Jack bean urease (EC 3.5.1.5). V. On the mechanism of action of urease on urea, forrnamide, acetamide, N-methylurea, and related compounds1 Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. Depurtrnetrt of Biochemistry, Utliversity of' Q~reet~slund, St. Lucicr, A~lstraliu4067 Received April 26, 1 9794 Dixon, N. E., Riddles, P. W., Gazzola, C., Blakeley, R. L. & Zerner, B. (1980) Jack bean urease (EC 3.5.1.5). V. On the mechanism of action of urease on urea, forrnarnide, acetarnide, N-rnethylurea, and related compounds. Cutr. J. Biochern. 58, 1335-1344 Acetarnide and N-methylurea have been shown for the first time to be substrates for jack bean urease. In the enzymatic hydrolysis of urea, forrnarnide, acetarnide, and N-rnethylurea at pH 7.0 and 38"C, kc,, has the values 5870, 85, 0.55, and 0.075 s-l, respectively. The ureasecatalyzed hydrolysis of all these substrates involves the active-site nickel ion(s). Enzymatic hydrolysis of the following compounds could not be detected: phenyl forrnate, p-nitroforrnanilide, trifluoroacetarnide, p-nitrophenyl carbarnate, thiourea, and 0-rnethylisouroniurn ion. In theenzyrnatic hydrolysis of urea, the pH dependence of kc,, between pH 3.4 and 7.8 indicates that at least two prototropic forms are active. Enzymatic hydrolysis of urea in the presence of methanol gave no detectable methyl carbarnate. A mechanism of action for urease is proposed which involves initially an 0-bonded complex between urea and an active-site Ni2+ ion and subsequently an 0-bonded carbamato-enzyme intermediate. Dixon, N. E., Riddles, P. W., Gazzola, C., Blakeley, R. L. & Zerner, B. (1980) Jack bean urease (EC 3.5.1.5). V. On the mechanism of action of urease on urea, forrnarnide, acetamide, N-rnethylurea, and related compounds. Can. J. Biochent. 58, 1335-1 344 Pour la premiere fois, nous montrons que l'acetamide et la N-rnethyluree sont des substrats de l'urease de la feve Jack. Dans l'hydrolyse enzymatique de l'uree, du forrnarnide, de l'acetamide et de la N-methyluree i pH 7.0 et ii 38"C, les valeurs de kc,, sont respectivement de 5870,'85,0,55et 0,075 s-l. L'hydrolyse de tous ces substrats par l'urease implique le ou les ions nickel du site actif. Nous n'avons pu deceler l'hydrolyse enzyrnatique des composes suivants: phenyl forrnate, p-nitroformanilide, trifluoroacetamide, p-nitrophenyl carbamate, thiouree et l'ion 0-mCthylisouroniurn. Dans l'hydrolyse enzyrnatique de l'uree, la dependance du kc,, 2 l'egard du pH entre les pH 3,4 et 7,8 montre qu'au rnoins deux forrnes prototropiques sont actives. L'hydrolyse enzymatique de l'uree en presence de methanol ne donne pas de methyl carbarnate. Nous proposons un mecanisme d'action pour l'urease. Ce mecanisme irnplique d'abord la formation d'un complexe entre l'uree et un ion Ni2+du site actif par l'interrnediaire de liaisons oxygkne. I1 se forme ensuite un intermediaire carbamato-enzyme encore relie par des liaisons oxygkne. [Traduit par le journal] covered that N-hydroxyurea was a substrate ( 4 , 5 ) . Derivatives of urea which are substrates for urease Urease is a highly efficientcatalyst for the hydl-olysis of urea (1, 2 ) , and the specificity of this enzyme was include N-hydroxyurea (4-6), N,N'-dihydroxyurea (7, believed to be absolute ( 3 ) until Fishbein pr dis- 8 ) . and ~emicarbazide( 2 ) . he first secure example of a substrate for urease which is not a substituted has been A e s n ~ v ~ a ~ ~ o rEDTA, us: ethjlenediaminetetraacetic acid; urea is formamide ( 9 ) . Even though MES. 2 - ( N - m 0 r ~ h 0 l i ~ ~ ) ~ t acid; h ~ ~HEPES, ~ ~ ~ l N-2-hyf ~ ~ i ~ extensively studied for more than 50 years, there has d r o ~ y e t h y l p i p e r a ~ i n e - . V ' - 2 - ~ t h a ~acid; ~ ~ ~ l fTris, ~ ~ i ~tris(hy- as yet been no reasonable proposition on its mechanism droxymethy1)aminornethane; kat, katal; A j70. etc., absorbance of action. Because information on substrate specificity at 570 nrn, etc. and pH-rate profiles is of critical importance to such l ~ h i swork was supported in part by the Australian Re- a consideration, we have investigated the action of search Grants Committee. Correspondence should be ad- urease on a variety of compounds. Introduction dressed to Burt Zerner. Some a s ~ e c t sof this work were presented at an international meeting on "Metal Ion Activation of Biochemical and Chemical Processes" in Canberra, Australia, in March, 1979. 2Cornmonwealth postgraduate student. lPresent address; Research School of Chemistry, Australian National University, Canberra, Australia 2600. 4Revised manuscripts received February 22, 1980. Materials and methods Muterials The ~urificationof urease included ion-exchange chromatography (10, 11). The pH-stat assay of urease has been described (I, 10). The specific activity of urease (10, 11) was 0008-4018/80/12 1335-10$01 .00/0 @ 1980 National Research Council of Canada/Conseil national de recherches du Canada CAN. J. BIOCHEM. VOL. 58, 1980 WASTE \ --a 1 1 f SOLUTION A 1 A a \ a PROPORTIONING - PUMP Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. MIXING COIL FLOW CELL - SOLUTION B C + O I L BATH '(92.C) \ 1 &I NITROGEN E r L / 1 WASTE e 2 . 