Brain succinic semialdehyde dehydrogenaseReactions of sulfhydryl residues connected with catalytic activity Byung Ryong Lee1, Dae Won Kim1, Joung-Woo Hong2, Won Sik Eum1, Hee Soon Choi1,
Trang 1Brain succinic semialdehyde dehydrogenase
Reactions of sulfhydryl residues connected with catalytic activity
Byung Ryong Lee1, Dae Won Kim1, Joung-Woo Hong2, Won Sik Eum1, Hee Soon Choi1, Soo Hyun Choi1,
So Young Kim1, Jae Jin An1, Jee-Yin Ahn1,*, Oh-Shin Kwon3, Tae-Cheon Kang4, Moo Ho Won4,
Sung-Woo Cho5, Kil Soo Lee1, Jinseu Park1and Soo Young Choi1
1
Department of Genetic Engineering and Research Institute for Bioscience and Biotechnology, Hallym University, Chunchon, Korea;
2
Department of Molecular and Cellular Biochemistry, The Ohio State University, Columbus, OH, USA;3Department of Biochemistry, Kyungpook National University, Taegu, Korea;4Department of Anatomy, College of Medicine, Hallym University, Chunchon, Korea;5Department of Biochemistry and Molecular Biology, University of Ulsan College of Medicine, Seoul, Korea
Incubation of an NAD+-dependent succinic semialdehyde
dehydrogenase from bovine brain with
4-dimethylamino-azobenzene-4-iodoacetamide (DABIA) resulted in a
time-dependent loss of enzymatic activity This inactivation
followed pseudo first-order kinetics with a second-order rate
constant of 168M )1Æmin)1 The spectrum of DABIA-labeled
enzyme showed a characteristic peak of the DABIA
alkyl-ated sulfhydryl group chromophore at 436 nm, which was
absent from the spectrum of the native enzyme A linear
relationship was observed between DABIA binding and the
loss of enzyme activity, which extrapolates to a
stoichio-metry of 8.0 mol DABIA derivatives per mol enzyme
tetramer This inactivation was prevented by preincubating
the enzyme with substrate, succinic semialdehyde, but not by
preincubating with coenzyme NAD+ After tryptic diges-tion of the enzyme modified with DABIA, two peptides absorbing at 436 nm were isolated by reverse-phase HPLC The amino acid sequences of the DABIA-labeled pep-tides were VCSNQFLVQR and EVGEAICTDPLVSK, respectively These sites are identical to the putative active site sequences of other brain succinic semialdehyde dehy-drogenases These results suggest that the catalytic function
of succinic semialdehyde dehydrogenase is inhibited by the specific binding of DABIA to a cysteine residue at or near its active site
Keywords: brain succinic semialdehyde dehydrogenase; DABIA; GABA shunt; reactive cysteine residues
c-Aminobutyric acid (GABA) is produced from glutamate
in a reaction catalyzed by glutamate decarboxylase (GAD)
and further metabolized to succinate by the successive
action of GABA transaminase (GABA-T) and succinic
semialdehyde dehydrogenase (SSADH) The carbon
skel-etal of GABA therefore enters the tricarboxylic acid in
the form of succinate GABA metabolism has been well
characterized in the mammalian central nervous system
where GABA functions as a major inhibitory
neurotrans-mitter
SSADH, the final enzyme in GABA metabolism, has been purified from rat, human and bovine brain [1–3] This enzyme is also the site of an inborn error of human metabolism [4] In autosomal recessively inherited SSADH deficiency, now identified in more than 45 patients who manifest varying degrees of psychomotor retardation with speech delay, the normal oxidative pathway is blocked, thereby resulting in the accumulation of succinic semialde-hyde (SSA) Metabolic patterns in physiologic fluids derived from patients show large increases in gamma-hydroxybu-tyrate (GHB) [5], the reduction product of SSA by succinic semialdehyde reductase [6] GHB, the biochemical hallmark
of SSADH deficiency, produces central nervous system effects including altered motor activity and behavior disturbances when administered to animals and humans
at pharmacologic levels [7]
Recently, an SSADH cDNA was cloned from rat brain and human liver [8] The mammalian SSADH bears signi-ficant homology to bacterial NADP+-SSADH and con-served regions of aldehyde dehydrogenases, suggesting that it
is a member of the aldehyde dehydrogenase superfamily SSADH cDNA and genomic sequences have been used to identify two point mutations in the SSADH genes derived from four patients [9] Splicing mutations resulted in exon skipping in all four cases In addition, a frameshift and pre-mature termination was observed in one case and an in-frame deletion in the resulting protein was detected in the other case Parents and siblings were shown to be
Correspondence to S Y Choi, Department of Genetic Engineering,
Hallym, University, Chunchon 200-702, Korea.
