Previous Article | Next Article 
Appl Environ Microbiol, July 1998, p. 2609-2615, Vol. 64, No. 7
0099-2240/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.
Cloning and Expression of the Inositol
Monophosphatase Gene from Methanococcus jannaschii and
Characterization of the Enzyme
Liangjing
Chen and
Mary F.
Roberts*
Merkert Chemistry Center, Boston College,
Chestnut Hill, Massachusetts 02167
Received 16 March 1998/Accepted 4 May 1998
 |
ABSTRACT |
Inositol monophosphatase (EC 3.1.3.25) plays a pivotal role in the
biosynthesis of di-myo-inositol-1,1'-phosphate, an osmolyte found in hyperthermophilic archaea. Given the sequence homology between
the MJ109 gene product of Methanococcus jannaschii and human inositol monophosphatase, the MJ109 gene was cloned and expressed
in Escherichia coli and examined for inositol
monophosphatase activity. The purified MJ109 gene product showed
inositol monophosphatase activity with kinetic parameters
(Km = 0.091 ± 0.016 mM;
Vmax = 9.3 ± 0.45 µmol of
Pi min
1 mg of protein
1)
comparable to those of mammalian and E. coli enzymes. Its
substrate specificity, Mg2+ requirement, Li+
inhibition, subunit association (dimerization), and heat stability were
studied and compared to those of other inositol monophosphatases. The
lack of inhibition by low concentrations of Li+ and high
concentrations of Mg2+ and the high rates of hydrolysis of
glucose-1-phosphate and p-nitrophenylphosphate are the most
pronounced differences between the archaeal inositol monophosphatase
and those from other sources. The possible causes of these kinetic
differences are discussed, based on the active site sequence alignment
between M. jannaschii and human inositol monophosphatase
and the crystal structure of the mammalian enzyme.
 |
INTRODUCTION |
The sole pathway for
myo-inositol biosynthesis is the cyclization of
glucose-6-phosphate to inositol-1-phosphate (I-1-P) by I-1-P synthase
(EC 5.5.1.4) and the dephosphorylation of I-1-P by inositol
monophosphatase (I-1-Pase; EC 3.1.3.25) (7-9, 12, 16, 24).
This de novo pathway provides the ultimate source of free inositol for
the cell. It is also a key enzyme involved in second-message signal
transduction processes in mammalian and plant cells (2, 24, 28,
37). In phosphoinositide signaling (2, 37), I-1-Pase
recycles the water-soluble phospholipase C phospholipid degradation
products, inositol phosphates, to myo-inositol and helps to
maintain a moderate inositol pool. Its inhibition by millimolar
concentrations of lithium (19) has made it a putative target
of lithium therapy for manic depression (34).
Di-myo-inositol-1,1'-phosphate (DIP), a novel inositol
phosphate compound found in hyperthermophilic archaea, including
Pyrococcus woesei (43), Pyrococcus
furiosus (41), Methanococcus igneus (11), and Thermotoga maritima (36), is
used for osmotic balance at high growth temperatures. In order to
understand what regulates its accumulation in cells, the DIP
biosynthetic pathway must be well characterized in vitro. Based on
13C-labeling studies and assays of crude protein extracts
from M. igneus (10), a pathway was proposed that
converts glucose-6-phosphate to I-1-P (step 1), hydrolyzes some of the
I-1-P to myo-inositol (step 2), and activates I-1-P to
CDP-inositol (CDP-I) (step 3) for a final reaction (step 4) whereby
CDP-I is coupled to myo-inositol, generating DIP and CMP
(Fig. 1). Activities for I-1-P synthase, I-1-Pase, and DIP synthase in the DIP biosynthetic pathway have been
detected in crude protein extracts of M. igneus
(10). Phosphatase activities are ubiquitous in cells, and
the observed activity in M. igneus could be due to a
specific I-1-Pase activity or a nonspecific phosphatase. For mammalian
and plant cells, I-1-Pases are all lithium sensitive and are inhibited
at millimolar concentrations of Li+ (14, 15, 19, 30,
42). The partially purified phosphatase in M. igneus
exhibited substrate specificity for DL-I-1-P over other
sugar phosphates (10). It had an absolute requirement for
Mg2+, a characteristic of all specific I-1-Pases studied
thus far, and was also partially inhibited by Li+, though
at a much higher concentration (160 mM for 50% activity inhibition)
than reported for I-1-Pases from other cells. While this was suggestive
of a specific I-1-Pase, the same protein fractions demonstrated
considerable activity toward p-nitrophenylphosphate (pNPP),
a very poor substrate for mammalian enzymes (1, 14). These
preliminary characterizations of phosphatase activity suggested that
archaeal I-1-Pases might be different from mammalian and plant enzymes.

View larger version (12K):
[in this window]
[in a new window]
|
FIG. 1.
Proposed DIP biosynthetic pathway. Glucose-6-phosphate
is converted to I-1-P (step 1), some of which is hydrolyzed to
myo-inositol (step 2), and I-1-P is activated to CDP-I (step
3) for a final reaction in which CDP-I is coupled to
myo-inositol (step 4), generating DIP and CMP.
|
|
Methanococcus jannaschii was the first archaeon whose
complete genomic sequence was determined (6). Of all the
archaea with sequenced genomes, it is the closest to M. igneus. MJ109 encodes a 252-amino-acid protein that is highly
homologous to both I-1-Pase and extragenic suppressor (the
suhB gene product) (6). The latter gene product
cloned in E. coli also has I-1-Pase activity
(29). The putative identification of the MJ109 gene product
as an I-1-Pase prompted us to express the gene product in E. coli and to examine its specific activity toward a variety of
phosphate esters. The protein produced in this fashion clearly has
I-1-Pase activity and shows several striking differences from plant and
mammalian I-1-Pase activities.
 |
MATERIALS AND METHODS |
Chemicals.