0 SAMPLE \ L FIG. 1. Flow diagram for the AutoAnalyzer-based assay system for ammonia. The numbers are nominal flow rates expressed in millilitres per minute. The compositions of solutions A and B were as follows: (A) 4 L of water, 1 L of 5.75 M acetate buffer (pH 5.51), 5 L of 2-methoxyethanol, and 100 g of ninhydrin; (B) 3.92 L of water, 40 mL of 5.75 M acetate buffer (pH 5.51), 40 mL of 30'; Brij-35, -0.1 mL of concentrated sulfuric acid, 0.2 g of sodium fluoride, and 1.05 g of hydrazine sulfate. always between 75 and 93 (mkat/L)/As,o u~lless otherwise ponents (Fig. I). A Cary 14 spectrophotometer equipped with specified. Protein concentrations were determined spectro- a flow cell (I-cm optical path) was used to measure the abphotometrically (1 1). The concentration of active sites (normal- sorbance at 570 nm produced by the reaction of ammonia with ity, N) is based on an equivalent weight (1 1) of 96 600 for ninhydrin (Koch-Light, Puriss.) using hydrazine sulfate . enzyme of maximal specific activity (93 ( n ~ k a t / L ) ' A ~ , ~ )(British Drug Houses, AnalaR) as the reducing agent. The Buffers and pH measurements are described elsewhere (10). system was frequently standardized against solutions of Methylamine hydrochloride was recrystallized from warm (NH4)2S0,(Schwarz/Mann, ultrapure) in the buffers used for assays. The dependence ot A570 on ammonium ion concentraethanol, to give mp 226.5-227.4"C, lit. ( 1 2) mp 226-C. Commercial formamide (BDH, AnalaR. mp 1.5-2.5-C, lit. tion was linear, with a molar absorbance yield (defined as the (13) mp 2.55"C) was purified by repeated fractional freezing absorbance which would be produced by a solution 1 A4 in followed by drying over potassium hydroxide at reduced ammonium ion in the sample tube) of 730 M-I cm-I which pressure t o give mp 1.9-2.6-C. p-Nitroformanilide had mp increased about l o f , over a period of several weeks as the 197.5-198"C, lit. ( 1 4) mp 194-1 9ScC. Acetanlide (Sigma pump tubing aged. Some substrates gave an appreciable stable Chemical Co.) was recrystallized twice from anhqcirous meth- background absorbance due to slight deconlposition during anol-ether to giie crystals, n ~ p79.1-81.0°C, lit. (15) nip color development (-7 min at -92-C and pH 5.5). 8 1.6-8 1.8"C. Recrystallized acetamide (3.6 M) in 0.02 M For rate assays, a solution of 10 mL of substrate in buffer phosphate buffer (pH 7.1, 1 m h l in EDTA and 5 mhf in was equilibrated at 38-C. A 10-pL aliquot of a solution of p-n~ercaptoethanol)was treated uith urease (1.6 X lo-' N) dithiothreitol and EDTA was added (to give final concentrafor 7 h at 38°C. After evaporation of water at reduced pres- tions of 2 and 1 pM, respectively) followed by aliquots of sure, the acetamide was recrystallized to give odorless crystals, buffer or NaF in buffer (50pL) and of enzyme (20-200pL). mp 79.8-8 1 .O0C. Trifluoroacetamide (Aldrich Chemical Co., The solution was sampled coiltinuously over more than 10 min, Milwaukee, W1) was recrystallized from water and had mp and initial rates of formation of ammonia were deduced from the slopes of the recorder traces, The buffers were oxygen-free 74.1-74.8"C, lit. (16) mp 74-75°C. N-Methylurea(A1drich Chemical Co.) was recrystall~zedfrom 0.05 A2 N-ethylmorpholine.HCl (pH 7.00) and 0.05 M sodium MES (pH 5.20). Measurements of pH were made at 38'C (21). chloroform to give needles, nlp 98-99.5'C, lit. (2) mp 100.0100.5"C. After two urease treatments (as above for acetamide) In ever) case the stock e n q me had been dial) zed exhaustively and recrystallizat ion, it had mp 100.2-1 00.9-C. After three at 4°C against oxygen-free 0.05 M N-ethy lnlorpholine - HCl crystallizations from nlethanol-ether, 0-methyliso~~ronium butrer (pH 7.00, 1 m M in EDTA and 5 mAl in p-mercaptohydrogen sulfate had mp 118.3-120.5"C, lit. (17) mp 119°C. ethanol). Thiourea (British Drug Houses) was treated with urease as above and recrystallized from anhydrous ethanol to give mp HI-dmlysis qf urea Values of kcat and I(, for the urease-catalyzed hydrolysis of 174.0-175.5"C, lit. (1 8) mp 1814°C. The crystals had the correct infrared spectrum ( 19). p-Nitrophenyl carbamate had urea at 38°C were determined by initial rate studies at pH mp 162-164.5"C dec., lit. (20) mp 164-165'C. Methyl car- 3.4-7.8 using a pH-stat (1, 10). Bovine serum albumin (Armour Pharnlaceutical, fraction V) was dialyzed vs. 0.02 hf phosphate bamate was purified by vacuum sublimation. buffer (pH 7.12, 1 m M in EDTA, 5 m M in P-mercaptoethanol), and then against oxygen-free distilled water. The final assay Automated cot~tit~irous analj~sisqf amn~onia Initial rates of hydrolysis of urea, formamide, acetamide, solution (10.145 mL) contained urea (1-50 mM), dithiotrifluoroacetamide, N-methjlut'ea, thiourea, and O-methyliso- threitol ( I pM), 6-mercaptoethanol (12 pM), EDTA (3 pM), uronium ion were studied by means of a continuous assay HEPES (5pM), urease (5 X 10-lo N), and bovine serum M). Before each assay, system for ammonia based on Technicon AutoAnalyzer com- albumin (0 or, at pH 5 5.2, 1 X 1337 DIXON ET AL.: I1 Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. the combination electrode was sequentially soaked at 38°C in 0.1 M HCI (3 min), water (1 min), and 0.02 M phosphate buffer (pH 7.12, 1 mM in EDTA and 5 mM in /3-mercaptoethanol) for 1 min. The enzymatic hydrolysis of ['"]urea (The Radiochemical Centre, Amersham) in the presence of methanol at 38°C was investigated with the following final concentrations in 10 mL: [14C]urea (25 mM, 0.026 mCi/mmol; 1 Ci = 37 GBq), phosphate (1 mM), EDTA (55 pM), /3-mercaptoethanol (50 pM), dithiothreitol (10 pM), methanol (50C; (v/v), -12.7 M), and urease (0 or 1 X lop6N ) . An apparent pH of 7.0 was maintained by means of a pH-stat for periods between 3 and 40 min until the total uptake of acid was between -80 and -l00%, respectively, of the theoretical amount (1). This solution was added to 250 mL of chloroform which contained 