|
Volume 271, Number 24,
Issue of June 14, 1996
pp. 14296-14301
©1996 by The American Society for Biochemistry and Molecular Biology, Inc.
The -Galactosidase (Escherichia coli) Reaction Is
Partly Facilitated by Interactions of His-540 with the C6 Hydroxyl of
Galactose*
(Received for publication, February 7, 1996)
Nathan J.
Roth
and
Reuben E.
Huber
From the Division of Biochemistry, Faculty of Science, University
of Calgary, Calgary, Alberta T2N 1N4, Canada
ABSTRACT
INTRODUCTION
MATERIALS AND METHODS
RESULTS
DISCUSSION
FOOTNOTES
REFERENCES
ABSTRACT
-Galactosidases with substitutions for His-540
were only poorly reactive with galactosyl substrates. However, the
activity with substrates that were like galactose but did not have a C6
hydroxyl group was not decreased much as a result of such
substitutions. The loss of transition state stabilization for
galactosyl substrates as a result of substitution was between 15.4
and 22.8 kJ/mol but only between +0.34 and 6.5 for substrates that
were identical to galactose but lacked the C6 hydroxyl. These findings
indicate that an important function of His-540 is to aid in the
stabilization of the transition state by forming a stable interaction
with the C6 hydroxyl group. This suggestion was strengthened by the
results of competitive inhibition studies showing that
L-arabinolactone (a transition state analog inhibitor of
-galactosidase without a C6 hydroxymethyl group) was bound as well
by the substituted enzymes as by wild type, whereas transition state
analog inhibitors that contain C6 hydroxyls (L-ribose and
D-galactonolactone) were bound much more poorly by the
substituted enzymes than by the wild type enzyme. Substrate analog
inhibitor studies showed that His-540 was also important for binding
interactions with the C6 hydroxyl group of the ground (substrate)
state. The activation by Mg2+ was the same for the
substituted enzymes as for the wild type, and equilibrium dialysis
showed that H540F- -galactosidase bound Mg2+ as well as
did normal -galactosidase. The k2 and
Ks values seem to have the same pH interactions as
wild type enzyme, whereas the k3 interactions
are affected differently by pH in the substituted enzymes than in the
wild type enzyme. The rate of the ``degalactosylation'' reaction was
affected more by substitutions for His-540 than was the rate of the
``galactosylation'' reaction. All three substituted
-galactosidases were less stable to heat than was wild type, but
H540N- -galactosidase was somewhat more stable than the other two
substituted enzymes. There were some differences in activity and
inhibitory properties that resulted from the different
substitutions.
INTRODUCTION
-Galactosidase ( -D-galactoside galactohydrolase,
EC) from Escherichia coli catalyzes hydrolytic and
transgalactosylic reactions with -D-galactosides (Huber
et al., 1976 ). The amino acid (Fowler and Zabin, 1978 ) and
nucleotide (Kalnins et al., 1983 ) sequences have been
determined. The enzyme is a tetramer, and each identical monomer
(116,353 Da-1023 amino acid residues) functions independently (Cohn,
1957 ). Mg2+ or Mn2+ and Na+ or
K+ are required for full catalytic efficiency (Tenu
et al., 1972 ; Case et al., 1973 ; Huber et
al., 1979 ). The three-dimensional structure of -galactosidase
(Jacobson et al., 1994 ) shows that the active site is in a
deep pocket within a distorted ``TIM'' barrel. His-540 is located in
the wall of the active site cavity, and one of its nitrogens is at the
edge of the active site cavity and appears not to be H-bonded to any
other group in the free enzyme. A His equivalent to His-540 is
conserved (Fig. 1) in every related -galactosidase
that has been sequenced to date (Kalnins et al., 1983 ;
Burchhardt and Bahl, 1991 ; Buvinger and Riley, 1985 ; David et
al., 1992 ; Fanning et al., 1994 ; Hancock et
al., 1991 ; Poch et al., 1992 ; Schmidt et
al., 1989 ; Schroeder et al., 1991 ; Stokes et
al., 1985 ). In addition, His-540 is only three residues removed
from Glu-537, a residue that probably acts as a nucleophile in the
catalysis scheme (Gebler et al., 1992 ). Recent unpublished
results1 indicate that His-540 is within H
bonding distance of the C6 hydroxyl groups of substrate and transition
state analog inhibitors.