DL-I-1-P, D-I-1-P,
inositol-2-phosphate, 2'-AMP, 5'-AMP, pNPP,
-glycerophosphate,
-D-glucose-1-phosphate, glucose-6-phosphate, fructose-1-phosphate, sodium dodecyl sulfate (SDS)-polyacrylamide gel
molecular mass markers, gel filtration molecular mass markers, Sephadex
G-150, and Coomassie brilliant blue 250 were obtained from Sigma. The
Q-Sepharose fast flow and phenyl-Sepharose were obtained from
Pharmacia. Restriction enzymes were obtained from New England Biolabs.
The ligation kit and E. coli strains were purchased from
Novagene. The PCR kit was obtained from Perkin-Elmer.
Assay of I-1-Pase.
Enzyme activity was measured by
colorimetric determination of released inorganic phosphate
(Pi) (20). For elution profiles in column
chromatography, the reaction mixture contained 1 µl of 10 mM I-1-P
(in 50 mM Tris buffer, pH 8.0), 1 µl of 40 mM MgCl2 (in
50 mM Tris buffer, pH 8.0), and 2 µl of diluted protein (0.4 to 0.5 µg/µl). For other assays, the total volume of the reaction mixture
was increased to 16 µl to reduce pipetting errors. For the
Vmax and Km
determinations, the sensitivity range of the colorimetric Pi assay and the lower substrate concentrations needed in
the assay required increasing the total assay volumes to 0.5 ml. After incubation at 85 or 100°C (as specified in each experiment) for ~1
min, the mixtures were quickly chilled on ice. All the substrates were
quite stable for at least 5 min at 100°C, as evidenced by the lack of
Pi in controls without the enzyme added (data not shown).
The liberated Pi was measured by colorimetric phosphate assay with ammonium molybdate malachite green reagents (20). The absorbance at 660 nm of the enzyme sample compared to those of
standard Pi concentrations was used to calculate
Pi production in micromoles per minute. Specific activity
was estimated by normalizing to the protein concentration determined by
the Lowry method, which was consistent with the UV absorption and the
relative band intensity on the SDS-polyacrylamide gel. For crude cell
extracts, bovine serum albumin (Bio-Rad) was used as the standard.
Subcloning the I-1-Pase gene in M. jannaschii.
The
pUC18 plasmids harboring AMJER84, a 2,173-bp genomic fragment
containing the MJ109 gene in the middle at a unique SmaI site, were obtained from the American Type Culture Collection and
linearized by BamHI. The coding region of the I-1-Pase gene (MJ109) was reconstructed to contain a NdeI site at the
start codon and a HindIII site right after the stop
codon by standard PCR methodology (39). Two oligonucleotide
primers, 5'-GCATAGGATGAGCATATGAAATGGGATGAAATTGG-3' and
5'-GTATCTAAAAATATTTAAGCTTATAAGAGGTCTAAA-3', were obtained from Operon. The 25-cycle PCR product was cut with NdeI and
HindIII and ligated to
NdeI-HindIII-digested pET23a(+) (Novagene).
The ligation products were transformed into Novablue competent cells (Novagene). Recombinant clones were identified by detailed restriction mapping. The DNA sequences of these clones were confirmed by
double-stranded DNA sequencing with the Amersham Life Science
thermosequence 33P kit. For the expression of the protein,
the recombinant vectors were transformed into BL21(DE3)PLysS cells
(Novagene).
Overexpression of the MJ109 gene in E. coli.
A single
colony of BL21(DE3)PLysS cells containing the recombinant
MJ109-pET23a(+) plasmid was grown in 5 ml of Luria-Bertani medium with
100 mg of ampicillin/ml and 34 mg of chloramphenicol/ml until the
optical density at 660 nm reached ~0.6. Four milliliters of culture
cell pellets was used to inoculate 2 liters of fresh Luria-Bertani
medium containing 100 µg of ampicillin/ml and 34 µg of
chloramphenicol/ml. These cultures were grown to an
A660 of ~0.6 by rapid shaking at 37°C.
Production of recombinant protein in the cultures was induced by the
addition of 100 mM IPTG
(isopropyl-
-D-thiogalactopyranoside) at a final
concentration of 0.4 mM and continued growth for another 4 h
(after which the A660 was ~1.3). The cells
were harvested by centrifugation and stored at
70°C until needed.
The time course for expression of protein was monitored by
SDS-polyacrylamide gel electrophoresis (PAGE) (a band corresponding to
28 kDa). Dialyzed cell extract had high I-1-Pase activity, whereas the
BL21(DE3)/pET23a(+) cell extract, used as a control, did not have the
corresponding band on SDS-PAGE and had no detectable I-1-Pase activity
(data not shown).
Purification of I-1-Pase.
Frozen cells (~8.7 g from 4 liters of culture) were thawed and resuspended in 50 ml of buffer A (20 mM Tris-HCl [pH 8.0], 1.0 mM EDTA) and incubated at room temperature
for 30 min. The cells were broken by sonication for 10 cycles of
30 s on ice, and the supernatant was separated from cell debris by
centrifugation (12,400 × g for 30 min). The
supernatants were dialyzed twice against 2 liters of buffer A. The
dialyzed crude extracts were then heated at 85°C for 30 min. The
precipitated material was removed by centrifugation, and the
supernatant was loaded onto a 2.5- by 12-cm Q-Sepharose fast flow
column and eluted with a linear gradient of 0 to 0.5 M KCl in buffer A
(total, 400 ml). The I-1-Pase was detected by activity, and the purity
of each fraction was monitored by SDS-PAGE (22). Fractions
(85 to 90% pure) were pooled (total volume, about 32 ml), and aliquots
of 5 M NaCl were added to reach a final salt concentration of about 0.5 M. Eight milliliters of this sample was loaded onto a 1.0- by 12-cm
phenyl-Sepharose column preequilibrated with buffer B (0.5 M NaCl in 20 mM Tris buffer, 1 mM EDTA, pH 8.0). The column was then washed with the
same buffer and eluted with a linear gradient of buffer B and pure
water (total volume, ~200 ml).