0.5 g of unlabelled methyl carbamate. The biphasic system was dried quickly with 50 g of anhydrous CaSO, and the chloroform was evaporated. The residue was triturated with petroleum ether (bp 45-65°C). The resulting methyl carbamate crystals (505; yield) were sublimed it1 vaclio two or three times to constant specific radioactivity (22). Under the conditions of the [lCC]urea experiments, no enzymatic hydrolysis of 0.1 M methyl carbamate could be detected, such that k,,,/K, for this compound must be less than 0.3 M-I s-l. Action of rlrease otz phenyl formate attd p-ttitrofornlattilide The hydrolysis of 1 mkl phenyl formate (23) at pH 7.20 was monitored spectrophotometrically at 270 nm. The final composition was N-ethylmorpholine buffer (0.049 M), EDTA (0.13 m M), /3-mercaptoethanol (0.64 mM), acetonitrile (2.125 v/v), potassium phosphoramidate (0 or 20mM), urease (0 or 1 X N). For the study of p-nitroformanilide at pH 7.20, the final composition was N-ethylmorpholine.HC1 buffer (0.039 M ) , EDTA (0.16 mM), p-mercaptoethanol (0.82 mM), acetonitrile (2.0C,v/v), urease (2 X N). At pH 7.2, AE (381 nm) for hydrolysis of p-nitroformanilide was independently determined to be 12 800 M-I cm-l. Hydrolysis of'N-rnetliylurea Initial rates of the enzymatic hydrolysis of N-methylurea (0.04-0.40 M) were studied at pH 7.00, using the AutoAnalyzer system to measure IV-methylamine and ammonia. The molar absorbance yield according to Eq. 1 is 1560 M-I cm-I with respect to the loss of N-methylurea as determined by calibration with an equimolar solution of ammonia and N-methylamine. Product formation in the presence of urease was linear with time for at least 30 min in all runs, with hydrolysis of between 0.02 and 0.16(; of the original N-methylurea. For product identification, N-methylurea (0.50 M) was treated with urease (1.0 X lop6N) under precisely the conditions of the kinetic runs. N-Methylamine was identified by means of a Technicon TSM amino acid analyzer (24), using N-methylamine hydrochloride as a standard. Actiotz of lrrease otz p-t~itrophet~yl carbanlate The spontaneous decomposition of p-nitrophenql carbamate was studied spectrophotornetrically at 25.0°C in 0.05 M phosphate buffers (1.64C; (v/v) in acetonitrile). Yields of p-nitrophenol were greater than 98';. The ion product of water (K,) was assumed to be 1 X 10-14. For determination of the effect of urease, the final composition was MES (0.21 M), EDTA (0.24 mM), p-mercaptoethanol (1.2 mM), acetonitrile (2.44C; v/v), p-nitrophenyl carbamate (0.27 mM), and urease (0 or 2 X N). Treatnzetzt of data Values of kc,, and K,, for enzymatic reactions were obtained by least-squares analysis of Lineweaver-Burk plots of initial rates, together with the measured normality of urease. The calculated percentage uncertainties of kc,, values are twice the percentage standard error in the intercept of the LineweaverBurk plots, while those for K,, are twice the sum of the percentage standard errors of the slope and intercept. Results and discussion Urea T h e amount of acid o r base required to maintain the p H constant during the total hydrolysis of 0.25 m M urea catalyzed by 5 x 10-8 N urease at 38OC was determined by pH-stat. T h e results agree with the theoretical values ( 1) for Eq. 2 within t 1% from p H 3.6 to 8.0 but only within t 5 % at p H 9.5 and 10.1 where the p H function is more sensitive to small differences in pH. Lineweaver-Burk plots for the initial rate of enzymatic hydrolysis of urea were linear in all cases from p H 3.4 to 7.8, with mean uncertainties of *8% in k,,, and & 1 2 % in K ,,,. Graphs of k,,, and K,,, as a function of p H (Fig. 2 ) are not consistent with simple sigmoid o r bell-shaped profiles. T h e theoretical curve for the pH-k,.,, profile (Fig. 2 A ) corresponds to Eq. 3 in [3] SEH, K ~ ~ ~ . 3 1 -&EN SEH2 1kl Products ,' K SEH 1k2 Products ~ SE ~ ~ which SEH, etc. represent different states of protonation of the enzyme-substrate complex and pKsEH,' = 3.0, P K , , . ; ~ ~= ' 6.25, pKSEH1= 9.0, k1 = 3600 S-l, and k, = 6350 s-l. The fit of the theoretical curve to the experimental data is not significantly altered if the value of pKSmI,' o r pKsEH,' is altered by t O . l o r if k1 o r k, is altered by t 1 0 0 s-l. T h e k,,, data for the hydrolysis of urea between p H 3.4 and 7.8 indicate that the enzyme-substrate complex is active in a t least two different states of protonation controlled by an apparent pK,' (pKsEH2') of -6.25. T h e value of 9.0 for pKsEH' in the hydrolysis of urea ( E q . 3 ) was chosen arbitrarily in accord with approximate pK,' values of 8.0-9.0 determined by pHstat and 8.5-9.0 determined in the presence of buffers ( 2 5 ) . This value is also consistent with a pK,' of 9.15 at 25°C for the essential sulfhydryl group of jack bean urease ( 2 6 ) . While further work is necessary better to define the effects of p H o n k,,, for urea, the essential aspects of the low p H side of the curve are relatively insensitive to the value of pKSEH'. ' 1338 CAN. J. BIOCHEM. VOL. 58, 1980 1. Urease-catalyzed hydrolysis of urea and of formaTABLE mide at pH 5.20 and 38°C; competitive inhibition by fluoride ion Value Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. Parameter FIG.2. Effect of pH on the urease-catalyzed hydrolysis of urea at 38°C. (A) kc,, vs. pH; (B) K , vs. pH. The theoretical curves correspond to Eq. 3 and Eq. 4 together with the parameters listed in the text. The theoretical curve for the pH-K, profile (Fig. 2B) corresponds to Eq. 4 where H,E etc. represent different states of