Fig. 1.
The amino acid sequences of several organisms
showing the homology in the area of residues equivalent to His-540 of
E. coli -galactosidase. The numbers
refer to the sequence of E. coli -galactosidase. The
-galactosidases from Thermoanaerobacterium
thermosulfurogenes and Rhizobium meliloti have 2 amino
acids at the position equivalent to 539.
The active site of -galactosidase has two subsites. The aglycone
subsite lacks specificity, whereas the galactose subsite is very
specific (Deschavanne et al., 1978 ; Huber et al.,
1984 ). Losses in binding at the galactose subsite are very dramatic,
and catalysis is completely eliminated if there are changes at
positions C3 and/or C4. Changes at C6 also have large effects on
binding, but sugars that have hydroxyl groups in the same orientation
as D-galactose except for changes at the C6 group are still
quite good substrates (Marshall et al., 1977 ). McCarter
et al. (1992) found that the hydroxyl groups of galactose at
C3, C4, and C6 each contributed at least 16.7 kJ/mol to binding and
catalysis.
Compounds that resemble D-galactose but have a planar shape
(e.g. -D-galactonolactone) or do not have the
carbon equivalent to the C1 group that D-galactose has
(e.g. L-ribose-furanose form) are good
inhibitors of -galactosidase (Lalegerie et al., 1982 ;
Huber and Brockbank, 1987 ). Their geometries probably resemble the
putative planar oxo-carbonium ion transition state. The active sites of
enzymes are usually structured to be more complementary to the
transition state than to the substrate. Therefore, interactions between
an enzyme and its transition state are very important (Fersht, 1985 ).
In this paper we report the importance (for binding and catalysis) of
the interactions of His-540 of -galactosidase from E. coli with the C6 hydroxyl group of both the ground and the
transition states.
MATERIALS AND METHODS
Generation of -Galactosidases with Substitutions for
His-540
All the mutagenesis procedures utilized the pBS
SK+ variant (Stratagene). The primers used were 5 -dC GAA
TAC GCC (GA)A(AT) GCG ATG GGT A-3 (the altered codon is
shown in bold and the two bases within parentheses indicate the
degeneracy that was introduced). All cell cultures were propagated in
LB medium at 37 °C (LB growth medium consisted of 1% (w/v)
Tryptone, 1% (w/v) NaCl, and 0.5% (w/v) yeast extract (pH 7.5 at
25 °C)). All media were autoclaved (120 °C, 22 psi) for 20 min
before using. If required, 5-bromo-4-chloro-3-indolyl
-D-galactopyranoside (0.002%, w/v),
isopropyl-thio- -D-galactopyranoside (0.02%, w/v),
ampicillin (50 µg/ml), and/or tetracycline (40 µg/ml) were added to
the cooled autoclaved liquid agar before dispensing. The method used
for site-directed mutagenesis was a modified version of Kunkel's
dut- ung- method (Kunkel et al., 1987 ). A DNA
fragment of the lacZ gene containing the codon to be mutated
was excised from a plasmid containing the gene (pIP101) using
SstI and ClaI and ligated into the pBS
SK+ vector previously digested with the same endonucleases.