Gel filtration.
A column (1.6 by 70 cm) of Sephadex G-150
was equilibrated with buffer A and was used to determine the native
molecular mass of pure M. jannaschii I-1-Pase. The void
volume was determined with blue dextran, and the column was
standardized with
-amylase (200 kDa), alcohol dehydrogenase (150 kDa), albumin (66 kDa), carbonic anhydrase (29 kDa), and cytochrome
c (12.4 kDa). Samples (0.5 ml of 2 to 3 A280 U/ml) were applied to the column and eluted at a flow rate of 0.2 ml/min. Fractions of 2 ml each were collected and
assayed for I-1-Pase activity.
 |
RESULTS |
Purification of M. jannaschii I-1-Pase.
The
purification scheme outlined in Materials and Methods yielded ~20 mg
of pure M. jannaschii I-1-Pase. The protein was
characterized by a single band on an SDS-polyacrylamide gel with a
subunit mass of ~28 kDa, in agreement with the 27.7 kDa predicted
from the DNA sequence (Fig. 2). The
overexpressed protein was obtained with an overall 4.3-fold
purification and 45% yield. This is consistent with the observation
that I-1-Pase is the major band in the crude extracts and represents 20 to 25% of the protein, as estimated from intensities on the
SDS-polyacrylamide gel. Activities and yields for each step of the
purification are summarized in Table 1.
An extinction coefficient,
280 = 29,900 M
1
cm
1 (A0.1% = 1.08), was
determined on the basis of a Lowry assay (26) of the protein
concentration. According to the peptide sequence, M. jannaschii I-1-Pase contains 2 tryptophans, 13 tyrosines, and 3 cysteines per subunit. The calculated (27) extinction coefficient,
280 = 30,700, is in excellent agreement
with the experimental value. Gel filtration on Sephadex G-150 showed
the native I-1-Pase molecular mass to be ~55 kDa. Thus, M. jannaschii I-1-Pase, like all the other I-1-Pases studied thus
far, is a dimer (1, 15, 29).

View larger version (98K):
[in this window]
[in a new window]
|
FIG. 2.
I-1-Pase expression and purification analyzed by
SDS-12% PAGE stained with Coomassie brilliant blue. Lane a, crude
extract; lane b, heat-treated crude extract; lane c, purified M. jannaschii I-1-Pase; lanes d and e, molecular mass standards (from
the top, 66, 45, 36, 29, 24, 21.4, and 14 kDa).
|
|
Kinetic characterization of the M. jannaschii
I-1-Pase.
The methanogen I-1-Pase, similar to all other I-1-Pase
enzymes known, has an absolute requirement for Mg2+ for
activity. At least 10 mM Mg2+ is needed for optimal
activity (Fig. 3). This amount of
Mg2+ is higher than that needed by the mammalian enzyme (1 to 3 mM) but comparable to that for the E. coli enzyme (10 mM Mg2+ for maximum activity). However, unlike its
mammalian and plant counterparts, there was no inhibition of M. jannaschii I-1-Pase when the Mg2+ concentration was
increased to 100 mM; instead of inhibition, a slight activation at high
Mg2+ concentrations was observed. This activation (~16%)
is outside the error of the I-1-Pase assays (
5%) and is likely to
represent nonspecific activation caused by ionic strength. The only
other divalent metal ion that can substitute for Mg2+ is
Mn2+ (data not shown). However, for the M. jannaschii I-1-Pase, activation with Mn2+ is only
about 64% as effective as that with Mg2+. In the same
assay system 10 mM other divalent ions, including Co2+,
Ni2+, Cu2+, Zn2+, Ca2+,
and Ba2+, showed no significant activation of I-1-Pase in
the absence of Mg2+. These cations (at 8 mM) all inhibited
the I-1-Pase activity assayed with 8 mM Mg2+. This
represents another difference between the M. jannaschii I-1-Pase and the mammalian I-1-Pase (21), since
Co2+ was an activator for the mammalian enzyme.

View larger version (14K):
[in this window]
[in a new window]
|
FIG. 3.
Dependence of M. jannaschii I-1-Pase activity
(toward 2.5 mM I-1-P in 50 mM Tris HCl [pH 8.0] at 85°C) on
Mg2+ concentration. The activities are normalized to the
value obtained with 10 mM MgCl2. The error bars indicate
standard deviations.
|
|
In the presence of 10 mM Mg
2+, the I-1-Pase from
M. jannaschii displayed a hyperbolic dependence of specific activity
on substrate
concentration, with
Vmax determined
to be 9.3 ± 0.45 µmol of P
i min
1 mg
of protein
1 and a
Km of 0.091 ± 0.016 mM at 85°C. These values are similar
to the values reported
for mammalian I-1-Pase (notably bovine
[
15] and human
recombinant [
30] enzymes) and the
E. coli
(
29)
enzyme (Table
2). Thus,
under standard assay conditions (2.5
mM I-1-P) the enzyme is saturated.
View this table:
[in this window]
[in a new window]
|
TABLE 2.
Comparison of kinetic characteristics of M. jannaschii I-1-Pase with those of purified I-1-Pase enzymes from
other organisms
|
|
Substrate specificity.