protonation of the free enzyme, and pKHtE' = 2.0, pKHEf= 6.5, K, = 100 mM, K, = 1.9 rnM, and K, = 3.3 mM. Because of the lesser reliability of the data at very low pH, the values of K , and pKHgE'are only approximate. It is clear, however, that K, increases markedly at pH values less than 4, and appropriate control experiments establish that this effect is not due to chloride ion. It is similarly clear that K,, for urea has a moderate dependence on an apparent pK,' of -6.5. The value of lo-, k,,, for urease at pH 7.00 is 5.87, 4.47, 3.69, and 3.01 s-1 at 38.0°C, 29.8, 24.8, and 19.8, respectively, as determined by pH-stat. The value of K,, (2.9 m M ) is independent of temperature ( 2 7 ) . Lineweaver-Burk plots for the urease-catalyzed hydrolysis of urea at pH 5.20 according to Eq. 2 in Ureaa Formamideb aStudied with the AutoAnalyzer system in the presence of 0, 2, or 4 pM sodium fluoride. [Ureaselo = 8.0 X 10-'0 N. [Urealo = 1.2-25 mM. b[~rease]o= 4.0 X N. [Sodium fluoride] = 0, 2.4, 4.8, or 9.7 pM. [Formamide]~= 0.1-1.2 M. CMeasured in a completely independent experiment. the absence and presence of fluoride ion are linear, and the values of kc,, and K,, are listed in Table 1. These values were obtained in the presence of 0.05 M MES buffer using the AutoAnalyzer assay system, and they agree within experimental error with those determined by pH-stat (Fig. 2 ) , thus indicating the absence of specific buffer effects. Fluoride ion behaves as a simple competitive inhibitor of the urease-catalyzed hydrolysis of urea at pH 5.20 and 38"C, with a K i of 7.0 + 1.0 pM (Table 1) . The enzymatic hydrolysis of [14C]urea was carried out at 38°C in the presence of methanol at p H 7.0 in order to see if a carbamoyl-enzyme or carbamatoenzyme intermediate could be trapped to form methyl carbamate. In a series of experiments, radioactivity corresponding to 0.01 to 0.02% of the initial amount of [14C]urea was found in association with added, unlabelled methyl carbamate, irrespective of the presence or absence of urease. Control experiments established that if formed, methyl [lT]carbamate would not have been enzymatically destroyed. These results provide absolutely no evidence for the formation of methyl carbamate during the enzymatic hydrolysis of urea in the presence of methanol. A maximum value of less than may be calculated for k,,,oII/kH,o where the rate constants refer to attack of methanol or water on a putative carbamoyl-enzyme or carbamato-enzyme intermediate. Formamine The initial rate of hydrolysis of 0.75 M formamide at pH 7.00 and 38°C is directly proportional to the concentration of urease (0.3 x 10-7 - 1.4 x 10-7 N ) , using the AutoAnalyzer system to measure the rate of formation of ammonia. Lineweaver-Burk plots for the enzymatic hydrolysis of formamide are linear, and the Michaelis-Menten parameters are listed in Table 2. Fluoride ion has no effect on the maximum rate, and DIXON ET AL.: I1 1339 TABLE 2. Urease-catalyzed hydrolysis of formamide, acetamide and N-methylurea at pH 7.00 and 38°C; competitive inhibition by fluoride ion Value Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. Parameter Formamidea Acetamideb N-MethylureaC a[Urease]o= 1.21 X lo-' N. [Sodium fluoride] = 0.0.24, 0.5, or 1.0 m 'M. bconditions are described in Fig. 3. CConditions are described in Fig. 4. dMeasured in a completely independent experiment. a graph of the slopes of the Lineweaver-Burk plots vs. [fluoride] is linear (27, 28). The value of K iis 1.32 -C 0.35 m M for fluoride ion acting as a competitive inhibitor of the urease-catalyzed hydrolysis of formamide at p H 7.00 and 38°C (Table 2). Fluoride ion also behaves as a simple competitive inhibitor of the urease-catalyzed hydrolysis of formamide at p H 5.20 (27, 2 8 ) . The K iof fluoride ion at p H 5.20 and 3 8 " C is 8.2 L 1.7 r M (Table 1 ) . Pherlyl fortnate and p-nitrofornznnilide The hydrolysis of phenyl formate at p H 7.20 and 25°C followed first-order kinetics. The value of k,,,, (2.17 x 10-%-1) in the presence of 1 x l o - > N urease was 3 0 % higher than in its absence. However, the value in the presence of urease was unaltered when the enzyme had previously been 99.8% inhibited by reaction with 20 m M potassium phosphoramidate ( 2 9 ) . The urease-promoted hydrolysis of phenyl formate therefore does not involve the active site and is presumably analogous to the hydrolysis of o-nitrophenyl oxalate anion catalyzed by bovine ribonuclease A (30) and the decomposition of 1,l -dihydro-2,4,6-trinitrocyclohexadienate ion catalyzed by bovine serum albumin ( 3 1) . N o hydrolysis of 0.2 m M p-nitroformanilide was detected in 1.5 h at 25°C in the presence of 2.0 X lo-;' N urease at p H 7.20. A ce tamide Urease catalyzes the hydrolysis of acetamide at p H 7.00 to form ammonia, as assayed by the AutoAnalyzer system. Product formation was linear with time for at least 3 0 min in all runs, with hydrolysis of between 0.04 and 0.18% of the original acetamide (0.11-1.3 M ) . The initial rate of the enzymatic formation of ammonia is directly proportional to the concentration of urease (0.4 x 10-6 - 4.4 X 1O-G N ) . Initial rates of the urease-catalyzed hydrolysis of acetarnide obey Michaelis-Menten kinetics as shown FIG.3. Inhi bition of the urease-catalyzed hydrolysis of acetamide by fluoride ion at pH 7.00 and 38°C. (A) Lineweaver-Burk plots in the presence of 0 (C), 0.63 mM (O), 1.26 mkl ( A ) ,and 2.53 mM (0) sodium fluoride. [Urease]~= 8.91 X lo-' N. Each least-squares line is based on the four points of highest substrate concentration. The