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J. Biol. Chem., Vol. 277, Issue 39, 36357-36362, September 27, 2002
From the Dipartimento di Scienze Neurologiche e della Visione,
Sezione di Chimica Biologica, Facoltà di Medicina e Chirurgia,
Università degli Studi di Verona, Strada Le Grazie, 8, 37134 Verona, Italy, and the
Received for publication, May 17, 2002, and in revised form, July 11, 2002
A flexible loop (residues 328-339), presumably
covering the active site upon substrate binding, has been
revealed in 3,4-dihydroxyphenylalanine decarboxylase by means of
kinetic and structural studies. The function of tyrosine 332 has been
investigated by substituting it with phenylalanine. Y332F displays
coenzyme content and spectroscopic features identical to those of the
wild type. Unlike wild type, during reactions with
L-aromatic amino acids under both aerobic and
anaerobic conditions, Y332F does not catalyze the formation of aromatic
amines. However, analysis of the products shows that in aerobiosis,
L-aromatic amino acids are converted into the corresponding aromatic aldehydes, ammonia, and CO2 with concomitant
O2 consumption. Therefore, substitution of Tyr-332 with
phenylalanine results in the suppression of the original activity and
in the generation of a decarboxylation-dependent oxidative
deaminase activity. In anaerobiosis, Y332F catalyzes exclusively a
decarboxylation-dependent transamination of
L-aromatic amino acids. A role of Tyr-332 in the C Dopa1 decarboxylase
(DDC; EC 4.1.1.28) is a homodimeric pyridoxal 5'-phosphate (PLP) enzyme
that catalyzes as the main reaction the decarboxylation of
L-aromatic amino acids into the corresponding aromatic
amines shown in Reaction 1.
Tancini et al. (6) reported the presence of an exposed and
flexible region in the native pig kidney DDC molecule susceptible to
tryptic digestion by which two fragments cleaved at the
Lys-334-His-335 bond were formed. Although the nicked enzymatic
species does not exhibit either decarboxylase or oxidative deamination
activities, it retains a large percentage of the native transaminase
activity toward D-aromatic amino acids and displays a slow
transaminase activity toward aromatic amines (1). Steady-state kinetic
studies of native and nicked enzymatic species together with protection experiments against limited proteolysis of DDC by various substrates have suggested that ligand conformational changes occur at or near the
tryptic cleavage region (1). The finding that recombinant rat liver DDC
lacking this loop is incompetent for decarboxylation supports this view
(7).
The spatial structure of ligand-free DDC and its complex with the
anti-Parkinson drug carbiDopa has been recently solved, but the
flexible loop between residues 328 and 339 is invisible in the electron
density map (8). A model based on the coordinates of the enzyme with
the flexible loop in its hypothetical open form was built. Although in
this modeled structure the loop is located at the dimer interface, far
away from the active site, it is expected to extend toward the active
site of the other monomer in a closed conformation upon substrate
binding. Such loop closure could be an essential step in the catalytic
mechanism of the enzyme, and it is also reasonable to suppose that some
loop residues could even take part in the catalytic mechanism. Fig.
1 shows a tentative model of the flexible
loop in a position to gate access to the active site in the
DDC-carbiDopa complex. The tyrosyl residue, Tyr-332, in the model
is found 3.86 Å from the Chemicals--
L-Dopa, L- and
D-5-hydroxytryptophan (5-HTP), 5-hydroxytryptamine (5-HT,
serotonin), dopamine, PLP, pyridoxamine 5'-phosphate (PMP), NADH,
bovine liver L-glutamate dehydrogenase, horse liver alcohol
dehydrogenase, and Hepes were Sigma products. The liquid chromatography solvents (HPLC grade) were from Labscan. Ingredients for
bacterial growth were from Difco. Oligonucleotides were from Invitrogen. PCR amplifications were performed using the Expand high
fidelity PCR system commercialized by Stratagene. The restriction enzymes used for cloning were from Biolabs. D,
L-[1-14C]Dopa (55 mCi/mmol) was a product of
ICN Pharmaceuticals. All other chemicals were of the highest purity available.
