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Figure 7 | BMC Bioinformatics

Figure 7

From: Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function

Figure 7

Structural mapping of PrmC SIMBAL hotspots. A) PrmC is shown as a space-filling model. Subsequences C and E are shown in orange, others in yellow. Deeper colors indicate residues in contact with the RF-1 substrate. Contact residues not identified by SIMBAL are shown in blue-green. All other PrmC residues are in green. Segments of RF-1 domains 2 and 3 in contact with PrmC are shown as a ribbon cartoon in blue. The SAM cofactor is shown at the bottom of the active site cleft as a stick model. B) A detail of the contacts made by the RPDTE motif of subsequence C. PrmC is shown in orange, contacted residues of RF-1 are in green, otherwise colored blue. Molecular models visualized with MacPyMOL http://www.pymol.org/.

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BMC Bioinformatics

ISSN: 1471-2105

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