Thermodynamic characterization of the protein-protein interaction in the heteromeric Bacillus subtilis pyridoxalphosphate synthase.

Two biosynthetic routes for the synthesis of pyridoxal 5'-phosphate (PLP), the biologically active compound of vitamin B6, have been characterized. The major pathway leads to direct formation of PLP from a pentasaccharide and a trisaccharide and is operative in plants, fungi, protozoa, and bacteria. This reaction is catalyzed by a single glutamine amidotransferase enzyme complex consisting of a pyridoxal synthase, termed Pdx1, and a glutaminase, termed Pdx2. In this complex, Pdx2 generates ammonia from L-glutamine and supplies it to Pdx1 for incorporation into PLP. The glutaminase activity of Pdx2 requires the presence of Pdx1 in a heteromeric complex, previously characterized by a crystallographic three-dimensional (3D) structure determination. Here, we give a thermodynamic description of complex formation of Bacillus subtilis PLP synthase in the absence or presence of L-glutamine. We show that L-glutamine directly affects the tightness of the protein complex, which exhibits dissociation constants of 6.9 and 0.3 microM in its absence and presence, respectively (at 25 degrees C). This result relates to the positioning of L-glutamine on the heterodimer interface as seen in the 3D structure. In an analysis of the temperature dependence of the enthalpy, negative heat capacity changes (deltaCp) agree with a protein interface governed by hydrophobic interactions. The measured heat capacity change is also a function of L-glutamine, with a negative deltaCp in the presence of L-glutamine and a more negative one in its absence. These findings suggest that L-glutamine not only affects the strength of complex formation but also determines the forces involved in complex formation, with regard to different relative contributions of hydrophobic and hydrophilic interactions.

[1]  S. Osmani,et al.  The Extremely Conserved pyroA Gene ofAspergillus nidulans Is Required for Pyridoxine Synthesis and Is Required Indirectly for Resistance to Photosensitizers* , 1999, The Journal of Biological Chemistry.

[2]  F. S. Schmidt,et al.  Vitamin B6 biosynthesis: formation of pyridoxine 5′‐phosphate from 4‐(phosphohydroxy)‐l‐threonine and 1‐deoxy‐d‐xylulose‐5‐phosphate by PdxA and PdxJ protein , 1999, FEBS letters.

[3]  C. Pace,et al.  Denaturant m values and heat capacity changes: Relation to changes in accessible surface areas of protein unfolding , 1995, Protein science : a publication of the Protein Society.

[4]  Collaborative Computational,et al.  The CCP4 suite: programs for protein crystallography. , 1994, Acta crystallographica. Section D, Biological crystallography.

[5]  Ming Li,et al.  A highly conserved sequence is a novel gene involved in de novo vitamin B6 biosynthesis. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[6]  N. Amrhein,et al.  On the Two Components of Pyridoxal 5′-Phosphate Synthase from Bacillus subtilis* , 2005, Journal of Biological Chemistry.

[7]  C. Pace,et al.  How to measure and predict the molar absorption coefficient of a protein , 1995, Protein science : a publication of the Protein Society.

[8]  Werner Braun,et al.  Exact and efficient analytical calculation of the accessible surface areas and their gradients for macromolecules , 1998 .

[9]  Tadhg P Begley,et al.  Three-dimensional Structure of YaaE from Bacillus subtilis, a Glutaminase Implicated in Pyridoxal-5′-phosphate Biosynthesis* , 2004, Journal of Biological Chemistry.

[10]  T. Begley,et al.  Structural insights into the mechanism of the PLP synthase holoenzyme from Thermotoga maritima. , 2006, Biochemistry.

[11]  W. Delano The PyMOL Molecular Graphics System , 2002 .

[12]  N. Amrhein,et al.  Vitamin B6 biosynthesis in higher plants. , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[13]  K. Sharp,et al.  Heat capacity in proteins. , 2005, Annual review of physical chemistry.

[14]  R. John,et al.  Pyridoxal phosphate-dependent enzymes. , 1995, Biochimica et biophysica acta.

[15]  P. Privalov,et al.  Energetics of protein structure. , 1995, Advances in protein chemistry.

[16]  K. P. Murphy,et al.  Prediction of binding energetics from structure using empirical parameterization. , 1998, Methods in enzymology.

[17]  Ivo Tews,et al.  Structure of a bacterial pyridoxal 5′-phosphate synthase complex , 2006, Proceedings of the National Academy of Sciences.

[18]  B. Belitsky,et al.  Physical and Enzymological Interaction of Bacillus subtilis Proteins Required for De Novo Pyridoxal 5′-Phosphate Biosynthesis , 2004, Journal of bacteriology.

[19]  R. S. Spolar,et al.  Use of liquid hydrocarbon and amide transfer data to estimate contributions to thermodynamic functions of protein folding from the removal of nonpolar and polar surface from water. , 1992, Biochemistry.

[20]  Andrew D. Robertson,et al.  Protein Structure and the Energetics of Protein Stability. , 1997, Chemical reviews.

[21]  K. P. Murphy,et al.  Thermodynamics of structural stability and cooperative folding behavior in proteins. , 1992, Advances in protein chemistry.

[22]  Jack F Kirsch,et al.  Pyridoxal phosphate enzymes: mechanistic, structural, and evolutionary considerations. , 2003, Annual review of biochemistry.

[23]  D. Cane BIOSYNTHESIS OF VITAMIN B6 : ENZYMATIC CONVERSION OF 1-DEOXY-D-XYLULOSE-5-PHOSPHATE TO PYRIDOXOL PHOSPHATE , 1999 .

[24]  C. R. Middaugh,et al.  Statistical determination of the average values of the extinction coefficients of tryptophan and tyrosine in native proteins. , 1992, Analytical biochemistry.

[25]  J. Nikawa,et al.  Characterization of the products of the genes SNO1 and SNZ1 involved in pyridoxine synthesis in Saccharomyces cerevisiae. , 2004, European journal of biochemistry.

[26]  G. Mittenhuber,et al.  Phylogenetic analyses and comparative genomics of vitamin B6 (pyridoxine) and pyridoxal phosphate biosynthesis pathways. , 2001, Journal of molecular microbiology and biotechnology.