Enzymes with molecular tunnels

Accounts of Chemical Research

Volumn 36, Issue 7, 2003, Pages 539-548

  Raushel, Frank M ^a   Thoden, James B ^b   Holden, Hazel M ^a  

^a TEXAS A AND M UNIVERSITY   (United States)

^b UNIVERSITY OF WISCONSIN MADISON   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ACETYL COENZYME A SYNTHETASE; AMIDOPHOSPHORIBOSYLTRANSFERASE; AMMONIA; ASPARTATE AMMONIA LIGASE; CARBON MONOXIDE DEHYDROGENASE; ENZYME; GLUTAMATE SYNTHASE; GLUTAMINE; GLUTAMINE FRUCTOSE 6 PHOSPHATE AMINOTRANSFERASE; IMIDAZOLE DERIVATIVE; IMIDAZOLE GLYCEROL PHOSPHATE SYNTHASE; PROTEIN; SOLVENT; TRYPTOPHAN SYNTHASE; UNCLASSIFIED DRUG;

ARTICLE; BINDING SITE; CATALYSIS; DIFFUSION; ENZYME ANALYSIS; MOLECULAR BIOLOGY; MOLECULAR CLONING; MOLECULAR STABILITY; NONHUMAN; OPTICAL RESOLUTION; PROTEIN EXPRESSION; PROTEIN STRUCTURE; X RAY CRYSTALLOGRAPHY;

AMINOHYDROLASES; BINDING SITES; ENZYMES; GLUTAMINE-FRUCTOSE-6-PHOSPHATE TRANSAMINASE (ISOMERIZING); PROTEIN CONFORMATION; TRYPTOPHAN SYNTHASE;

EID: 0037493104     PISSN: 00014842     EISSN: None     Source Type: Journal    
DOI: 10.1021/ar020047k     Document Type: Article

References (39)

