• 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

Direct derivation of anisotropic atomic displacement parameters from molecular dynamics simulations in extended solids with substitutional disorder using a neural network potential.

作者信息

Hinuma Yoyo

机构信息

Department of Energy and Environment, National Institute of Advanced Industrial Science and Technology (AIST), 1-8-31, Midorigaoka, Ikeda, Osaka 563-8577, Japan.

出版信息

Acta Crystallogr A Found Adv. 2025 Jul 1;81(Pt 4):279-293. doi: 10.1107/S2053273325004620. Epub 2025 Jun 13.

DOI:10.1107/S2053273325004620
PMID:40511792
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12207914/
Abstract

Atomic displacement parameters (ADPs) are crystallographic information describing the statistical distribution of atoms around an atom site. Anisotropic ADPs by atom were directly derived from classical molecular dynamics (MD) simulations using a universal machine-learned potential. The (co)valences of atom positions were taken over recordings at different time steps in a single MD simulation. The procedure is demonstrated on extended solids, namely rocksalt structure MgO and three thermoelectric materials, AgSnSe, NaInSn and BaCuInP. Unlike the very frequently used lattice dynamics approach, the MD approach can obtain ADPs in crystals with substitutional disorder and explicitly at finite temperature, but not under conditions where atoms migrate in the crystal. The calculated ADP approaches 0 when the temperature approaches 0, and the ADP is proportional to the temperature when the atom is in a harmonic potential and the sole contribution to the actual non-zero ADP is from the zero-point motion. The zero-point motion contribution can be estimated from the proportionality constant assuming this Einstein model. ADPs from MD simulations could act as a tool complementing experimental efforts to understand the crystal structure including the distribution of atoms around atom sites.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/17e257e7bc9e/a-81-00279-fig10.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/e0bc0a36ef90/a-81-00279-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/a03218bcc0c6/a-81-00279-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/5ce9497bb515/a-81-00279-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/e6ffdc0ffdcf/a-81-00279-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/eabf29105c47/a-81-00279-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/f0629409f4ca/a-81-00279-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/b8063c59ddee/a-81-00279-fig7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/fad22bf66b03/a-81-00279-fig8.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/ca0c529cbafa/a-81-00279-fig9.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/17e257e7bc9e/a-81-00279-fig10.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/e0bc0a36ef90/a-81-00279-fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/a03218bcc0c6/a-81-00279-fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/5ce9497bb515/a-81-00279-fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/e6ffdc0ffdcf/a-81-00279-fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/eabf29105c47/a-81-00279-fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/f0629409f4ca/a-81-00279-fig6.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/b8063c59ddee/a-81-00279-fig7.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/fad22bf66b03/a-81-00279-fig8.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/ca0c529cbafa/a-81-00279-fig9.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/15bf/12207914/17e257e7bc9e/a-81-00279-fig10.jpg

