A superrepressor mutant of the arginine repressor with a correctly predicted alteration of ligand binding specificity

Journal of Molecular Biology

Volumn 279, Issue 4, 1998, Pages 753-760

  Niersbach, Helmut ^a   Lin, Robert ^b   Van Duyne, Gregory D ^b   Maas, Werner K ^a  

^a NEW YORK UNIVERSITY MEDICAL CENTER   (United States)

^b UNIVERSITY OF PENNSYLVANIA   (United States)

Author keywords

Arginine repressor protein; Citrulline; DNA binding; Escherichia coli; Superrepressor

Indexed keywords

ARGININE; ASPARAGINE; CITRULLINE; REPRESSOR PROTEIN;

ARTICLE; BIOSYNTHESIS; CALORIMETRY; CARBOXY TERMINAL SEQUENCE; DNA BINDING; ESCHERICHIA COLI; LIGAND BINDING; PRIORITY JOURNAL; TITRIMETRY;

ESCHERICHIA COLI;

EID: 0032546760     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1006/jmbi.1998.1810     Document Type: Article

References (31)

1. Brennan, R. G. (1993). The winged-helix DNA-binding motif: another helix-turn-helix takeoff [comment]. Cell, 74(5), 773-776.
2. Burke, M., Merican, A. F. & Sherratt, D. J. (1994). Mutant Escherichia coli arginine repressor proteins that fail to bind L- arginine, yet retain the ability to bind their normal DNA-binding sites. Mol. Microbiol. 13(4), 609-618.
3. Chen, S. H., Merican, A. F. & Sherratt, D. J. (1997). DNA binding of Escherichia coli arginine repressor mutants altered in oligomeric state. Mol. Microbiol. 24(6), 1143-1156.
4. Crabeel, M., Charlier, D., Cunin, R. & Glansdorff, N. (1979). Cloning and endonuclease restriction analysis of argF and of the control region of the argECBH bipolar operon in Escherichia coli. Gene, 5(3), 207-231.
5. Davis, B. D. & Mingioli, E. S. (1950). Mutants of Escherichia coli requiring methionine or vitamin B12. J. Bacteriol. 60, 17-28.
6. Dion, M., Charlier, D., Wang, H., Gigot, D., Savchenko, A., Hallet, J. N., Glansdorff, N. & Sakanyan, V. (1997). The highly thermostable arginine repressor of Bacillus stearothermophilus: gene cloning and repressor-operator interactions. Mol. Microbiol. 25(2), 385-398.
7. Fleischmann, R. D., Adams, M. D., White, O., Clayton, R. A., Kirkness, E. F., Kerlavage, A. R., Bult, C. J., Tomb, J. F., Dougherty, B. A. & Merrick, J. M., et al. (1995). Whole-genome random sequencing and assembly of Haemophilus influenzae Rd [see comments]. Science, 269(5223), 496-512.
8. Fried, M. & Crothers, D. M. (1981). Equilibria and kinetics of lac repressor-operator interactions by polyacrylamide gel electrophoresis. Nucl. Acids Res. 9(23), 6505-6525.
9. Glansdorff, N. (1996). Biosynthesis of arginine and polyamines. In Escherichia coli and Salmonella-Cellular and Molecular Biology (Neidhardt, F. C., ed.), 2nd edit., vol. 1, pp. 408-433, ASM Press, Washington, DC.
10. Grandori, R., Lavoie, T. A., Pflumm, M., Tian, G., Niersbach, H., Maas, W. K., Fairman, R. & Carey, J. (1995). The DNA-binding domain of the hexameric arginine repressor. J. Mol. Biol. 254(2), 150-162.
11. Hemsley, A., Arnheim, N., Toney, M. D., Cortopassi, G. & Galas, D. J. (1989). A simple method for site-directed mutagenesis using the polymerase chain reaction. Nucl. Acids Res. 17(16), 6545-6551.
12. Lewis, M., Chang, G., Horton, N. C., Kercher, M. A., Pace, H. C., Schumacher, M. A., Brennan, R. G. & Lu, P. (1996). Crystal structure of the lactose operon repressor and its complexes with DNA and inducer. Science, 271(5253), 1247-1254.