The resultant subclone, pBS SK+ SC1.1, was transformed into
competent E. coli RZ1032 (HfrKL16 PO/45,
Zbd-279::Tn10, (lysA(61-62)), thi1,
relA1, supE 44, dut1, ung1
(Kunkel et al., 1987 )). Single-stranded DNA was isolated
using a helper phage (VCS M13, Stratagene), and this was used as the
template DNA for mutagenesis. The phosphorylated primers were annealed
to the single-stranded DNA template. T4 DNA polymerase and T4 DNA
ligase were added to the annealed primer-template mixture to synthesize
and ligate the mismatched complementary DNA strand. The reaction mix
was then transformed into a dut+ ung+ strain of E. coli (TG2 ( (lac-pro AB), supE,
thi, hsd 5,
(srl-recA)306::Tn10(tet+)
F (tra D36, proAB+,
lacIq, lacZ M15) (Gibson, 1984 ))
or XL1-Blue (hsd 5, recA1, endA1,
gyrA46, thi, relA1,
F (proAB+, lacIq,
lacZ M15, Tn10(Tetr)) (Bullock et
al., 1987 )). E. coli TG2 or XL1-Blue preferentially
degrades the uracil template DNA strand containing the wild type codon
and thereby enhances selection for the mutant codons. Colonies were
screened for the desired mutations by sequencing. Confirmed mutants
were back cloned from the pBS SK+ SC1.1 construct into the
pIP101 expression vector using the restriction enzymes SstI
and ClaI. The integrity of the mutation in the final pIP101
mutant plasmid was reconfirmed by DNA sequencing, and the integrity of
the restriction sites were confirmed by restriction analysis. Unless
otherwise described, all general molecular biology methods used were
those of Sambrook et al. (1989) .
Enzyme Purification
The galactosidases (wild type and those
with substitutions for His-540) were isolated as described in Cupples
et al. (1990) except that the enzyme was passed through an
FPLC Superose 6 column as a last step. Purity was determined by
SDS-polyacrylamide gel electrophoresis (Fig. 2). All the
enzymes were greater than 98% pure as judged by densitometer
scans.
Fig. 2.
SDS-polyacrylamide gel electrophoresis gels
of the purified -galactosidases. Approximately 0.5 µg of each
enzyme was run on a 10-15% polyacrylamide gradient Phastgel
(Pharmacia) for 75 V-h at 4 °C. The proteins were visualized by
Coomassie Blue. Lane 1, wild type; lane 2,
H540E- -galactosidase; lane 3, H540F- -galactosidase;
lane 4, H540N- -galactosidase; lane 5, myosin
(200,000), phosphorylase b (92, 500), bovine serum albumin
(69,000), ovalbumin (46,000), carbonic anhydrase (30,000), trypsin
inhibitor (21, 500), and lysozyme (14, 300).
Enzyme Assays
The assay buffer (pH 7.0) consisted of
TES2 (30 mM) with 145 mM NaCl, and substrate (ONPG, PNPG, PNPA, or PNPF). The
Mg2+ concentration in the assays was usually 1 mM. When the Mg2+ was to be absent,
Mg2+ was left out and 20 mM EDTA was added. The
reactions were started by adding enzyme. For most assays the reactions
were followed at 420 nm as a function of time in a Shimadzu UV-2101 PC
Spectrophotometer (25 °C). Extinction coefficients used were 2.65 mM 1 cm 1 for oNP and 6.50 mM 1 cm 1 for
p-nitrophenol (at pH 7.0). A nonlinear regression computer
program (American Chemical Society; Enzyme Kinetics) was used to
determine the Km and kcat
values. During purification, 2 mM ONPG was used routinely
for the assays.
Kinetics
The probable mechanism of -galactosidase with
inhibitor/acceptor present is shown on Scheme 1.
Molecules that act as competitive inhibitors usually also act as
acceptors (and thus are designated as A (Deschavanne
et al., 1978 ; Huber et al., 1984 )).
Ki values can be obtained, but the acceptor action
must be considered when calculating the Ki values.
An equation
|
(Eq. 1)
|
to obtain Ki values was described by
Deschavanne et al. (1978) . It accounts for the acceptor
reaction. Experiments at different concentrations of inhibitor
(acceptor) were carried out and the Ki values were
averaged.
Scheme 1.
