• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利:CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验

分子晶体多晶型物的可靠且实用的计算描述。

Reliable and practical computational description of molecular crystal polymorphs.

作者信息

Hoja Johannes, Ko Hsin-Yu, Neumann Marcus A, Car Roberto, DiStasio Robert A, Tkatchenko Alexandre

机构信息

Physics and Materials Science Research Unit, University of Luxembourg, L-1511 Luxembourg, Luxembourg.

Department of Chemistry, Princeton University, Princeton, NJ 08544, USA.

出版信息

Sci Adv. 2019 Jan 11;5(1):eaau3338. doi: 10.1126/sciadv.aau3338. eCollection 2019 Jan.

DOI:10.1126/sciadv.aau3338
PMID:30746448
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC6357866/
Abstract

Reliable prediction of the polymorphic energy landscape of a molecular crystal would yield profound insight into drug development in terms of the existence and likelihood of late-appearing polymorphs. However, the computational prediction of molecular crystal polymorphs is highly challenging due to the high dimensionality of conformational and crystallographic space accompanied by the need for relative free energies to within 1 kJ/mol per molecule. In this study, we combine the most successful crystal structure sampling strategy with the most successful first-principles energy ranking strategy of the latest blind test of organic crystal structure prediction methods. Specifically, we present a hierarchical energy ranking approach intended for the refinement of relative stabilities in the final stage of a crystal structure prediction procedure. Such a combined approach provides excellent stability rankings for all studied systems and can be applied to molecular crystals of pharmaceutical importance.

摘要

可靠地预测分子晶体的多晶型能量景观,将在后期出现的多晶型物的存在和可能性方面,为药物开发带来深刻见解。然而,由于构象和晶体学空间的高维性,以及需要每个分子的相对自由能在1 kJ/mol以内,分子晶体多晶型物的计算预测极具挑战性。在本研究中,我们将最成功的晶体结构采样策略与有机晶体结构预测方法最新盲测中最成功的第一性原理能量排序策略相结合。具体而言,我们提出了一种分层能量排序方法,旨在细化晶体结构预测过程最后阶段的相对稳定性。这种组合方法为所有研究系统提供了出色的稳定性排序,并且可应用于具有药物重要性的分子晶体。

相似文献

1
Reliable and practical computational description of molecular crystal polymorphs.分子晶体多晶型物的可靠且实用的计算描述。
Sci Adv. 2019 Jan 11;5(1):eaau3338. doi: 10.1126/sciadv.aau3338. eCollection 2019 Jan.
2
First-principles stability ranking of molecular crystal polymorphs with the DFT+MBD approach.采用DFT+MBD方法对分子晶体多晶型物进行第一性原理稳定性排序。
Faraday Discuss. 2018 Oct 26;211(0):253-274. doi: 10.1039/c8fd00066b.
3
Conformational polymorphism in organic crystals.有机晶体中的构象多态性。
Acc Chem Res. 2008 May;41(5):595-604. doi: 10.1021/ar700203k. Epub 2008 Mar 19.
4
Predictability of the polymorphs of small organic compounds: crystal structure predictions of four benchmark blind test molecules.小分子有机化合物多晶型的可预测性:四个基准盲测分子的晶体结构预测。
Phys Chem Chem Phys. 2011 Dec 7;13(45):20361-70. doi: 10.1039/c1cp22169h. Epub 2011 Oct 13.
5
A third blind test of crystal structure prediction.晶体结构预测的第三次盲测。
Acta Crystallogr B. 2005 Oct;61(Pt 5):511-27. doi: 10.1107/S0108768105016563. Epub 2005 Sep 23.
6
A test of crystal structure prediction of small organic molecules.小分子有机化合物晶体结构预测测试。
Acta Crystallogr B. 2000 Aug;56(Pt 4):697-714. doi: 10.1107/s0108768100004584.
7
Computed crystal energy landscapes for understanding and predicting organic crystal structures and polymorphism.用于理解和预测有机晶体结构及多晶型性的计算晶体能量景观。
Acc Chem Res. 2009 Jan 20;42(1):117-26. doi: 10.1021/ar800147t.
8
Overcoming the difficulties of predicting conformational polymorph energetics in molecular crystals correlated wavefunction methods.克服分子晶体中预测构象多晶型体能量学相关波函数方法的困难。
Chem Sci. 2020 Jan 14;11(8):2200-2214. doi: 10.1039/c9sc05689k. eCollection 2020 Feb 28.
9
Crystal structure prediction for cyclotrimethylene trinitramine (RDX) from first principles.基于第一性原理的环三亚甲基三硝胺(RDX)晶体结构预测。
Phys Chem Chem Phys. 2009 Jul 14;11(26):5512-8. doi: 10.1039/b902015b. Epub 2009 Apr 28.
10
Machine-Learned Fragment-Based Energies for Crystal Structure Prediction.基于片段的机器学习能量方法在晶体结构预测中的应用。
J Chem Theory Comput. 2019 Apr 9;15(4):2743-2758. doi: 10.1021/acs.jctc.9b00038. Epub 2019 Mar 13.

引用本文的文献

1
Physics-Based Solubility Prediction for Organic Molecules.基于物理的有机分子溶解度预测
Chem Rev. 2025 Aug 13;125(15):7057-7098. doi: 10.1021/acs.chemrev.4c00855. Epub 2025 Jul 29.
2
Benchmarking quantum chemical methods with X-ray structures via structure-specific restraints.通过特定结构约束利用X射线结构对量子化学方法进行基准测试。
IUCrJ. 2025 Jul 1;12(Pt 4):472-487. doi: 10.1107/S2052252525004543.
3
Accurate and efficient machine learning interatomic potentials for finite temperature modelling of molecular crystals.

