Figure 6.

Structural similarities between META1, HslJ and MxiM. (A) Superposition of META1 (green), HslJ (magenta; PDB code 2kts) and MxiM (yellow; PDB code 1y9t) in stereoscopic view. The arrowheads mark the N-terminus and the C-terminus of the proteins. The figure was prepared using the software PyMol [73]. (B) META1 and HslJ sequence alignment based on MxiM structural superposition. Regions marked by horizontal grey bars below the alignment indicate helices and its corresponding amino acids are also shaded in grey. Beta strands are marked by black bold arrows below the alignment and the corresponding amino acid residues are shaded in black. Conserved residues are marked by (*) above the alignment. Amino acid residues lining the core of the hydrophobic cavity deduced based on structural superposition of META1 and HslJ with already described pocket of MxiM, are marked by (#). The alignment was generated by PROMALS3D [63]. (C) Molecular surface representation of MxiM (1y9t, left panel) and Leishmania META1 (right panel) highlighting their respective hydrophobic cavities. This representation was generated by superposing Leishmania META1 (right panel) onto MxiM (left panel, 1y9t) with its ligand in the proposed hydrophobic cavity. The surface is colored according to atom type: carbon atoms in grey, sulphur atoms in yellow, nitrogen atoms in blue and oxygen atoms in red. A zoom in view of the putative hydrophobic cavity of Leishmania META1 is represented as inset. Hydrophobic cavities of the both proteins have been indicated by an arrow. First 4 amino acids from the N-terminus from Leishmania META1 have been removed for clarity. The figure was prepared using the software PyMol [73].

Puri et al. BMC Evolutionary Biology 2011 11:334   doi:10.1186/1471-2148-11-334
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