ArticleNucleic acids research2010
MPlot--a server to analyze and visualize tertiary structure contacts and geometrical features of helical membrane proteins.
Article in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- Probabilistic grammatical model for helix-helix contact site classification.Algorithms for molecular biology : AMB · 2013Article
- Structural basis for the binding of IRES RNAs to the head of the ribosomal 40S subunit.Nucleic acids research · 2011Article
- TMPad: an integrated structural database for helix-packing folds in transmembrane proteins.Nucleic acids research · 2011Article
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Authors and funding
3 authors.
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Abstract
MPlot is a webserver that provides a quick and easy way for structural biologists to analyze, visualize and plot tertiary structure contacts of helical membrane proteins. As input, experimentally determined or computationally modeled protein structures in PDB format are required. The automatic analysis concatenates in house tools to calculate cut-off dependent van der Waals contacts or crossing angles of transmembrane helices with third party tools to compute main chain or side chain hydrogen bonds or membrane planes. Moreover, MPlot allows new features and tools to be added on a regular basis. For that purpose, MPlot was embedded in a framework that facilitates advanced users to compose new workflows from existing tools, or to substitute intermediate results with results from their (own) tools. The outputs can be viewed online in a Jmol based protein viewer, or via automatically generated scripts in PyMOL. For further illustration, the results can be downloaded as a 2D graph, representing the spatial arrangement of transmembrane helices true to scale. For analysis and statistics, all results can be downloaded as text files that may serve as inputs for or as standard data to validate the output of knowledge based tertiary structure prediction tools. URL: http://proteinformatics.charite.de/mplot/.
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Registered trials
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