8
Eur. J. Biochem. 62, 365-372 (1976) Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase Charles DANZIN and Robert CARDINAUD Service de Biophysique, Dipartement de Biologie, Centre #Etudes NuclCaires de Saclay, Gif-sur-Yvette (Received October 15, 1975) Kinetic studies were carried out in order to investigate the enzymic mechanism of a 215-fold- purified purine(pyrimidine) nucleoside : purine(pyrimidine) deoxyribosyl transferase fraction from Lactobacillushelveticus. A variety of natural deoxyribonucleosidesand bases were used as substrates. Initial velocity, product inhibition and isotopic exchange studies are consistent with a ping-pong bi-bi mechanism. The kinetic parameters are used to show that this fraction is free from any con- tamination by a specific purine nucleoside strain of L. helveticus. It was shown recently that trans-N-deoxyribosylase extracted from Lactobacillus helveticus could be sepa- rated by affinity chromatography into two fractions one specifically catalyzing the transfer of the deoxyri- bosyl moiety between bases (trans-N-deoxyribosy- lase-I) and the other able to transfer the deoxyribosyl moiety between purine and pyrimidine bases [l, 21. With the second fraction trans-N-deoxyribosylase- I1 the following three possible transfers were observed : dRib-Pur + Pur’ 2 dRib-Pur’ + Pur dRib-Pur + Pyr dRib-Pyr + Pur dRib-Pyr + Pyr’ 2 dRib-Pyr’ + Pyr (1) All attempts to eliminate completely the purine- to-purine transfer activity from the trans-N-deoxyri- bosylase-I1 fraction remained unsuccessful, nor was it possible to separate a distinct pyrimidine-to-pyrimi- dine transfer enzyme. The present paper reports a steady-state kinetic study suggesting that with this en- Abbreviations. Pur, a purine base; Pyr, a pyrimidine base; (Pur 2 Pyr) is a transfer reaction where the deoxyribosyl moiety is transferred from a purine to a pyrimidine; deoxyribonucleosides are abbreviated as recommended by IUPAC-IUB; (dIno + Ade) denotes a transfer in which deoxyinosine and adenine are the sub- strates. Enzymes. rrans-N-Deoxyribosylase or purine@yrimidine) nu- cleoside : purine(pyrimidine) deoxyribosyl transferase (EC 2.4.2.6) ; xanthine oxidase or xanthine : oxygen oxidoreductase (EC 1.2.3.2); purine (deoxy)ribonucleoside phosphorylase or purine nucleoside : orthophosphate (deoxy)ribosyl transferase (EC 2.4.2.1); adenosine hydrolase or N-ribosyl-purine ribohydrolase (EC 3.2.2.1); inosine hydrolase or inosine ribohydrolase(EC 3.2.2.2); adenine deaminase or adenine aminohydrolase (EC 3.5.4.2) ; (deoxy)adenosine deami- nase or (de0xy)adenosine aminohydrolase (EC 3.5.4.4). ~ _ _ purine deoxyribosyl transferase also found in the same zyme the transfer reaction is catalyzed by a ping- pong bi-bi mechanism explaining why the three types of transfer could be observed. MATERIALS AND METHODS Reagents Deoxyadenosine was purchased from Fluka, ade- nine from BGH, deoxyinosine, hypoxanthine, thymi- dine, cytosine from Calbiochem, deoxyguanosinefrom Serlabo, deoxycytidine . HCL from Sigma, inosine from NBC. Amino-pyrrolo-pyrimidine and hydroxy- pyrrolo-pyrimidine were a generous gift from Bur- roughs Welcome and Co. [8-14C]Hypoxanthine, [U-14C]adenine, [2-’4C]cytosine and [8-14C]deoxy- inosine were obtained from the DCpartement des Ra- dioelkments, Saclay. Protamine sulfate and adenosine were products from Mann Research. Enzymes Xanthine oxidase was a commercial preparation from Boehringer (10 mg x ml-’ suspension in am- monium sulfate). The specific activity was carefully checked before use. trans-N-deoxyribosylase was extracted from Lac- tobacillus helveticus (CNRZ 303 strain) grown under conditions described previously [l]. The bacterial material was ground in 0.1 M phosphate buffer, pH 6.0. After centrifugation the protein obtained by precipitation in 75 % saturated ammonium sulfate was

Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

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Page 1: Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

Eur. J . Biochem. 62, 365-372 (1976)

Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

Charles DANZIN and Robert CARDINAUD

Service de Biophysique, Dipartement de Biologie, Centre #Etudes NuclCaires de Saclay, Gif-sur-Yvette

(Received October 15, 1975)

Kinetic studies were carried out in order to investigate the enzymic mechanism of a 215-fold- purified purine(pyrimidine) nucleoside : purine(pyrimidine) deoxyribosyl transferase fraction from Lactobacillus helveticus. A variety of natural deoxyribonucleosides and bases were used as substrates. Initial velocity, product inhibition and isotopic exchange studies are consistent with a ping-pong bi-bi mechanism. The kinetic parameters are used to show that this fraction is free from any con- tamination by a specific purine nucleoside strain of L. helveticus.

It was shown recently that trans-N-deoxyribosylase extracted from Lactobacillus helveticus could be sepa- rated by affinity chromatography into two fractions one specifically catalyzing the transfer of the deoxyri- bosyl moiety between bases (trans-N-deoxyribosy- lase-I) and the other able to transfer the deoxyribosyl moiety between purine and pyrimidine bases [l, 21.

With the second fraction trans-N-deoxyribosylase- I1 the following three possible transfers were observed :

dRib-Pur + Pur’ 2 dRib-Pur’ + Pur dRib-Pur + Pyr dRib-Pyr + Pur dRib-Pyr + Pyr’ 2 dRib-Pyr’ + Pyr (1)

All attempts to eliminate completely the purine- to-purine transfer activity from the trans-N-deoxyri- bosylase-I1 fraction remained unsuccessful, nor was it possible to separate a distinct pyrimidine-to-pyrimi- dine transfer enzyme. The present paper reports a steady-state kinetic study suggesting that with this en-

Abbreviations. Pur, a purine base; Pyr, a pyrimidine base; (Pur 2 Pyr) is a transfer reaction where the deoxyribosyl moiety is transferred from a purine to a pyrimidine; deoxyribonucleosides are abbreviated as recommended by IUPAC-IUB; (dIno + Ade) denotes a transfer in which deoxyinosine and adenine are the sub- strates.

Enzymes. rrans-N-Deoxyribosylase or purine@yrimidine) nu- cleoside : purine(pyrimidine) deoxyribosyl transferase (EC 2.4.2.6) ; xanthine oxidase or xanthine : oxygen oxidoreductase (EC 1.2.3.2); purine (deoxy)ribonucleoside phosphorylase or purine nucleoside : orthophosphate (deoxy)ribosyl transferase (EC 2.4.2.1); adenosine hydrolase or N-ribosyl-purine ribohydrolase (EC 3.2.2.1); inosine hydrolase or inosine ribohydrolase (EC 3.2.2.2); adenine deaminase or adenine aminohydrolase (EC 3.5.4.2) ; (deoxy)adenosine deami- nase or (de0xy)adenosine aminohydrolase (EC 3.5.4.4).

~ _ _

purine deoxyribosyl transferase also found in the same

zyme the transfer reaction is catalyzed by a ping- pong bi-bi mechanism explaining why the three types of transfer could be observed.

MATERIALS AND METHODS

Reagents

Deoxyadenosine was purchased from Fluka, ade- nine from BGH, deoxyinosine, hypoxanthine, thymi- dine, cytosine from Calbiochem, deoxyguanosine from Serlabo, deoxycytidine . HCL from Sigma, inosine from NBC. Amino-pyrrolo-pyrimidine and hydroxy- pyrrolo-pyrimidine were a generous gift from Bur- roughs Welcome and Co. [8-14C]Hypoxanthine, [U-14C]adenine, [2-’4C]cytosine and [8-14C]deoxy- inosine were obtained from the DCpartement des Ra- dioelkments, Saclay. Protamine sulfate and adenosine were products from Mann Research.