filled circles (e) refer to urease of specific activity 30C, less than that used for the other runs. (B) Plot of the slopes from A vs. [fluoride]. by a Lineweaver-Burk plot (Fig. 3A, Table 2 ) . he same plot also contains points determined with urease of lower specific activity. Their good fit to the line establishes that the portion of urease which is inactive toward urea (as judged by a low specific activity) is also inactive toward acetamide. It should be noted that when the acetamide concentration is less than -0.2 M, the observed initial rate is greater than that predicted from the Michaelis-Menten parameters in Table 2. It is possible that the high concentrations of acetamide are producing as yet undefined substrate activation o r medium effects. Lineweaver-Burk plots for the urease-catalyzed hydrolysis of acetamide in the presence of fluoride ion are also shown in Fig. 3A. A graph of the slopes of the lines in Fig. 3A vs. [fluoride] is linear (Fig. 3B), leading to the value of 2.21 & 0.64 m M for K i of fluoride ion competing with acetamide at p H 7.00 and 38°C (Table 2 ) . The decreased maximum velocity in 1340 CAN. J. BIOCHEM. VOL. 58, 1980 Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. not significantly different. It may be estimated that the maximum possible value of k,,,/K, for trifluoroacetamide would be 1 0 . 0 4 M-I s-' (on the assumption that K,,, >>20 m M ) . FIG.4. Inhibition of the urease-catalyzed hydrolysis of N-methylurea by fluoride ion at pH 7.00 and 38°C. (A) Lineweaver-Burk plots with [ureaseIo= 2.75 X N in the 0.63 mM (m), 1.26 mll.1 ( A ) , and 1.90 mM presence of 0 ((I), ( V ) sodium fluoride. The filled circles (e)refer to N-methylurea which had been subjected to only one cycle of urease treatment - recrystallization. (B) Plot of the slopes from A vs. [fluoride]. the presence of fluoride ion is qualitatively consistent with a ternary acetamide-fluoride-urease complex, analogous to the urea-fluoride-urease complex previously observed at pH 7.0 (29). The deviations from Michaelis-Menten kinetics at low substrate conccntrations also occur in the presence of fluoride ion (Fig. 3 A ) . All of these findings clearly indicate that the kinetics of the urease-catalyzed hydrolysis of acetamide at pH 7.00 are as yet imperfectly defined. Nevertheless this work constitutes the first demonstration that acetamide is a substrate for urease (cf. Ref. 9 ) . Trifluoroacetanzide The initial rate of spontaneous hydrolysis of 20 m M trifluoroacetamide at pH 7.00 and 38°C was 0.14 p M s-l as studied with the AutoAnalyzer system. In the presence of 1.8 x 10-6 N urease, the initial rate was N-Methylurea The enzymatic hydrolysis of 0.5 M N-methylurea was carried out at pH 7.00 until the extent of hydrolysis was 1.13% (after 3 h ) as calculated from the Michaelis-Menten parameters in Table 2. When the solution was analyzed by means of an amino acid analyzer, the N-methylamine peak was well resolved from the ammonia peak and corresponded to 98.7% of the theoretical value. When the extent of hydrolysis was calculated to be 2.25% (after 6 h ) , the apparent yield of N-methylamine was somewhat less (88.8% of the theoretical value) because of inadequate resolution of the ammonia and methylamine peaks. A control reaction mixture showed that methylamine was not formed in the absence of urease. These results validate the stoichiometry of Eq. 1. The initial rate of hydrolysis of 0.40 M N-methylurea at pH 7.00 is directly proportional to the concentration of urease (0.7 x 10-6 - 2.8 x 10-W) . Initial rates of the urease-catalyzed reaction obey MichaelisMenten kinetics as shown by a Lineweaver-Burk plot (Fig. 4 A ) . The same plot also shows that omission of one cycle of pretreatment of the N-methylurea with urease does not alter its susceptibility to urease. Values of k,.,, and K,, are given in Table 2. Lineweaver-Burk plots for the urease-catalyzed hydrolysis of N-methylurea at pH 7.00 in the presence of fluoride ion are also shown in Fig. 4A. From Fig. 4B, the value 2.24 t 0.56 m M is obtained for the apparent dissociation constant K , of fluoride ion competing with N-methylurea at p H 7.00 (Table 2 ) . The decrease in maximum velocity in the presence of lluoride ion would be explained if a ternary Nmethylurea-fluoride-urease complex, analogous to the urea-fluoride-urease complex ( 2 9 ) , were formed. These results establish for the first time that Nmethylurea is a substrate for urease, since a previous report to that effect (25) has been shown to be in error by several orders of magnitude ( 2 ) . p-Nitrophenyl carbat?iate The spontaneous formation of p-nitrophenol from p-nitrophenyl carbamate in phosphate buffers at pH values between 6.0 and 7.5 obeys a first-order rate law for at least three half-lives. A graph of k,,,, vs. hydroxide ion concentration is strictly linear giving a value for k,,- of 2.64 x 10-3 M-1 s-1 at 25"C, consistently with hydroxide-promoted formation of p-nitrophenoxide ion and cyanic acid (32, 3 3 ) . The effect of urease on the rate of decomposition of p-nitrophenyl carbamate was studied in 0.21 M NlES buffer in order to avoid inhibition by phosphate monoanion (29). The formation of p-nitrophenol obeys a first-order rate law for more than three half-lives 1341 DIXON ET AL.: I1 Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. under all conditions. The observed rate constant is (2.52 k 0.01) X 10-G-I at pH 6.03, independently N urease. These experiof the presence of 2 x ments provide no evidence whatsoever for urease catalysis of