1. Ban, N.; Nissen, P.; Hansen, J.; Moore, P. B.; Steitz, T. A. The Complete Atomic Structure of the Large Ribosomal Subunit at 2.4 Å Resolution. Science 2000, 289, 905-920.,
2. Blake, C. C.; Koenig, D. F.; Mair, G. A.; North, A. C.; Phillips, D. C.; Sarma, V. R. Structure of Hen Egg-White Lysozyme. A Three-Dimensional Fourier Synthesis at 2 Å Resolution. Nature 1965, 206, 757-761.
3. 2, Multienzyme Complex from Salmonella typhimurium. J. Biol. Chem. 1988, 263, 17857-17871.
4. Banner, D. W.; Bloomer, A. C.; Petsko, G. A.; Phillips, D. C.; Pogson, C. I.; Wilson, I. A.; Corran, P. H.; Furth, A. J.; Milman, J. D.; Offord, R. E.; Priddle, J. D.; Waley, S. G. Structure of Chicken Muscle Triose Phosphate Isomerase Determined Crystallographically at 2.5 Å Resolution Using Amino Acid Sequence Data. Nature 1975, 255, 609-614.
5. 2 Complex. Biochemistry 1996, 35, 4211-4221.
6. 2 Complex with Ligands Bound to the Active Sites of the α- and β-Subunits Reveal Ligand-Induced Conformational Changes. Biochemistry 1997, 36, 7664-7680.
7. Schneider, T. R.; Gerhardt, E.; Lee, M.; Liang, P. H.; Anderson, K. S.; Schlichting, I. Loop Closure and Intersubunit Communication in Tryptophan Synthase. Biochemistry 1998, 37, 5394-5406.
8. Leja, C. A.; Woehl, E. U.; Dunn, M. F. Allosteric Linkage between Beta-site Covalent Transformations and Alph-site Activation and Deactivation in the Tryptophan Synthase Bienzyme Complex. Biochemistry 1995, 34, 6552-6561.
9. Anderson, K. S.; Miles, E. W.; Johnson, K. A. Serine Modulates Substrate channeling in Tryptophan Synthase: A Novel Intersubunit Triggering Mechanism. J. Biol. Chem. 1991, 266, 8020-8033.
10. Matthews, S. L.; Anderson, P. M. Evidence for the Presence of Two Nonidentical Subunits in Carbamyl Phosphate Synthetase of Escherichia coli. Biochemistry 1972, 11, 1176-1183.
11. Trotta, P. P.; Burt, M. E.; Haschemeyer, R. H.; Meister, A. Reversible Dissociation of Carbamyl Phosphate Synthetase into a Regulated Synthesis Subunit and a Subunit Required for Glutamine Utilization. Proc. Natl. Acad. Sci. U.S.A. 1971, 68, 2599-2603.
12. Zalkin, H. The Amidotransferases. Adv. Enzymol. Relat. Areas Mol. Biol. 1993, 66, 203-309.
13. Powers, S. G.; Meister, A.; Haschemeyer, R. H.; Linkage Between Self-Association and Catalytic Activity of Escherichia coli Carbamyl Phosphate Synthetase. J. Biol. Chem. 1980, 255, 1554-1558.
14. Anderson, P. M. Carbamoyl-Phosphate Synthetase: An Example of Effects on Enzyme Properties of Shifting an Equilibrium between Active Monomer and Active Oligomer. Biochemistry 1986, 25, 5576-5582.
15. Kim, J.; Raushel, F. M. Allosteric Control of the Oligomerization of Carbamoyl Phosphate Synthetase from Escherichia coli. Biochemistry 2001 40, 11030-11036.
16. Thoden, J. B.; Holden, H. M.; Wesenberg, G.; Raushel, F. M.; Rayment, I. Structure of Carbamoyl Phosphate Synthetase: A Journey of 96 A from Substrate to Product. Biochemistry 1997, 36, 6305-6316.
17. Tesmer, J. J.; Klem, T. J.; Deras, M. L.; Davisson, V. J.; Smith J. L. The Crystal Structure of GMP Synthetase Reveals a Novel Catalytic Triad and is a Structural Paradigm for Two Enzyme Families. Nat. Struct. Biol. 1996, 3, 74-86.
18. Galperin, M. Y.; Koonin, E. V. A Diverse Superfamily of Enzymes with ATP-Dependent Carboxylate-Amine/Thiol Ligase Activity. Protein Sci. 1997, 6, 2639-2643.
19. Nicholls, A.; Sharp, K. A.; Honig, B. Protein Folding and Association: Insights from the Interfacial and Thermodynamic Properties of Hydrocarbons. Proteins 1991, 11, 281-296.
20. Thoden, J. B.; Raushel, F. M.; Benning, M. M.; Rayment, I.; Holden, H. M. The Structure of Carbamoyl Phosphate Synthetase Determined to 2.1 Å Resolution. Acta Crystallogr., Sect. D 1999, 55, 8-24.