Enzymes

Xanthine oxidase was a commercial preparation from Boehringer (10 mg x ml-’ suspension in am- monium sulfate). The specific activity was carefully checked before use.

trans-N-deoxyribosylase was extracted from Lac- tobacillus helveticus (CNRZ 303 strain) grown under conditions described previously [l]. The bacterial material was ground in 0.1 M phosphate buffer, pH 6.0. After centrifugation the protein obtained by precipitation in 75 % saturated ammonium sulfate was

Page 2: Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

366 Kinetic Studies of trans-N-Deoxyribosylase

further purified by precipitating nucleic acids with 0.5% protamine sulfate. The precipitate was spun down and the supernatant dialyzed against a 0.1 M phosphate buffer, pH 6.0, then heated at 60 "C for 5 min. After centrifugation the enzyme in the super- natant was purified in a single step by affinity chroma- tography using a column of an adsorbent made of Sepharose-IV-B substituted with m-phenylenediamine onto which was coupled a diazonium salt of 5-(p- aminophenylpropyl-uracil) [l]. The purine-to-purine transfer enzyme (trans-N-deoxyribosylase-I) was not retained on this specific adsorbent. The trans-N-deo- xyribosylase retained was eluted with a solution of 10 mM adenine. The eluate was exhaustively dialyzed against a 0.1 M phosphate buffer at pH 6.0 and after centrifugation the supernatant was stored at 4 "C until use. No apparent loss of specific activity was observed after several months of storage under these condi- tions.

Protein Determinations

Protein concentrations were measured by the Folin method as described [3] for concentrations ranging from 20-1000 pgxml-', and by the Schaffner method [4] for concentrations between 0.5 - 20 pg x ml-'. In both methods bovine serum albumin was used as a standard.

Nucleic Acid Determination

The elimination of nucleic acids and nucleic acid constituents was followed by measuring absorbance at 260 nm.

KINETIC MEASUREMENTS

Spec tropho tome t ric Assays

All reactions were carried out at 40 OC in 0.1 M phosphate buffer, pH 6.0, in a quartz cuvette of 1-cm path length (final volume 3 ml). Deoxyribonucleoside and base solutions were mixed together with a suffi- cient volume of buffer. The mixture was equilibrated at 40 "C (15 min). The enzyme solution (100 pl) was added to start the reaction and the absorbance change was followed with time. A suitable wavelength was selected according to the nature of the substrate couples : deoxycytidine-adenine and deoxyadenosine- cytosine: 280 nm = 3864 M-' x cm-'I); deoxy- guanosine: 290 nm = 2178 M-' x cm-'); deo- xyinosine-cytosine: 280 nm ( A E~~~ = 2526 M-' x cm-'); thymidine-cytosine: 240 nm ( A E~~ = 2248 M-' x cm-'). All measurements were perfcirmed with a Beckman Kintrac VII spectrophotometer and a 10-in (25.4-cm) potentiometer recorder setting the span at 0-0.2 absorbance unit with a chart drive speed of 1 in . min-' (2.54 cm x min-'). Under these conditions

in the extreme case of a kinetic measurement with 0.033 mM deoxycytidine and 0.0050 mM adenine, a linear absorbance decrease of 0.0066 (8.5 mm) was ob- tained over a period of 1 min. For the few similar kinetics reported here the determination of precise initial rates called for special care in operation but most other kinetics with higher substrate concentrations were obtained without difficulty.

When deoxyinosine was used as donor, xanthine oxidase was used as an auxiliary enzyme and the ab- sorbance measured at 290 nm (.zZg0 for uric acid was taken as 12200 M-' x cm-').

trans-N- Deoxyribosylase Assays

A unit of enzyme activity (U) was defined as the quantity of enzyme necessary to produce 1 pmol of product in 1 min under standard conditions: 0.1 M phosphate buffer pH 6.0, 40 "C, 0.17 mM substrate concentration. The three possible types of transfer were followed, three specific activity units were defined corresponding respectively to the three transfer reac- tions: (dCyd -+ Ade), (dThd -+ Cyt) and (dIno -, Ade).