Site-directed Mutagenesis--
Site-directed mutagenesis was
performed by overlap extension PCR (10). This method uses four
oligonucleotide primers in three separate PCR reactions to introduce a
mutation into the target DNA sequence. Two separate PCR reactions are
run, one using primers 1 and 3 to amplify a portion of the target
sequence and the other using primers 2 and 4 to amplify the other
portion. A short section of DNA has identical sequence in both PCR
products and corresponds to the sequence of primers 2 and 3 ("internal primers"), which are complementary to each other and
carry the "mismatch," i.e. the mutation. In the third
PCR, the purified products of the previous two reactions are employed
as template. Following denaturation, a small fraction of the template
DNA will anneal to form heteroduplexes and will be extended at its
recessed 3' ends by the polymerase used in the reaction. The
full-length sequence containing the mutation is then amplified using
primers 1 and 4 ("external primers"). This mutant was
produced using as external primers 5'-ATCGGCTCGTATAATGTGTGG-3' and
5'-GTTCTGATTTAATCTGTATCAGG-3'. Internal primers were
5'-GACCCCGTGTTCTTAAAGCAC-3' and
5'-GTGCTTTAAGAACACGGGGTC-3'. The newly inserted part
of the expression construct, pKKDDC-mutant, was sequenced to confirm
mutation, and the plasmid was used to transform Escherichia coli
SVS370.
Expression and Purification of Y332F Mutant--
The conditions
used for expression and purification of the mutant protein in E. coli (SVS370) were as described for the wild-type enzyme (2, 11).
Since the mutant enzyme does not show detectable decarboxylase activity
in the standard spectrophotometric assay, which measures production of
aromatic amines, screening with antibodies to native DDC was therefore
necessary to monitor the purification procedure. The purified mutant
was homogenous as indicated by a single band on SDS-PAGE. The enzyme
concentration was determined by using an Western Blotting--
A sample of 20 µg of protein was
subjected to SDS-polyacrylamide gel electrophoresis using a 12.5%
acrylamide gel. The proteins were electroblotted to
Immobilon-P-membranes (Millipore), and Western blot analysis was
performed according to Gallagher et al. (12).
Enzyme Assays--
DDC mutant Y332F (2-5 µM) was
incubated with (0.1-5 mM) L-Dopa or
L-5-HTP in 50 mM Hepes, pH 7.5, at 25 °C in
the presence or absence of O2. Production of dopamine or
5-HT was determined with a spectrophotometric assay outlined by Sherald
et al. (13) and modified by Charteris and John (14).
Alternatively, production of aromatic amines as well as consumption of
L-aromatic amino acids were measured by HPLC analysis.
Aliquots were removed at time intervals, and trichloroacetic acid was
added to a final concentration of 5% (v/v). The quenched solutions
were centrifuged to remove protein, and the supernatants were analyzed
using a Discovery (Supelco) C18 column (4.6 × 250 mm). The eluent
was methanol:acetic acid:H2O, 24:1:75 with 6 mM
octanesulfonic acid at a flow rate of 0.6 ml/min. Detection was set at
280 nm. The concentration of L-aromatic amino acids and
aromatic amines in the analyzed samples was determined from a standard
curve generated from known concentrations of the compounds with respect
to the internal standard. The amounts of ammonia and aromatic aldehyde (produced during the reaction of the Y332F mutant with
L-aromatic amino acids or aromatic amines) were determined
using the coupled assays with glutamate dehydrogenase and alcohol
dehydrogenase, respectively, as described (2). The amount of aldehyde
or ammonia was measured by the decrease in absorbance at 340 nm due to
the conversion of NADH to NAD+. The rate of production of
14CO2 during the reaction of mutant with
[1-14C]Dopa was determined as described (4).