The postulated reactions of
-galactosidase in the presence of an inhibitor/acceptor. The
inhibitor/acceptor is thought to bind to both the free and the
``galactosylated'' enzyme. When bound to the galactosylated enzyme,
the inhibitor/acceptor can react (k4) to form
galactosyl adducts. The dots indicate that some sort of
complex exists with the enzyme. E, -galactosidase;
GA-OR, -galactosyl substrate; GA, galactose;
HOR, aglycone product; A, inhibitor (acceptor);
GA-A, galactosyl-inhibitor adduct. The step with
k2 as the rate constant is called
``galactosylation,'' and the step with k3 as
the rate constant is called ``degalactosylation.''
One can also obtain information about rate-determining steps using
inhibitors/acceptors. Alcohol and sugar acceptors can react
(k4) in place of water to form
galactosyl-acceptor adducts (GA-A). If k4 > k3 and if k3 is partially
or fully rate-limiting, the apparent kcat of the
reaction in the presence of the acceptor will increase as a function of
the acceptor concentration to a maximum
(k2k4/(k2 + k4)) that depends on the values of
k2 and k4 (Deschavanne
et al., 1978 ). If the rate increases more than 10-fold it
indicates that k2 is at least 10 × as large as
k3 and, therefore, that
kcat (without the acceptor) is essentially equal
to k3. If k4 > k3 and if k2 is
rate-limiting, there will be no change in rate. If
k4 is smaller than k3,
the rate of the reaction will slow down regardless whether
k2 or k3 is slower.
The energy needed to attain the transition state can be estimated
(Fersht, 1974 ). The kcat/Km
value (equal to k2/Ks with
-galactosidase) is a second order rate constant for the formation of
the enzyme-transition state complex (starting from free enzyme and
substrate) and thus
RTln(kcat/Km) is
the energy needed to attain the transition state. The equation below
(Fersht and Leatherbarrow, 1987 ), therefore, gives the difference of
the energetic contribution of a substituted side chain
``R'' to the formation of the transition state when
compared to the wild type enzyme. The equation assumes that the
activation energy required for bond breaking/making does not change
significantly in the substituted enzyme as compared with the wild type
enzyme.
|
(Eq. 2)
|
Thus, the differences in the
kcat/Km values and the
subsequent differences in the
 GS values are very important
indications of the contribution of a residue to catalysis. This theory
applies for the formation of the first transition state. If there is an
additional transition state and if more energy is required to attain
that transition state, the net effect will be to slow down the rate. If
the additional transition state needs less energy to form, the overall
rate will not slow down (but it will of course also not be any
faster).
Equilibrium Dialysis
Enzyme solutions were passed through a
Superose 6 column pre-equilibrated with buffer (pH 7.0) made up in
Milli-QTM water and containing 30 mM TES, 145 mM NaCl, and 10 µM MgSO4. The
enzymes were concentrated to 2 mg/ml using a MicrosepTM
centrifugal concentrator (cut-off 30 kDa), and the solution was placed
into Spectra/Por cellulose dialysis tubing (cut-off 12-14 kDa). The
enzymes were then dialyzed extensively against the buffer containing 10 µM Mg2+. After the final buffer change, the
enzyme was dialyzed for a 24-h period to ensure that an equilibrium was
reached. The final concentration of the protein was again checked to
account for changes that occurred during dialysis. The enzyme and final
buffer dialysates were analyzed by atomic absorption to determine the
amount of Mg2+.
pH Studies
The kcat,
Km, and
kcat/Km values of the
substituted -galactosidases were determined at various pH values.
Fixed time assays were used for all the pH profile analyses. The
reactions were stopped with 2 volumes of 1 M
Na2CO3. This increased the pH to 11 and stopped
the reaction. Using this method, all the rates could be determined
using a single extinction coefficient since the final measurements were
done at the same pH. The extinction coefficients used for these assays
were determined with oNP standards.