Isotopic Method for Transfer Kinetics and Isotopic Exchange Studies

This method was used (a) to study the isotopic exchange in the two couples deoxy~ytosine-[2-'~C]- cytosine and deoxyadenosine- [8-14C]adenine and (b) to measure the equilibrium constants for a certain number of reactions.

The experimental conditions were: 0.2 pmol of each substrate in 0.4 ml of 0.01 M phosphate buffer, pH 6.0. The reaction was initiated by adding 0.1 ml of the enzyme solution (0.05 pg protein x ml-') in 0.01 M phosphate buffer pH 6.0 The reaction products were measured as described previously [2].

RESULTS

Character is tics of Purified Enzyme Fraction

The different steps of the purification procedure (see Materials and Methods) are given in Table 1. Purification refers to the (dCyd -+ Ade) transfer. It was possible to obtain a 215-fold purification and a specific activity of 43 U x mg-'. These results are essentially identical with those of a parallel homogeneous prep- aration using the same bacterical culture [l]. The usual checks for deoxyadenosine deaminase, adenine deaminase, adenosine hydrolase and inosine hydro- lase revealed no detectable amount of these activities. Traces of deoxyribonucleoside hydrolase were sus- pected but had a negligible effect in 5 min. It was ascertained that the transfer was independent of phos-

Page 3: Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

C. Danzin and R. Cardinaud 367

Table 1 . Purification oftrans-N-deoxyribosylase from L. helveticus: comparison between different transfer activities Recovery and purification values refer to the (dCyd + Ade) transfer

Fraction Total Total Recovery Purifica- Specific activity Specific activity ratio __ __ ~- orotein activitv tion (dCyd + Ade) (dThd + Cyt) (dlno --f Ade) (dThd -+ Cyt) (dIno + Ade)

(dCyd ---t Ade) (dCyd + Ade) ____.

units % -fold units/mg __ ~ _ _ _ _ _ _ - _ - ~ mg

Initial extract 7750 1550 100 1 0.20 0.033 0.050 0.165 0.250 Ammonium

sulfate 3915 1504 97 1.92 0.384 0.061 0.095 0.159 0.250 Protamine

sulfate 3396 1450 93.5 2.13 0.427 0.052 0.128 0.124 0.300 Heat dena-

turation 2360 1410 91 2.99 0.598 0.082 0.153 0.137 0.260 Affinity

column 28.1 1210 78 215 43 7.75 0.80 0.180 0.019

r I I I 1

F - .- - ;Xx, 5" u z : b :

Kx) 100

I I I

0 50 Kx) 150 " 10 x) 30 0

l/[Adenine] (rnt@) l/IDeorycytidine] (rnM-')

Fig. 1 . Initial velocity pattern for the (dCyd+ Ade) reaction with ( A ) adenine and ( B ) deoxycytidine as variable substrate. Protein concentration. 0.13 pg/ml. (A) Deoxycytidine as fixed substrate. (0) 0.17 mM; (A) 0.10 mM; (A) 0.067 mM, (0) 0.050 mM, (0) 0.033 mM. (B) Adenine as fixed substrate: (B) 0.067 mM; (0) 0.033 mM; (A) 0.017 mM; (A) 0.010 m M ; (0) 0.0067 mM; (0) 0.0050 mM

phate concentration and deoxyribose 1-phosphate was not a substrate.

Table 1 indicates that the ratio of activities for the (dThd + Cyt) and (dCyd -+ Ade) transfer did not vary significantly at the different stages of purification, whereas the ( d h o -+ Ade)/(dCyd + Ade) transfer ratio was noticeably lower after the last purification step. However this non-negligible residual (dIno -+ Ade) transfer activity remained constant even after repeated chromatography on the specific adsorbent. This had been observed in earlier preparations also and indicates that this activity is not due to a conta- mination by trans-N-deoxyribosylase-I.

