Annual review of biophysics and biomolecular structure最新文献_第8页

Disease-related misassembly of membrane proteins. 与疾病相关的膜蛋白错误组装。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.33.110502.140348

Charles R Sanders, Jeffrey K Myers

引用次数: 244

Taking X-ray diffraction to the limit: macromolecular structures from femtosecond X-ray pulses and diffraction microscopy of cells with synchrotron radiation. 以x射线衍射为极限:飞秒x射线脉冲的大分子结构和同步辐射细胞的衍射显微镜。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.33.110502.140405

Jianwei Miao, Henry N Chapman, Janos Kirz, David Sayre, Keith O Hodgson

{"title":"Taking X-ray diffraction to the limit: macromolecular structures from femtosecond X-ray pulses and diffraction microscopy of cells with synchrotron radiation.","authors":"Jianwei Miao, Henry N Chapman, Janos Kirz, David Sayre, Keith O Hodgson","doi":"10.1146/annurev.biophys.33.110502.140405","DOIUrl":"https://doi.org/10.1146/annurev.biophys.33.110502.140405","url":null,"abstract":"Recent work is extending the methodology of X-ray crystallography to the structure determination of noncrystalline specimens. The phase problem is solved using the oversampling method, which takes advantage of \"continuous\" diffraction patterns from noncrystalline specimens. Here we review the principle of this newly developed technique and discuss the ongoing experiments of imaging nonperiodic objects, such as cells and cellular structures, using coherent and bright X rays produced by third-generation synchrotron sources. In the longer run, the technique may be applicable to image single biomolecules using anticipated X-ray free electron lasers. Here, computer simulations have so far demonstrated two important steps: (a) by using an extremely intense femtosecond X-ray pulse, a diffraction pattern can be recorded from a macromolecule before radiation damage manifests itself; and (b) the phase information can be retrieved in an ab initio fashion from a set of calculated noisy diffraction patterns of single protein molecules.","PeriodicalId":8270,"journal":{"name":"Annual review of biophysics and biomolecular structure","volume":"33 ","pages":"157-76"},"PeriodicalIF":0.0,"publicationDate":"2004-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1146/annurev.biophys.33.110502.140405","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"24515839","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 63

Mass spectral analysis in proteomics. 蛋白质组学中的质谱分析。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.33.111502.082538

John R Yates

引用次数: 298

The thermodynamics of DNA structural motifs. DNA结构基序的热力学。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.32.110601.141800

John SantaLucia, Donald Hicks

{"title":"The thermodynamics of DNA structural motifs.","authors":"John SantaLucia, Donald Hicks","doi":"10.1146/annurev.biophys.32.110601.141800","DOIUrl":"https://doi.org/10.1146/annurev.biophys.32.110601.141800","url":null,"abstract":"DNA secondary structure plays an important role in biology, genotyping diagnostics, a variety of molecular biology techniques, in vitro-selected DNA catalysts, nanotechnology, and DNA-based computing. Accurate prediction of DNA secondary structure and hybridization using dynamic programming algorithms requires a database of thermodynamic parameters for several motifs including Watson-Crick base pairs, internal mismatches, terminal mismatches, terminal dangling ends, hairpins, bulges, internal loops, and multibranched loops. To make the database useful for predictions under a variety of salt conditions, empirical equations for monovalent and magnesium dependence of thermodynamics have been developed. Bimolecular hybridization is often inhibited by competing unimolecular folding of a target or probe DNA. Powerful numerical methods have been developed to solve multistate-coupled equilibria in bimolecular and higher-order complexes. This review presents the current parameter set available for making accurate DNA structure predictions and also points to future directions for improvement.","PeriodicalId":8270,"journal":{"name":"Annual review of biophysics and biomolecular structure","volume":"33 ","pages":"415-40"},"PeriodicalIF":0.0,"publicationDate":"2004-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1146/annurev.biophys.32.110601.141800","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"24515202","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1130

A function-based framework for understanding biological systems. 理解生物系统的基于功能的框架。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.33.110502.132654

Jeffrey D Thomas, Taesik Lee, Nam P Suh

引用次数: 21

Structure, molecular mechanisms, and evolutionary relationships in DNA topoisomerases. DNA拓扑异构酶的结构、分子机制和进化关系。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.33.110502.140357

Kevin D Corbett, James M Berger

{"title":"Structure, molecular mechanisms, and evolutionary relationships in DNA topoisomerases.","authors":"Kevin D Corbett, James M Berger","doi":"10.1146/annurev.biophys.33.110502.140357","DOIUrl":"https://doi.org/10.1146/annurev.biophys.33.110502.140357","url":null,"abstract":"Topoisomerases are enzymes that use DNA strand scission, manipulation, and rejoining activities to directly modulate DNA topology. These actions provide a powerful means to effect changes in DNA supercoiling levels, and allow some topoisomerases to both unknot and decatenate chromosomes. Since their initial discovery over three decades ago, researchers have amassed a rich store of information on the cellular roles and regulation of topoisomerases, and have delineated general models for their chemical and physical mechanisms. Topoisomerases are now known to be necessary for the survival of cellular organisms and many viruses and are rich clinical targets for anticancer and antimicrobial treatments. In recent years, crystal structures have been obtained for each of the four types of topoisomerases in a number of distinct conformational and substrate-bound states. In addition, sophisticated biophysical methods have been utilized to study details of topoisomerase reaction dynamics and enzymology. A synthesis of these approaches has provided researchers with new physical insights into how topoisomerases employ chemistry and allostery to direct the large-scale molecular motions needed to pass DNA strands through each other.","PeriodicalId":8270,"journal":{"name":"Annual review of biophysics and biomolecular structure","volume":"33 ","pages":"95-118"},"PeriodicalIF":0.0,"publicationDate":"2004-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1146/annurev.biophys.33.110502.140357","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"24515921","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 386

Rotation of F1-ATPase: how an ATP-driven molecular machine may work. f1 - atp酶的旋转:atp驱动的分子机器是如何工作的。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.33.110502.132716

Kazuhiko Kinosita, Kengo Adachi, Hiroyasu Itoh

引用次数: 172

Information content and complexity in the high-order organization of DNA. DNA高阶组织中的信息含量和复杂性。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.33.110502.133328

Abraham Minsky

引用次数: 42

Model systems, lipid rafts, and cell membranes. 模型系统，脂筏和细胞膜。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.32.110601.141803

Kai Simons, Winchil L C Vaz

引用次数: 1565

Enzyme-mediated DNA looping. 酶介导的DNA环。

Annual review of biophysics and biomolecular structure Pub Date : 2004-01-01 DOI: 10.1146/annurev.biophys.33.110502.132711

Stephen E Halford, Abigail J Welsh, Mark D Szczelkun

引用次数: 113