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Volumn 399, Issue 3, 2010, Pages 476-490

Two crystal structures of Escherichia coli N-acetyl-l-glutamate kinase demonstrate the cycling between open and closed conformations

Author keywords

Acetylglutamate kinase; Amino acid kinase family; Conformational changes; Phosphoryl group transfer; X ray crystallography

Indexed keywords

ADENOSINE TRIPHOSPHATE; ARGININE; GLUTAMATE ACETYLTRANSFERASE; N ACETYLGLUTAMIC ACID; NUCLEOTIDE; SULFATE;

EID: 77954759428     PISSN: 00222836     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jmb.2010.04.025     Document Type: Article
Times cited : (15)

References (32)
  • 2
    • 26844567216 scopus 로고    scopus 로고
    • Genes, enzymes and regulation of arginine biosynthesis in plants
    • Slocum R.D. Genes, enzymes and regulation of arginine biosynthesis in plants. Plant Physiol. Biochem. 2005, 43:729-745.
    • (2005) Plant Physiol. Biochem. , vol.43 , pp. 729-745
    • Slocum, R.D.1
  • 3
    • 0016659528 scopus 로고
    • N-Acetylglutamate 5-phosphotransferase of Pseudomonas aeruginosa. Purification and ligand-directed association-dissociation
    • Haas D., Leisinger T. N-Acetylglutamate 5-phosphotransferase of Pseudomonas aeruginosa. Purification and ligand-directed association-dissociation. Eur. J. Biochem. 1975, 52:365-375.
    • (1975) Eur. J. Biochem. , vol.52 , pp. 365-375
    • Haas, D.1    Leisinger, T.2
  • 4
    • 4444234384 scopus 로고    scopus 로고
    • Arginine biosynthesis in Thermotoga maritima: characterization of the arginine-sensitive N-acetyl-l-glutamate kinase
    • Fernández-Murga M.L., Gil-Ortiz F., Llácer J.L., Rubio V. Arginine biosynthesis in Thermotoga maritima: characterization of the arginine-sensitive N-acetyl-l-glutamate kinase. J. Bacteriol. 2004, 186:6142-6149.
    • (2004) J. Bacteriol. , vol.186 , pp. 6142-6149
    • Fernández-Murga, M.L.1    Gil-Ortiz, F.2    Llácer, J.L.3    Rubio, V.4
  • 5
    • 0020864994 scopus 로고
    • Catalysts of the urea cycle
    • Jones M.E. Catalysts of the urea cycle. Trans. N. Y. Acad. Sci. 1983, 41:77-82.
    • (1983) Trans. N. Y. Acad. Sci. , vol.41 , pp. 77-82
    • Jones, M.E.1
  • 6
    • 0024605059 scopus 로고
    • Participation of ornithine aminotransferase in the synthesis and catabolism of ornithine in mice. Studies using gabaculine and arginine deprivation
    • Alonso E., Rubio V. Participation of ornithine aminotransferase in the synthesis and catabolism of ornithine in mice. Studies using gabaculine and arginine deprivation. Biochem. J. 1989, 259:131-138.
    • (1989) Biochem. J. , vol.259 , pp. 131-138
    • Alonso, E.1    Rubio, V.2
  • 8
    • 0036118398 scopus 로고    scopus 로고
    • Structure of acetylglutamate kinase, a key enzyme for arginine biosynthesis and a prototype for the amino acid kinase enzyme family, during catalysis
    • Ramón-Maiques S., Marina A., Gil-Ortiz F., Fita I., Rubio V. Structure of acetylglutamate kinase, a key enzyme for arginine biosynthesis and a prototype for the amino acid kinase enzyme family, during catalysis. Structure 2002, 10:329-342.
    • (2002) Structure , vol.10 , pp. 329-342
    • Ramón-Maiques, S.1    Marina, A.2    Gil-Ortiz, F.3    Fita, I.4    Rubio, V.5
  • 10
    • 0242411465 scopus 로고    scopus 로고
    • Site-directed mutagenesis of Escherichia coli acetylglutamate kinase and aspartokinase III probes the catalytic and substrate-binding mechanisms of these amino acid kinase family enzymes and allows three-dimensional modelling of aspartokinase
    • Marco-Marín C., Ramón-Maiques S., Tavárez S., Rubio V. Site-directed mutagenesis of Escherichia coli acetylglutamate kinase and aspartokinase III probes the catalytic and substrate-binding mechanisms of these amino acid kinase family enzymes and allows three-dimensional modelling of aspartokinase. J. Mol. Biol. 2003, 334:459-476.
    • (2003) J. Mol. Biol. , vol.334 , pp. 459-476
    • Marco-Marín, C.1    Ramón-Maiques, S.2    Tavárez, S.3    Rubio, V.4
  • 11
    • 31344471928 scopus 로고    scopus 로고
    • Structural bases of feed-back control of arginine biosynthesis, revealed by the structures of two hexameric N-acetylglutamate kinases, from Thermotoga maritima and Pseudomonas aeruginosa
