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The lipoamide arm in the glycine decarboxylase complex is not freely swinging

Abstract

Glycine decarboxylase consists of four protein components. Its structural and mechanistic heart is provided by the lipoic acid-containing H-protein which undergoes a cycle of reductive methylamination, methylamine transfer and electron transfer. Lipoic acid attached to a specific lysine side chain is assumed to act as a ‘swinging arm’ conveying the reactive dithiolane ring from one catalytic centre to another. The X-ray crystal structures of two forms of the H-protein have been determined. The lipoate cofactor is located in the loop of a hairpin configuration but following methylamine transfer it is pivoted to bind into a cleft at the surface of the H-protein. The lipoamide-methylamine arm is, therefore, not free to move in aqueous solvent.

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References

  1. Douce, R., Bourguignon, J., Macherel, D. & Neuburger, M. The glycine decarboxylase system in higher plant mitochondria: Structure, function and biogenesis. Biochem. Soc. Trans. 22, 184–188 (1994).

    Article  CAS  Google Scholar 

  2. Mattevi, A., de Kok, A. & Perham, R.N. The pyruvate dehydrogenase multienzyme complex. Curr. Opin. struct. Biol. 2, 877–887 (1992).

    Article  CAS  Google Scholar 

  3. Reed, L.J. Multienzyme complexes. Acct. chem. Res. 7, 40–46 (1974).

    Article  CAS  Google Scholar 

  4. Sieker, L., Cohen-Addad, C., Neuburger, M. & Douce, R. Crystallographic data for H-protein from the glycine decarboxylase complex. J. molec. Biol. 220, 223–224 (1991).

    Article  CAS  Google Scholar 

  5. Pares, S., Cohen-Addad, C., Sieker, L., Neuburger, M. & Douce, R. X-ray structure determination at 2. 6 Å-resolution of a lipoate containing protein: The H-protein of the glycine decarboxylase complex from pea leaves. Proc. natn. Acad. Sci. U.S.A. 91, 4850–4853 (1994).

    Article  CAS  Google Scholar 

  6. Dardel, F., Davis, A.L., Laue, E.D. & Perham, R.N. The three-dimensional structure of the lipoyl domain from Bacillus stearothermophilus pyruvate dehydrogenase multienzyme complex J. molec. Biol. 229, 1037–1048 (1993).

    Article  CAS  Google Scholar 

  7. Brocklehurst, S.M. & Perham, R.N. Prediction of the three-dimensional structures of the biotinylated domain from yeast pyruvate carboxylase and of the lipoylated H-protein from the pea leaf glycine cleavage system: A new automated method for the prediction of protein tertiary sructure. Prot. Sci. 2, 626–639 (1993).

    Article  CAS  Google Scholar 

  8. Neuburger, M., Jourdain, A. & Douce, R. Isolation of H-protein loaded with methylamine as a transient species in glycine decarboxylase reactions. Biochem. J. 278, 765–769 (1991).

    Article  CAS  Google Scholar 

  9. Chothia, C. & Murzin, A.G. New folds for all-β proteins. Structure 1, 217–222 (1993).

    Article  CAS  Google Scholar 

  10. Douce, R., Bourguignon, J., Brouquisse, R. & Neuburger, M. Isolation of plant mitochondria: general principles and criteria of integrity. Meths Enzymol. 148, 403–415 (1987).

    Article  CAS  Google Scholar 

  11. Bourguignon, J., Neuburger, M. & Douce, R. Resolution and characterization of the glycine-cleavage reaction in pea leaf mitochondria. Biochem. J. 255, 169–178 (1988).

    Article  CAS  Google Scholar 

  12. Navaza, J. AMoRe: an automated package for molecular replacement. Acta crystallogr. A50, 157–163 (1994).

    Article  CAS  Google Scholar 

  13. Brunger, A.T., Kuriyan, J. and Karplus, M., Crystallographics R-factor refinement by molecular dynamics. Science 35, 458–460 (1987).

    Article  Google Scholar 

  14. Kikuchi, G. and Hiraga, K. The mitochondrial glycine cleavage system. Molec. Cell. Biochem., 45, 137–149 (1982).

    Article  CAS  Google Scholar 

  15. Carson, M. Ribbon 2.0 . J.appl.Crystallogr. 24, 958–961 (1991).

    Article  Google Scholar 

  16. Jones, T.A., Zou, J.Y., Couran, S.W. and Kjeldgaard, M. Improved methods for building protein models in electron density maps and the location of errors in these models. Acta crystallogr. A47, 110–119 (1991).

    Article  CAS  Google Scholar 

  17. Mérand, V. et al. Characterization of the primary structure of H-protein from Pisum sativum and localisation of a lipoic acid residue by combined LC-MS and LC-MS-MS. Biol Mass Spectrometry 22, 447–456 (1993).

    Article  Google Scholar 

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Cohen-Addad, C., Pares, S., Sieker, L. et al. The lipoamide arm in the glycine decarboxylase complex is not freely swinging. Nat Struct Mol Biol 2, 63–68 (1995). https://doi.org/10.1038/nsb0195-63

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