While both mammalian and plant I-1-Pase
enzymes have broad substrate specificities (1, 25, 42), the
M. jannaschii I-1-Pase can hydrolyze an even broader range
of substrates. A variety of phosphorylated compounds were tested as
substrates for M. jannaschii I-1-Pase, and the results are
presented in Table 3. The enzyme had
essentially the same activity toward D-myo-I-1-P
as it had toward DL-myo-I-1-P (the mixture of
D and L isomers). Therefore, M. jannaschii I-1-Pase does not discriminate between D
and L isomers. Similarly, the mammalian (29) and
E. coli (33) enzymes cannot discriminate between
D and L isomers. However, it has been reported that the pollen enzyme shows some preference, since it hydrolyzed the
D isomer at 80 to 90% of the rate of the L
isomer (25). Inositol-2-phosphate was hydrolyzed by the
methanogen I-1-Pase, but at a much lower rate than for I-1-P
hydrolysis. Both
-glycerol phosphate and 2'-AMP were also good
substrates for this enzyme, similar to what is observed for the
mammalian and plant I-1-Pases. However, there were three major
differences between the methanogen and mammalian enzymes. (i) 2'-AMP
was hydrolyzed much faster than I-1-P; the ratio of 2'-AMP activity to
I-1-P activity was about 4 to 5 times higher than the highest reported
values of 157% (1) for the bovine enzyme and 122%
(38) for the chick erythrocyte enzyme. (ii) pNPP, a poor
substrate for the mammalian enzymes, with ~2.6% of the activity they
show toward I-1-P (1), was a very good substrate for
M. jannaschii I-1-Pase. Although there were some early
reports that the yeast enzymes were ~20% more active toward
pNPP than toward I-1-P (13), this activity toward pNPP
decreased to 13% of the activity toward I-1-P after one chromatography step (8). Since those results were based on assays with only partially purified enzymes, the possibility of nonspecific phosphatase activity could not be excluded. For the M. jannaschii
I-1-Pase, pNPP was clearly a good substrate (the enzyme exhibits
~20% more activity toward pNPP than toward I-1-P). pNPP was also a
good substrate for the partially purified I-1-P phosphatase of M. igneus (10). (iii) Glucose-1-phosphate, which has never
been observed to be a good substrate for the other pure I-1-Pases, was
significantly hydrolyzed at 68% of the rate of I-1-P by the M. jannaschii I-1-Pase. For comparison, the pure rat enzyme
hydrolyzed glucose-1-phosphate at only 4% of its rate toward I-1-P
(42). Given the striking sequence homology, there must be
some structural variations in this enzyme to accommodate this
carbohydrate in the active site.
Li+ inhibition.
Li+ is a potent
inhibitor of mammalian, plant, and E. coli I-1-Pase enzymes
(Ki = 0.95, 0.30, and 0.35 mM for bovine
[23], human [30], and E. coli [29] I-1-Pases, respectively). However, no
inhibition was detected when the M. jannaschii enzyme was
incubated with 100 mM Li+. Instead, I-1-Pase activity was
slightly enhanced (the 110% activation at this Li+
concentration is outside the 3 to 5% errors in assay values [Fig. 4]). Inhibition by Li+
occurred at concentrations much higher than those for mammalian enzymes: 250 mM Li+ inhibited about 62% of M. jannaschii enzyme activity, and 1 M Li+ was needed to
inhibit 90% of enzyme activity. This is again extremely similar to
what was observed with the partially purified M. igneus phosphatase, which needed 250 mM LiCl to inhibit about 50% of activity
(10). To determine if the Li+ effect on M. jannaschii I-1-Pase was specific or nonspecific, LiCl was replaced
by NaCl and KCl. The results show that, compared to Na+ and
K+, Li+ is the strongest inhibitor of M. jannaschii I-1-Pase, although it is much less potent than for
mammalian and plant enzymes. The only other I-1-Pase reported to
require relatively high Li+ concentrations for inhibition
is the yeast enzyme (32). It exhibited ~70% residual
activity at 50 mM Li+ and 10% activity at 200 mM
Li+. In that study, the authors attributed the poor
inhibition by Li+ to the fact that the assays were done
with a crude protein extract; they suggested that several
monophosphatases with different sensitivities to lithium might be
present. However, for the M. jannaschii I-1-Pase, a single
activity with only moderate Li+ sensitivity is observed.

View larger version (16K):
[in this window]
[in a new window]
|
FIG. 4.
Effect of Li+, Na+, and
K+ on the activity of M. jannaschii I-1-Pase
toward 2.5 mM I-1-P in 50 mM Tris HCl, pH 8.0, with 10 mM
MgCl2 at 85°C for 1 min. The activities are normalized to
the value for the assay without the monovalent cation salt added. The
error bars indicate standard deviations.
|
|
Heat stability.
Most plant and mammalian I-1-Pase enzymes,
although they have maximum activity at ~37°C, are very heat stable
and can survive long incubation periods at 60 to 70°C (18,
31). This observation led to a critical step in the purification
to homogeneity of both recombinant (30) and nonrecombinant
(31) mammalian I-1-Pase. M. jannaschii is an
extreme thermophile, with an optimum growth temperature of 85°C;
hence, the I-1-Pase from this organism is expected to have unusual heat
stability. After incubation at 85°C for 30 min, more than 95% of
I-1-Pase activity remained. This was a key observation for the
purification of the recombinant protein, since it facilitated the
removal of the majority of E. coli host cell proteins.
Heating at 100°C for 20 min caused a loss of about 30 to 40% of
activity; 30 min at that temperature inactivated about 70% of activity
(Fig. 5A). With shorter incubation times
(~60 s), the protein can be assayed at 100°C, where it has higher
activity than at 85°C. An Arrhenius analysis of I-1-Pase Vmax between 25 and 100°C yields an estimated
activation energy of ~54 kJ/mol (Fig. 5B). On the other end of the
temperature scale, no I-1-Pase activity was lost after storage at 4°C
for 1 month.

View larger version (14K):
[in this window]
[in a new window]
|
FIG. 5.