Heat Stabilities
The enzymes (substituted and wild type)
were placed (0.35 mg/ml) into a 50 mM sodium phosphate
buffer (pH 7.0, 1 mM MgSO4) and incubated at
52 °C. At various times, 60-µl samples were removed and diluted
into an equal volume of ice-cold TES buffer (30 mM TES, 145 mM NaCl, 1 mM MgSO4, pH 7.0). These
enzymes were further diluted, if necessary, immediately before
assaying.
RESULTS
Assays of Substrates with Changes at C6
Table
I gives the kcat,
Km,
kcat/Km and
 GS values for the substituted
enzymes and the wild type enzyme with ONPG, PNPG, PNPA, and PNPF. Note
that the  GS values with ONPG
and PNPG are significantly larger than those with PNPA and PNPF.
Inhibition by Transition State Analogs
Transition state
analog inhibitors with C6 hydroxyl groups inhibited the substituted
enzymes much more poorly than they inhibited wild type enzyme (Table
II) (except for H540N- -galactosidase interactions
with L-ribose). On the other hand, there was not much
difference between the inhibition of the wild type and the substituted
enzymes by L-arabinolactone, which is similar to
D-galactonolactone but does not have a C6 hydroxyl methyl
group.
Table II.
The Ki values (mM) with some transition state
analog inhibitors
|
H540F |
H540N |
H540E |
Wild type
|
|
| Transition state analogs with C6 hydroxyls
|
| L-Ribose |
33 |
0.32 |
65 |
0.24
|
| D-Galactonolactone |
25 |
1.6 |
>500 |
0.13
|
| Transition state analog without a C6 hydroxyl
|
| L-Arabonolactone |
51 |
11 |
8 |
16 |
|
Inhibition and Acceptor Studies
Table III
shows the Ki values for competitive inhibition by
various sugars and sugar derivatives. In general, the values of
inhibition by the compounds were affected much more by the
substitutions if a C6 hydroxyl was present than if it was not present.
The differences were usually greater when the His was replaced by Phe
than when replaced by Asn or Glu. Some of the inhibitors also acted as
acceptors and increased the rates of reaction (Table
IV). To ensure that these rate increases were due to
transferolysis (acceptor reaction), TLC was done (data not shown) after
reaction in the presence of 1 M methanol. In the case of
every substituted -galactosidase, a compound that migrated as did
authentic methylgalactopyranoside was produced in the presence of the
methanol.
Table III.
The Ki values (mM) with some substrate analog
inhibitors
|
H540F |
H540N |
H540E |
Wild type
|
|
| Substrate analogs with C6 hydroxyls
|
| IPTG |
4.2 |
0.17 |
60 |
0.085
|
| PETG |
0.25 |
0.005 |
0.54 |
0.0015
|
| Lactose |
53 |
1.3 |
90 |
1.21
|
| D-Talose |
94 |
12 |
298 |
8
|
| Glycerol |
660 |
165 |
600 |
93
|
| D-Glucose |
970 |
325 |
2700 |
409
|
| D-Galactose |
1370 |
67 |
910 |
25
|
| D-2-Deoxy-galactose |
798 |
212 |
338 |
62
|
| Substrate analogs without C6 hydroxyls
|
| D-Fucose |
124 |
311 |
102 |
203
|
| L-Arabinose |
169 |
110 |
520 |
217 |
|
Table IV.
Apparent kcat values (s 1) of the substituted enzymes
in the presence of various acceptors
| Acceptor |
H540F |
H540N |
H540E
|
|
| None |
0.1 |
0.7 |
0.7 |
| Methanol (1 M) |
0.2 |
1.4 |
3.4 |
| Glycerol (125 mM) |
0.21 |
1.89 |
3.1 |
| L-Arabinose (250 mM) |
0.09 |
0.70 |
1.1 |
| D-Galactose (250 mM) |
0.16 |
0.75 |
2.2 |
| D-Fucose (250 mM) |
0.12 |
0.58 |
1.4 |
| D-Talose (100 mM) |
0.04 |
0.56 |
0.7
|
| 2-Deoxy-D-Galactose (150 mM) |
0.16 |
0.56 |
1.4 |
| D-Glucose (300 mM) |
0.44 |
3.71 |
6.0 |
| D-Glucose
(infinite concentration) |
|
|
15.0 |
|
pH Profiles
Fig. 3 shows that except for
magnitudes the dependence of
kcat/Km on the pH for two of
the substituted enzymes was not much different from wild type. There
were, however, definite differences in the Km and
kcat profiles.