Radioactivity was determined with a Beckman Instruments LS 1801 liquid
scintillation counter. H2O2 production and
O2 consumption were measured according to Refs 1 and
3, respectively. The detection and quantification of PLP and PMP
content were performed using the HPLC procedure described previously
(1, 4). The apparent pseudo first-order rate constants,
kobs, of the reaction of the Y332F mutant at
varying concentrations of D-5-HTP were obtained by
measuring the decrease of the 425-nm absorbance band as described (1).
The dependence of kobs on D-5HTP
concentrations exhibits a saturation behavior, and a hyperbolic fit
gives the value of apparent dissociation constant,
KD, and the maximum value of rate constant, kmax. Enzymic assays were performed under anaerobic
conditions with 1 ml of Reacti-Vials (Aldrich) as described previously
(3, 4).
Spectral Measurements--
Absorption spectra were recorded in a
Jasco V-550 spectrophotometer. CD measurements were carried out
in a Jasco J-710 spectropolarimeter at a scan speed of 50 nm/min with a
bandwidth of 2 nm.
Reaction of Y332F Mutant with L-Aromatic Amino Acids
under Aerobic and Anaerobic Conditions--
Like the wild type, the
mutant binds 2 mol of PLP per dimer. Absorption and CD spectra of the
Y332F mutant in the UV-visible and far UV region are essentially
identical to those of the wild-type enzyme (data not shown). When the
Y332F mutant was incubated at 25 °C under aerobic conditions with
L-Dopa, no dopamine formation was detected either by the
spectrophotometric or the HPLC assays. However, L-Dopa
level decreases, and its decrease parallels the production of
3,4-dihydroxyphenylacetaldehyde and ammonia accompanied by
O2 consumption in a 1:2 molar ratio with respect to the
products (Fig. 2). When the reaction was
performed under the same experimental conditions in the presence of
[1-14C]Dopa, 14CO2 release was
observed. The initial velocities of these catalytic events are reported
in Table I. Likewise, although no 5-HT
production could be detected during the reaction of Y332F with
L-5-HTP, conversion of L-5HTP into
5-hydroxyindolacetaldehyde and ammonia as well as consumption of
O2 in a 1:2 molar ratio with respect to the products take
place with the initial velocity values reported in Table I. During the
reaction of Y332F, either with L-Dopa or with
L-5-HTP, no detectable H2O2 was
found. Initial velocities of oxidase activity, measured as
L-aromatic amino acid consumption at varying concentrations
of L-Dopa or L-5-HTP, have been determined. The
kcat and Km values are
reported in Table II. As for the wild
type, upon addition of L-Dopa to Y332F, an increased absorption centered at 425 nm immediately appears. This absorbance band, attributed to the external aldimine, decreases with time, and
after the time required for consumption of substrate, the original
425-nm absorbance of the holoenzyme reappears (Fig.
3). Qualitatively identical spectral
changes are observed upon addition of L-5-HTP to the
mutant. When the reaction of Y332F with L-Dopa or
L-5-HTP was performed under anaerobic conditions, the
concentration of the substrates remained almost unchanged with time,
and neither dopamine nor 5-HT were produced. Instead, a conversion of
PLP into PMP takes place very quickly: at 30 s, 89% (for
L-Dopa) and 55% (for L-5-HTP) of the original
coenzyme content are transformed into PMP.
ND, not detected. kcat and Km
were obtained from nonlinear regression fit to the Michaelis-Menten
equation using SigmaPlot2000 (SPSS). The errors reported are the
standard error values derived by the curve fitting program.