Fax: +82 33 241 1463, Tel.: +82 33 248 2112,
E-mail: sychoi@hallym.ac.kr or O.-S Kwon, Department of
Biochemistry, Kyungpook National University, Taegu 702-701,
Korea Tel.: +82 53 950 6356, E-mail: oskwon@knu.ac.kr
Abbreviations: DABIA,
4-dimethylaminoazobenzene-4-iodoaceta-mide; Dys, DABIA-Cys; GAD, glutamate decarboxylase; GABA,
c-aminobutyric acid; GABA-T, c-aminobutyric acid transaminase;
GBH, gamma-hydroxybutyrate; SSA, succinic semialdehyde;
SSADH, succinic semialdehyde dehydrogenase.
*Present address: Department of Pathology, School of Medicine,
Emory University, Atlanta, GA, USA.
(Received 30 August 2004, revised 12 October 2004,
accepted 25 October 2004)
Trang 2heterozygous for the splicing abnormality [10] In addition,
the intensive analysis on novel mutations in human SSADH
locus suggested that the missense mutations caused by point
mutations, small insertions and small deletions in the genomic
level would be causative of SSADH deficiency [11,12]
Despite the importance of SSADH in the metabolism of
GABA, the structural studies of the enzyme have not yet
been well investigated We have purified and characterized
an NAD+-dependent SSADH from bovine brain [2], and
found that the arginine residues are connected with catalytic
activity of the enzyme [13] Recently, we reported that a
specific lysyl residue is located at or near the coenzyme
binding site of the enzyme [14] In the present study, we
identified a regulatory site of the brain SSADH by a
combination of labeling with
4-dimethylaminoazobenzene-4-iodoacetamide (DABIA) and peptide analysis
Materials and methods
Materials
NAD+, succinic semialdehyde, DABIA, EDTA, bovine
serum albumin, trypsin (treated with
tosylphenylalanylchlo-romethane), and 2-mercaptoethanol were purchased from
Sigma (St Louis, MO, USA) CM-Sepharose,
Blue-Seph-arose, and 5¢-AMP-Sepharose were obtained from
Amer-sham Bioscience (Piscataway, NJ, USA) Bovine brains
were obtained from Majang-dong Packing Company
(Seoul, Korea)
Purification of enzyme and enzymatic assays
SSADH from bovine brain was purified according to a
procedure previously described [2] The procedure exploited
four column chromatographic steps: CM-Sepharose,
Blue-Sepharose, hydroxyapatite and 5¢-AMP-Sepharose For
precise measurement of enzymatic activity, the formation of
NADH was measured by the increase in absorbance at
340 nm All enzymatic assays were performed in duplicate
and the initial velocity data was correlated with a standard
assay mixture containing 30 lMsuccinic semialdehyde and
1 mMNAD+in 0.1Msodium pyrophosphate (pH 8.4) at
25C One unit of enzyme was defined as the amount of
enzyme required to reduce 1 lmol of NAD+per min at
25C Protein concentration was estimated by the Bradford
procedure with a bovine serum albumin standard [15]
Spectroscopic studies
The purified enzyme (5 lM) was incubated with 300 lM
DABIA at 25C, in the dark, for 30 min At the end of
incubation, the sample was dialyzed against 0.1M
potas-sium phosphate (pH 7.0) and the absorption spectra were
recorded with a Kontron UVIKON 930 double beam
spectrophotometer (Tegimenta, Rotkreuz, Switzerland) in
the range 325–500 nm
Modification of succinic semialdehyde dehydrogenase
with DABIA
The purified enzyme was dialyzed against 0.1Mpotassium
phosphate (pH 7.0), 1 m EDTA, and then used
immedi-ately A total of 200 mMof DABIA was freshly prepared in dimethylformamide and kept on ice The final concentration
of dimethylformamide in the incubation mixture was no more than 1% (v/v) and was found to have no effect on enzymatic activity The incubation mixture (1 mL) con-tained SSADH (5 lM), DABIA (100–400 lM) and 0.1M potassium phosphate (pH 7.0) The reaction was initiated
by addition of DABIA in the dark at 25C At intervals after the initiation of inactivation, aliquots were withdrawn for the activity assay Whenever possible a small sample volume (2 lL) was used to minimize artifactual blank due
to the transfer of DABIA
