EMDataBank.org: unified data resource for CryoEM

被引:205
作者
Lawson, Catherine L. [1 ]
Baker, Matthew L. [2 ]
Best, Christoph [3 ]
Bi, Chunxiao [1 ]
Dougherty, Matthew [2 ]
Feng, Powei [4 ]
van Ginkel, Glen [3 ]
Devkota, Batsal [1 ]
Lagerstedt, Ingvar [3 ]
Ludtke, Steven J. [2 ]
Newman, Richard H. [3 ]
Oldfield, Tom J. [3 ]
Rees, Ian [2 ]
Sahni, Gaurav [3 ]
Sala, Raul [1 ]
Velankar, Sameer [3 ]
Warren, Joe [4 ]
Westbrook, John D. [1 ]
Henrick, Kim [3 ]
Kleywegt, Gerard J. [3 ]
Berman, Helen M. [1 ]
Chiu, Wah [2 ]
机构
[1] Rutgers State Univ, Dept Chem & Chem Biol, Piscataway, NJ 08854 USA
[2] Baylor Coll Med, Natl Ctr Macromol Imaging, Dept Biochem & Mol Biol, Houston, TX 77030 USA
[3] EMBL EBI, Prot Data Bank Europe, Cambridge CB10 1SD, England
[4] Rice Univ, Dept Comp Sci, Houston, TX 77251 USA
基金
美国国家卫生研究院; 英国生物技术与生命科学研究理事会;
关键词
X-RAY CRYSTALLOGRAPHY; ELECTRON-MICROSCOPY; DENGUE VIRUS; CRYOELECTRON MICROSCOPY; 3-DIMENSIONAL STRUCTURE; ENVELOPE PROTEIN; STRUCTURAL BASIS; BACKBONE TRACE; DENSITY MAPS; CRYOMICROSCOPY;
D O I
10.1093/nar/gkq880
中图分类号
Q5 [生物化学]; Q7 [分子生物学];
学科分类号
071010 ; 081704 ;
摘要
Cryo-electron microscopy reconstruction methods are uniquely able to reveal structures of many important macromolecules and macromolecular complexes. EMDataBank.org, a joint effort of the Protein Data Bank in Europe (PDBe), the Research Collaboratory for Structural Bioinformatics (RCSB) and the National Center for Macromolecular Imaging (NCMI), is a global 'one-stop shop' resource for deposition and retrieval of cryoEM maps, models and associated metadata. The resource unifies public access to the two major archives containing EM-based structural data: EM Data Bank (EMDB) and Protein Data Bank (PDB), and facilitates use of EM structural data of macromolecules and macromolecular complexes by the wider scientific community.
引用
收藏
页码:D456 / D464
页数:9
相关论文
共 73 条
[21]  
Frank J., 2006, Three-dimensional electron microscopy of macromolecular assemblies: visualization of biological molecules in their native state
[22]   Depositing electron microscopy maps [J].
Fuller, SD .
STRUCTURE, 2003, 11 (01) :11-12
[23]  
Glaeser R M., 2007, ELECT CRYSTALLOGRAPH, DOI DOI 10.1038/nsb891
[24]   Visualizing density maps with UCSF Chimera [J].
Goddard, Thomas D. ;
Huang, Conrad C. ;
Ferrin, Thomas E. .
JOURNAL OF STRUCTURAL BIOLOGY, 2007, 157 (01) :281-287
[25]   N-linked glycosylation of west nile virus envelope proteins influences particle assembly and infectivity [J].
Hanna, SL ;
Pierson, TC ;
Sanchez, MD ;
Ahmed, AA ;
Murtadha, MM ;
Doms, RW .
JOURNAL OF VIROLOGY, 2005, 79 (21) :13262-13274
[26]   AstexViewer™:: a visualisation aid for structure-based drug design [J].
Hartshorn, MJ .
JOURNAL OF COMPUTER-AIDED MOLECULAR DESIGN, 2002, 16 (12) :871-881
[27]   Untangling desmosomal knots with electron tomography [J].
He, WZ ;
Cowin, P ;
Stokes, DL .
SCIENCE, 2003, 302 (5642) :109-113
[28]   MODEL FOR THE STRUCTURE OF BACTERIORHODOPSIN BASED ON HIGH-RESOLUTION ELECTRON CRYOMICROSCOPY [J].
HENDERSON, R ;
BALDWIN, JM ;
CESKA, TA ;
ZEMLIN, F ;
BECKMANN, E ;
DOWNING, KH .
JOURNAL OF MOLECULAR BIOLOGY, 1990, 213 (04) :899-929
[29]   EMDep: a web-based system for the deposition and validation of high-resolution electron microscopy macromolecular structural information [J].
Henrick, K ;
Newman, R ;
Tagari, M ;
Chagoyen, M .
JOURNAL OF STRUCTURAL BIOLOGY, 2003, 144 (1-2) :228-237
[30]   Common conventions for interchange and archiving of three-dimensional electron microscopy information in structural biology [J].
Heymann, JB ;
Chagoyen, M ;
Belnap, DM .
JOURNAL OF STRUCTURAL BIOLOGY, 2005, 151 (02) :196-207