 25 https://doi.org/10.1039/b819817a	journal	January 2009
Theoretical characterizations of the mechanism for the dimerization of monosilicic acid in basic solution Hu, Hui; Hou, Hua; He, Zhen Physical Chemistry Chemical Physics, Vol. 15, Issue 36 https://doi.org/10.1039/c3cp52117f	journal	January 2013
Rare event simulations reveal subtle key steps in aqueous silicate condensation Moqadam, Mahmoud; Riccardi, Enrico; Trinh, Thuat T. Physical Chemistry Chemical Physics, Vol. 19, Issue 20 https://doi.org/10.1039/c7cp01268c	journal	January 2017
The role of phosphopeptides in the mineralisation of silica Daus, Fabian; Pfeifer, Erik; Seipp, Kevin Organic & Biomolecular Chemistry, Vol. 18, Issue 4 https://doi.org/10.1039/c9ob02438g	journal	January 2020
Chemical reactivity from an activation strain perspective Vermeeren, Pascal; Hamlin, Trevor A.; Bickelhaupt, F. Matthias Chemical Communications, Vol. 57, Issue 48 https://doi.org/10.1039/d1cc02042k	journal	January 2021
Large shifts in pKa values of lysine residues buried inside a protein Isom, D. G.; Castaneda, C. A.; Cannon, B. R. Proceedings of the National Academy of Sciences, Vol. 108, Issue 13 https://doi.org/10.1073/pnas.1010750108	journal	March 2011
Self-Assembly of Highly Phosphorylated Silaffins and Their Function in Biosilica Morphogenesis Kröger, Nils; Lorenz, Sonja; Brunner, Eike Science, Vol. 298, Issue 5593, p. 584-586 https://doi.org/10.1126/science.1076221	journal	October 2002
Polycationic Peptides from Diatom Biosilica That Direct Silica Nanosphere Formation Kröger, Nils; Deutzmann, Rainer; Sumper, Manfred Science, Vol. 286, Issue 5442, p. 1129-1132 https://doi.org/10.1126/science.286.5442.1129	journal	November 1999

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