Protection experiments were performed in a similar manner except that the enzyme (5 lM) was preincubated with a substrate SSA (3 mM) or coenzyme NAD+(3 mM)
at 25C for 30 min before the modification was initiated by the addition of DABIA The amount of DABIA bound to the enzyme was determined by measuring the increase in absorbance at 436 nm using a molar extinction coefficient
of 29 000M )1Æcm)1[16]
Labeling and tryptic digestion of succinic semialdehyde dehydrogenase
To identify the DABIA binding site, 2.9 mg of enzymes (50 lM) were treated with DABIA as described previously [14,16] Labeling of protein was conducted for 30 min in the dark at 25C The excess reagent was removed by Sephadex G-25 superfine gel filtration The solution was dried, dissolved by first adding 20 lL of 50% (v/v) formic acid and then 600 lL water, transferred to a smaller tube suitable for enzymatic digestion and dried again
DABIA-labeled protein (20 nmol) was suspended in 0.5 mL of 0.1Mammonium bicarbonate buffer (pH 8), and digested with trypsin, previously treated with tosylphenyl-alanylchloromethane, for 20 h at 37C The substrate/ enzyme molar ratio was 50 : 1
Purification of DABIA-labeled cysteine-containing peptides
To a 0.5 mL tryptic digest, 40 lL acetic acid was added and the precipitate was removed by centrifugation (10 000 g, 20 min, 4C) Peptides in the sample solution were lyophilized and separated by reverse-phase chromatography (LKB Instruments, Uppsala, Sweden) using a Vydac C18column (0.46· 25 cm) The separation was performed with a linear gradient from 0 to 70% B in 40 min at a flow rate of 0.8 mLÆmin)1 Eluant A: 10 mM potassium phosphate (pH 7) containing 2% dimethylformamide; eluant B: acetonitrile containing 4% dimethylformamide
Further purification was achieved by rechromatograph-ing the peptides on a Vydac C18 column with a linear gradient of 0–60% B in 60 min Eluant A: 0.1% trifluoro-acetic acid (pH 2.15); eluant B: 0.1% trifluorotrifluoro-acetic acid in acetonitrile/H2O (80 : 20, v/v) Cysteine derivatized with DABIA and the corresponding phenylthiohydantoin deriv-ative were prepared and characterized according to the procedure described by Chang et al [17] The latter was used as standard in the quantitative evaluation of other phenylthiohydantions obtained after automated Edman degradation The absorption properties of the
Trang 3DABIA derivative of cysteine (molar extinction coefficient
e¼ 29 000M )1Æcm)1at 436 nm) was used to determine the
cysteine content of the derivatized peptides
Amino acid analysis and peptide sequencing
Peptides (6 nmol) were hydrolyzed for 24 h in 6M HCl,
containing 0.1% thioglycolic acid at 110C in vacuum
Amino acids derivatized with phenylisothiocyanate were
identified and quantified by HPLC (Waters, Milford, MA,
USA) Pico-Tag system, using a Nova-Pak C18column run
at room temperature with a flow rate of 1 mLÆmin)1
For the amino acid sequence analysis, the labeled peptide
was subjected to automated Edman degradation on a
Beckman Model 890M sequenator according to the
manu-facturer’s instructions
Results
Inactivation of succinic semialdehyde dehydrogenase
by DABIA
The relevance of sulfhydryl groups in the catalytic activity
of SSADH, was examined by reacting the enzyme with
DABIA DABIA, a chromophoric reagent, was chosen for
our study for the following reasons: (a) it reacts with the SH
groups of SSADH under native conditions; (b) the labeled
peptides and amino acid residues are easily monitored at
436 nm because of the large extinction coefficient of the
chromophore; (c) in a case to purify the peptides alkylated
by DABIA, the derivatized peptides are more hydrophobic
than unlabeled peptides, allowing their separation by reverse
phase HPLC
Incubation of SSADH with increasing concentrations of
DABIA resulted in a progressive decrease in its enzymatic
activity (Fig 1) This inactivation followed pseudo
first-order kinetics with concentrations of DABIA in the range
100–400 lM The pseudo first-order rate constants, obtained
at each DABIA concentration, were plotted as a function of