13. Lim, D. B., Oppenheim, J. D., Eckhardt, T. & Maas, W. K. (1987). Nucleotide sequence of the argR gene of Escherichia coli K-12 and isolation of its product, the arginine repressor. Proc. Natl Acad. Sci. USA, 84(19), 6697-6701.
14. Lu, C. D., Houghton, J. E. & Abdelal, A. T. (1992). Characterization of the arginine repressor from Salmonella typhimurium and its interactions with the carAB operator. J. Mol. Biol. 225(1), 11-24.
15. Maas, W. K. (1994). The arginine repressor of Escherichia coli. Microbiol. Rev. 58(4), 631-640.
16. Martinez-Hackert, E. & Stock, A. M. (1997). Structural relationships in the OmpR family of winged-helix transcription factors. J. Mol. Biol. 269(3), 301-312.
17. Miller, J. H. (1977). Experiments in Molecular Genetics, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
18. Norrander, J., Kempe, T. & Messing, J. (1983). Construction of improved M13 vectors using oligodeoxynucleotide-directed mutagenesis. Gene, 26(1), 101-106.
19. North, A. K., Smith, M. C. & Baumberg, S. (1989). Nucleotide sequence of a Bacillus subtilis arginine regulatory gene and homology of its product to the Escherichia coli arginine repressor. Gene, 80(1), 29-38.
20. Novick, R. P. & Maas, W. K. (1961). Control by endogenously synthesized arginine of the formation of ornithine transcarbamylase in Escherichia coli. J. Bacteriol. 81, 236-240.
21. Parsons, I. D., Persson, B., Mekhalfia, A., Blackburn, G. M. & Stockley, P. G. (1995). Probing the molecular mechanism of action of co-repressor in the E. coli methionine repressor-operator complex using surface plasmon resonance (SPR). Nucl. Acids Res. 23(2), 211-216.
22. Phillips, K. & Phillips, S. E. (1994). Electrostatic activation of Escherichia coli methionine repressor. Structure, 2(4), 309-316.
23. Raleigh, E. A., Murray, N. E., Revel, H., Blumenthal, R. M., Westaway, D., Reith, A. D., Rigby, P. W. J., Elhai, J. & Hanahan, D. (1988). McrA and McrB restriction phenotypes of some E. coli strains and implications for gene cloning. Nucl. Acids Res. 16, 1563-1575.
24. Rodriguez-Garcia, A., Ludovice, M., Martin, J. F. & Liras, P. (1997). Arginine boxes and the argR gene in Streptomyces clavuligerus: evidence for a clear regulation of the arginine pathway. Mol. Microbiol. 25(2), 219-228.
25. Sanger, F., Nicklen, S. & Coulson, A. R. (1977). DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA, 74(12), 5463-5467.
26. Sunnerhagen, M., Nilges, M., Otting, G. & Carey, J. (1997). Solution structure of the DNA-binding domain and model for the complex of multifunctional hexameric arginine repressor with DNA. Nature Struct. Biol. 4(10), 819-826.
27. Tian, G. & Maas, W. K. (1994). Mutational analysis of the arginine repressor of Escherichia coli. Mol. Microbiol. 13(4), 599-608.
28. Tian, G., Lim, D., Carey, J. & Maas, W. K. (1992). Binding of the arginine repressor of Escherichia coli K12 to its operator sites. J. Mol. Biol. 226(2), 387-397.
29. Tian, G., Lim, D., Oppenheim, J. D. & Maas, W. K. (1994). Explanation for different types of regulation of arginine biosynthesis in Escherichia coli B and Escherichia coli K12 caused by a difference between their arginine repressors. J. Mol. Biol. 235(1), 221-230.
30. Van Duyne, G. D., Ghosh, G., Maas, W. K. & Sigler, P. B. (1996). Structure of the oligomerization and L-arginine binding domain of the arginine repressor of Escherichia coli. J. Mol. Biol. 256(2), 377-391.
31. Weber, I. T. & Steitz, T. A. (1987). Structure of a complex of catabolite gene activator protein and cyclic AMP refined at 2.5 Å resolution. J. Mol. Biol. 198(2), 311-32.