Fig. 5 | Nature Communications

Fig. 5

From: De novo main-chain modeling for EM maps using MAINMAST

Fig. 5

Models with confidence level in colors. a F420-reducing hydrogenase α subunit at 3.36 Å resolution (EMD-2513). The top-scoring MAINMAST full-atom model after the refinement had an RMSD of 3.8 Å, a coverage of 0.92, and a precision of 0.91 while the Cα model before the refinement was at an RMSD of 4.3 Å, a coverage of 0.88, and a precision of 0.88. The color code shows confidence of residue positions, which was computed by the degree of consensus among top 100 MDFF score models with blue to orange for low to high confidence regions. When only the residues that had consensus positions (within 3.5 Å) for over 50 models were considered (orange regions; 129 out of 385 residues), the RMSD was 2.1 Å. b rotavirus VP6 capsid protein at 2.6 Å resolution (EMD-6272). MAINMAST modeled it at 17.6 Å RMSD, Cov: 0.87, and prec: 0.86. Consensus residue positions over 50 models (orange regions) had an RMSD of 4.6 Å (180 out of 397 residues)

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