820724
doi
10.5281/zenodo.820724
oai:zenodo.org:820724
user-integrativemodeling
user-salilab
Webb, Benjamin
University of California, San Francisco, United States.
Fernandez-Martinez, Javier
Laboratory of Cellular and Structural Biology, The Rockefeller University, New York, New York 10065
Tjioe, Elina
Department of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, Byers Hall, 1700 4th Street, Suite 503B, University of California, San Francisco, San Francisco, California 94158
Pellarin, Riccardo
Department of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, Byers Hall, 1700 4th Street, Suite 503B, University of California, San Francisco, San Francisco, California 94158
Kim, Seung Joong
Department of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, Byers Hall, 1700 4th Street, Suite 503B, University of California, San Francisco, San Francisco, California 94158
Williams, Rosemary
Laboratory of Cellular and Structural Biology, The Rockefeller University, New York, New York 10065
Schneidman-Duhovny, Dina
Department of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, Byers Hall, 1700 4th Street, Suite 503B, University of California, San Francisco, San Francisco, California 94158
Rout, Michael
Laboratory of Cellular and Structural Biology, The Rockefeller University, New York, New York 10065
Sali, Andrej
Department of Bioengineering and Therapeutic Sciences, Department of Pharmaceutical Chemistry, California Institute for Quantitative Biosciences, Byers Hall, 1700 4th Street, Suite 503B, University of California, San Francisco, San Francisco, California 94158
Chait, Brian
Laboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, New York 10065
Modeling of the Nup84 subcomplex of the Nuclear Pore Complex
Shi, Yi
Laboratory of Mass Spectrometry and Gaseous Ion Chemistry, The Rockefeller University, New York, New York 10065
url:https://github.com/integrativemodeling/nup84/tree/v1.0
doi:10.1074/mcp.M114.041673
doi:10.5281/zenodo.580803
url:https://salilab.org/nup84
info:eu-repo/semantics/openAccess
GNU Lesser General Public License v2.1 only
https://www.gnu.org/licenses/old-licenses/lgpl-2.1-standalone.html
Integrative Modeling Platform (IMP)
Chemical crosslinks
Electron microscopy class average
MODELLER
PMI
<p>These scripts demonstrate the use of IMP, MODELLER, and PMI in the modeling of the Nup84 complex using 286 DSS/EDC chemical cross-links and an electron microscopy (EM) 2D class average.</p>
<p>First, MODELLER is used to generate initial structures for the individual components in the Nup84 complex. Then, IMP is used to model these components using DSS/EDC crosslinks and the electron microscopy 2D class average for the entire Nup84 complex.</p>
<p>For more information about how to reproduce this modeling, see <a href="https://salilab.org/nup84">the Sali lab website</a> or the README file.</p>
Zenodo
2014-08-26
info:eu-repo/semantics/other
596089
user-integrativemodeling
user-salilab
1579893969.319357
51973764
md5:c0d70979b848c26c87c3d90a48d5f60a
https://zenodo.org/records/820724/files/clus.2.dcd
64671540
md5:db3d8b3272b8297b7d95bd1932a474b6
https://zenodo.org/records/820724/files/clus.1.aligned.dcd
64671540
md5:25cf348f861b6f6cfd74023788843c02
https://zenodo.org/records/820724/files/clus.1.dcd
96245209
md5:4c1d2289b3b2b337d55757729b95be7b
https://zenodo.org/records/820724/files/clus.1.pdb.gz
5149246
md5:95f62167280853f183b4c5da55c84111
https://zenodo.org/records/820724/files/XL_analysis.zip
51973764
md5:55346bd30c89a660c7fcea2fd317f000
https://zenodo.org/records/820724/files/clus.2.aligned.dcd
83738427
md5:5671e1b81162c022cac9736f0b6c8062
https://zenodo.org/records/820724/files/Fig_6_densities.zip
13818970
md5:0a61faa36b5038396e3e0d31f13705d1
https://zenodo.org/records/820724/files/nup84-v1.0.2.zip
77367899
md5:cc45bbace4a16ae8b2ed7e7a8397c7a6
https://zenodo.org/records/820724/files/clus.2.pdb.gz
public
https://github.com/integrativemodeling/nup84/tree/v1.0
Is supplement to
url
10.1074/mcp.M114.041673
Is supplement to
doi
10.5281/zenodo.580803
Is new version of
doi
https://salilab.org/nup84
Is supplement to
url
10.5281/zenodo.596089
isVersionOf
doi
Mol Cell Proteomics
13
2927-43
2014-08-26