A three-dimensional topology of complex I inferred from evolutionary correlations
1 Center for Molecular and Biomolecular Informatics / Nijmegen Center for Molecular Life Sciences, Radboud University Medical Center, PO Box 9101, Nijmegen, HB, 6500, The Netherlands
2 Netherlands Bioinformatics Centre, Geert Grooteplein 28, Nijmegen, GA, 6525, The Netherlands
BMC Structural Biology 2012, 12:19 doi:10.1186/1472-6807-12-19Published: 3 August 2012
Additional file 1:
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Additional file 2:
Zip-compressed FASTA alignment files. Manually curated and unfiltered alignments. The FASTA header lines contain (1) a short sequence identifier consisting of a number and the abbreviated species name and (2) a long sequence identifier with the number written between the genus and epithet of the species name. Sequence gaps are indicated by '-'. Subunits NADH3, NADH4L, and NADH6 were combined ("nadh34L6").
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Additional file 3:
Zip-compressed New Hampshire eXtended (NHX) tree files. Gene trees.
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Additional file 4:
Tabulator delimited text file. Matrix of pairwise co-evolutionary distances.
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Additional file 5:
VRML97 format. Interactive visualization of the evolutionary configuration. The predicted subunit centers are labeled by the abbreviations used in the article and color-coded according to sub-complex membership [see Additional file 1]. Specifically, most subunits are abbreviated by omitting the "NADH" or "NDUF" prefix, with the exception of NUBPL, C20orf7, C8orf38, and C2orf56 that are abbreviated to N, O7, O38, and O56, respectively. The sub-complexes are Iλ (blue), Iα-λ (white), Iγ (yellow), and Iβ (red). Subunits without sub-complex association are shown in purple. You can display the VRML97 file of the configuration using a VRML viewer like Flux Player (Windows; http://mediamachines.wordpress.com/flux-player-and-flux-studio/ webcite) or freewrl (Windows, Linux, Mac; http://freewrl.sourceforge.net/ webcite).
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