DABIA concentration (Fig 1, inset) The second-order rate
constant for the inactivation of DABIA was 168M )1Æmin)1,
as determined from the slope of this plot
In an effort to demonstrate that DABIA is bound to
sulfhydryl groups of SSADH, 5 lM of SSADH was
incubated with or without 400 lMof DABIA at pH 7.0 in
the dark for 30 min and absorption was monitored from 325
to 500 nm The spectrum of DABIA-labeled enzyme showed
a characteristic peak at 436 nm (Fig 2, curve 2), which was
absent from the spectrum of the native enzyme (Fig 2, curve
1) The absorption at 436 nm corresponds to a DABIA
alkylated sulfhydryl group chromophore The value for the
incorporation of DABIA labeled on SSADH was measured
using an extinction coefficient of 29 000M )1Æcm)1 at
436 nm DABIA gave overall incorporation values of about
7.5 mol per enzyme tetramer, indicating that 8 mols of
sulfhydryl groups of SSADH were masked The correlation
between DABIA incorporation and SSADH enzyme
activ-ity is shown in Fig 3 During the inactivation process, a
linear relationship was observed between DABIA and the
loss of enzyme activity, which extrapolates to a
stoichio-metry of 8.0 mol DABIA derivatives per mol enzyme
tetramer, based on increased absorbance at 436 nm
The inactivation studies were carried out in the presence
of substrate or coenzyme to define the site(s) modified by DABIA The reaction between SSADH and DABIA was effectively prevented by incubating SSADH with the substrate, SSA, but not with coenzyme, NAD+(Table 1)
Fig 1 Determination of the rate constant (K obs ) for the inactivation of SSADH at different concentrations of DABIA The enzyme (5 l M ) was incubated with 100 l M (d), 200 l M (s), 300 l M (j) and 400 l M (h)
of DABIA in 0.1 M potassium phosphate (pH 7.0) at 25 C in the dark Aliquots withdrawn from the incubation mixtures were tested for enzymatic activity The inset shows the dependence of the observed rate constant (K obs ) on DABIA concentration.
Fig 2 Absorption spectra of native (curve 1) and DABIA-treated (curve 2) SSADH At the end of incubation, the absorption spectra were determined as described in Materials and methods.
Trang 4These results suggest that the loss of SSADH enzymatic
activity may be the result of the binding of DABIA to
specific sulfhydryl groups located at or near the substrate
binding site of SSADH
Isolation of modified peptides
To identify the peptides modified by DABIA, SSADH was
treated with DABIA and digested with trypsin as described
above After overnight trypsin digestion, the digested
sample was loaded on to a reverse-phase column (Vydac
C18) Two peptides, designated I and II, were detected by
monitoring the absorption spectrum at 436 nm (data not
shown), indicating that the modification induced by
DABIA was restricted to at least two amino acids in the
SSADH subunits
Each peptide tagged with DABIA was further purified by
a second chromatography through a Hypersil ODS column
using a different solvent system as described previously
[14,16] After the second chromatography, two single pure
peptides derivatized with DABIA were isolated from the originally labeled peptides, respectively, as shown in Fig 4 Amino acid analysis and protein sequencing
The amino acid analysis and sequence of peptides I and II were examined and the observed sequences were found to be
in reasonable agreement with the amino acid compositions determined after the acid hydrolysis of each DABIA-labeled peptide (data not shown)
The stoichiometric study (Fig 3) and the analysis of amino acid sequence (Table 2) showed that one cysteine residue in each peptide (peptides I and II) was labeled with DABIA The amino acid sequence analyses of peptides I and II revealed that the peak fractions contained the
Fig 3 Stoichiometry of DABIA inactivation SSADH (5 l M ) was
incubated with 400 l M of DABIA in 0.1 M potassium phosphate
(pH 7.0) at 25 C in the dark The inactivation of SSADH is plotted as
a function of mol DABIA incorporated per mol enzyme.
