A simple assay for 3-deoxy-D-manno-octulosonate cytidylyltransferase and its use as a pathway screen

Analytical Biochemistry

Volumn 416, Issue 2, 2011, Pages 152-158

  Yi, Li ^a,b   Velasquez, Melvin S ^a   Holler, Tod P ^a   Woodard, Ronald W ^a  

^a UNIVERSITY OF MICHIGAN   (United States)

^b GENENTECH INC   (United States)

Author keywords

3 Deoxy D manno octulosonate cytidylyltransferase (KdsB); 3 Deoxy D manno octulosonic acid (KDO); Inorganic phosphate determination; Pathway screen

Indexed keywords

BIOSYNTHESIS; ENZYMES;

3-DEOXY-D-MANNO-OCTULOSONIC ACID (KDO); BIOSYNTHESIS PATHWAYS; COLORIMETRIC ASSAYS; CYTIDYLYLTRANSFERASE; GRAM-NEGATIVE ORGANISMS; INORGANIC PHOSPHATES; INORGANIC PYROPHOSPHATE; LIPOPOLYSACCHARIDES;

BIOCHEMISTRY;

3 DEOXY DEXTRO MANNO OCTULOSONATE CYTIDYLYLTRANSFERASE; 3 DEOXY DEXTRO MANNO OCTULOSONIC ACID 8 PHOSPHATE PHOSPHATASE; 3 DEOXY DEXTRO MANNO OCTULOSONIC ACID 8 PHOSPHATE SYNTHASE; LIPOPOLYSACCHARIDE; MALACHITE GREEN; PYROPHOSPHATE; TRANSFERASE; UNCLASSIFIED DRUG; 2-KETO-3-DEOXYOCTONATE; 3 DEOXY MANNO OCTULOSONATE CYTIDYLTRANSFERASE; 3 DEOXY MANNO OCTULOSONIC ACID; 3-DEOXY-MANNO-OCTULOSONATE CYTIDYLTRANSFERASE; ESCHERICHIA COLI PROTEIN; FUCHSINE; NUCLEOTIDYLTRANSFERASE; PHOSPHATE; SUGAR ACID;

ARTICLE; BIOSYNTHESIS; COLORIMETRY; ENZYME ACTIVATION; ENZYME ASSAY; ENZYME STRUCTURE; PRIORITY JOURNAL; PROTEIN EXPRESSION; CHEMISTRY; ENZYMOLOGY; ESCHERICHIA COLI; KINETICS; METABOLISM; METHODOLOGY;

BACTERIA (MICROORGANISMS); NEGIBACTERIA;

COLORIMETRY; DIPHOSPHATES; ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; KINETICS; NUCLEOTIDYLTRANSFERASES; PHOSPHATES; ROSANILINE DYES; SUGAR ACIDS;

EID: 80155147104     PISSN: 00032697     EISSN: 10960309     Source Type: Journal    
DOI: 10.1016/j.ab.2011.05.022     Document Type: Article

References (23)

