Carbon isotope effect predictions for enzymes involved in the primary carbon metabolism of plant leaves

Functional Plant Biology

Volumn 32, Issue 4, 2005, Pages 277-291

  Tcherkez, Guillaume ^a,b   Farquhar, Graham D ^a  

^a AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^b UNIVERSITÉ PARIS SACLAY   (France)

Author keywords

Carbon isotopes; Carbon metabolism; Carboxylation; Citrate synthase; Enzymes; Oxygenation; Rubisco

Indexed keywords

CARBON; CARBOXYLATION; ENZYMES; ISOTOPES; METABOLISM; ORGANIC ACIDS;

CARBON ISOTOPES; CARBON METABOLISM; EQUILIBRIUM REACTIONS; PLANT METABOLISM;

PLANTS (BOTANY);

ENZYME;

CARBON; CARBOXYLATION; ENZYMES; ISOTOPES; LEAVES; METABOLISM; ORGANIC ACIDS; PLANTS;

EID: 19544366923     PISSN: 14454408     EISSN: None     Source Type: Journal    
DOI: 10.1071/FP04211     Document Type: Review

References (50)

1. Abelson H, Hoering TC (1961) Carbon isotope fractionation in formation of amino-acids by photosynthetic organisms. Proceedings of the National Academy of Sciences USA 47, 623-632.
2. Andrés J, Oliva M, Safont VS, Moliner V, Tapia O (1999) Transition-state structures for describing the enzyme-catalyzed mechanism of Rubisco. Theoretical Chemistry Accounts 101, 234-240.
3. Andrews TJ, Lorimer GH (1987) Rubisco: structure, mechanisms and prospects for improvement. In 'The biochemistry of plants. Vol. 10'. (Eds MD Hatch, NK Boardman)pp. 131-218. (Academic Press Inc.: New York)
4. Bigeleisen J (1949) The relative reaction velocities of isotopic molecules. Journal of Chemical Physics 17, 665.
5. Bligny R, Douce R (2001) NMR and plant metabolism. Current Opinion in Plant Biology 4, 191-196. doi: 10.1016/S1369-5266(00)00160-6
6. Butzenlechner M, Thimet S, Kempe K, Kexel H, Schmidt HL (1996) Inter- and intra-molecular isotopic correlations in some cyanogenic glycosides and glucosinolates and their practical importance. Phytochemistry 43, 585-592. doi: 10.1016/0031-9422(96)00290-7
7. Cleland WW, Andrews J, Gutteridge S, Hartmann FC, Lorimer GH (1998) Mechanism of Rubisco: the carbamate as a general base. Chemical Reviews 98, 549-561. doi: 10.1021/cr970010r
8. Czyryca P, Paneth P (1996) Dependence of isotope effects on conformation in decarboxylation of 3-carboxybenzisoxazoles. Journal of Molecular Structure 370, 237-243.
9. 13C of leaf carbohydrates in Phaseolus vulgaris L. under progressive drought. Plant, Cell and Environment 22, 515-523. doi: 10.1046/j.1365-3040.1999.00420.x
10. Farquhar GD (1979) Models describing the kinetics of Ribulose bisphosphate carboxylase oxygenase. Archives of Biochemistry and Biophysics 193, 456-468. doi: 10.1016/0003-9861(79)90052-3
11. Farquhar GD, Richards RA (1984) Isotopic composition of plant carbon correlates with water-use efficiency of wheat genotypes. Australian Journal of Plant Physiology 11, 539-552.
12. Farquhar GD, O'Leary MH, Berry JA (1982) On the relationship between carbon isotope discrimination and the intercellular carbon dioxide concentration in leaves. Australian Journal of Plant Physiology 9, 121-137.
13. 2 fixation as an example for general control mechanisms in metabolic cycles. Bio Systems 51, 79-93.
14. Galimov EM (1985) 'The biological fractionation of isotopes'. (Academic Press Inc.: New York)
15. 2 respired in the dark in relation to leaf metabolites: comparisons between Nicotiana sylvestris and Helianthus annuus under drought. Plant, Cell & Environment 24, 505-515. doi: 10.1046/j.1365-3040.2001.00699.x
16. 3 plants. Phytochemical Review 2, 145-161. doi: 10.1023/B:PHYT.0000004326.00711.ca
17. 13C distribution in carbohydrates. Journal of Biological Chemistry 272, 5382-5387. doi: 10.1074/jbc.272.9.5382
18. Guy RD, Fogel MF, Berry JA, Hoering T (1987) Isotope fractionation during oxygen production and consumption by plants. In 'Progress in photosynthesis research. Vol. 3'. (Ed. J Biggens) pp. 597-600. (Martinus Nijhoff Publishers: Dordrecht)
19. Igamberdiev AU, Gardeström P (2003) Regulation of NAD- and NADP-dependent isocitrate dehydrogenases by reduction levels of pyridine nucleosides in mitochondria and cytosol of pea leaves. Biochimica et Biophysica Acta Bioenergetics 1606, 117-125. doi: 10.1016/S0005-2728(03)00106-3
20. Jamin E, Naulet N, Martin GJ (1997) Stable isotope analysis of components from tobacco leaves. Phytochemical Analysis 8, 105-109. doi: 10.1002/(SICI)1099-1565(199705)8:3〈105::AID-PCA348〉3.0.CO;2-J
21. Johansson CJ, Mahlen A, Petterson G (1973) Kinetic studies on citrate synthase from pig heart. Biochimica et Biophysica Acta 309, 466-472.
22. 2 by Rubisco. Biochemistry 37, 15414-15422. doi: 10.1021/bi981598e
23. 2 fixation by Rubisco: computational dissection of the key steps of carboxylation, hydration and C-C bond cleavage. Journal of the American Chemical Society 123, 10821-10829. doi: 10.1021/ja011362p