Table 1 Inactivation of succinic semialdehyde dehydrogenase by
DABIA Enzyme (5 l M ), DABIA (300 l M ), NAD+(3 m M ) and succinic
semialdehyde (3 m M ) were used The data represent the mean of three
independent experiments with the difference expressed as ± deviation.
Reaction mixture
Remaining activity (%)
Enzyme + NAD + + DABIA 23 ± 3
Enzyme + succinic semialdehyde + DABIA 91 ± 4
Fig 4 Second chromatography of the tryptic peptides labeled with DABIA Peptides I and II were purified by HPLC using a Vydac
C 18 column and a linear gradient of acetonitrile (0–60%) containing
5 m M sodium phosphate (pH 6.4) for 120 min at a flow rate of 0.5 mLÆmin)1 Elution was monitored at 436 nm and the DABIA-labeled peptides (I and II) were sequenced by Edman degradation.
Table 2 Sequences of the cysteine-containing tryptic peptides from succinic semialdehyde dehydrogenase DABIA-Cys (Dys) was deter-mined as the DABIA phenylthiohydantoin (residues indicated in bold).
Peptide Sequence
I Val-Dys-Ser-Asn-Gln-Phe-Leu-Val-Gln-Arg
II
Glu-Val-Gly-Glu-Ala-Ile-Dys-Thr-Asp-Pro-Leu-Val-Ser-Lys
Trang 5amino acid sequences
Val-Xaa-Ser-Asn-Gln-Phe-Leu-Val-Gln-Arg and
Glu-Val-Gly-Glu-Ala-Ileu-Xaa-Thr-Asp-Pro-Leu-Val-Ser-Lys, respectively, where Xaa represents an
assayable phenylthiohydantoin amino acid This residue can
be designated DABIA-Cys (Dys), based on amino acid
analysis Of interest, the amino acid sequences of peptides I
and II were found to be identical to regions of human
SSADH, i.e amino acids 341–350 and 266–279,
respect-ively
Discussion
Little is known about the chemistry of the active site of
SSADH, partly because the crystal structure of this enzyme
is not available Therefore, it is essential that a detailed
structural description of SSADH is elucidated Previously,
we purified the homotetramer SSADH from bovine brain
homogenate [2] Recently, an investigation on the catalytic
role of specific amino acid residues in the enzyme indicated
the involvement of a lysyl residue in its enzymatic activity
[14]; this conclusion was reached based on evidence
obtained by chemically modifying SSADH with
pyrid-oxal-5¢-phosphate, a specific lysine residue modifying
rea-gent In the present study, we identified at least one
substrate binding domain in brain SSADH by combining
DABIA labeling and peptide analysis
DABIA has been widely used in structural and functional
studies to selectively label reactive cysteine residues in
particular, which are often directly involved in the catalytic
mechanisms of active sites [16–18] Haloacetamide
deriva-tives such as DABIA react with cysteine via a SN2 reaction
mechanism to give the corresponding carboxamidomethyl
derivatives The reaction of haloacetamide derivatives with
cysteine is 20–100 times as rapid as with other
cysteine-modifying reagents In addition, the two benzene rings
provide DABIA with a large extinction coefficient, which
allows DABIA-labeled cysteine to be measured efficiently
and rapidly [19]
The incubation of SSADH with increasing
concentra-tions of DABIA resulted in a progressive reduction in
enzyme activity (Fig 1) The evidence for the specific
modification of cysteine residues by DABIA was provided
by monitoring the absorption of DABIA-alkylated
cyste-ines at 436 nm (Fig 2) The nature of the inhibitory effect
exerted by DABIA was studied in detail The possibility that
DABIA inhibition is the result of the reaction of cysteine
residues critically connected with catalysis was investigated
by performing inhibition studies in the presence and absence
of the substrate SSA or in the presence or absence of
coenzyme NAD+ At pH 7.0, the inhibitory effect of
DABIA was influenced by SSA at 3.0 mM(Table 1) The
near complete protection afforded by SSA, strongly
suggests that the inactivation occurred because of an
interaction between DABIA and cysteine residues located
at or near the substrate binding site of SSADH In marked
contrast to SSA, the coenzyme NAD+, did not afford any
protection against DABIA inactivation
Although differences in the absorption spectra of native