1. D.J. Payne, M.N. Gwynn, D.J. Holmes, D.L. Pompliano, Drugs for bad bugs: confronting the challenges of antibacterial discovery, Nat. Rev. Drug Discov. 6 (2007) 29-40. (Pubitemid 46020284)
2. K.K. Wong, D.W. Kuo, R.M. Chabin, C. Fournier, L.D. Gegnas, S.T. Waddell, F. Marsilio, B. Leiting, D.L. Pompliano, Engineering a cell-free murein biosynthetic pathway: combinatorial enzymology in drug discovery, J. Am. Chem. Soc. 120 (1998) 13527-13528. (Pubitemid 29025224)
3. G.P.D. Leon, N.H. Elowe, K.P. Koteva, M.A. Valvano, G.D. Wright,An in vitro screen of bacterial lipopolysaccharide biosynthetic enzymes identifies an inhibitor of ADP-heptose biosynthesis, Chem. Biol. Drug Des. 13 (2006) 437-441.
4. C.R.H. Raetz, C. Whitfield, Lipopolysaccharide endotoxins, Annu. Rev. Biochem. 71 (2002) 635-700. (Pubitemid 34800232)
5. R. Goldman, W. Kohlbrenner, P. Larty, A. Pernet, Antibacterial agents specifically inhibiting lipopolysaccharide biosynthesis, Nature 329 (1987) 162-164. (Pubitemid 17125253)
6. A.L. McClerren, S. Endsley, J.L. Bowman, N.H. Andersen, Z. Guan, J. Rudolph, C.R.H. Raetz, A slow, tight-binding inhibitor of the zinc-dependent deacetylase LpxC of lipid A biosynthesis with antibiotic activity comparable to ciprofloxacin, Biochemistry 44 (2005) 16574-16583. (Pubitemid 41832039)
7. C.-J. Lee, X. Liang, X. Chen, D. Zeng, S.H. Joo, H.S. Chung, A.W. Barb, S.M. Swanson, R.A. Nicholas, Y. Li, E.J. Toone, C.R.H. Raetz, P. Zhou, Species-specific and inhibitor-dependent conformations of LpxC: implications for antibiotic design, Chem. Biol. 18 (2011) 38-47.
8. D. Peng, W. Hong, B.P. Choudhury, R.W. Carlson, X.-X. Gu, Moraxella catarrhalis bacterium without endotoxin, a potential vaccine candidate, Infect. Immun. 73 (2005) 7569-7577. (Pubitemid 41587663)
9. L. Steeghs, R. den Hartog, A. den Boer, B. Zomer, P. Roholl, P. van der Ley, Meningitis bacterium is viable without endotoxin, Nature 392 (1998) 449-450. (Pubitemid 28168969)
10. J.H. Moffatt, M. Harper, P. Harrison, J.D.F. Hale, E. Vinogradov, T. Seemann, R. Henry, B. Crane, F.S. Michael, A.D. Cox, B. Adler, R.L. Nation, J. Li, J.D. Boyce, Colistin resistance in Acinetobacter baumannii is mediated by complete loss of lipopolysaccharide production, Antimicrob. Agents Chemother. 54 (2011) 4971-4977.
11. T.C. Meredith, P. Aggarwal, U. Mamat, B. Lindner, R.W. Woodard, Redefining the requisite lipopolysaccharide structure in Escherichia coli, ACS Chem. Biol. 1 (2006) 33-42.
12. D.J. Heyes, C. Levy, P. Lafite, I.S. Roberts, M. Goldrick, A.V. Stachulski, S.B. Rossington, D. Stanford, S.E.J. Rigby, N.S. Scrutton, D. Leys, Structure-based mechanism of CMP-2-keto-3-deoxymanno-octulonic acid synthetase: convergent evolution of a sugar-activating enzyme with DNA/RNA polymerases, J. Biol. Chem. 284 (2009) 35514-35523.
13. P.H. Ray, C.D. Benedict, H. Grasmuk, Purification and characterization of cytidine 50-triphosphate:cytidine 50-monophosphate-3-deoxy-D-mannooctulosonate cytidylyltransferase, J. Bacteriol. 145 (1981) 1273-1280. (Pubitemid 11097344)
14. M. Florea, W.M. Nau, Implementation of anion-receptor macrocycles in supramolecular tandem assays for enzymes involving nucleotides as substrates, products, and cofactors, Org. Biomol. Chem. 8 (2010) 1033- 1039.
15. R.M. Flynn, M.E. Jones, F. Lipmann, A colorimetric determination of inorganic pyrophosphate, J. Biol. Chem. 211 (1954) 791-796.
16. R.F. Putnins, E.W. Yamada, Colorimetric determination of inorganic pyrophosphate by a manual or automated method, Anal. Biochem. 68 (1975) 185-195.
17. Y. Kuang, N. Salem, F. Wang, S.J. Schomisch, V. Chandramouli, Z. Lee, A colorimetric assay method to measure acetyl-CoA synthetase activity: Application to woodchuck model of hepatitis virus-induced hepatocellular carcinoma, J. Biochem. Biophys. Methods 70 (2007) 649-655. (Pubitemid 46669699)
18. J. Wu, R.W. Woodard, Escherichia coli YrbI is 3-deoxy-D-manno- octulosonate 8-phosphate phosphatase, J. Biol. Chem. 278 (2003) 18117-18123. (Pubitemid 36799425)
19. M. Muda, C.A. Worby, N. Simonson-Leff, J.C. Clemens, J.E. Dixon, Use of double-stranded RNA-mediated interference to determine the substrates of protein tyrosine kinases and phosphatases, Biochem. J. 366 (2002) 73-78.
20. R.C. Goldman, W.E. Kohlbrenner, Cloning of the structural gene coding for CTP:CMP-3-deoxy-manno-octulosonate cytidylyltransferase from Escherichia coli K-12, J. Bacteriol. 163 (1985) 256-261. (Pubitemid 15012745)
21. P.A. Lanzetta, L.J. Alvarez, P.S. Reinach, O.A. Candia, An improved assay for nanomole amounts of inorganic phosphate, Anal. Biochem. 100 (1979) 95-97. (Pubitemid 10157636)
22. R.H. Upson, R.P. Haugland, M.N. Malekzadeh, A spectrophotometric method to measure enzymic activity in reactions that generate inorganic pyrophosphate, Anal. Biochem. 243 (1996) 41-45. (Pubitemid 26418574)
23. W.E. O'Brien, A continuous spectrophotometric assay for argininosuccinate synthetase based on pyrophosphate formation, Anal. Biochem. 76 (1976) 423-430.