本文引用的文献

1
The importance of configurational disorder in crystal structure prediction: the case of loratadine.构型无序在晶体结构预测中的重要性:氯雷他定的实例
Faraday Discuss. 2018 Oct 26;211(0):209-234. doi: 10.1039/c8fd00072g.
2
Is zeroth order crystal structure prediction (CSP_0) coming to maturity? What should we aim for in an ideal crystal structure prediction code?零阶晶体结构预测(CSP_0)是否已趋于成熟?在一个理想的晶体结构预测程序中我们应该追求什么目标?
Faraday Discuss. 2018 Oct 26;211(0):9-30. doi: 10.1039/c8fd00121a.
3
First-principles stability ranking of molecular crystal polymorphs with the DFT+MBD approach.
用于分子晶体有限温度建模的准确高效机器学习原子间势。
Chem Sci. 2025 May 23. doi: 10.1039/d5sc01325a.
4
The QCML dataset, Quantum chemistry reference data from 33.5M DFT and 14.7B semi-empirical calculations.QCML数据集,来自3350万个密度泛函理论(DFT)计算和147亿个半经验计算的量子化学参考数据。
Sci Data. 2025 Mar 8;12(1):406. doi: 10.1038/s41597-025-04720-7.
5
A robust crystal structure prediction method to support small molecule drug development with large scale validation and blind study.一种强大的晶体结构预测方法,用于支持小分子药物开发,并进行大规模验证和盲法研究。
Nat Commun. 2025 Mar 5;16(1):2210. doi: 10.1038/s41467-025-57479-1.
6
Accurate Lattice Free Energies of Packing Polymorphs from Probabilistic Generative Models.基于概率生成模型的堆积多晶型物的精确晶格自由能
J Chem Theory Comput. 2025 Mar 11;21(5):2244-2255. doi: 10.1021/acs.jctc.4c01612. Epub 2025 Feb 21.
7
London dispersion forces and steric effects within nanocomposites tune interaction energies and chain conformation.纳米复合材料中的伦敦色散力和空间效应调节相互作用能和链构象。
Commun Chem. 2025 Jan 26;8(1):21. doi: 10.1038/s42004-025-01414-4.
8
A machine learned potential for investigating single crystal to single crystal transformations in complex organic molecular systems.一种用于研究复杂有机分子体系中单晶到单晶转变的机器学习势。
Chem Sci. 2024 Dec 31;16(5):2363-2372. doi: 10.1039/d4sc06467d. eCollection 2025 Jan 29.
9
The seventh blind test of crystal structure prediction: structure ranking methods.晶体结构预测的第七次盲测:结构排序方法。
Acta Crystallogr B Struct Sci Cryst Eng Mater. 2024 Dec 1;80(Pt 6):548-74. doi: 10.1107/S2052520624008679.
10
The seventh blind test of crystal structure prediction: structure generation methods.晶体结构预测的第七次盲测:结构生成方法
Acta Crystallogr B Struct Sci Cryst Eng Mater. 2024 Dec 1;80(Pt 6):517-47. doi: 10.1107/S2052520624007492.
采用DFT+MBD方法对分子晶体多晶型物进行第一性原理稳定性排序。
Faraday Discuss. 2018 Oct 26;211(0):253-274. doi: 10.1039/c8fd00066b.
4
Identifying pragmatic quasi-harmonic electronic structure approaches for modeling molecular crystal thermal expansion.识别用于模拟分子晶体热膨胀的实用准谐波电子结构方法。
Faraday Discuss. 2018 Oct 26;211(0):181-207. doi: 10.1039/c8fd00048d.
5
Analytical nuclear gradients for the range-separated many-body dispersion model of noncovalent interactions.非共价相互作用的范围分离多体色散模型的分析核梯度
Chem Sci. 2016 Mar 1;7(3):1712-1728. doi: 10.1039/c5sc03234b. Epub 2015 Oct 27.
6
Predicting finite-temperature properties of crystalline carbon dioxide from first principles with quantitative accuracy.从第一性原理出发,以定量精度预测结晶二氧化碳的有限温度性质。
Chem Sci. 2016 Jan 1;7(1):246-255. doi: 10.1039/c5sc03014e. Epub 2015 Sep 29.
7
Powder diffraction and crystal structure prediction identify four new coumarin polymorphs.粉末衍射和晶体结构预测确定了四种新的香豆素多晶型物。
Chem Sci. 2017 Jul 1;8(7):4926-4940. doi: 10.1039/c7sc00168a. Epub 2017 May 15.
8
van der Waals dispersion interactions in molecular materials: beyond pairwise additivity.分子材料中的范德华色散相互作用:超越成对加和性
Chem Sci. 2015 Jun 1;6(6):3289-3301. doi: 10.1039/c5sc00410a. Epub 2015 Mar 30.
9
Assessing the predictability of anharmonic vibrational modes at the example of hydroxyl groups - ad hoc construction of localised modes and the influence of structural solute-solvent motifs.以羟基为例评估非谐振动模式的可预测性——局域模式的特殊构建及结构溶质-溶剂基序的影响。
Phys Chem Chem Phys. 2017 May 17;19(19):11990-12001. doi: 10.1039/c7cp01662j.
10
Anharmonic and Quantum Fluctuations in Molecular Crystals: A First-Principles Study of the Stability of Paracetamol.分子晶体中的非谐性与量子涨落:对乙酰氨基酚稳定性的第一性原理研究
Phys Rev Lett. 2016 Sep 9;117(11):115702. doi: 10.1103/PhysRevLett.117.115702. Epub 2016 Sep 8.