and DABIA-labeled SSADH were observed by absorption
spectroscopy (Fig 2), we have evidence that the
conform-ational changes of SSADH did not occur when it reacts with
DABIA We investigated these conformational changes
indirectly by fluorometric anisotropy, but no differences in the anisotropies (A) of native (A¼ 0.174) and modified enzyme (A¼ 0.179) were observed This observation demonstrates that the inactivation of SSADH occurs due
to the interaction between DABIA and cysteine residues on SSADH, and that it is not due to conformational changes of SSADH
During the inactivation process, a linear relationship was observed between DABIA and the loss of enzyme activity, which extrapolates to a stoichiometry of 8.0 mol DABIA derivatives per mol enzyme tetramer, based on increased absorbance at 436 nm (Fig 3) There has been major controversy concerning SSADH protein structure In the early 1970s, Cash et al reported that SSADH was a dimeric protein of mass identical subunits [20], however, in the 1980s, Ryzlak & Pietruszko reported that SSADH was a tetrameric protein of mass nonidentical subunits [3], a finding never repeated in the aldehyde dehydrogenase literature Our results support the cloning data of Chambliss
et al [8], that SSADH is a protein of homotetrameric structure with mass identical subunits Our previous puri-fication of SSADH from bovine brain showed that the SSADH is a tetramer composed of mass identical subunits, although there is minor variation in the molecular mass of a single subunit [2] This result is in keeping with the notion that mammalian SSADH is a homotetramer, and also supports our conclusion that two cysteine residues per single subunit are labeled by DABIA
To identify the site of inactivation, tryptic peptides containing DABIA-labeled cysteine were prepared The results of sequence analysis (Table 2) showed that the modified residues correspond to the cysteine residues already identified in SSADH from human liver and rat brain [8] Even though the amino acid composition and sequence of bovine brain SSADH have not been identified, the labeled cysteine residues in peptides I and II correspon-ded to Cys342 and Cys272, respectively, of mammalian brain SSADH Cys342 is conserved in all members of the aldehyde dehydrogenase superfamily from bacteria to human, and is presumed to be located at an active site based on the sequence homology with bovine aldehyde dehydrogenase, the three-dimensional structure of which has been solved [21] This finding is consistent with our observation that the substrate, SSA, nearly completely blocked the DABIA-mediated inhibition of SSADH, but coenzyme NAD+ did not On the other hand, Cys272, found in peptide II, appears to be located near the coenzyme binding site Sequence similarity between Cys272 and the aldehyde dehydrogenase superfamily shows that Cys272 is located 12 amino acids away from Gly284, which is widely accepted to be a coenzyme binding site In addition, coenzyme binding sites in bovine aldehyde dehydrogenase have been shown to lie in an a-helical structure near the surface of the enzyme [21] If the three-dimensional structure
of SSADH is not much different from the structure of aldehyde dehydrogenase, the DABIA molecule bound to Cys272 seems to be located too far away from the coenzyme binding site to interfere the NAD+–protein interaction
In summary, the study presented here establishes that brain SSADH is inhibited by the binding of DABIA to specific cysteine residues at or near the active site of the protein Knowledge of the interaction between DABIA and
Trang 6SSADH may provide insights into approaches for the
design of a new class of regulators, which do not resemble
SSADH substrates
Acknowledgements
This work was supported by the 21st Century Brain Frontier Research
Grant (M103KV010019-03K2201-01910), and National Research
Laboratory (NRL) Grant (M1-9911-00-0025) from the Ministry of
Science and Technology, and in part by the Research Grant from
Hallym University.
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