(A) Thermal stability of M. jannaschii
I-1-Pase after preincubation at 100°C for various times. The enzyme
activity was measured after the preincubation time by adding 0.4 µg
of protein to the standard assay mixture and incubating the mixture at
100°C for 1 min. (B) Temperature (T) dependence of M. jannaschii I-1-Pase Vmax. The error bars
indicate standard deviations.
|
|
In the process of cloning the
M. jannaschii I-1-Pase, a
mutant with three single-amino-acid mutations (D4E, R168K, and L249F)
far away from the active site was generated by PCR errors. The
specific
activity of this mutant was almost the same as that of
the wild type.
However, both the solubility and heat stability
of the mutant I-1-Pase
were less than those of the wild type.
Most of the mutant protein was
packed in inclusion bodies after
IPTG induction; only about 20 to 30%
of the recombinant activity
was soluble. The heat treatment step was
also affected by these
mutations: incubation at 85°C for 30 min
caused a loss of 20%
of activity; incubation at 100°C for 10 min
caused a loss of 50%
of activity.
 |
DISCUSSION |
The MJ109 gene product is the first archaeal I-1-Pase to be cloned
and studied. Its substrate specificity, Mg2+ requirement,
subunit association (dimer), Vmax,
Km for I-1-P, and specific activity are very
similar to those of the mammalian enzymes. However, the lack of
inhibition by low concentrations of Li+ and high
concentrations of Mg2+ make it unique in this family of
enzymes. The properties of this I-1-Pase from M. jannaschii
parallel those detected for partially purified I-1-Pase from M. igneus, an organism where I-1-Pase plays a key role in
biosynthesis of the osmolyte DIP (10). I-1-Pase is a highly
conserved enzyme, and diverse proteins have been noted to be homologous
to it. The bovine I-1-Pase has sequence homologies to the products of
the Neurospora crassa qa-x gene (Qa-X), the Aspergillus nidulans qutG gene (QutG), and the E. coli
suhB (SuhB) and amtA genes (AmtA). The MJ109 gene
product was putatively identified as an extragenic suppressor in the
M. jannaschii genome database (6) due to its
sequence homology to SuhB. The extragenic suppressor suhB
gene was first identified as the locus for the ssyA3(Cs) mutation that was isolated as a extragenic suppressor for the secY24(Ts) mutant of E. coli. The secY
gene in E. coli is involved in protein secretion. The
secY24 mutant, with a single base change in secY
produces an altered SecY protein and is defective in secretion of
envelope proteins across the cytoplasmic membrane at a higher temperature (42°C). The mutant accumulates precursors of envelope proteins. Mutant alleles of the suhB gene (designated
ssyA3) were isolated as extragenic suppressors for the
secY24 mutant. This gene product restores the defect in
protein secretion caused by the secY24 mutation, rescues the
temperature-sensitive cell growth of secY24 mutant cells,
and causes cold-sensitive cell growth (cells form normal colonies at
42°C, small colonies at 37°C, and no colonies at 30°C). While it
is not clear if the MJ109 gene product in M. jannaschii
really can act as an extragenic suppressor in this organism, it clearly
functions as an I-1-Pase, with properties similar to the activity
observed in M. igneus.
The sequence alignment of MJ109 with human I-1-Pase displayed a 28.7%
identity in a 178-amino-acid overlap (Fig.
6). Many of the identical or similar
amino acid residues are at the active sites, as determined from the
crystal structure of the human enzyme (3-5). Presumably,
these residues play a similar role in the structure and catalytic
mechanism of the methanogen enzymes. The active site of the human
enzyme, based on the X-ray crystallography data, includes the inositol
binding site and two catalytic metal binding sites. Residues by D93,
A196, E213, S165, and D220 form the inositol binding site for the human
enzyme. From the sequence alignment (Fig. 6), the M. jannaschii enzyme has residues D84, F175, D192, S154, and D201 at
these positions. Three residues whose side chains form hydrogen bonds
with the hydroxyl groups of the inositol ring include D93, E213, and
D220. Clearly, in the M. jannaschii enzyme, D84, D192, and
D201 could have these functions. A196 of human I-1-Pase uses its main
chain amide group to form a hydrogen bond with the substrate. Hence,
the substitution of F175 in the M. jannaschii I-1-Pase
should not have much effect on the substrate binding. This comparison
of the sequences might suggest that there are similar substrate
specificities in human and M. jannaschii I-1-Pases. The
interaction of S165 with the inositol ring is supposed to occur in the
transition state, and mutation of it to alanine or isoleucine lowers
the catalytic rate constant, kcat, ~5-fold
(4). In M. jannaschii I-1-Pase this residue was
conserved. However, due to the A
F and E
D exchange, the local
structure will be affected and could lead to some altered substrate
specificities. These changes could facilitate enhanced hydrolysis of
2'-AMP, pNPP, and glucose-1-phosphate by the M. jannaschii
I-1-Pase.

View larger version (35K):
[in this window]
[in a new window]
|
FIG. 6.
Sequence alignment between human and M. jannaschii I-1-Pase (MJ109). The residues discussed in the text
are in boldface; dashes represent gaps. A single dot indicates similar
residues (polar, nonpolar, etc.), whereas two dots indicate conserved
residues.
|
|
The first metal binding site, with octahedral coordination geometry, in
the human enzyme is formed by E70, D90, I92, and T95. The metal binding
ligands are provided by active site residues and the solvent water
molecules. The proposed catalytic mechanism has Mg2+
binding to this site and activating the ligand water molecule for a
nucleophilic attack on the phosphoester bond. The I-1-Pase from
M. jannaschii has N59, D81, I83, and S68 that could form this site. If the same metal site is conserved, then there must be some
variations in the site because N59 cannot play the same role as E70
does in the human I-1-Pase. In E70, the OE2 atom was supposed to act as
one ligand to the catalytic Mg2+. Mutagenesis of this
residue in the human enzyme showed a 400-fold drop in
kcat for E70N (35).
