Importance of tetramer formation by the nitrogen assimilation control protein for strong repression of glutamate dehydrogenase formation in Klebsiella pneumoniae

Journal of Bacteriology

Volumn 187, Issue 24, 2005, Pages 8291-8299

  Rosario, Christopher J ^a   Bender, Robert A ^a  

^a UNIVERSITY OF MICHIGAN   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMMONIA; BACTERIAL PROTEIN; DNA FRAGMENT; HISTIDINE; NITROGEN; NITROGEN ASSIMILATION CONTROL PROTEIN; UNCLASSIFIED DRUG; UREA;

ARTICLE; BACTERIUM MUTANT; ENZYME ASSAY; KLEBSIELLA PNEUMONIAE; MUTAGENESIS; NITROGEN FIXATION; NONHUMAN; PLASMID; PRIORITY JOURNAL; PROTEIN PURIFICATION; WESTERN BLOTTING;

AMINO ACID SUBSTITUTION; BACTERIAL PROTEINS; BASE SEQUENCE; BETA-GALACTOSIDASE; CHROMATOGRAPHY, GEL; DIMERIZATION; DNA; DNA FOOTPRINTING; DNA-BINDING PROTEINS; ELECTROPHORETIC MOBILITY SHIFT ASSAY; GENE EXPRESSION REGULATION, BACTERIAL; GENES, REPORTER; GLUTAMATE DEHYDROGENASE; KLEBSIELLA PNEUMONIAE; MOLECULAR SEQUENCE DATA; MOLECULAR WEIGHT; MUTATION, MISSENSE; PROMOTER REGIONS (GENETICS); PROTEIN BINDING; PROTEIN SUBUNITS; SEQUENCE DELETION; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

BACTERIA (MICROORGANISMS); KLEBSIELLA PNEUMONIAE;

EID: 28844443806     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.187.24.8291-8299.2005     Document Type: Article

References (40)