21. Huang, X.; Raushel, F. M. An Engineered Blockage Within the Ammonia Tunnel of Carbamoyl Phosphate Synthetase Prevents the Use of Glutamine as a Substrate But Not Ammonia. Biochemistry 2000, 39, 3240-3247.
22. Huang, X.; Raushel, F. M. Restricted Passage of Reaction Intermediates Through the Ammonia Tunnel of Carbamoyl Phosphate Synthetase. J. Biol. Chem. 2000, 275, 26233-26240.
23. Thoden, J. B.; Huang, X.; Raushel, F. M.; Holden, H. M. Carbamoyl Phosphate Synthetase: Creation of an Escape Route for Ammonia. J. Biol. Chem. 2002, 277, 39722-39727.
24. Miles, B. W.; Raushel, F. M. Synchronization of the Three reaction Center within Carbamoyl Phosphate Synthetase. Biochemistry 2000, 39, 5051-5056.
25. Muchmore, C. R.; Krahn, J. M.; Kim, J. H.; Zalkin, H.; Smith, J. L. Crystal Structure of Glutamine Phosphoribosylpyrophosphate Amidotransferase from Escherichia coli. Protein Sci. 1998, 1, 39-51.
26. Krahn, J. M.; Kim, J. H.; Burns, M. R.; Parry, R. J.; Zalkin, H.; Smith J. L. Coupled Formation of an Amidotransferase Interdomain Ammonia Channel and a Phosphoribosyltransferase Active Site. Biochemistry 1997, 36, 11061-11068
27. Larsen, T. M.; Boehlein, S. K.; Schuster, S. M.; Richards, N. G. J.; Thoden, J. B.; Holden, H. M.; Rayment, I. Three-Dimensional Structure of Escherichia coli Asparagine Synthetase B: A Short Journey from Substrate to Product. Biochemistry 1999, 38, 16146-16157.
28. Vanoni, M. A.; Curti, B. Glutamate Synthase: A Complex Iron-Sulfur Flavoprotein. Cell. Mol. Life Sci. 1999, 55, 617-638.
29. Vanoni, M. A.; Verzotti, E.; Zanetti, G.; Curti, B. Glutamate Synthase: Properties of the Recombinant β-Subunit. Eur. J. Biochem. 1996, 236, 937-946.
30. Vanoni, M. A.; Fischer, F.; Ravasio, S.; Verzotti, E.; Edmondson, D. E.; Hagen, W. R.; Zanetti, G.; Curti, B. The Recombinant β-Subunit of Glutamate Synthase: Spectroscopic and Catalytic Properties. Biochemistry 1998, 37, 1828-1838.
31. Stabile, H.; Curti, B.; Vanoni, M. A. Functional Properties of Recombinant Azospirillum brasilense Glutamate Synthase, a Complex Iron-Sulfur Flavoprotein. Eur. J. Biochem. 2000, 267, 2720-2730.
32. Binda, C.; Bossi, R. T.; Wakatsuki, S.; Arzt, S.; Coda, A.; Curti, B.; Vanoni, M. A.; Mattevi, A. Cross-Talk and Ammonia Channeling Between Active Centers in the Unexpected Domain Arrangement of Glutamate Synthase. Structure 2000, 8, 1299-1308.
33. van den Heuvel, R. H. H.; Ferrari, D.; Bossi, R. T.; Ravasio, S.; Curti, B.; Vanoni, M. A.; Florencio, F. J.; Mattevi, A. Structural Studies on the Synchronization of Catalytic Centers in Glutamate Synthase. J. Biol. Chem. 2002, 277, 24579-24583.
34. 8 Barrel Joins Two Active Sites. Structure 2001, 9, 987-997.
35. 8 Barrel of the Imidazole Glycerol Phosphate Synthase Bienzyme Complex. Structure 2002, 10, 185-193.
36. Omi, R.; Mizuguchi, H.; Goto, M.; Miyahara, I.; Hayashi, H.; Kagamiyama, H.; Hirotsu, K. Structure of Imidazole Glycerol Phosphate Synthase from Thermus thermophilus HB8: Open-Closed Conformational Change and Ammonia Tunneling. J. Biochem. 2002, 132, 759-765.
37. Badet-Denisot, M.-A.; Rene, L.; Badet, B. Mechanistic Investigations on Glucosamine-6-Phosphate Synthase. Bull. Soc. Chim. Fr. 1993, 130, 249-255.
38. Teplyakov, A.; Obmolova, G.; Badet, B.; Badet-Denisot, M.-A. Channeling of Ammonia in Glucosamine-6-Phosphate Synthase. J. Mol. Biol. 2001, 313, 1093-1102.
39. Doukov, T. I.; Iverson, t. M.; Seravalli J.; Ragsdale S. W.; Drennan, C. L. A Ni-Fe-Cu Center in a Bifunctional Carbon Monoxide Dehydrogenase/Acetyl-CoA Synthase. Science 2002, 298, 567-572.