Identifying direct contacts between protein complex subunits from their conditional dependence in proteomics datasets
Fig 7
Prediction of direct contacts within human protein complexes of unknown structure.
Direct contacts and correlation coefficients were calculated between 8 members of the human exocyst complex (A: direct contacts, B: correlation) and 10 members of the tRNA multi-synthetase complex (C: direct contacts, D: correlation). Contact predictions are visualized here by drawing each direct contact prediction or correlation prediction as an edge connecting the relevant subunits. Each predicted direct contact is associated with its prediction score, which indicates the stability support for that interaction. In both complexes, certain direct interactions are strongly supported, suggesting key contacts formed in the three-dimensional organization of these complexes, neither of which has yet been resolved. The comparison between direct contact predictions and correlation predictions indicates that the graphical model removes edges considered conditionally independent from the direct contact network providing high confidence predictions. For A and B, colors (blue and green) represent known sub-complexes from Heider et al. [54]. For C and D, red represents structural subunits and purple represents synthetases.