The second metal binding site of the human enzyme, with tetrahedral
coordination geometry, contains residues D90, D93, and D220 and one
oxygen of phosphate. Magnesium binding to the second metal binding site
is supposed to coordinate the ester oxygen and stabilize the developing
negative charge as the phosphate ester is cleaved. This site may also
be responsible for the noncompetitive inhibition by Li+ and
high concentrations of Mg2+ (40). After
phosphate ester hydrolysis, this second Mg2+ must
dissociate to allow inorganic phosphate to leave the active site.
Therefore, a high concentration of magnesium will prevent the phosphate
from diffusing away from the active site. Li+ competes with
Mg2+ for this site, forming an
enzyme-Mg2+-phosphate-Li+ complex (23,
34), which will trap the enzyme in that state and stop the
turnover process. The M. jannaschii enzyme has D81, D84, and
D201 in alignment with D90, D93, and D220 of the human enzyme,
suggesting that this site may also be conserved. However the inhibition
behavior of Li+ and Mg2+ is totally different
for the archaeal enzyme. Residues close to the active site could also
affect the active site structure. Mutagenesis studies of the mammalian
enzyme (17) suggested that C218 and H217, which are close to
D220, are also key residues for Li+ and high-concentration
Mg2+ inhibition. The 50% inhibition concentration for
Mg2+ increased 10-fold for the H217Q enzyme, with no
inhibition at all for C218A up to 400 mM Mg2+. The
Ki for Li+ increased 32- and
11.5-fold for the H217Q and C218A enzymes, respectively. Interestingly,
the sequence alignment showed that M. jannaschii I-1-Pase
has A199 in the position occupied by C218, and R198 replaces H217. This
may contribute partially to the noninhibitory behavior of
Li+ and high-concentration Mg2+. The function
of the third metal binding site (5) formed by the E70 side
chain oxygen (OE1) and three water molecules is not as well established
as the first and second sites (40). Although ruled out as
the catalytic metal binding site, metal at this site could also be
involved in the inhibition of I-1-Pase at high concentrations of
activating metal, based on the observation that the proposed metal bond
water nucleophile is displaced by the third metal binding at this site
(5). Given the difference in the archaeal I-1-Pase sequence
and its altered kinetic behavior, a comparison of the structure of the
archaeal I-1-Pase with that of the mammalian enzyme should eventually
shed light on details of catalysis of both systems.
 |
ACKNOWLEDGMENT |
This work has been supported by grant DE-FG02-91ER20025 (to
M.F.R.) from the Department of Energy Biosciences Division.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: Department of
Chemistry, Merkert Chemistry Center, Boston College, Chestnut Hill, MA 02167. Phone: (617) 552-3616. Fax: (617) 552-2705. E-mail:
mary.roberts{at}bc.edu.
 |
REFERENCES |
| 1.
|
Attwood, P. V.,
J.-B. Ducep, and M.-C. Chanal.
1988.
Purification and properties of myo-inositol-1-phosphatase from bovine brain.
Biochem. J.
253:387-394[Medline].
|
| 2.
|
Berridge, M. J., and R. F. Irvine.
1989.
Inositol phosphates and cell signaling.
Nature
341:197-205[Medline].
|
| 3.
|
Bone, R.,
J. P. Springer, and J. R. Atack.
1992.
Structure of inositol monophosphatase, the putative target of lithium therapy.
Proc. Natl. Acad. Sci. USA
89:10031-10035[Abstract/Free Full Text].
|
| 4.
|
Bone, R.,
L. Frank,
J. P. Springer,
S. J. Pollack,
S. Osborn,
J. R. Atack,
M. R. Knowles,
G. McAllister,
C. I. Ragan,
H. B. Broughton,
R. Baker, and S. R. Fletcher.
1994.
Structure analysis of inositol monophosphatase complexes with substrates.
Biochemistry
33:9460-9467[Medline].
|
| 5.
|
Bone, R.,
L. Frank,
J. P. Springer,
S. J. Pollack,
S. Osborn, and J. R. Atack.
1994.
Structural studies of metal binding by inositol monophosphatase: evidence for two metal ion catalysis.
Biochemistry
33:9468-9476[Medline].
|
| 6.
|
Bult, C. J.,
O. White,
G. J. Olsen,
L. Zhou,
R. D. Fleischmann,
G. G. Sutton,
J. A. Blake,
L. M. FitzGerald,
R. A. Clayton,
J. D. Gocayne,
A. R. Kerlavage,
B. A. Dougherty,
J. F. Tomb,
M. D. Adams,
C. I. Reich,
R. Overbeek,
E. F. Kirkness,
K. G. Weinstock,
J. M. Merrick,
A. Glodek,
J. L. Scott,
N. S. M. Geoghagen, and J. C. Venter.
1996.
Complete genome sequence of the methanogenic archaeon, Methanococcus jannaschii.
Science
273:1058-1073[Abstract].
|
| 7.
|
Chen, I.-W., and C. F. Charalampous.
1966.
Biochemical studies on inositol. IX. D-Inositol-1-phosphate as intermediate in the biosynthesis of inositol from glucose-6-phosphate and characteristics of two reactions in this biosynthesis.
J. Biol. Chem.
241:2194-2199[Abstract/Free Full Text].
|
| 8.
|
Chen, I.-W., and C. F. Charalampous.
1965.
Biochemical studies on inositol. VIII. Purification and properties of the enzyme system which converts glucose-6-phosphate to inositol.
J. Biol. Chem.
240:3507-3512[Free Full Text].
|
| 9.
|
Chen, I.-W., and C. F. Charalampous.
1966.
Biochemical studies on inositol. X. Partial purification of yeast inositol-1-phosphatase and its separation from glucose-6-phosphate cyclase.
Arch. Biochem. Biophys.
117:154-157.
|
| 10.
| Chen, L., E. Spiliotis, and M. F. Roberts.