    • Ramón-Maiques S., Fernández-Murga M.L., Gil-Ortiz F., Vagin A., Fita I., Rubio V. Structural bases of feed-back control of arginine biosynthesis, revealed by the structures of two hexameric N-acetylglutamate kinases, from Thermotoga maritima and Pseudomonas aeruginosa. J. Mol. Biol. 2006, 356:695-713.
    • (2006) J. Mol. Biol. , vol.356 , pp. 695-713
    • Ramón-Maiques, S.1    Fernández-Murga, M.L.2    Gil-Ortiz, F.3    Vagin, A.4    Fita, I.5    Rubio, V.6
  • 12
    • 37249081440 scopus 로고    scopus 로고
    • Structural basis for the regulation of N-acetylglutamate kinase by PII in Arabidopsis thaliana
    • Mizuno Y., Moorhead G.B., Ng K.K. Structural basis for the regulation of N-acetylglutamate kinase by PII in Arabidopsis thaliana. J. Biol. Chem. 2007, 282:35733-35740.
    • (2007) J. Biol. Chem. , vol.282 , pp. 35733-35740
    • Mizuno, Y.1    Moorhead, G.B.2    Ng, K.K.3
  • 13
    • 0036888353 scopus 로고    scopus 로고
    • Improvements in the analysis of domain motions in proteins from conformational change: DynDom version 1.50
    • Hayward S., Lee R.A. Improvements in the analysis of domain motions in proteins from conformational change: DynDom version 1.50. J. Mol. Graphics Modell. 2002, 21:181-183.
    • (2002) J. Mol. Graphics Modell. , vol.21 , pp. 181-183
    • Hayward, S.1    Lee, R.A.2
  • 14
    • 33947190385 scopus 로고    scopus 로고
    • A novel two-domain architecture within the amino acid kinase enzyme family revealed by the crystal structure of Escherichia coli glutamate 5-kinase
    • Marco-Marín C., Gil-Ortiz F., Pérez-Arellano I., Cervera J., Fita I., Rubio V. A novel two-domain architecture within the amino acid kinase enzyme family revealed by the crystal structure of Escherichia coli glutamate 5-kinase. J. Mol. Biol. 2007, 367:1431-1446.
    • (2007) J. Mol. Biol. , vol.367 , pp. 1431-1446
    • Marco-Marín, C.1    Gil-Ortiz, F.2    Pérez-Arellano, I.3    Cervera, J.4    Fita, I.5    Rubio, V.6
  • 15
    • 33750470057 scopus 로고    scopus 로고
    • Chemical screening methods to identify ligands that promote protein stability, protein crystallization, and structure determination
    • Vedadi M., Niesen F.H., Allali-Hassani A., Fedorov O.Y., Finerty P.J., Wasney G.A., et al. Chemical screening methods to identify ligands that promote protein stability, protein crystallization, and structure determination. Proc. Natl Acad. Sci. USA 2006, 103:15835-15840.
    • (2006) Proc. Natl Acad. Sci. USA , vol.103 , pp. 15835-15840
    • Vedadi, M.1    Niesen, F.H.2    Allali-Hassani, A.3    Fedorov, O.Y.4    Finerty, P.J.5    Wasney, G.A.6
  • 16
    • 37249032102 scopus 로고    scopus 로고
    • Dynamic personalities of proteins
    • Henzler-Wildman K., Kern D. Dynamic personalities of proteins. Nature 2007, 450:964-972.
    • (2007) Nature , vol.450 , pp. 964-972
    • Henzler-Wildman, K.1    Kern, D.2
  • 17
    • 36749073450 scopus 로고    scopus 로고
    • The crystal structure of the complex of PII and acetylglutamate kinase reveals how PII controls the storage of nitrogen as arginine
    • Llácer J.L., Contreras A., Forchhammer K., Marco-Marín C., Gil-Ortiz F., Maldonado R., et al. The crystal structure of the complex of PII and acetylglutamate kinase reveals how PII controls the storage of nitrogen as arginine. Proc. Natl Acad. Sci. USA 2007, 104:17644-17649.
    • (2007) Proc. Natl Acad. Sci. USA , vol.104 , pp. 17644-17649
    • Llácer, J.L.1    Contreras, A.2    Forchhammer, K.3    Marco-Marín, C.4    Gil-Ortiz, F.5    Maldonado, R.6
  • 18
    • 0000539364 scopus 로고
    • Glucose-induced conformational changes in yeast hexokinase
    • Bennett W.S., Steitz T.A. Glucose-induced conformational changes in yeast hexokinase. Proc. Natl Acad. Sci. USA 1978, 77:4848-4852.
    • (1978) Proc. Natl Acad. Sci. USA , vol.77 , pp. 4848-4852
    • Bennett, W.S.1    Steitz, T.A.2
  • 19
    • 84867587148 scopus 로고    scopus 로고
    • Open and closed conformations reveal induced fit movements in butyrate kinase 2 activation. Proteins. In press.
    • Diao, J., Ma, Y. D. & Hasson, M. S. (2010). Open and closed conformations reveal induced fit movements in butyrate kinase 2 activation. Proteins. In press. doi:10.1002/prot.22610.