Fig. 3.
pH profiles. A, the
kcat values found at various pH values.
B, the Km (mM) values found
at various pH values. C, the
kcat/Km values found at
various pH values. The data for the kcat and the
kcat/Km values were
normalized, and the maximal value for each enzyme was equated to 100%.
- , wild type; - , H540E- -galactosidase; - ,
H540N- -galactosidase.
Mg2+ Activation and Binding
The kinetic results
are shown on Table V. The removal of Mg2+
had similar effects on the magnitude of the kcat
and Km values in the substituted enzymes as it did
in the wild type enzyme. In addition, H540F- -galactosidase bound
0.49 Mg2+ per monomer, whereas wild type -galactosidase
bound 0.53 Mg2+ per monomer when dialyzed in 10 µM Mg2+. The values would probably have been
closer to 1 Mg2+ per monomer if higher Mg2+
concentrations had been used, but at higher concentrations of
Mg2+, the differences of Mg2+ concentrations
inside and outside the dialysis tubing would have been small, and it
would have been hard to measure the differences.
Heat Stabilities
Fig. 4 shows that all three
of the substituted -galactosidases were less stable than wild type
-galactosidase. H540N- -galactosidase was, however, a little more
stable to heat than were the other two substituted enzymes.
Fig. 4.
The heat stabilities as functions of
time. The enzymes (0.35 mg/ml) were placed into a 50 mM sodium phosphate buffer (pH 7.0, 1 mM
MgSO4) and incubated at 52 °C. Samples (60 µl) were
removed and diluted into an equal volume of ice-cold TES buffer (30 mM TES, 145 mM NaCl, 1 mM
MgSO4, pH 7.0). The enzymes were further diluted, if
necessary, immediately before assaying. - , wild type; - ,
H540F- -galactosidase; - , H540N- -galactosidase;
- , H540E -galactosidase
DISCUSSION
The lacZ genes from E. coli and from some
other related -galactosidases have been sequenced (Kalnins et
al., 1983 ; Burchhardt and Bahl, 1991 ; Buvinger and Riley, 1985 ;
David et al., 1992 ; Fanning et al., 1994 ; Hancock
et al., 1991 ; Poch et al., 1992 ; Schmidt et
al., 1989 ; Schroeder et al., 1991 ; Stokes et
al., 1985 ), and they share significant homology. These
-galactosidases also share extensive homology with prokaryotic
(E. coli) and eukaryotic (rat, mouse, and human)
-glucuronidases (Gallagher et al., 1988 ; Jefferson
et al., 1986 ; Oshima et al., 1987 ; Nishimura
et al., 1986 ; see Poch et al., 1992 for alignment
with -galactosidases). Several His are conserved among the various
sequences, and one of the conserved His is at position 540 (Fig. 1).
Histidines are often important at the active sites of enzymes since
they can readily form H bonds, they have the capacity to act as
acid/base catalysts at pH values that are optimal for enzyme action,
they are good nucleophiles, and they can function as ligands for metal
binding. Their H bonding capacity means that they could be important
for substrate binding and transition state stabilization. The His-540
of -galactosidase (E. coli) was substituted by Phe, Asn,
and Glu in these studies. The Phe was introduced to eliminate the
possibility of forming H bonds and because Phe and His are
approximately of the same size and His does have some aromatic
properties. The Asn was introduced because an amido group can form H
bonds somewhat similar to those of His and because the distance between
the -carbon of His and the 1N of His is similar to the
distance between the -carbon of Asn and the amido nitrogen of Asn
(Fig. 5). Glu was introduced because we thought that it
could interact somewhat like His since it can form H bonds, it can act
as a general acid/base catalyst, it can act as a nucleophile, and it
can function as a ligand for metal binding. It does, however, introduce
a negative charge, and it has a different geometry than does His. The
three-dimensional structure (Jacobson et al., 1994 ) clearly
shows that His-540 is at the active site and that one of its nitrogens
is available for hydrogen bonding.
