Biophysical reviews最新文献_第3页

Biophysical Reviews' "Meet the Editors Series"-a profile of Anthony Watts. 生物物理评论》的 "编辑见面系列"--Anthony Watts 的简介。

IF 4.9

Biophysical reviews Pub Date : 2024-08-31 eCollection Date: 2024-08-01 DOI: 10.1007/s12551-024-01214-5

Anthony Watts

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Cell motility, cytoskeleton, and motor proteins-21st IUPAB Congress session commentary.

IF 4.9

Biophysical reviews Pub Date : 2024-08-27 eCollection Date: 2024-10-01 DOI: 10.1007/s12551-024-01218-1

Ikuko Fujiwara, Sarah Köster

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Biophysical Reviews: the official journal of the International Union for Pure and Applied Biophysics. 生物物理评论》：国际纯粹与应用生物物理学联合会的官方期刊。

IF 4.9

Biophysical reviews Pub Date : 2024-08-27 eCollection Date: 2024-08-01 DOI: 10.1007/s12551-024-01216-3

Wilma K Olson

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Overview of the bacterial/archaeal supermolecular assembly session at the 21st IUPAB and the 62nd Biophysics Society of Japan joint congress.

IF 4.9

Biophysical reviews Pub Date : 2024-08-21 eCollection Date: 2024-10-01 DOI: 10.1007/s12551-024-01220-7

Daisuke Nakane, Isil Tulum

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Session commentaries: synthetic and constructive biology.

IF 4.9

Biophysical reviews Pub Date : 2024-08-20 eCollection Date: 2024-10-01 DOI: 10.1007/s12551-024-01219-0

Tomoaki Matsuura, Sheref S Mansy

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Biophysical Reviews' "Meet the IUPAB councillor series": a brief profile of Tjaart P. J. Krüger.

IF 4.9

Biophysical reviews Pub Date : 2024-08-17 eCollection Date: 2024-10-01 DOI: 10.1007/s12551-024-01217-2

Tjaart P J Krüger

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The Albany Conversations Are Now the Next Generation Conversations: Albany @ Ruston. 奥尔巴尼对话现在是下一代对话：奥尔巴尼 @ 拉斯顿。

IF 4.9

Biophysical reviews Pub Date : 2024-08-12 eCollection Date: 2024-08-01 DOI: 10.1007/s12551-024-01215-4

Thomas C Bishop, Kelly M Thayer, Robert T Young

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Special issue: Multiscale simulations of DNA from electrons to nucleosomes. 特刊：从电子到核小体的 DNA 多尺度模拟。

IF 4.9

Biophysical reviews Pub Date : 2024-07-03 eCollection Date: 2024-06-01 DOI: 10.1007/s12551-024-01204-7

John H Maddocks, Pablo D Dans, Thomas H Cheatham, Sarah Harris, Charles Laughton, Modesto Orozco, Lois Pollack, Wilma K Olson

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Structure-based prediction of protein-nucleic acid binding using graph neural networks. 利用图神经网络进行基于结构的蛋白质-核酸结合预测。

IF 4.9

Biophysical reviews Pub Date : 2024-06-26 eCollection Date: 2024-06-01 DOI: 10.1007/s12551-024-01201-w

Jared M Sagendorf, Raktim Mitra, Jiawei Huang, Xiaojiang S Chen, Remo Rohs

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引用次数: 0

DNA simulation benchmarks revealed with the accumulation of high-resolution structures. 随着高分辨率结构的积累而揭示的 DNA 模拟基准。

IF 4.9

Biophysical reviews Pub Date : 2024-06-18 eCollection Date: 2024-06-01 DOI: 10.1007/s12551-024-01198-2

Wilma K Olson, Robert T Young, Luke Czapla

{"title":"DNA simulation benchmarks revealed with the accumulation of high-resolution structures.","authors":"Wilma K Olson, Robert T Young, Luke Czapla","doi":"10.1007/s12551-024-01198-2","DOIUrl":"10.1007/s12551-024-01198-2","url":null,"abstract":"DNA carries more than the list of biochemical instructions that drive the basic functions of living systems. The sequence of base pairs includes a multitude of structural and energetic signals that determine the degree to which the long, threadlike molecule moves and how it responds to proteins and other molecules involved in its processing and packaging. The arrangements of successive base pairs in high-resolution protein-DNA crystal structures provide useful benchmarks for atomic-level simulations of double-helical DNA as well as information potentially useful in interpreting the properties of specific DNA sequences. The set of currently available structures has enough examples to characterize the conformational preferences of the DNA base-pair steps within the context of their immediate neighbors, i.e., in the context of tetramers, and reveals surprising effects of certain neighbors on local chain properties. The proteins in contact with DNA present various microenvironments that sense and/or induce the observed spatial forms. The cumulative buildup of amino-acid atoms in different protein-DNA complexes produces a binding cloud around the double helix with subtle sequence-dependent features. While the microenvironment presented by each protein to DNA is highly unique, the overall composition of amino-acid atoms within close range of DNA in a broad collection of structures is fairly uniform. The buildup of protein atoms of different types around the DNA provides new information for the improvement of nucleic acid force fields and fresh ideas for the exploration of the properties of DNA in solution.","PeriodicalId":9094,"journal":{"name":"Biophysical reviews","volume":"16 3","pages":"275-284"},"PeriodicalIF":4.9,"publicationDate":"2024-06-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11297015/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141888436","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0