24. Melander L (1960) 'Isotope effects on reaction rates'. (Ronald Press Company: New York)
25. Melzer E, Schmidt HL (1987) Carbon isotope effects on the pyruvate dehydrogenase reaction and their importance for relative carbon 13 depletion in lipids. Journal of Biological Chemistry 262, 8159-8164.
26. Moliner V, Andrés J, Oliva M, Safont VS, Tapia O (1999) Transition structure invariance to model system size and calculation levels: a QM/MM study of the carboxylation step catalyzed by Rubisco. Theoretical Chemistry Accounts 101, 228-233.
27. Mulholland AJ, Richards WG (1998) A model of the condensation step in the citrate synthase reaction. Journal of Molecular Structure 427, 175-184.
28. 12C isotope labelling. Plant Physiology 136, 3245-3254. doi: 10.1104/pp.104.048470
29. O'Leary MH (1971) The rate determining step in the oxidative decarboxylation of isocitric acid. Biochim Biophys Acta Enzymology 235, 14-18. doi: 10.1016/0005-2744(71)90027-1
30. O'Leary MH (1980) Determination of heavy atom isotope effects on enzyme-catalyzed reactions. Methods in Enzymology 64, 83-104.
31. O'Leary MH (1981) Carbon isotope fractionation in plants. Phytochemistry 20, 553-567. doi: 10.1016/0031-9422(81)85134-5
32. Oliva M, Safont VS, Andres J, Tapia O (1999) A theoretical study of the molecular mechanism for the carboxylation chemistry in Rubisco. Journal of Physical Chemistry A 103, 8725-8732. doi: 10.1021/jp992052k
33. Paneth P (1995) Theoretical calculations of heavy-atom isotope effects. Computers & Chemistry 19, 231-240. doi: 10.1016/0097-8485(95)93589-S
34. Pawlak J, O'Leary MH, Paneth P (1998) Are mutated enzymes good models for interpretation of intrinsic isotope effects? Journal of Molecular Structure 454, 69-75.
35. Pierce J, Andrews TJ, Lorimer GH (1986) Reaction intermediate partitioning by ribulose-1,5-bisphosphate carboxylase with different substrate specificities. Journal of Biological Chemistry 261, 10248-10256.
36. Raven JA (1996) Inorganic carbon assimilation by marine biota. Journal of Experimental Marine Biology and Ecology 203, 39-47. doi: 10.1016/0022-0981(96) 02568-3
37. Robinson JJ, Scott KM, Swanson ST, O'Leary MH, Horken K, Tabita FR, Cavanaugh CM (2003) Kinetic isotope effect and characterization of form II RubisCO from the chemoautotrophic endosymbionts of the hydrothermal vent tubeworm Riftia pachyptila. Limnology and Oceanography 48, 48-54.
38. Roeske CA, O'Leary MH (1984) Carbon isotope effects on the enzyme-catalyzed carboxylation of ribulose-1,5-bisphosphate. Biochemistry 23, 6275-6284. doi: 10.1021/bi00320a058
39. Roeske CA, O'Leary MH (1985) Carbon isotope effect on carboxylation of ribulose bisphosphate catalysed by ribulose bisphosphate carboxylase from Rhodospirillum rubrum. Biochemistry 24, 1603-1607. doi: 10.1021/bi00328a005
40. Rossmann A, Butzenlechner M, Schmidt HL (1991) Evidence for a non-statistical carbon isotope distribution in natural glucose. Plant Physiology 96, 609-614.
41. Saunders L (1986) Kinetic isotope effects. In 'Investigation of rates and mechanisms of reactions, Part I'. (Ed. CF Bernosconi) pp. 211-255. (Wiley and Sons: New York)
42. Schmidt HL (2003) Fundamentals and systematics of the non-statistical distributions of isotopes in natural compounds. Die Naturwissenschaften 90, 537-552. doi: 10.1007/s00114-003-0485-5
43. Shepherd D, Garland PB (1969) Kinetic properties of citrate synthase from rat liver mitochondria. The Biochemical Journal 114, 597-607.
44. Siedow JN, Day DA (2000) Respiration and photorespiration. In 'Biochemistry and molecular biology of plants'. (Eds B Buchanan, W Gruissem, R Jones) pp. 676-729. (American Society of Plant Physiologists: Rockville, MD)
45. Tapia O, Andrés J, Safont VS (1995) Transition structure in vacuo and the theory of enzyme catalysis. Rubisco's catalytic mechanism: a paradigm case? Journal of Molecular Structure 342, 131-140.
46. 2 in french bean. Plant Physiology 131, 237-244. doi: 10.1104/pp.013078
47. 3 plants. Functional Plant Biology 31, 857-877. doi: 10.1071/FP04053
48. Troughton JH (1971) Aspects of the evolution of the photosynthetic carboxylation reaction in plants. In 'Photosynthesis and photorespiration'. (Eds MD Hatch, CB Osmond, RO Slatyer) pp. 124-129. (Wiley Interscience: Sydney)
49. Van Hook A (1971) Kinetic isotope effects: introduction and discussion of the theory. In 'Isotope effects in chemical reactions'. (Eds CJ Collins, NS Bowman) pp. 20-35. (Van Nostrand Reinhold Co: New York)
50. Zhang BL, Martin ML (1995) Site specific isotope fractionation in the characterization of biochemical mechanisms. Journal of Biological Chemistry 270, 16023-16029. doi: 10.1074/jbc.270.27.16023