Fig. 5.
The structures of His and Asn showing that
the electron pairs of the 1N of His and the amido N of Asn
are approximately equi-distant from their respective
-carbons.
Substitutions for His-540 caused the kcat values
of the reactions with galactosyl substrates to decrease by about
1000-fold or more (Table I). For substrates that were identical to
galactose but did not have C6 hydroxyl groups, the losses of the
kcat values were much smaller. In most cases the
Km values of the substituted enzymes were relatively
small. Since Km = (k3·KS)/(k2 + k3) in the case of -galactosidase, small
Km values either mean that binding of substrate is
good or that k3 is small relative to
k2. The
kcat/Km values were decreased
in a similar fashion to the way that the kcat
values were, but the differences with the substrates that did not have
C6 hydroxyl groups were very small (15-fold at the most). The data
shown on Table I indicate that the
 GS values that resulted from
substitutions for His-540 were about 10-20 kJ/mol larger when a C6
hydroxyl was present than when the hydroxyl was absent. ONPG and PNPG
have intact C6 hydroxyl methyl groups, whereas PNPA is similar to
D-galactose but does not have a C6 hydroxyl methyl group.
PNPF is similar to D-galactose but it does not have a C6
hydroxyl group. The differences in
 GS values with the two classes
of substrate strongly suggest that His-540 is involved in binding to
the C6 hydroxyl of the transition state. The salient point is that the
deleterious effects of the substitutions for His-540 on the
kcat/Km and
 GS values were much smaller
when the C6 hydroxyl group was absent. The differences in
 GS values between substrates
with and without C6 hydroxyl groups were greatest with
H540F- -galactosidase. This is expected since Phe can't form
hydrogen bonds whereas Asn and Glu may be able to participate in H
bonds.
In every case (except for the inhibition of H540N- -galactosidase by
L-ribose) substitutions for His-540 led to large losses of
the binding ability in the cases of D-galactonolactone and
L-ribose but not in the case of
L-arabinolactone (Table II). L-Arabinolactone
does not have a C6 hydroxyl methyl group while the other two compounds
do. These compounds are considered to be transition state analog
inhibitors (Huber and Brockbank, 1987 ). This is further evidence that
His-540 stabilizes the transition state via interactions with the C6
hydroxyl of galactose. The relatively good inhibition of
H540N- -galactosidase by L-ribose may be due to favorable
H bond interactions of some type that are allowed with the amido
nitrogen of Asn.
There was also a differential effect on inhibition by substrate analog
inhibitors (Table III) depending upon whether a C6 hydroxyl was present
(except again for the inhibition of H540N- -galactosidase by some of
the compounds). These data show that His-540 also interacts with the C6
hydroxyl of the substrate in the ground state.
In every case, when Mg2+ was removed, losses in activity
were similar to the effects on wild type -galactosidase (Table IV).
In addition, equilibrium dialysis showed that H540F- -galactosidase
bound as much Mg2+ as did wild type -galactosidase in
the presence of 10 µM Mg2+. Thus His-540 is
not involved in Mg2+ binding.
The substituted enzymes had different pH profiles for
Km and kcat whereas the
kcat/Km profiles for the
substituted enzymes were very similar to those of wild type (except for
magnitude). The Km value
((k3·KS)/(k2 + k3)) and the kcat value
(k2k3/(k2 + k3)) contain k3,
whereas the k3 value in
kcat/Km is canceled out
(kcat/Km = k2/KS). Thus, these data
suggest that the ``degalactosylation'' (k3)
reaction is affected differently by pH in the substituted enzymes than
in wild type enzyme whereas the way that k2 and
KS interact as the pH is changed is not affected by
the substitutions.