KINETIC STUDIES

The initial velocity was shown to increase lineary with enzyme in the concentration range used in these studies.

Deoxycytidine-Adenine Transfer Kinetic Studies Deoxycytidine + adenine

3 Cytosine + deoxyadenosine (2) Initial velocity plots as a function of adenine con-

centration for various concentrations of deoxycytidine indicated an inhibitory effect of adenine. At adenine concentration below 0.07 mM a double-reciprocal plot ( l / u versus l/[S]) (Fig. 1) with varying concentrations of deoxycitidine or adenine yielded parallel lines sug- gesting a ping-pong bi-bi mechanism [ 5 ] . For inhibi- tory concentrations of adenine a very characteristic competitive inhibition of deoxycytidine by adenine was obtained, as seen in F2g. 2. On the other hand no com- petitive inhibition of adenine by deoxycytidine was observed, even at concentrations as high as 50 times those of adenine.

A plot of l / u versus l/c, c being the concentration for both substrates, gave a straight line (Fig. 3). This

Page 4: Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

368 Kinetic Studies of trans-N-Deoxyribosylase

I I I

OO <J 10 m 33

I/[Deaycytidinel (mM? Fig. 2. Competitive substrate inhibition by adenine. Protein concen- tration 0.13 pg/ml. Adenine as fixed substrate: (0) 0.10 mM; (A) 0.17 mM; (A) 0.33 mM; (0) 0.50 mM; (0) 0.67 mM

I / i I

I I I Fig. 3. Initial velocity pattern for identical concentrations of both ade- nine and deoxycytidine substrates. Protein concentration: 0.13 pgg/rnl

test is taken as further evidence that the transfer pro- ceeds via a ping-pong bi-bi mechanism, one of the sub- strates being a competitive inhibitor of the other [2 ,6] by formation of a dead-end complex with the free enzyme.

A linear competitive inhibition of deoxycytidine by deoxyadenosine was observed, as reported in Fig. 4.

Fig. 4. Product inhibition by deoxyadenosine with deoxycytidine as variable substrate. Protein concentration : 0.1 3 pg/ml. Adenine concentration: 0.017 mM. Deoxyadenosine concentration: (m) 0; (0) 0.033mM; (A) 0.066mM; (A) 0.10mM; (0) 0.13mM; (0) 0.17 rnM

In Fig. 5 we have a linear non-competitive inhibition of adenine by cytosine, whereas cytosine gave a linear non-competitive inhibition of deoxycytidine (Fig. 7).

Deoxyadenosine-Cytosine Transfer Kinetic Study

This is the reverse of the preceding transfer reac- tion. Similarly, a double-reciprocal plot with varying concentrations of deoxyadenosine or cytosine yielded parallel lines and the initial velocity pattern for identical concentrations of cytosine and deoxyadeno- sine was a straight line (Fig.8). The product in- hibition behaved similarly but on the other hand nei- ther substrate showed any sign of excess inhibition, in agreement with previous studies [7,8].

Kinetic Constants

The, kinetic constants have been obtained for these two transfer reactions as described in [2] and are given in Table 2. The inhibition constants Ki were calculated from the observed non-competitive inhibition by the products.

Isotopic Exchange Studies

It was checked that an isotopic exchange occurred between : (a) deoxycytidine and [2-14C]cytosine in the

Page 5: Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

C. Danzin and R. Cardinaud 369

400

350

300

-250 .c -! $ m -

150

1CU

50

so -25 0 25 50 75 0

~/I~denine] (M') Fig. 5. Product inhibition by deoxyadenosine with adenine as variable subsrrate. Protein concentration : 0.13 pg/ml. Deoxycytidine Concentration: 0.067 mM. Deoxyadenosine concentration: (a) 0; (0) 0.033 mM; (A) 0.067 mM; (A) 0.10 mM; (0) 0.13 mM; (0) 0.17 mM

