Canonical titration simulations
文献情報
Amin Bakhshandeh, Yan Levin
We present a Monte Carlo approach for performing titration simulations in the canonical ensemble. The standard constant pH (cpH) simulation methods are intrinsically grand canonical, allowing us to study the protonation state of molecules only as a function of pH in the reservoir. Due to the Donnan potential between a system and an (implicit) reservoir of a semi-grand canonical simulation, the pH of the reservoir can be significantly different from that of an isolated system, for an identical protonation state. The new titration method avoids this difficulty by using the canonical reactive Monte Carlo algorithm to calculate the protonation state of macromolecules as a function of the total number of protons present inside the simulation cell. The pH of an equilibrated system is then calculated using a new surface insertion Widom algorithm, which bypasses the difficulties associated with the bulk Widom particle insertion for intermediate and high pH values. To properly treat the long range Coulomb force, we use the Ewald summation method, showing the importance of the Bethe potential for calculating the pH of canonical systems.
関連文献
Ensemble modeling of very small ZnO nanoparticles
Franziska Niederdraenk, Knud Seufert, Andreas Stahl, Sonali Marathe, Sulabha K. Kulkarni, Reinhard B. Neder
DOI: 10.1039/C0CP00758G
A numerical investigation into possible mechanisms by that the A629P mutant of ATP7A causes Menkes Disease
Maksim Kouza, S. Gowtham, Max Seel, Ulrich H. E. Hansmann
DOI: 10.1039/C003568H
A facile approach for quantifying the density of defects (edge plane sites) of carbon nanomaterials and related structures
Philip M. Hallam, Craig E. Banks
DOI: 10.1039/C0CP01562H
Effect of the spreading solvent on the three-phase contact angle of microparticles attached at fluid interfaces
A. Maestro, L. J. Bonales, H. Ritacco, R. G. Rubio, F. Ortega
DOI: 10.1039/C0CP00570C
Theoretical investigations into the enantiomeric and racemic forms of α-(trifluoromethyl)lactic acid
Ralf Tonner, Vadim A. Soloshonok, Peter Schwerdtfeger
DOI: 10.1039/C0CP01155J
High resolution spectroscopic investigation of a new van der Waals complex: C2H2–Kr
Clément Lauzin, Keevin Didriche
DOI: 10.1039/C0CP00732C
Dissociative electron attachment to NO probed by velocity map imaging
Dhananjay Nandi, Vaibhav S. Prabhudesai, B. M. Nestmann, E. Krishnakumar
DOI: 10.1039/C0CP01067G
Optical and electronic properties of native zinc oxide films on polycrystalline Zn
Juan Zuo, Andreas Erbe
DOI: 10.1039/C004532B
119Sn MAS NMR and first-principles calculations for the investigation of disorder in stannate pyrochlores
Martin R. Mitchell, Simon W. Reader, Karen E. Johnston, Chris J. Pickard, Karl R. Whittle, Sharon E. Ashbrook
DOI: 10.1039/C0CP01274B
こちらもおすすめ
6-苄基-6,7-二氢-5H-吡咯并3,4-b吡啶とは何ですか?
6-苄基-6,7-二氢-5H-吡咯并3,4-b吡啶は、CAS番号109966-30-5の化合物です。これは、6-ベンジル基を持つ6,7-二氢-5H-吡咯並みの化...
半硫酸奎宁单水水合物はどのように保存すればよいですか?
半硫酸奎宁单水水合物は、乾燥した涼しい場所に保管し、直射日光や湿気を避ける必要があります。保存温度は常温(15〜25℃)が適切で、湿度は40%以下を維持すること...
D-核糖-5-リン酸二ナトリウムとは何ですか?
D-核糖-5-リン酸二ナトリウムは、CAS番号18265-46-8を有する化合物で、D-核糖の5位付加部位にリン酸基が結合した化合物です。この化合物は、水溶性で...
3-乙酰基-4-羟基喹啉-2(1H)-酮はどのように合成されますか?
3-乙酰基-4-羟基喹啉-2(1H)-酮は、ハイドロキノンと酢酸アセトイルアミドのアミド化反応により合成されます。この反応は塩基触媒を用いて行われ、選択性は良好...
5-溴-4-甲基-1H-吲唑とは何ですか?
5-溴-4-甲基-1H-吲唑は、CAS番号1082041-34-6の化学物質で、化学式はC10H9BrNです。この化合物は淡黄色の結晶性粉末で、吸湿性があります...
3-(4メトキシフェニル)オキテナン-3カーボイル酸の代替品はありますか?
3-(4メトキシフェニル)オキテナン-3カーボイル酸の代替品は、その用途により異なりますが、例えば4-(メトキシフェニル)オキテナン-3カーボイル酸や、他のオキ...
3-イリドオキシピロロ[2,3-b]ピリジン-5-カルボキシlic酸は安全ですか?
3-イリドオキシピロロ[2,3-b]ピリジン-5-カルボキシlic酸は危険な化合物ではありませんが、適切な手袋や保護眼鏡の使用を推奨します。誤って摂取または接触...
3-氟-4- iodobenolを取り扱う際の実験室安全事項は何ですか?
3-氟-4- iodobenolは可燃性を有し、強力な反応性を持つため、取り扱いには注意が必要です。PPE(個人保護具)の着用、ドラフトチャンバーの使用、漏洩時...
掲載誌
Physical Chemistry Chemical Physics

Physical Chemistry Chemical Physics (PCCP) is an international journal co-owned by 19 physical chemistry and physics societies from around the world. This journal publishes original, cutting-edge research in physical chemistry, chemical physics and biophysical chemistry. To be suitable for publication in PCCP, articles must include significant innovation and/or insight into physical chemistry; this is the most important criterion that reviewers and Editors will judge against when evaluating submissions. The journal has a broad scope and welcomes contributions spanning experiment, theory, computation and data science. Topical coverage includes spectroscopy, dynamics, kinetics, statistical mechanics, thermodynamics, electrochemistry, catalysis, surface science, quantum mechanics, quantum computing and machine learning. Interdisciplinary research areas such as polymers and soft matter, materials, nanoscience, energy, surfaces/interfaces, and biophysical chemistry are welcomed if they demonstrate significant innovation and/or insight into physical chemistry. Joined experimental/theoretical studies are particularly appreciated when complementary and based on up-to-date approaches.