Some of the ``inhibitors/acceptors'' significantly speeded up the
rates of reaction with ONPG (Table IV; see also Scheme I). In
particular glycerol and glucose were good activators. Since the rate
increases, k3 must be at least partially
rate-limiting. An analysis was done on H540E- -galactosidase to find
the rate extrapolated to an infinite concentration of glucose. The
extrapolated rate is equal to
k2k4/(k2 + k4) (Deschavanne et al., 1978 ), and
the value of this for H540E- -galactosidase was 15 s 1.
This means that k2 is equal to or greater than
15 s 1 for this enzyme. Since the
kcat without glucose for H540E- -galactosidase
was 0.66 s 1 and this value is at least 10-fold lower than
15 s 1, the k3 step
(degalactosylation) must be rate-determining. The data (Table IV)
indicate that k3 may also be rate-determining
for H540N- -galactosidase. In the case of H540F- -galactosidase,
the value of k2 is definitely larger than
k3 (its value is at least 0.44 s 1
which compares with the kcat value of 0.1 s 1). The values of k2 and
k3 of the wild type enzyme are roughly equal
with ONPG as the substrate. These data, showing that
k3 is rate determining, show that the transition
state of the k3 (degalactosylation) step is
destabilized more by the substitutions than is the transition state of
the k2 (``galactosylation'') step.
Enzymes that have site-specific mutations often have very low
activities. Therefore, one must always be concerned that the results
that one obtains for an enzyme solution of substituted enzyme could be
from a small amount of wild type contamination during growth or
purification rather than from the substituted enzymes themselves. In
this case, the substituted enzymes had properties that were totally
different from the properties of wild type -galactosidase, and this
precludes the possibility that the activities noted were from wild type
contamination.
There were no significant differences of the fluorescence and circular
dichroism spectra between the substituted enzymes and wild type
-galactosidase (data not shown). -Galactosidase is, however, a
very large molecule, and it is difficult to detect small changes in the
secondary and tertiary structure. Some perturbations of structure
undoubtedly occur when substitutions for residues are made. The heat
stability studies indicated that this was the case with the
substitutions introduced here. It can also be argued that if His-540
interacts with the C6 group (as the evidence presented here strongly
suggests), the  GS values for
PNPA and PNPF should be zero since there should be no such interactions
with those two substrates. The non-zero
 GS values may result from
perturbations of structure that affect other interactions with these
substrates. Alternatively, the substituted residues themselves may
interact in some other way with PNPA and PNPF to give the
 GS values observed
(e.g. there could be interactions between the Phe of
H540F- -galactosidase with the C6 methyl group of PNPF).
The studies of these substituted enzymes clearly showed that His-540
interacts (presumably by forming H bonds) with the C6 hydroxyl of the
substrate and the transition state of -galactosidase. The data show
that this is important both for binding the substrates and for
stabilizing the transition state of the reaction. The magnitude of the
effects observed shows that these interactions are obviously a
significant component of the -galactosidase reaction. The data also
showed that the stabilizing effect of His-540 on the C6 group of the
transition state may be more significant for the degalactosylation step
than for the galactosylation step. Recent structural work1
shows that the His-540 side chain is indeed within H bonding distance
of the C6 hydroxyl of galactosyl inhibitors.
FOOTNOTES
*
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.
1
B. Matthews and D. Juers, University of Oregon,
Eugene, personal communication.
2
The abbreviations used are: TES,
N-tris[hydroxymethyl]methyl-2-aminoethanesulfonic acid;
ONPG, o-nitrophenyl- -D-galactopyranoside;
PNPG, p-nitrophenyl- -D-galactopyranoside;
PNPA, p-nitrophenol- -L-arabinopyranoside;
PNPF, p-nitrophenol- -D-fucopyranoside; oNP,
o-nitrophenol; PETG,
phenylethylthio- -D-galactopyranoside.
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