OO 3 25 50 75 loo 150

l/[Adenine] (mM-') Fig.6. Product inhibition by cytosine with adenine as variable sub- strate. Protein concentration 0.13 pg/ml. Deoxycytidine concentra- tion: 0.010 mM. Cytosine concentration: (B) 0; (0) 0.033 mM; (A) 0.067 mM; (A) 0.13 mM; (0) 0.20 mM; (0) 0.30 mM

absence of adenine and deoxyadenosine and (b) deo- xyadenosine and [8-14C]adenine in the absence of deoxycytidine and cytosine. Good agreement was ob- tained with the corresponding measured initial velo- cities calculated from the relations given by Cleland [9] for the exchange reaction in a ping-pong bi-bi mechanism.

where U X - ~ = isotopic exchange velocity between first substrate and first product (A = deoxycytidine, P = [2-'4C]cytosine). t$& isotopic exchange velocity be- tween second substrate and second product (B = [8-14C]adenine ; Q = deoxyadenosine).

In the second relation a term is introduced to account for the excess inhibition by substrate B. For the exchange reaction (dCyd 2 Cyt*) the ratio U&,/U:& was 1.13. For the exchange reaction (dAdo 2 Ade*) this ratio was 1.05.

Kinetic Studies of (dGuo i? Cyt) and (dIno 2 Cyt) Transfers

With two other purine deoxyribonucleosides as donors the same kinetic patterns were obtained and the Michaelis constants, as well as maximum velocities corresponding to these two transfer reactions, are given in Table 3.

DISCUSSION

The initial velocity studies reported here supply evidence that the deoxyribosyl transfer catalyzed by trans-N-deoxyribosylase-11 proceeds via a ping-pong bi-bi mechanism. In Cleland's representation the me- chanism is summarized for the reaction given in Equa- tion (2) by the short hand notation:

Ade dAdo ' *E 1 * dCyd

1

/+Ade

E E-dRib E-dRib-Ade E-dCyd

EdRib-C yt E-dAdo ( 5 )

E-Ade

Page 6: Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

370 Kinetic Studies of trans-N-Deoxyribosylase

400

350

xo

= m ._ E '200

-- 150

- - 5 >

100

50

0 -15 -10 5 0 5 10 15 20 25 30 35

l/[[)eoxycytidine] (mM-') Fig. I . Product inhibition by cytosine with deoxycytidine as variable substrate. Protein concentration : 0.13 pg/ml. Adenine concentration 0.017 mM. Cytosine concentration (m) 0; (0) 0.033 mM; (A) 0.067 mM; (A) 0.13 mM; (0) 0.20 mM; (0) 0.30 mM

l/[Cytosine]~ 1 /[!3mxyadenosine] (rnM')

Fig. 8. Initial velocity pattern for identical concentrations of both cytosine and deoxyadenosine substrates. Protein concentration: 0.13 pg/ml

The validity of this model is again justified by the good agreement of Haldane's relations for the ping- pong bi-bi mechanism [5,6] [Equation (6)]

Table 2. Kinetic constants for the transfers (dCyd+ Ade) and (dAdo + Cytj

where A and B are respectively the first and second substrates and P and Q the first and second products. Using the constants obtained experimentally from the present study of dCyd + Ade and dAdo -+ Cyt trans- fers, the following values were calculated for the differ- ent members of these relations: 8.15,7.85,8.1,8.6,8.8 and 8.7.