Biosynthesis of di-myo-inositol-1,1'-phosphate, a novel osmolyte in
hyperthermophilic archaea. Submitted for publication.
|
| 11.
|
Ciulla, R. A.,
S. Burggraf,
K. O. Stetter, and M. F. Roberts.
1994.
Occurrence and role of di-myo-inositol-1,1'-phosphate in Methanococcus igneus.
Appl. Environ. Microbiol.
60:3660-3664[Abstract/Free Full Text].
|
| 12.
|
Eisenberg, F., Jr., and P. Ranganathan.
1987.
Measurement of biosynthesis of myo-inositol from glucose-6-phosphate.
Methods Enzymol.
141:127-143[Medline].
|
| 13.
|
Frixos, C., and I.-W. Chen.
1965.
Inositol-1-phosphate synthetase and inositol-1-phosphatase from yeast.
Methods Enzymol.
9:698-704.
|
| 14.
|
Ganzhorn, A. J., and M. C. Chanal.
1990.
Kinetic studies with myo-inositol monophosphatase from bovine brain.
Biochemistry
29:6065-6071[Medline].
|
| 15.
|
Gee, N. S.,
C. I. Ragan,
K. J. Watling,
S. Aspley,
R. G. Jackson,
G. G. Reid,
D. Gani, and J. K. Shute.
1988.
The purification and properties of myo-inositol monophosphatase from bovine brain.
Biochem. J.
249:883-889[Medline].
|
| 16.
|
Gillaspy, G. E.,
J. S. Keddie,
K. Okda, and W. Gruissem.
1995.
Plant inositol monophosphatase is a lithium-sensitive enzyme encoded by a multigene family.
Plant Cell
7:2175-2185[Abstract].
|
| 17.
|
Gore, M. G.,
P. Greasley,
G. McAllister, and C. I. Ragan.
1993.
Mammalian inositol monophosphatase: the identification of residues important for the binding of Mg2+ and Li+ ions using fluorescence spectroscopy and site-directed mutagenesis.
Biochem. J.
296:811-815.
|
| 18.
|
Gumber, S. C.,
M. W. Loewus, and F. A. Loewus.
1984.
Further studies on myo-inositol-1-phosphatase from the pollen of lilium longiflorum thunb.
Plant Physiol. (Rockville)
76:40-44[Abstract/Free Full Text].
|
| 19.
|
Hallcher, L. M., and W. R. Sherman.
1980.
The effects of lithium ion and other agents on the activity of myo-inositol-1-phosphatase from bovine brain.
J. Biol. Chem.
255:10896-10901[Abstract/Free Full Text].
|
| 20.
|
Itaya, K., and U. Michio.
1966.
A new micromethod for the colorimetric determination of inorganic phosphate.
Clin. Chim. Acta
14:361-366[Medline].
|
| 21.
|
Kwon, O.-S., and J. E. Churchich.
1997.
Binding of the activation ion Co(II) to myo-inositol monophosphatase monitored by fluorescence and phosphorescence spectroscopy.
J. Protein Chem.
16:1-9[Medline].
|
| 22.
|
Laemmli, U. K.
1970.
Cleavage of structural proteins during the assembly of the head of bacteriophage T4.
Nature
227:680-685[Medline].
|
| 23.
|
Leech, A. P.,
G. R. Baker,
J. K. Shute,
M. A. Cohen, and D. Gani.
1993.
Chemical and kinetic mechanism of the inositol monophosphatase reaction and its inhibition by Li+.
Eur. J. Biochem.
212:693-704[Medline].
|
| 24.
|
Loewus, F. A.
1990.
Inositol biosynthesis, p. 13-19.
In
D. J. Moore, W. F. Boss, and F. A. Loewus (ed.), Inositol metabolism in plants. Wiley-Liss, Inc., New York, N.Y.
|
| 25.
|
Loewus, M. W., and F. A. Loewus.
1980.
myo-Inositol-1-phosphatase from the pollen of lilium longiflorum thunb.
Plant Physiol.
70:765-770.
|
| 26.
|
Lowry, O. H.,
N. J. Rosebrough, and R. J. Randall.
1951.
Protein measurements with the Folin phenol reagent.
J. Biol. Chem.
193:265-275[Free Full Text].
|
| 27.
|
Mach, H.,
C. R. Middaugh, and R. V. Lewis.
1992.
Statistical determination of the average values of the extinction coefficient of tryptophan and tyrosine in native proteins.
Anal. Biochem.
200:74-80[Medline].
|
| 28.
|
Majerus, P. W.
1992.
Inositol phosphate biochemistry.
Annu. Rev. Biochem.
61:225-250[Medline].
|
| 29.
|
Matsuhisa, A.,
N. Suzuki,
T. Noda, and K. Shiba.
1995.
Inositol monophosphatase activity from the Escherichia suhB gene product.
J. Bacteriol.
177:200-205[Abstract/Free Full Text].
|
| 30.
|
McAllister, G.,
P. Whiting,
E. A. Hammond,
M. R. Knowles,
J. R. Atack,
F. J. Bailey,
R. Maigetter, and C. I. Ragan.
1992.
cDNA cloning of human and rat brain myo-inositol monophosphatase: expression and characterization of the human recombinant enzyme.
Biochem. J.
284:749-754.
|
| 31.
|
Meek, J. L.,
T. J. Rice, and E. Anton.
1988.
Rapid purification of inositol monophosphate phosphatase from beef brain.
Biochem. Biophys. Res. Commun.
156:143-148[Medline].
|
| 32.
|
Murray, M., and M. L. Greenberg.
1997.
Regulation of inositol monophosphatase in Saccharomyces cerevisiae.
Mol. Biol.
25:541-546.
|
| 33.
|
Parthasarathy, L.,
R. E. Vadnal,
T. G. Ramesh,
C. S. Shyamaladevi, and R. Parthasarathy.
1993.
myo-Inositol monophosphatase from rat testes: purification and properties.