相似文献

1
Direct derivation of anisotropic atomic displacement parameters from molecular dynamics simulations in extended solids with substitutional disorder using a neural network potential.
Acta Crystallogr A Found Adv. 2025 Jul 1;81(Pt 4):279-293. doi: 10.1107/S2053273325004620. Epub 2025 Jun 13.
2
Interventions for the management of abdominal pain in Crohn's disease and inflammatory bowel disease.干预措施用于克罗恩病和炎症性肠病的腹痛管理。
Cochrane Database Syst Rev. 2021 Nov 29;11(11):CD013531. doi: 10.1002/14651858.CD013531.pub2.
3
Immunogenicity and seroefficacy of pneumococcal conjugate vaccines: a systematic review and network meta-analysis.肺炎球菌结合疫苗的免疫原性和血清效力:系统评价和网络荟萃分析。
Health Technol Assess. 2024 Jul;28(34):1-109. doi: 10.3310/YWHA3079.
4
A rapid and systematic review of the clinical effectiveness and cost-effectiveness of paclitaxel, docetaxel, gemcitabine and vinorelbine in non-small-cell lung cancer.对紫杉醇、多西他赛、吉西他滨和长春瑞滨在非小细胞肺癌中的临床疗效和成本效益进行的快速系统评价。
Health Technol Assess. 2001;5(32):1-195. doi: 10.3310/hta5320.
5
Cost-effectiveness of using prognostic information to select women with breast cancer for adjuvant systemic therapy.利用预后信息为乳腺癌患者选择辅助性全身治疗的成本效益
Health Technol Assess. 2006 Sep;10(34):iii-iv, ix-xi, 1-204. doi: 10.3310/hta10340.
6
Intravenous magnesium sulphate and sotalol for prevention of atrial fibrillation after coronary artery bypass surgery: a systematic review and economic evaluation.静脉注射硫酸镁和索他洛尔预防冠状动脉搭桥术后房颤:系统评价与经济学评估
Health Technol Assess. 2008 Jun;12(28):iii-iv, ix-95. doi: 10.3310/hta12280.
7
Bioengineered nerve conduits and wraps for peripheral nerve repair of the upper limb.生物工程神经导管和套用于上肢周围神经修复。
Cochrane Database Syst Rev. 2022 Dec 7;12(12):CD012574. doi: 10.1002/14651858.CD012574.pub2.
8
Atraumatic restorative treatment versus conventional restorative treatment for managing dental caries.非创伤性修复治疗与传统修复治疗在龋病管理中的比较
Cochrane Database Syst Rev. 2017 Dec 28;12(12):CD008072. doi: 10.1002/14651858.CD008072.pub2.
9
Signs and symptoms to determine if a patient presenting in primary care or hospital outpatient settings has COVID-19.在基层医疗机构或医院门诊环境中,如果患者出现以下症状和体征,可判断其是否患有 COVID-19。
Cochrane Database Syst Rev. 2022 May 20;5(5):CD013665. doi: 10.1002/14651858.CD013665.pub3.
10
Positioning for acute respiratory distress in hospitalised infants and children.急性呼吸窘迫患儿的体位摆放。
Cochrane Database Syst Rev. 2022 Jun 6;6(6):CD003645. doi: 10.1002/14651858.CD003645.pub4.

本文引用的文献

1
Correlated Rattling of Sodium-Chains Suppressing Thermal Conduction in Thermoelectric Stannides.钙钛矿型热电材料中钠离子链的协同声子散射对热导的抑制作用
Adv Mater. 2023 Mar;35(11):e2207646. doi: 10.1002/adma.202207646. Epub 2023 Jan 26.
2
Towards universal neural network potential for material discovery applicable to arbitrary combination of 45 elements.面向适用于任意 45 种元素组合的材料发现通用神经网络势。
Nat Commun. 2022 May 30;13(1):2991. doi: 10.1038/s41467-022-30687-9.
3
Retreat from Stress: Rattling in a Planar Coordination.
逃离压力:平面配位中的嘎嘎声。
Adv Mater. 2018 Mar;30(13):e1706230. doi: 10.1002/adma.201706230. Epub 2018 Feb 1.
4
Accurate dynamical structure factors from ab initio lattice dynamics: the case of crystalline silicon.从头算晶格动力学得到的精确动力学结构因子:晶体硅的情况。
J Comput Chem. 2013 Feb 15;34(5):346-54. doi: 10.1002/jcc.23138. Epub 2012 Oct 18.
5
Anisotropic displacement parameters for H atoms using an ONIOM approach.使用ONIOM方法的氢原子各向异性位移参数。
Acta Crystallogr B. 2006 Oct;62(Pt 5):875-88. doi: 10.1107/S0108768106020787. Epub 2006 Sep 18.
6
Generalized Gradient Approximation Made Simple.广义梯度近似简化法
Phys Rev Lett. 1996 Oct 28;77(18):3865-3868. doi: 10.1103/PhysRevLett.77.3865.
7
Efficient iterative schemes for ab initio total-energy calculations using a plane-wave basis set.使用平面波基组进行从头算总能量计算的高效迭代方案。
Phys Rev B Condens Matter. 1996 Oct 15;54(16):11169-11186. doi: 10.1103/physrevb.54.11169.
8
Canonical dynamics: Equilibrium phase-space distributions.正则动力学:平衡相空间分布
Phys Rev A Gen Phys. 1985 Mar;31(3):1695-1697. doi: 10.1103/physreva.31.1695.