The ping-pong bi-bi mechanism for a (Pur st Pyr) and (Pyr 2 Pyr) transfers are both catalyzed by the same enzyme accounting for the 'residual' (Pur 2 Pyr) transfer activity found in homogeneous preparation of trans-N-deoxyribosylase-I1 and (b) the enzyme

~~~~~ ~ ~~

Michaelis constant Inhibition constant Maximum velocity Equilibrium constant K

mM pmol min-' pg-'

Forward reaction

Deoxycytidine KdCyd = 0.090 (Ki)dCyd = 0.095 Adenine KAde = 0.019 (KJAdC = 0.021 (dCyd-tAde) = 0.085 8.15

(K,)Ade = 0.41" __ ____________ __ -~

Reverse reaction

(K)cyt = 0.17 v(dAdo+Cyt) = 0.113 0.115 Cytosine Kc,, = 0.22 Deoxyadenosine KdAdo = 0.12 (Ki)dAdo = 0.092

a Dead-end inhibition.

Page 7: Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

C . Danzin and K. Cardinaud 371

Table 3. Kinetic constuntsfor various tran.$ers to cytosine and adenine

Transfer reaction Michaelis constant Michaelis constant Maximum velocity Equilibrium constant K of acceptor of donor (deoxyriboside)

mM kmol min-' pg-' _____ ~ -- -

(Deoxyadenosine +cytosine) GY, = 0.22 KdAdo = 0.12 v[dAdo-Cyt) = o.113 0.115 (Deoxyguanosine + cytosine) Kcy, = 0.077 Kdciyo = 0.37 v(dGuo-Cyl) = 0.038 0.094 (Deoxyinosine +cytosine) K,,, = 0.073 Kdlno = 3.5 v(dIno-Cyt) = 0.034 0.29

- (Deoxycytidine +cytosine) K,,, = 0.17 KdCyd = 0.095 v(dCyd+Cyt) = O.Og0 (Deoxyadenosine +adenine) KAde = 0.021 KdAdo = 0.092 V(dAdo-Ade) = 0.095 (Deoxycytidine + adenine) KAde = 0.019 KdCyd = 0.090 v[dCyd-Ade) = 0.0855 (Deoxyinosine +adenine) K A d e = 0.0073" Kdlno = 3.4" '(dlno-Ade) = 0.033" (Deoxyguanosine +adenine) KAde = 0.008" KdGuo = 0.346' V(dGuo-Ade) = 0.036a

- - - -

' Calculated values (see text).

catalyzes the isotopic exchanges between A and P in the absence of B and Q, and B and Q in the absence of A and P respectively :

Deoxycytidine + ['4C]cytosine

Deoxyadenosine + [I4C]adenine

2 Cytosine + [14C]deoxycytidine (7)

2 Adenine + ['4C]deoxyadenosine. (8)

A comparison of experimental initial isotopic exchange rates with the corresponding values calcu- lated from the kinetic parameters of the transfer reac- tion (dCyd + Ade) showed a reasonably good agree- ment (Results). This suggests in particular that no trans-N-deoxyribosylase-I takes any part in the (dAdo + Ade) exchange ( i e . the enzymic fraction studied here is free from trans-N-deoxyribosylase-I).

Deoxyinosine + adenine 2 Hypoxanthine + deoxyadenosine (9)

was used as an example of (dRib Pur 2 Pur) transfer. The experimental study of this transfer reaction proved to be difficult owing to the low activity of the purified fraction (Table 1).

The theoretical values of the kinetic constants of this transfer were worked out by the following method, assuming that a single given protein catalyses the three possible kinds of transfer:

The following reaction:

Calculation of V(dlno -t

parts : The transfer reaction can be divided into two

E + A+(EA-FP)+F + P

F + B ? h s (FB-EQ)+E + Q (10)

F is an intermediate form of the enzyme, (EA - FP) and (FB - EQ) are enzyme-substrate or enzyme-pro- duct complexes.

According to Alberty [lo] the maximum velocity is :

where et is the total enzyme concentration. Hence :

In Equation (1 1) k3 depends only on the nature of the deoxyriboside and k7 only on the nature of the base.

Consequently :

1 - - 1 V(dIno -, Ade) V(dIno -t Cyt)

1 i 1 1

(1 3) - + v(dAdo + Ade) v(dAdo - Cyt)

In this relation all the maximum velocities were determined (see Table 3) except v(/(dl,,o -, A&), which can therefore be calculated.

Calculation of &fnO and KAde For all transfer reactions catalyzed by the same