the hydrolysis of p-nitrophenyl carbamate. It may be estimated that the maximum possible value of k,,,/K,, for this compound would be less than 0.4 M-I s-I (on the asrumption that K,, >> 0.27 m M ) . Bennett and Wren (34) report that at pH 6.0 and 2S°C, p-nitrophenyl carbamate does not undergo spontaneous hydrolysis but is a good substrate for urease. having the same maximum velocity (k,.,,) as urea and a K,, of 0.67 mM. Unfortunately, they give insufficient details to allow a critical assessment of their experiments. Thiourea N urease on 1 M thiourea The effect of 2 x was studied at pH 5.2 and 38°C (with and without 5 X 10-5 M sodium fluoride) and at pH 7.0 by means of the AutoAnalyzer system. At the limit of sensitivity of the technique, no evidence of enzymatic hydrolysis of thiourea could be obtained. At both pH 7.0 and 5.2, the value of k,,,, can be calculated to be 5 1 X lo-:: s-' (or, if K,,, is much greater than 1 M, k,.,,/K,,, would be < 1 x 1 0 - W - I s-I). In contrast, Bennett and Wren (34) reported that at pH 6.0 and 2S°C, thiourea is a substrate for urease and has a K,,, of 0.21 M and a maximum velocity (k,,,,) identical to that of urea. Their experimental details are insufficient to allow repetition of their work, and we can offer no positive explanation of their reported results. ion 0-Methy lisouror~i~rrn There was no detectable hydrolysis of 23 mM Omethylisouronium ion at 38°C and pH 7.0 in the presence or absence of 5 x lo-'; N urease as studied by the AutoAnalyzer system. From the limits of sensitivity of the experiments, the maximum possible value of k,.,,/K,, for 0-methylisouronium ion would be 0.03 M-I s-l. The pK,,' of this ion is 9.72 at 24°C ( 3 5 ) , so that it is predominantly in the positively charged form under these conditions. A corninon active site for the hydrolysis of urea, for111ainidc,acctainidc, and N-incthyl~rrea Fluoride ion binds to the tightly bound nickel ion(s) in urease with a dissociation constant of 1.23 ? 0.10 mM at pH 7.12 and 2S°C, as determined spectrophotometrically by competition with P-mercaptoethanol (29). The dissociation constant of the fluoride-urease complex has also been measured at pH 7.00 and 38°C by competition with several substrates. The values so determined are 1.O1 k 0.08 mM (urea (29) ), 1.32 k 0.35 rnM (formamide, Table 2 ) , 2.21 ? 0.64 m M (acetamide, Table 2 ) , and 2.24 ? 0.56 mM (Nobtained with 2). The acetamide and N-methylurea as substrates appear to be slightly higher than those derived from urea and formamide : the results with acetamide are complicated by the ill-defined substrate activation effects mentioned earlier, and the high concentrations of urease in the N-methylurea experiments led to relatively noisy recorder traces because of some precipitation in the AutoAnalyzer heating bath. It is therefore likely that all these kinetically determined values of the dissociation constant of the fluoride-urease complex are identical to each other (within the combined uncertainties of the systems) and to the spectrophotometrically determined dissociation constant. Further, the dissociation constant of the fluoride-urease complex at p H 5.20 and 38°C is -7 P M (Table 1 ) regardless of whether urea or formamide is the substrate. These facts establish that the various substrates are hydrolyzed at the same site, and that this site involves the tightly bound nickel ion(s) of urease:; Substrate spc~cificityof urcase The efJcct of p H on k,.,, and K,, for different s~ibstrates The maximum value of kc,, for the urease-catalyzed hydrolysis of urea at 38°C occurs at pH -7.4, and the T, 2 / (k,.nt)pIT i , O is 0.68. While detailed ratio pH-k,.,, profiles are not yet available for the hydrolysis 5.2/ (k(.at)gH 7.0 of other substrates, the ratio for formamide is 2.4. For semicarbazide, the ratio (k,.,t),11 o l (ktnt)l,H7 . 0 1.70 at 38°C (Table 3 ) . Thus, the pH-kc,, profiles for formamide and semicarbazide must be markedly different from that of urea. , Str~rcture-reactivity relationships \rlith lirease substrates With the presently available examples, alteration of the structure of a substrate for urease in a manner which increases the rate of its hydroxide-promoted hydrolysis or decomposition generally results in a decrease in efficiency of its urease-catalyzed hydrolysis. In the formate series, formamide has a k,,,,/Kn1 of -80 M-I s-I at pH 7.00 and 38°C while no enzymatic reaction with either phenyl formate or p-nitroformanilide could be detected. In the acetate series, acetamide has a k,,,/K,, of 0.73 M-I s-I at pH 7.00 and 38"C, while no detectable enzymatic hydrolysis of trifluoroacetamide occurred. In the urea series, the k,,,,/K,,, for urea itself is 2.0 x 10"-I s-I at pH 7.00 and 38°C while enzymatic hydrolysis of the related esters, methyl, ethyl, and p-nitrophenyl carbamate, was not detected ( 2 ) . Further, all substituted ureas currently known to be substrates (N-hydroxy- (4-6), N,N'-dihydroxy- (7, 8 ) , N-amino- (semicarbazide, Table 3 ) , and N-methylurea (Table 2 ) ) have markedly lower k,,, and k,.,,/K,,, values than urea itself, in spite of the fact that the inductive effect of the substituent varies appreciably. TJrease appears to catalyze the breakdown of iV-nitrourea in the presence of 9 % (v/v) ethanol at pH 5.0 and 38°C. The M-l s-l. While this nominal value of kc,,lK, is I presumably occurs at the active site, studies on the effect of fluoride have not yet been undertaken. 