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Open Access Highly Accessed Research article

Structural and mechanistic investigations on Salmonella typhimurium acetate kinase (AckA): identification of a putative ligand binding pocket at the dimeric interface

Sagar Chittori13, Handanahal S Savithri2 and Mathur RN Murthy1*

Author Affiliations

1 Molecular Biophysics Unit, Indian Institute of Science, Bangalore, Karnataka, 560012, India

2 Department of Biochemistry, Indian Institute of Science, Bangalore, Karnataka, 560012, India

3 Current address: Laboratory of Cellular and Molecular Neurophysiology, Porter Neuroscience Research Center, NICHD, NIH, DHHS, Bethesda, MD, 20892, USA

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BMC Structural Biology 2012, 12:24  doi:10.1186/1472-6807-12-24

Published: 2 October 2012

Additional files

Additional file 1:

Figure S1.Quality of the electron density corresponding to representative residues (251–260) of the variable segment. Electron density map (2Fo-Fc contoured at 1σ) and the corresponding ball and stick models for residues Ile251-Gly260 of the (A) A-subunit of Form-I (salmon-red), (B) A-Subunit of Form-II (pale-yellow) and (C) B-subunit of Form-II (cyan), of StAckA are shown. These segments display large spatial separation in pairwise superposition of the three subunits (refer Figure 6 of the main text).

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Additional file 2:

Figure S2.Putative binding pocket identified at the dimer interface in acetokinase family of enzymes. Dimeric interface pocket identified in structurally known members of acetokinase family of enzymes (refer Table 3 of the main article) are shown with cyan spheres. The two substrate binding pockets of the dimeric form are shown in green and blue spheres. Due to continuity between the dimeric interface pocket and the active site cavities of A- and B-subunits in Form-II StAckA, dimeric interface pocket in Form-II is not well defined. StTdcD dimer (A' indicates symmetry relation with A) was generated using the crystallographic 2-fold axis. PDB codes and the subunits used for the analysis are labeled.

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