enzyme according to a ping-pong bi-bi mechanism it can easily be established that the Michaelis constants of the substrates are related to the maximum velocities by the following relations:

= Cte (dRib-Bn+B)

Page 8: Deoxyribosyl Transfer Catalysis with trans-N-Deoxyribosylase : Kinetic Study of Purine(Pyrimidine) to Pyrimidine(Purine) trans-N-Deoxyribosylase

3 72 C. Danzin and R. Cardinaud : Kinetic Studies of trans-N-Deoxyribosylase

where dRib - Bn is any purine or pyrimidine donor

( KdR;; - B ) = Cte \ ' 1 (dRib-B+Bn)

where Bn is any purine or pyrimidine base. In the present case we can write:

(Kdlno)(dlno + Ade) - - V(dlno + Ade)

(Kdlno) (dlno -. Cyt) V(dIno + Cyt)

and

Thus (KdIno)(dIno -. Ade) and (KAde)(dIno + Ade) may easily be calculated since all the other constants are known (Table 3).

A value of the initial velocity for the substrate con- centrations under normal conditions (see Materials and Methods) was obtained by means of the following equation :

In the (dIno+Ade) transfer [A] and [B] are the initial deoxyinosine and adenine concentrations, K A

and KB the Michaelis constants and V = V(&,wAde);

K I is the constant of the E-adenine abortive complex [5 ] . The calculated value is consistent with the v value measured under the same concentration conditions

The method described in this paragraph was also used to calculate the kinetic constants (Michaelis constants and maximum velocity) of the (deoxyguano- sine + adenine) transfer (Table 3).

The apparent dissociation constants for the sub- strates assembled in Table 4 show the effect of the substituent in position 6 of the purine bases. It may be observed that the purine derivatives with an amino group in position 6 have a better afhi ty than those with a hydroxyl group both for the bases and for the deoxyribosides. Nevertheless a direct participation of

( b p . / L l c . ) = 0.89.

Table 4. Influence of substituents on the 6 position of purines

Purine 4 for trans-N-deoxyribosylase

I 11"

mM

dAdo dIno Ade HPX

0.092 0.43 0.38 0.34 0.021 0.039 0.21 0.079

a From[2].

these groups in the formation of the enzyme-substrate complex can be ruled out, since it has been shown in a specificity study [ l l ] that purine bases with various bulky substituents on position 6 (6-iodopurine, 6-n- hexylaminopurine, 6-benzylaminopurine) are sub- strates. Conversely purine is also a good substrate. Incidentally this phenomenon is not found with truns- N-deoxyribosylase-I [2] for which the corresponding constants of hypoxanthine and adenine are much closer.

Plots not given in this paper are available upon request to one of the authors (R. C.).

C.D. wishes to thank the Commissariat ri I'Energie Atomique for a predoctoral fellowship.

REFERENCES

1. Holguin, J. & Cardinaud, R. (1975) Eur. J. Biochem. 54, 505 - 514.

2. Danzin, C. & Cardinaud, R. (1974) Eur. J. Biochem. 48, 387- 395.

3 . Leggett Bailey, J. (1967) in Techniques in Protein Chemistry, 2nd edn, pp. 340-341, Elsevier, Amsterdam.

4. Schaffner, W. & Weissmann, C. (1973) Anal. Biochem. 56,

5. Cleland, W. W. (1963) Biochim. Biophys. Acta, 67, 104- 137,

6. Garces, E. & Cleland, W. W. (1969) Biochemistry, 8,633-640. I. Beck, W. S. & Levin, M. (1963) J. Biol. Chem. 238, 702-709. 8. Uerkwitz, W. (1971) Eur. J. Biochem. 23, 387-395. 9. Cleland, W . W. (1970) The Enzymes, 3rd edn, vol. 11, pp. 1 - 65,

502-514.

173 - 187 and 188 - 196.

(Boyer, P. D., ed.) Academic Press, New York. 10. Alberty, R. A. (1956) Adv. Enzymol. 17, 1-64. 11. Holguin, J. & Cardinaud, R. (1975) Eur. J. Biochem. 54,

515- 520.

C. Danzin and R. Cardinaud, Service de Biophysique, Dtpartement de Biologie, BLtiment 142, Centre d'Etudes NuclCaires de Saclay, Boite postale 2, F-91190 Gif-sur-Yvette, France