    • (2010)
    • Diao, J.1    Ma, Y.D.2    Hasson, M.S.3
  • 21
    • 77950517828 scopus 로고    scopus 로고
    • Substrate binding and catalysis in carbamate kinase ascertained by crystallographic and site-directed mutagenesis studies. Movements and significance of a unique globular subdomain of this key enzyme for fermentative ATP production in bacteria
    • Ramón-Maiques S., Marina A., Guinot A., Gil-Ortiz F., Uriarte M., Fita I., Rubio V. Substrate binding and catalysis in carbamate kinase ascertained by crystallographic and site-directed mutagenesis studies. Movements and significance of a unique globular subdomain of this key enzyme for fermentative ATP production in bacteria. J. Mol. Biol. 2010, 397:1261-1275.
    • (2010) J. Mol. Biol. , vol.397 , pp. 1261-1275
    • Ramón-Maiques, S.1    Marina, A.2    Guinot, A.3    Gil-Ortiz, F.4    Uriarte, M.5    Fita, I.6    Rubio, V.7
  • 22
    • 0032777832 scopus 로고    scopus 로고
    • N-Acetyl-l-glutamate kinase from Escherichia coli: cloning of the gene, purification and crystallization of the recombinant enzyme and preliminary X-ray analysis of the free and ligand-bound forms
    • Gil F., Ramón-Maiques S., Marina A., Fita I., Rubio V. N-Acetyl-l-glutamate kinase from Escherichia coli: cloning of the gene, purification and crystallization of the recombinant enzyme and preliminary X-ray analysis of the free and ligand-bound forms. Acta Crystallogr., Sect. D: Biol. Crystallogr. 1999, 55:1350-1352.
    • (1999) Acta Crystallogr., Sect. D: Biol. Crystallogr. , vol.55 , pp. 1350-1352
    • Gil, F.1    Ramón-Maiques, S.2    Marina, A.3    Fita, I.4    Rubio, V.5
  • 23
    • 0028103275 scopus 로고
    • The CCP4 suite: programs for protein crystallography
    • CCP4
    • CCP4 The CCP4 suite: programs for protein crystallography. Acta Crystallogr., Sect. D: Biol. Crystallogr. 1994, 50:760-763.
    • (1994) Acta Crystallogr., Sect. D: Biol. Crystallogr. , vol.50 , pp. 760-763
  • 24
    • 0031059866 scopus 로고    scopus 로고
    • Processing of X-ray diffraction data collected in oscillation mode
    • Otwinowski Z., Minor W. Processing of X-ray diffraction data collected in oscillation mode. Methods Enzymol. 1997, 276:307-326.
    • (1997) Methods Enzymol. , vol.276 , pp. 307-326
    • Otwinowski, Z.1    Minor, W.2
  • 25
    • 84920325457 scopus 로고
    • AMoRe: an automated package for molecular replacement
    • Navaza J. AMoRe: an automated package for molecular replacement. Acta Crystallogr., Sect. A 1994, 50:157-163.
    • (1994) Acta Crystallogr., Sect. A , vol.50 , pp. 157-163
    • Navaza, J.1
  • 27
    • 84889120137 scopus 로고
    • Improved methods for building protein models in electron density maps and the location of errors in these models
    • Pt
    • Jones T.A., Zou J.Y., Cowan S.W., Kjeldgaard M. Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr., Sect. A 1991, 47(Pt 2):110-119.
    • (1991) Acta Crystallogr., Sect. A , vol.47 , Issue.2 , pp. 110-119
    • Jones, T.A.1    Zou, J.Y.2    Cowan, S.W.3    Kjeldgaard, M.4
  • 29
    • 33645158291 scopus 로고    scopus 로고
    • TLSMD web server for the generation of multi-group TLS models
    • Painter J., Merritt E.A. TLSMD web server for the generation of multi-group TLS models. J. Appl. Crystallogr. 2006, 39:109-111.
    • (2006) J. Appl. Crystallogr. , vol.39 , pp. 109-111
    • Painter, J.1    Merritt, E.A.2
  • 31
    • 0017184389 scopus 로고
    • A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding
    • Bradford M.M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 1976, 72:248-254.
    • (1976) Anal. Biochem. , vol.72 , pp. 248-254
    • Bradford, M.M.1
  • 32
    • 77954614766 scopus 로고
    • On the conservation of the slow conformational dynamics within the amino acid kinase family: NAGK the paradigm
    • Marcos E., Crehuet R., Bahar I. On the conservation of the slow conformational dynamics within the amino acid kinase family: NAGK the paradigm. PLoS Comput. Biol. 1976, 6:e1000738.
    • (1976) PLoS Comput. Biol. , vol.6
    • Marcos, E.1    Crehuet, R.2    Bahar, I.3


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