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生物磁共振数据库

BioMagResBank.

作者信息

Ulrich Eldon L, Akutsu Hideo, Doreleijers Jurgen F, Harano Yoko, Ioannidis Yannis E, Lin Jundong, Livny Miron, Mading Steve, Maziuk Dimitri, Miller Zachary, Nakatani Eiichi, Schulte Christopher F, Tolmie David E, Kent Wenger R, Yao Hongyang, Markley John L

机构信息

Department of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706, USA.

出版信息

Nucleic Acids Res. 2008 Jan;36(Database issue):D402-8. doi: 10.1093/nar/gkm957. Epub 2007 Nov 4.

Abstract

The BioMagResBank (BMRB: www.bmrb.wisc.edu) is a repository for experimental and derived data gathered from nuclear magnetic resonance (NMR) spectroscopic studies of biological molecules. BMRB is a partner in the Worldwide Protein Data Bank (wwPDB). The BMRB archive consists of four main data depositories: (i) quantitative NMR spectral parameters for proteins, peptides, nucleic acids, carbohydrates and ligands or cofactors (assigned chemical shifts, coupling constants and peak lists) and derived data (relaxation parameters, residual dipolar couplings, hydrogen exchange rates, pK(a) values, etc.), (ii) databases for NMR restraints processed from original author depositions available from the Protein Data Bank, (iii) time-domain (raw) spectral data from NMR experiments used to assign spectral resonances and determine the structures of biological macromolecules and (iv) a database of one- and two-dimensional (1)H and (13)C one- and two-dimensional NMR spectra for over 250 metabolites. The BMRB website provides free access to all of these data. BMRB has tools for querying the archive and retrieving information and an ftp site (ftp.bmrb.wisc.edu) where data in the archive can be downloaded in bulk. Two BMRB mirror sites exist: one at the PDBj, Protein Research Institute, Osaka University, Osaka, Japan (bmrb.protein.osaka-u.ac.jp) and the other at CERM, University of Florence, Florence, Italy (bmrb.postgenomicnmr.net/). The site at Osaka also accepts and processes data depositions.

摘要

生物磁共振数据库(BMRB:www.bmrb.wisc.edu)是一个存储库,用于存储从生物分子的核磁共振(NMR)光谱研究中收集的实验数据和衍生数据。BMRB是全球蛋白质数据库(wwPDB)的合作伙伴。BMRB存档由四个主要数据存储库组成:(i)蛋白质、肽、核酸、碳水化合物以及配体或辅因子的定量NMR光谱参数(指定的化学位移、耦合常数和峰列表)以及衍生数据(弛豫参数、残余偶极耦合、氢交换率、pK(a)值等),(ii)从蛋白质数据库中原始作者存档处理得到的NMR约束数据库,(iii)用于指定光谱共振和确定生物大分子结构的NMR实验的时域(原始)光谱数据,以及(iv)一个包含250多种代谢物的一维和二维(1)H和(13)C NMR光谱的数据库。BMRB网站提供对所有这些数据的免费访问。BMRB拥有用于查询存档和检索信息的工具以及一个ftp站点(ftp.bmrb.wisc.edu),在该站点可以批量下载存档中的数据。存在两个BMRB镜像站点:一个位于日本大阪大学蛋白质研究所的PDBj(bmrb.protein.osaka-u.ac.jp),另一个位于意大利佛罗伦萨大学的CERM(bmrb.postgenomicnmr.net/)。大阪的站点也接受并处理数据存档。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/cb6c/2238925/cdd35bff052d/gkm957f1.jpg

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