1342 CAN. J. BIOCHEM. VOL. 58, 1980 Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. In contrast to these results with urease, the rates of reaction of carboxylic acid derivatives with the nonmetalloenzymes, a-chymotrypsin ( 3 6 ) , and the liver carboxylesterases (37, 38) roughly parallel their susceptibility to nucleophilic attack by hydroxide ion. The differences in structure-reactivity relationships between urease and the serine proteinases and esterases are consistent with a key mechanistic role for the Lewis acid, Ni", in the mechanism of action of urease. An exception to the general structure-reactivity relationship of urea analogs with urease is the fact that k,,, for formamide is 160 times that for acetamide at pH 7.0. For comparison, the rate constant for alkaline hydrolysis of formamide is 46 times that for acetamide (39, 40). This exception would be explained by an unfavorable steric interaction of acetamide with urease. The same effect would account for the very low efficiency of enzymatic hydrolysis of N-methylurea as compared with urea at pH 7.0. A nzechnnist?l of rrctiolt for urense Urease is an extraordinarily efficient catalyst of the /zydrolysis of urea, the uncatalyzed reaction being undetectably slow. Since this is the only known nickel metalloenzyme and since it contains 2 g-at. of nickel per mole of active sites, we speculate at this stage that the catalytic activity, specificity, and "unusual" chemistry of urease may all derive from a mechanism which involves both of the nickel ions. The proposed structure of the resting enzymc at neutral pH contains a water molecule coordinated to one of the nickel ions and an hydroxide ion coordinated to the other (Scheme 1 ) . The four stages of the mechanism are as follows. Tan1 L 3. Urease-catalyzed hydroljsis of seniicarbazide at 38 C n Value Parameter p H 5.00 p H 7.00 aRecalculated from previously published data (2). (i) The substrate is activated toward nucleophilic attack by 0-coordination to a Ni2+ ion, by analogy with the activation of dimethylformamide ( D M F ) in [Co(NH,) ,DMFI3+ toward attack by hydroxide ion + (41). The =NH, of the coordinated substrate interacts with a nearby negatively charged group. Because urease is irreversibly inhibited by triethyloxonium ion ( 4 2 ) , we postulate that this group is a carboxylate ion. (ii) A nickel-coordinated hydroxide ion attacks the carbonyl carbon of the coordinated substrate to form a tetrahedral intermediate. This finds analogy in the facile intramolecular hydrolysis of the carboxylic acid amide bond in [(en),Co(OH) (GA)]", where en is ethylenediamine and GA is glycine amide coordinated to Co(ll1) through its a-amino group (43). Similarly, hydroxide ion coordinated to Ni(I1) or Co(I1) is a very efficient nucleophile in the intramolccularly catalyzed hydrolysis of esters (44). (iii) Thc breakdown of the tetrahedral intermediate to form a coordinated carbamate or carboxylate ion is facilitated by the active-site sulfhydryl group (26, 27) acting as a general acid catalyst. (i\>)Replacement of the coordinated carbamate ion or carboxylate ion by water leads to regeneration of the enzyme. Carbamate ion is known to be the product of the action of urease on urea ( 6 ) . Methanol does not trap any intermediate in either the urease-catalyzed hydrolysis of urea or the bovine carboxypeptidase A catalyzed hydrolysis of substrates (45). Breslow has interpreted the latter result recently in terms of 0-coordination of the substrates of carboxypeptidase A to the active-site zinc ion (45) and previously in terms of a zinc-bound hydroxide ion acting as a nucleophile (46). Two limiting resonance structures (1 and 2) may be drawn for an 0-bonded complex of a sub-NHNH,, strate with urease (where -R = -NH,, -NHOH, -NHCH3, -H, o r -CH3). The pK,' for loss of a proton from the substrate in the complex at the active site will be determined by the degree of DIXON ET AL.: I1 charge separation in the complex (i.e., 1 vs. 2 ) . For = -NH,) would be -14 example, the pK,' of 1 (-R since 1 resembles the free substrate (urea ( 4 7 ) ) while that of 2 would be appreciably less than 9.7 (by extrapolation from 0-methylisouronium ion (35) by allowance for the inductive effect of a metal ion in place of a methyl group). A greater charge separation (i.e., a greater resonance contribution of 2 as compared with 1 ) corresponds to a lower pK,' for the sub- 1343 series of papers and in earlier papers from this laboratory, as well as those of other students whose work may not have been specifically cited. Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. 1. Blakeley, R. L., Webb, E. C. & Zerner, B. (1969) Biocl~ernistry8, 1984- 1990 2. Gazzola, C., Blakeley, R. L. & Zerner, B. (1973) Can. 1.Bioclzem. 51, 1325-1330 3. Varner, J. E. (1960) in The Enzymes (Boyer, P. D., C Lardy, H. & Myrback, K., eds.), 2nd ed., vol. 4, pp. strate =NH, of the nickel-substrate complex a t the 247-256, Academic Press, New York, NY active site. Nucleophilic attack is favored by resonance 4. Fishbein, W. N., Winter, T. S. & Davidson, J. D. (1965) form 2 of the coordinated substrate (Scheme 1 ) ; but J. Biol. Clzem. 240, 2402-2406 if the pK,' were too low, then enzymatic activity would 5. Fishbein, W. N. & Carbone, P. P. ( 1965) 1.Biol. Chern. be negligible at neutral p H due to dissociation of a 240,2407-24 14 However, the postulated carproton from 1-2. 6. Blakeley, R. L., Hinds, J. A., Kunze, H. E., Webb, E. C. & Zerner, B. ( 1969) Bioclzer?zistry8, 199 1-2000 boxylate anion suitably positioned very close to the 7. Fishbein, W. N. (1968) Anal. Clzinz. Acta 40, 269-275 amide nitrogen atom in the complex (Scheme 1) 8. Fishbein, W. N. ( 1969) J. Biol. Cllern. 