Arch. Biochem. Biophys.
304:94-101[Medline].
|
| 34.
|
Pollack, S. J.,
J. R. Atack,
M. R. Knowles,
G. McAllister,
C. I. Ragan,
R. Baker,
S. R. Fletcher,
L. L. Iversen, and H. B. Broughton.
1994.
Mechanism of inositol monophosphatase, the putative target of lithium therapy.
Proc. Natl. Acad. Sci. USA
91:5766-5770[Abstract/Free Full Text].
|
| 35.
|
Pollack, S. J.,
M. R. Knowles,
J. R. Atack,
H. B. Broughton,
C. I. Ragan,
S. Osborne, and G. McAllister.
1993.
Probing the role of metal ions in the mechanism of inositol monophosphatase by site-directed mutagenesis.
Eur. J. Biochem.
217:281-287[Medline].
|
| 36.
|
Ramakrishnan, V.,
M. F. J. M. Verhagen, and M. W. W. Adams.
1997.
Characterization of di-myo-inositol-1,1'-phosphate in the hyperthermophilic bacterium Thermotoga maritima.
Appl. Environ. Microbiol.
63:347-350[Abstract/Free Full Text].
|
| 37.
|
Rana, R. S., and L. E. Hokin.
1990.
Role of phosphoinositides in transmembrane signaling.
Physiol. Rev.
70:115-161[Free Full Text].
|
| 38.
|
Roth, S. C.,
D. R. Harkness, and R. E. Isaacks.
1981.
Studies on avian erythrocyte metabolism: purification of myo-inositol-1-phosphatase from chick erythrocytes.
Arch. Biochem. Biophys.
210:465-473[Medline].
|
| 39.
|
Saiki, R. H.,
D. H. Gelfand,
S. Stoffel,
S. J. Scharf,
R. Higuchi,
G. T. Horn,
K. B. Mullis, and H. A. Erlich.
1988.
Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase.
Science
239:487-491[Abstract/Free Full Text].
|
| 40.
|
Saudek, V.,
P. Vincendon,
Q. T. Do,
R. A. Atkinson,
V. Sklenar,
P. D. Pelton,
F. Piriou, and A. J. Ganzhorn.
1996.
7Li nuclear magnetic resonance study of lithium binding to myo-inositol monophosphatase.
Eur. J. Biochem.
240:288-291[Medline].
|
| 41.
|
Scholz, S.,
J. Sonnenbichler,
W. Schafer, and R. Hensel.
1992.
Di-myo-inositol-1,1'-phosphate: a new inositol phosphate isolated from Pyrococcus woesei.
FEBS Lett.
306:239-242[Medline].
|
| 42.
|
Takimoto, K.,
M. Okada,
Y. Matsuda, and H. Nakagawa.
1985.
Purification and properties of myo-inositol-1-phosphatase from rat brain.
J. Biochem.
98:363-370[Abstract/Free Full Text].
|
| 43.
|
Van Leeuwen, S. H.,
G. A. van der Marel,
R. Hensel, and J. H. van Boom.
1994.
Synthesis of L,L di-myo-inositol-1,1'-phosphate: a novel inositol phosphate from Pyrococcus woesei.
Recl. Trav. Chim. Pays-Bas Belg.
113:335-336.
|
Appl Environ Microbiol, July 1998, p. 2609-2615, Vol. 64, No. 7
0099-2240/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.
This article has been cited by other articles:
-
Fukuda, C., Kawai, S., Murata, K.
(2007). NADP(H) Phosphatase Activities of Archaeal Inositol Monophosphatase and Eubacterial 3'-Phosphoadenosine 5'-Phosphate Phosphatase. Appl. Environ. Microbiol.
73: 5447-5452
[Abstract]
[Full Text]
-
Rodionov, D. A., Kurnasov, O. V., Stec, B., Wang, Y., Roberts, M. F., Osterman, A. L.
(2007). Genomic identification and in vitro reconstitution of a complete biosynthetic pathway for the osmolyte di-myo-inositol-phosphate. Proc. Natl. Acad. Sci. USA
104: 4279-4284
[Abstract]
[Full Text]
-
Kawai, S., Fukuda, C., Mukai, T., Murata, K.
(2005). MJ0917 in Archaeon Methanococcus jannaschii Is a Novel NADP Phosphatase/NAD Kinase. J. Biol. Chem.
280: 39200-39207
[Abstract]
[Full Text]
-
Movahedzadeh, F., Rison, S. C. G., Wheeler, P. R., Kendall, S. L., Larson, T. J., Stoker, N. G.
(2004). The Mycobacterium tuberculosis Rv1099c gene encodes a GlpX-like class II fructose 1,6-bisphosphatase. Microbiology
150: 3499-3505
[Abstract]
[Full Text]
-
Stieglitz, K. A., Johnson, K. A., Yang, H., Roberts, M. F., Seaton, B. A., Head, J. F., Stec, B.
(2002). Crystal Structure of a Dual Activity IMPase/FBPase (AF2372) from Archaeoglobus fulgidus. THE STORY OF A MOBILE LOOP. J. Biol. Chem.
277: 22863-22874
[Abstract]
[Full Text]
-
Chen, L., Roberts, M. F.
(1999). Characterization of a Tetrameric Inositol Monophosphatase from the Hyperthermophilic Bacterium Thermotoga maritima. Appl. Environ. Microbiol.
65: 4559-4567
[Abstract]
[Full Text]
-
Chen, L., Spiliotis, E. T., Roberts, M. F.
(1998). Biosynthesis of Di-myo-Inositol-1,1'-Phosphate, a Novel Osmolyte in Hyperthermophilic Archaea. J. Bacteriol.
180: 3785-3792
[Abstract]
[Full Text]