1. Baldauf, S. L., M. A. Cardani, and R. A. Bender. 1988. Regulatin of the galactose-inducible lac operon and the histidine utilization operons in pts mutants of Klebsiella aerogenes. J. Bacteriol. 170:5588-5593.
2. Bencini, D. A., G. A. O'Donovan, and J. R. Wild. 1984. Rapid chemical degradation sequencing. BioTechniques 2:4-5.
3. Bender, R. A. 1991. The role of the NAC protein in the nitrogen regulation of Klebsiella aerogenes. Mol. Microbiol. 5:2575-2580.
4. Brenchley, J. E., M. J. Prival, and B. Magasanik. 1973. Regulation of the synthesis of enzymes responsible for glutamate formation in Klebsiella aerogenes. J. Biol. Chem. 248:6122-6128.
5. Brunelle, A., and R. Schleif. 1989. Determining residue-base interactions between AraC protein and araI DNA. J. Mol. Biol. 209:607-622.
6. Chang, A. C., and S. N. Cohen. 1978. Construction and characterization of ampliflable multicopy DNA cloning vehicles derived from the P15A cryptic miniplasmid. J. Bacteriol. 134:1141-1156.
7. Chen, J. D., and D. A. Morrison. 1987. Cloning of Streptococcus pneumoniae DNA fragments in Escherichia coli requires vectors protected by strong transcriptional terminators. Gene 55:179-187.
8. Choi, H.-J., S.-J. Kim, P. Mukhopadhay, S. Cho, J.-R. Woo, G. Storz, and S.-E. Ryu. 2001. Structural basis of the redox switch in the OxyR transcription factor. Cell 105:103-113.
9. Deich, R. A., B. J. Metcalf, C. W. Finn, J. E. Farley, and B. A. Green. 1988. Cloning of genes encoding a 15,000-dalton peptidoglycan-associated outer membrane lipoprotein and an antigenically related 15,000-dalton protein from Haemophilus influenzae. J. Bacteriol. 170:489-498.
10. Dunn, T. M., S. Hahn, S. Ogden, and R. F. Schleif. 1984. An operator at -280 base pairs that is required for repression of araBAD operon promoter: addition of DNA helical turns between the operator and promoter cyclically hinders repression. Proc. Natl. Acad. Sci. USA 81:5017-5020.
11. Feng, J., T. J. Goss, R. A. Bender, and A. J. Ninfa. 1995. Activation of transcription initiation from the nac promoter of Klebsiella aerogenes. J. Bacteriol. 177:5523-5534.
12. Feng, J., T. J. Goss, R. A. Bender, and A. J. Ninfa. 1995. Repression of the Klebsiella aerogenes nac promoter. J. Bacteriol. 177:5535-5538.
13. Fried, M. G. 1989. Measurement of protein-DNA interaction parameters by electrophoresis mobility shift assay. Electrophoresis 10:366-376.
14. Gao, J., and G. N. Gussin. 1991. Mutations in TrpI binding site II that differentially affect activation of the trpBA promoter of Pseudomonas aeruginosa. EMBO J. 10:4137-4144.
15. Goss, T. J., and R. A. Bender. 1995. The nitrogen assimilation control protein, NAC, is a DNA binding transcription activator in Klebsiella aerogenes. J. Bacteriol. 177:3546-3555.
16. Goss, T. J., B. K. Janes, and R. A. Bender. 2002. Repression of glutamate dehydrogenase formation in Klebsiella aerogenes requires two binding sites for the nitrogen assimilation control protein, NAC. J. Bacteriol. 184:6966-6975.
17. Huber, R., and S. Adhya. 1988. Interaction of spatially separated protein-DNA complexes for control of gene expression: operator conversions. Proc. Natl. Acad. Sci. USA 85:9683-9687.
18. Janes, B. K., C. J. Rosario, and R. A. Bender. 2003. Isolation of a negative control mutant of the nitrogen assimilation control protein, NAC, in Klebsiella aerogenes. J. Bacteriol. 185:688-692.
19. Janes, B. K., P. J. Pomposiello, A. Perez-Matos, D. J. Najarian, T. J. Goss, and R. A. Bender. 2001. Growth inhibition caused by overexpression of the structural gene for glutamate dehydrogenase (gdhA) from Klebsiella aerogenes. J. Bacteriol. 183:2709-2714.
20. Janes, B. K., and R. A. Bender. 1998. Alanine catabolism in Klebsiella aerogenes: molecular characterization of the dadAB operon and its regulation by the nitrogen assimilation control protein. J. Bacteriol. 180:563-570.
21. Kalivoda, K. A., S. M. Steenbergen, E. R. Vimr, and J. Plumbridge. 2003. Regulation of sailic acid catabolism by the DNA binding protein NanR in Escherichia coli. J. Bacteriol. 185:4806-4815.
22. Lochowska, A., R. Iwanicka-Nowicka, J. Zaim, M. Witkowska-Zimny, K. Bolewska, and M. M. Hryniewicz. 2004. Identification of activating region (AR) of Escherichia coli LysR-type transcription factor CysB and CysB contact site on RNA polymerase alpha subunit at the cysP promoter. Mol. Microbiol. 53:791-806.
23. Lowry, O. H., N. J. Rosebrough, A. L. Farr, and R. J. Randall. 1951. Protein measurement with the Folin phenol reagent. J. Biol. Chem. 193:265-275.
24. Macaluso, A., E. A. Best, and R. A. Bender. 1990. Role of the nac gene product in the nitrogen regulation of some NTR-regulated operons of Klebsiella aerogenes. J. Bacteriol. 172:7249-7255.
25. Maniatis, T., E. F. Fritsch, and J. Sambrook. 1982. Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y.
26. Muraoka, S., R. Okumura, N. Ogawa, T. Nonaka, K. Miyashita, and T. Senda. 2003. Crystal structure of a full-length LysR-type transcriptional regulator, CbnR: unusual combination of a two subunit forms and molecular bases for causing and changing DNA bend. J. Mol. Biol. 325:555-566.
27. Muse, W. B. 1996. The nac gene of E. coli and its role in nitrogen metabolism. Thesis. University of Michigan, Ann Arbor.
28. Muse, W. B., and R. A. Bender. 1999. The amino-terminal 100 residues of the nitrogen assimilation control protein (NAC) encode all known properties of NAC from Klebsiella aerogenes and Escherichia coli. J. Bacteriol. 181:934-940.
29. Muse, W. B., C. J. Rosario, and R. A. Bender. 2003. Nitrogen regulation of the codBA (cytosine deaminase) operon from Escherichia coli by the nitrogen assimilation control protein, NAC. J. Bacteriol. 185:2920-2926.
30. Oehler, S., E. R. Eismann, H. Kramer, and B. Muller-Hill. 1990. The three operators of the lac operon cooperate in repression. EMBO J. 9:973-979.
31. Osuna, R., A. Schwacha, and R. A. Bender. 1994. Identification of the hutUH operator (hutUo) from Klebsiella aerogenes by DNA deletion analysis. J. Bacteriol. 176:5525-5529.
32. Pomposiello, P. J., B. K. Janes, and R. A. Bender. 1998. Two roles for the DNA recognition site of the Klebsiella aerogenes nitrogen assimilation control protein. J. Bacteriol. 180:578-585.
33. Reznikoff, W. S., and W. R. McClure. 1986. E. coli promoter, p. 1-33. In W. S. Reznikoff and I. Gold (ed.), Maximizing gene expression. Buttersworth Publishers, London, England.
34. Schell, M. A. 1993. Molecular biology of the LysR family of transcriptional regulators. Annu. Rev. Microbiol. 47:597-626.
35. Schwacha, A., and R. A. Bender. 1993. The nac (nitrogen assimilation control) gene from Klebsiella aerogenes. J. Bacteriol. 175:2107-2115.
36. Schwacha, A., and R. A. Bender. 1993. The product of the Klebsiella aerogenes nac (nitrogen assimilation control) gene is sufficient for activation of the hut operons and repression of the gdh operon. J. Bacteriol. 175:2116-2124.
37. Tan, S., and T. J. Richmond. 1990. DNA binding-induced conformational change of the yeast transcriptional activator PRTF. Cell 62:367-377.
38. Tao, K., C. Zou, N. Fujita, and A. Ishihama. 1995. Mapping of the OxyR protein contact site in the C-terminal region of RNA polymerase alpha subunit. J. Bacteriol. 177:6740-6744.
39. Thompson, J. F., and A. Landy. 1988. Empirical estimation of protein-induced DNA bending angles: applications to 1 site-specific recombination complexes. Nucleic Acids Res. 16:9687-9705.
40. Toledano, M. B., I. Kullik, F. Trinh, P. T. Baird, T. D. Schneider, and G. Storz. 1994. Redox-dependent shift of OxyR-DNA contacts along an extended DNA-binding site: A mechanism for differential promoter selection. Cell 78:897-909.