Reaction of Mutant with Aromatic Amines and D-Aromatic
Amino Acids--
Despite its total impairment of aromatic amines
generation, the Y332F mutant retains substantial catalytic competence
for the oxidative deamination of aromatic amines. In fact, reaction of
the Y332F mutant with 5-HT or dopamine produces the corresponding aromatic aldehyde (5-hydroxyindolacetaldehyde or 3, 4-dihydroxyphenylacetaldehyde) and ammonia in equivalent amounts and
consumes O2. On the other hand, aromatic amines undergo
half-transamination under anaerobic conditions with rate constants
similar to those of wild type (< 0.1 min Flexible loops that occlude active sites during catalysis are
recognized as structural elements common to many enzymes. Loop closure
induced by substrate binding has great importance in catalysis and
specificity by recruiting functional groups into the active site
(15-17), stabilizing reactive intermediates (18-20), and preventing the formation of stable abortive complexes (21). Kinetic and structural
data have indicated that an 11-residue loop in DDC is conformationally
dynamic, suggesting that this loop closes over the active site after
substrate binding. This study was prompted to gain insights into the
function of the mobile residue of this loop, Tyr-332.
Replacement of Tyr-332 with phenylalanine results in a protein that is
still capable of selectively cleaving the correct bond between C Under anaerobic conditions, the C4'of the quinonoid intermediate cannot
be oxygenated, but it could be protonated, giving rise to a ketimine
substrate intermediate that would yield by hydrolysis the PMP enzyme
and the carbonyl compound (Scheme 1 (c)). This is consistent
with our data in the absence of O2. It should be noted that
whereas in anaerobiosis for the Y332F mutant, the abortive
transamination represents the 100% of the catalytic events, for
wild-type DDC, it takes place at a ratio of about once per 5 × 103 and 6.5 × 103 times of
decarboxylation for L-Dopa and L-5-HTP,
respectively (4). All together, these results indicate that since the
quinonoid intermediate in Y332F cannot undergo protonation at C Since Tyr-332 likely plays a role as proton donor to C The substitution of phenylalanine for tyrosine 332 has changed the
catalytic properties of DDC toward L-aromatic amino acids: the original overall decarboxylation is completely abolished, and a new
catalytic activity not inherent in the wild type is generated. Few
site-directed mutagenesis experiments altering the reaction specificity
of PLP enzymes have been reported, even if a complete suppression of
the original activity has never been achieved (22-25). It is of
interest that replacement of Cys-360 by Ala or Ser in eukaryotic
ornithine decarboxylase greatly reduces the rate of decarboxylation and
increases the rate of the abortive transamination. On this basis, a
role for Cys-360 in facilitating decarboxylation has been proposed
(24). Likewise, mutation of residues in the coenzyme binding pocket of
DDC alters the nature of catalysis by enhancing
decarboxylation-dependent transamination activity and
reducing original decarboxylation activity (25). To the best of our
knowledge, such a clear change in reaction specificity of Y332F DDC
with a remarkably high new activity (kcat values
of 4.6 s
* This work was supported by funding from the Italian Ministero dell'Istruzione, dell'Università e Ricerca and from Consiglio Nazionale delle Ricerche (CNR) (to C. B. V.).The costs of publication of this article were defrayed in part by the payment of page charges. The article must therefore be hereby marked "advertisement" in accordance with 18 U.S.C. Section 1734 solely to indicate this fact.
§ To whom correspondence should be addressed: Tel.: 39-045-8027-175; Fax: 39-045-8027-170; E-mail: carla.borrivoltattorni@univr.it.
Published, JBC Papers in Press, July 12, 2002, DOI 10.1074/jbc.M204867200
The abbreviations used are: Dopa, 3,4-dihydroxyphenylalanine; DDC, Dopa decarboxylase; PLP, pyridoxal 5'-phosphate; PMP, pyridoxamine 5'-phosphate; 5-HTP, 5-hydroxytryptophan; 5-HT, 5-hydroxytryptamine (serotonin); HPLC, high pressure liquid chromatography.
Copyright © 2002 by The American Society for Biochemistry and Molecular Biology, Inc. This article has been cited by other articles:
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