Biominerals: Formation, Function, Properties

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Construction of a dimeric form of glutamate dehydrogenase from Clostridium symbiosum by site-directed mutagenesis

By using site-directed mutagenesis, Phe-187, one of the amino-acid residues involved in hydrophobic interaction between the three identical dimers comprising the hexamer of Clostridium symbiosum glutamate dehydrogenase (GDH), has been replaced by an aspartic acid residue, Over-expression in Escherichia coli led to production of large amounts of a soluble protein which, though devoid of GDH activity, showed the expected subunit M(r) on SDS-PAGE, and cross-reacted with an anti-GDH antibody preparation in Western blots, The antibody was used to monitor purification of the inactive protein, F187D GDH showed altered mobility on non-denaturing electrophoresis, consistent with changed size and/or surface charge. Gel filtration on a calibrated column indicated an M(r) of 87 000 +/- 3000. The mutant enzyme did not bind to the dye column routinely used in preparing wild-type GDH. Nevertheless suspicions of major misfolding were allayed by the results of chemical modification studies: as with wild-type GDH, NAD(+) completely protected one-SH group against modification by DTNB, implying normal coenzyme binding. A significant difference, however, is that in the mutant enzyme both cysteine groups were modified by DTNB, rather than C320 only. The CD spectrum in the far-UV region indicated no major change in secondary structure in the mutant protein. The near-UV CD spectrum, however, was less intense and showed a pronounced Phe contribution, possibly reflecting the changed environment of Phe-199, which would be buried in the hexamer. Sedimentation velocity experiments gave corrected coefficients s(20,w) of 11.08 S and 5.29 S for the wild-type and mutant proteins. Sedimentation equilibrium gave weight average molar masses M(r,app) of 280 000 +/- 5000 g/mol, consistent with the hexameric structure for the wild-type protein and 135 000 +/- 3000 g/mol for F187D. The value for the mutant is intermediate between the values expected for a dimer (98 000) and a trimer (147 000). To investigate the basis of this, sedimentation equilibrium experiments were performed over a range of protein concentrations. M(r,app) showed a linear dependence on concentration and a value of 108 118 g/mol at infinite dilution. This indicates a rapid equilibrium between dimeric and hexameric forms of the mutant protein with an equilibrium constant of 0.13 1/g. An independent analysis of the radial absorption scans with Microcal Origin software indicated a threefold association constant of 0.11 1/g, Introduction of the F187D mutation thus appears to have been successful in producing a dimeric GDH species, Since this protein is inactive it is possible that activity requires subunit interaction around the 3-fold symmetry axis. On the other hand this mutation may disrupt the structure in a way that cannot be extrapolated to other dimers. This issue can only be resolved by making alternative dimeric mutants

Molecular self-assembly and clustering in nucleation processes: general discussion

crosscheck: This document is CrossCheck deposited related_article: http://dx.doi.org/10.1039/C4FD00215F related_article: http://dx.doi.org/10.1039/C4FD00217B related_article: http://dx.doi.org/10.1039/C4FD00275J related_article: http://dx.doi.org/10.1039/C4FD00225C related_article: http://dx.doi.org/10.1039/C4FD00269E related_article: http://dx.doi.org/10.1039/C4FD00262H related_article: http://dx.doi.org/10.1039/C5FD00037H copyright_licence: The Royal Society of Chemistry has an exclusive publication licence for this journal history: Advance Article published 15 June 2015; Version of Record published 29 June 2015status: publishe