244, 1188-1 193 would both increase the contribution of 2 relative to 1 9. Fishbein, W. N. (1977) Bioclzir?l. Biophys. Acta 484, and raise the pK,' of the coordinated substrate. The 433-442 unfavorable steric interaction of N-methylurea and 10. Dixon, N. E., Gazzola, C., Asher, C. J., Lee, D. S. W., acetamide with the active site of urease (vide s u p r a ) Blakeley, R. L. & Zerner, B. (1980) Can. J. Biochem. could cause an unfavorable positioning of the amide 58,474-480 nitrogen vis-a-vis the carboxylate ion and hence ac- 11. Dixon, N. E., Hinds, J. A., Fihelly, A. K., Gazzola, C., Winzor, D. J.. Blakeley, R. L. & Zerner. B. (1980) count for their very low kc,, values at p H 7.0. Can. J. Bioclzer,i. 58, 1323-1334 The different pH-k,,, profiles for some different substrates of urease can be understood in terms of 12. Astun, J. G. & Ziemer, C. W. (1946) 1. Arn. Chenz. SOC.68. 1405-1413 effects of substrate structure on the pK,' of the Ni2+13. Smith, G. F. ( 1931) J. Chern. Soc. 3257-3263 coordinated substrate, independently of interactions 14. De Wolfe, R. H. & Newcomb, R. C. (1971) J. Org. with the nearby carboxylate ion. Thus the lower p H Chern. 36, 3870-3878 optimum for formamide as compared with urea is con- 15. Davies, M., Jones, A. H. & Thomas, G. H. (1959) sistent with the lower pK,' of simple imidoesters (e.g., Trans. Far-aday Soc. 55, 1100- 1108 + 16. Corley, R. S., Cohen, S. G., Simon, M. S. & WolosinH,C-C(=NH,)OC,H,, pK,' 7.50 at 2S°C, and p = ski, H. T. (1956) J. A m . Chern. Soc. 78, 2608-2610 0.5 ( 4 8 ) ) as compared with 0-methylisouronium ion 17 Fearing, R. B. & Fox, S. W. (1954) J. A m . Clzem. Soc. (pK,' 9.72 (35) ) . Extension of this argument would 76,4382-4385 account for the lack of detectable enzymatic hydrolysis 18. Shnidman, L. (1933) 1. Plzys. Chern. 37, 693-700 of trifluoroacetamide as contrasted with the nearly 19. Stewart, J. E. (1957) 1. Chem. Phys. 26, 248-254 20. Robillard, G. T., Powers, J. C. & Wilcox, P. E. (1972) isosteric substrate acetamide at p H 7.0. Bioclzenlistry 11. 1773-1784 The detailed mechanism of Scheme 1 requires that 21. Bates, R. G. (1964) Determirzation o f pH. Tlzeory arzd the two nickel ions per 96 600-dalton subunit of urease, Pracvice, Wiley, New York, NY be within -6 A ( 1 A = 0.1 nm) of each other. How- 22. Dixon, N. E., Gazzola, C., Watters, J. J., Blakeley, R. ever, the essential elements of the mechanism could L. & Zerner, B. (1975) 1. A m . Chem. Soc. 97, 4130remain unaltered even if this proves to be incorrect. 4131 We note that as yet there are no models of activation 23. Stoops, J. K., Horgan, D. J., Runnegar, M. T. C., de Jersey, J., Webb, E. C. & Zerner, B. (1969) Bioof carboxylic acid amides (as differentiated from carchenzistry 8, 2026-2033 boxylic acid esters ( 4 4 ) ) towards hydrolysis by Ni2+ ion, and, in so far as we have been able to determine, 24. Scott, K. & Zerner, B. (1975) Can. J. Bioclzern. 53, 561-564 no models at all for metal ion promoted hydrolysis of 25. Sundaram, P. V. & Laidler, K. J. (1970) Can. J. Biourea. Because of the absence of such data we have chern. 48, 1132-1 140 been forced to model the enzyme on itself. 26. Norris, R. & Brocklehurst, K. (1976) Biochern. 1. 159, Future work from this laboratory will be concerned 245-257 to test consequences of the mechanism here proposed 27. Dixon, N. E. (1978) Ph.D. thesis, University of Queensin an attempt further to delineate the detailed mechaland, Brisbane, Australia nism of action of this enzyme. 25. Riddles, P. W. (1980) Ph.D. thesis, University of Queensland, Brisbane, Australia 29. Dixon, N. E., Blakeley, R. L. & Zerner, B. (1980) Acknowledgement Carz. 1.Biochenz. 58, 481-488 One of us (B.Z.) would like to acknowledge the 30. Bruice, T. C., Holmquist, B. & Stein, T. P. (1967) J. contributions of all the other authors listed in this A m . Chern. Soc. 89,4221-4222 1344 CAN. J. BIOCHEM. VOL. 58, 1980 Can. J. Biochem. Downloaded from www.nrcresearchpress.com by San Diego (UCSD) on 04/19/17 For personal use only. 31. Taylor, R. P., Chau, V., Bryner, C. & Berga, S. (1975) J. Am. Chem. Soc. 97, 1934-1943 32. Dittert, L. W. & Higuchi, T. (1963) J. Pharm. Sci. 52, 852-857 33. Bender, M. L. & Homer, R. B. (1965) J. Org. Chem. 30,3975-3978 34. Bennett, J. & Wren, E. A. (1977) Biochim. Biopllys. A cra 482,42 1-426 35. Zief, M. & Edsall, J. T. (1937) J. Arn. Chem. Soc. 59, 2245-2248 36. Zerner, B., Bond, R. P. M. & Bender, M . L. (1964) J. Am. Clzem. Soc. 86,3674-3679 37. Stoops, J. K., Horgan, D. J., Runnegar, M. T. C., de Jersey, J., Webb, E. C. & Zerner, B. (1969) Bioclzernisrry 8, 2026-2033 38. Stoops, J. K., Hamilton, S. E. & Zerner, B. (1975) Can. J. Bioclzem. 53, 565-573 39. Jencks, W. P. & Gilchrist, M. (1964) J. Arn. Chern. SOC.86, 5016-5020 40. Bolton, P. D. & Jackson, G. L. ( 1971) Arrsr. J. Chem. 24,969-974 41. Buckingham, D. A., Harrowfield, J. MacB. & Sargeson, A. M. (1974) J. Am. Chem. Soc. 96, 1726-1729 42. Gazzola, C., Blakeley, R. L. & Zerner, B. (1972) Proc. A~tst.Biochem. Soc. 5, 1 1 43. Buckingham, D. A., Keene, F. R. & Sargeson, A. M. (1974) J. Am. Chem. Soc. 96,4981-4983 44. Wells, M. A. & Bruice, T. C. (1977) J. Am. Chem. SOC.99,5341-5356 45. Breslow, R. & Wernick, D. L. (1977) Proc. Narl. Acad. Sci. U.S.A. 74, 1303-1307 46. Breslow, R., McClure, D. E., Brown, R. S. & Eisenach, J. (1975) J. Am. Clzern. Soc. 97, 194-195 47. Woolley, E. M. & Hepler, L. G. (1974) Anal. Chem. 44, 1520-1523 48. Pletcher, T. C., Koehler, S. & Cordes, E. H. (1968) J. Am. Chem. Soc. 90,7072-7076