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. 1992 Dec 1;288(Pt 2):691–695. doi: 10.1042/bj2880691

Escherichia coli dihydrodipicolinate synthase. Identification of the active site and crystallization.

B Laber 1, F X Gomis-Rüth 1, M J Romão 1, R Huber 1
PMCID: PMC1132066  PMID: 1463470

Abstract

Escherichia coli dihydrodipicolinate synthase (DHDPS) (EC 4.2.1.52), the first enzyme unique to lysine biosynthesis, catalyses the condensation of pyruvate and aspartate beta-semialdehyde (ASA) by a ping-pong mechanism. Pyruvate binds first to the enzyme, forming a Schiff base with the epsilon-amino group of Lys-161, followed by binding of ASA. Km values of 0.57 and 0.55 mM were determined for pyruvate and DL-ASA respectively. 3-Bromopyruvate inhibits DHDPS with a Ki of 1.6 mM. DHDPS is 50% inhibited by 1.0 mM-L-lysine, 1.2 mM-sodium dipicolinate or 4.6 mM-S-2-aminoethyl-L-cysteine. Crystals of DHDPS diffracting to beyond a resolution of 0.24 nm (2.4 A) were obtained under several experimental conditions. Diffraction patterns were compatible with trigonal space groups P3(1)21 or P3(2)21, with unit-cell parameters a = b = 12.26 nm and c = 11.19 nm. The density of the crystals indicates the presence of a dimer of DHDPS subunits per asymmetric unit.

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Selected References

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  1. Anastasi A., Brown M. A., Kembhavi A. A., Nicklin M. J., Sayers C. A., Sunter D. C., Barrett A. J. Cystatin, a protein inhibitor of cysteine proteinases. Improved purification from egg white, characterization, and detection in chicken serum. Biochem J. 1983 Apr 1;211(1):129–138. doi: 10.1042/bj2110129. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. BLACK S., WRIGHT N. G. Aspartic beta-semialdehyde dehydrogenase and aspartic beta-semialdehyde. J Biol Chem. 1955 Mar;213(1):39–50. [PubMed] [Google Scholar]
  3. Bode W., Schirmer T. Determination of the protein content of crystals formed by Mastigocladus laminosus C-phycocyanin, Chroomonas spec. phycocyanin-645 and modified human fibrinogen using an improved Ficoll density gradient method. Biol Chem Hoppe Seyler. 1985 Mar;366(3):287–295. doi: 10.1515/bchm3.1985.366.1.287. [DOI] [PubMed] [Google Scholar]
  4. Bonnassie S., Oreglia J., Sicard A. M. Nucleotide sequence of the dapA gene from Corynebacterium glutamicum. Nucleic Acids Res. 1990 Nov 11;18(21):6421–6421. doi: 10.1093/nar/18.21.6421. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. 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 May 7;72:248–254. doi: 10.1006/abio.1976.9999. [DOI] [PubMed] [Google Scholar]
  6. Devereux J., Haeberli P., Smithies O. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 1984 Jan 11;12(1 Pt 1):387–395. doi: 10.1093/nar/12.1part1.387. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Frisch D. A., Gengenbach B. G., Tommey A. M., Sellner J. M., Somers D. A., Myers D. E. Isolation and characterization of dihydrodipicolinate synthase from maize. Plant Physiol. 1991 Jun;96(2):444–452. doi: 10.1104/pp.96.2.444. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Frisch D. A., Tommey A. M., Gengenbach B. G., Somers D. A. Direct genetic selection of a maize cDNA for dihydrodipicolinate synthase in an Escherichia coli dapA- auxotroph. Mol Gen Genet. 1991 Aug;228(1-2):287–293. doi: 10.1007/BF00282478. [DOI] [PubMed] [Google Scholar]
  9. Huber R., Schneider M., Epp O., Mayr I., Messerschmidt A., Pflugrath J., Kayser H. Crystallization, crystal structure analysis and preliminary molecular model of the bilin binding protein from the insect Pieris brassicae. J Mol Biol. 1987 May 20;195(2):423–434. doi: 10.1016/0022-2836(87)90661-9. [DOI] [PubMed] [Google Scholar]
  10. Kaneko T., Hashimoto T., Kumpaisal R., Yamada Y. Molecular cloning of wheat dihydrodipicolinate synthase. J Biol Chem. 1990 Oct 15;265(29):17451–17455. [PubMed] [Google Scholar]
  11. Kumpaisal R., Hashimoto T., Yamada Y. Purification and characterization of dihydrodipicolinate synthase from wheat suspension cultures. Plant Physiol. 1987 Sep;85(1):145–151. doi: 10.1104/pp.85.1.145. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Laemmli U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970 Aug 15;227(5259):680–685. doi: 10.1038/227680a0. [DOI] [PubMed] [Google Scholar]
  13. Lottspeich F. Identification of the phenylthiohydantoin derivatives of amino acids by high pressure liquid chromatography, using a ternary, isocratic solvent system. Hoppe Seylers Z Physiol Chem. 1980 Dec;361(12):1829–1834. doi: 10.1515/bchm2.1980.361.2.1829. [DOI] [PubMed] [Google Scholar]
  14. Matthews B. W. Solvent content of protein crystals. J Mol Biol. 1968 Apr 28;33(2):491–497. doi: 10.1016/0022-2836(68)90205-2. [DOI] [PubMed] [Google Scholar]
  15. Richaud F., Richaud C., Ratet P., Patte J. C. Chromosomal location and nucleotide sequence of the Escherichia coli dapA gene. J Bacteriol. 1986 Apr;166(1):297–300. doi: 10.1128/jb.166.1.297-300.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Shedlarski J. G., Gilvarg C. The pyruvate-aspartic semialdehyde condensing enzyme of Escherichia coli. J Biol Chem. 1970 Mar 25;245(6):1362–1373. [PubMed] [Google Scholar]
  17. YUGARI Y., GILVARG C. Coordinate end-product inhibition in lysine synthesis in Escherichia coli. Biochim Biophys Acta. 1962 Aug 27;62:612–614. doi: 10.1016/0006-3002(62)90256-1. [DOI] [PubMed] [Google Scholar]
  18. Yugari Y., Gilvarg C. The condensation step in diaminopimelate synthesis. J Biol Chem. 1965 Dec;240(12):4710–4716. [PubMed] [Google Scholar]

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