MultiFit: A web server for fitting multiple protein structures into their electron microscopy density map

Elina Tjioe; Keren Lasker; Ben Webb; Haim J. Wolfson; Andrej Sali

doi:10.1093/nar/gkr490

MultiFit: A web server for fitting multiple protein structures into their electron microscopy density map

Elina Tjioe, Keren Lasker, Ben Webb, Haim J. Wolfson^*, Andrej Sali

^*Corresponding author for this work

School of Computer Science

Research output: Contribution to journal › Article › peer-review

27 Scopus citations

Abstract

Advances in electron microscopy (EM) allow for structure determination of large biological assemblies at increasingly higher resolutions. A key step in this process is fitting multiple component structures into an EM-derived density map of their assembly. Here, we describe a web server for this task. The server takes as input a set of protein structures in the PDB format and an EM density map in the MRC format. The output is an ensemble of models ranked by their quality of fit to the density map. The models can be viewed online or downloaded from the website. The service is available at; http://salilab.org/multifit/ and http://bioinfo3d.cs.tau.ac.il/.

Original language	English
Pages (from-to)	W167-W170
Journal	Nucleic Acids Research
Volume	39
Issue number	SUPPL. 2
DOIs	https://doi.org/10.1093/nar/gkr490
State	Published - 1 Jul 2011

Funding

Funders	Funder number
Hermann Minkowski-MINERVA Center for Geometry
Sandler Family Supporting Foundation
National Institutes of Health	U54 RR022220, R01 GM083960, R01 GM54762
National Eye Institute	PN2EY016525
Intel Corporation
International Business Machines Corporation
Israel Science Foundation	1403/09
Tel Aviv University

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10.1093/nar/gkr490

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title = "MultiFit: A web server for fitting multiple protein structures into their electron microscopy density map",

abstract = "Advances in electron microscopy (EM) allow for structure determination of large biological assemblies at increasingly higher resolutions. A key step in this process is fitting multiple component structures into an EM-derived density map of their assembly. Here, we describe a web server for this task. The server takes as input a set of protein structures in the PDB format and an EM density map in the MRC format. The output is an ensemble of models ranked by their quality of fit to the density map. The models can be viewed online or downloaded from the website. The service is available at; http://salilab.org/multifit/ and http://bioinfo3d.cs.tau.ac.il/.",

author = "Elina Tjioe and Keren Lasker and Ben Webb and Wolfson, {Haim J.} and Andrej Sali",

note = "Funding Information: The Clore Foundation Ph.D Scholars program (to K.L.); the Israel Science Foundation (1403/09) and the Hermann Minkowski-Minerva Center for Geometry at Tel Aviv University (H.J.W.); and the Sandler Family Supporting Foundation, National Institutes of Health (R01 GM54762, U54 RR022220, PN2 EY016525 and R01 GM083960), Hewlett-Packard, NetApp, IBM and Intel (to A.S.).",

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doi = "10.1093/nar/gkr490",

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AU - Webb, Ben

AU - Wolfson, Haim J.

AU - Sali, Andrej

N1 - Funding Information: The Clore Foundation Ph.D Scholars program (to K.L.); the Israel Science Foundation (1403/09) and the Hermann Minkowski-Minerva Center for Geometry at Tel Aviv University (H.J.W.); and the Sandler Family Supporting Foundation, National Institutes of Health (R01 GM54762, U54 RR022220, PN2 EY016525 and R01 GM083960), Hewlett-Packard, NetApp, IBM and Intel (to A.S.).

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AB - Advances in electron microscopy (EM) allow for structure determination of large biological assemblies at increasingly higher resolutions. A key step in this process is fitting multiple component structures into an EM-derived density map of their assembly. Here, we describe a web server for this task. The server takes as input a set of protein structures in the PDB format and an EM density map in the MRC format. The output is an ensemble of models ranked by their quality of fit to the density map. The models can be viewed online or downloaded from the website. The service is available at; http://salilab.org/multifit/ and http://bioinfo3d.cs.tau.ac.il/.

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MultiFit: A web server for fitting multiple protein structures into their electron microscopy density map

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