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J Biol Chem, Vol. 274, Issue 48, 33859-33862, November 26, 1999
COMMUNICATION
Mouse Cyclin-dependent Kinase (Cdk) 5 Is a
Functional Homologue of a Yeast Cdk, Pho85 Kinase*
Masafumi
Nishizawa §,
Yuko
Kanaya , and
Akio
Toh-e¶
From the Department of Microbiology, Keio University
School of Medicine, Shinjuku, Tokyo 160-8582 and the ¶ Department
of Biological Sciences, Graduate School of Science, The University of
Tokyo, Bunkyo, Tokyo 113-0033, Japan
 |
ABSTRACT |
Mouse cyclin-dependent kinase (Cdk) 5 and yeast Pho85 kinase share similarities in structure as well as in
the regulation of their activity. We found that mouse Cdk5 kinase
produced in pho85 mutant cells could suppress some of
pho85 mutant phenotypes including failure to grow on
nonfermentable carbon sources, morphological defects, and growth defect
caused by Pho4 or Clb2 overproduction. We also demonstrated that Cdk5
coimmunoprecipitated with Pho85-cyclins including Pcl1, Pcl2, Pcl6,
Pcl9, and Pho80, and that the immunocomplex could phosphorylate Pho4, a
native substrate of Pho85 kinase. Thus mouse Cdk5 is a functional
homologue of yeast Pho85 kinase.
 |
INTRODUCTION |
Cyclin-dependent kinase
(Cdk)1 plays a key regulatory
role in the progression of the cell cycle. Vertebrate cells have
various Cdks (Cdk1 to Cdk8) and cyclins (cyclins A, B, C, D, E, and H), and their different combinations are utilized at different stages of
the cell cycle (1), whereas in budding yeast, a unique Cdk, Cdc28
kinase, functions by associating with distinct cyclins (2). Budding
yeast also has a Cdk family whose members, including Pho85, Kin28, and
Srb10 kinases, function in various cellular events (3-5).
Among mammalian Cdk family members, Cdk5 is not yet demonstrated to be
involved in cell proliferation. Cdk5, activated by binding of p35
subunit (6), plays an important role in control of neurogenesis,
including neurite outgrowth, axon guidance, and cell migration (7, 8).
Cdk5 and yeast Pho85 kinases share 57% identity in the amino acid
sequence (9, 10), and Pho85 has a pleiotropic function including
response to nutrient conditions (11-13), PLC1-pathway (14),
aminoglycoside sensitivity (15), and cell cycle regulation (16-19).
Regulation of the two kinases appears similar: they are not further
activated by Cdk-activating kinase (20-22), and substitutions of
Ser-159 of Cdk5 and Ser-166 of Pho85 in the T-loop with alanine do not
affect the kinase activities, whereas phosphorylation of Tyr-15 of Cdk5
and Tyr-18 of Pho85 appears to enhance
binding of p35 and Pho80, respectively
(23).2, 3
These similarities prompted us to test whether mouse Cdk5 kinase expressed in yeast cells can substitute Pho85 kinase and interact with
Pho85-cyclins. Here we report that mouse Cdk5 kinase can suppress some
of pho85 mutant phenotypes and can associate with Pho85-cyclins, including Pcl1, Pcl2, Pcl6, Pcl9, and Pho80, to phosphorylate Pho4. Thus mouse Cdk5 kinase is a functional homologue of
yeast Pho85 kinase.
 |
EXPERIMENTAL PROCEDURES |
Strains and Media Yeast strains used were MFY115 (MAT
leu2 ura3 trp1 ade1 his GAL+), MFY116 (MFY115
pho85 ::LEU2), MFY121 (MATa
leu2 ura3 trp1 ade1 his GAL+
pho85 ::URA3), and MFY151 (MATa
ade2-1 trp1-1 leu2-3, 112 his3-11, 15 ura3 GAL
cln1::hisG cln2 METp-CLN2(TRP1)
pho85 ::LEU2) (19). MFY164
(pho85 ) was derived from MFY121 by selecting a resistant to 5-fluoro-orotic acid (24) and was used to construct double mutants
with pcl1 (MFY165), pcl2 (MFY175),
pcl6 (MFY166), pcl9 (MFY167), or
pho80 (MFY168). Yeast cells were grown in SD medium containing 0.67% Difco Yeast Nitrogen Base, 2% glucose, and
appropriate nutritional supplements (25); SGal medium where galactose
replaces glucose in SD; or SGlyLac medium where glycerol plus lactate
replace glucose.
Polymerase chain reaction Cloning and Construction of
Plasmids--
Cloning of PCL1, PCL2, CLB2, and
PHO80 was described previously (19). DNA fragments encoding
PCL6 or PCL9 were similarly cloned (19): the
primers were synthesized to incorporate an NcoI site
at the start codon of PCL6 (5'-AAATAGCGGCGCCATGGCTATCAAAGG) or an EcoRI site immediately downstream of the start codon
of PCL9 (5'-CACAAAGAGATGAATTCTGACTACGAT) and a
BglII site at the 3'-end of each ORF
(5'-CATATTACGCATTTAGATCTGCCCGTAACTAG for PCL6 and
5'-GGCGAGTAACTTAAGATCTTTGCTTGAAAAACG for PCL9). These
fragments were incorporated into pMF906 (19), together with a
TRP1 marker, to produce HA-cyclins under the control of the
GAL10 promoter. To disrupt genomic loci of these cyclins, a
TRP1 fragment was used to replace an
EcoRV-SalI fragment of PCL1, an
SspI-SspI fragment of PCL2, a
BamHI-XbaI fragment of PCL6, and an
NcoI-EcoRV fragment of PCL9, and a
LEU2 fragment was to replace a
ClaI-XbaI fragment of PHO80.
Successful disruption was confirmed by polymerase chain reaction. A
cDNA clone encoding mouse Cdk5 kinase (26) and a URA3
marker were cloned into pMF906 plasmid to generate pMF1086. The
cDNA fragment was also incorporated into pMF568 (URA3)
to generate pMF1057 in which the kinase was produced under the control of the PYK1 promoter (27). Plasmid pMF1079 consists of a
BamHI-SalI fragment containing the promoter and
the ORF of PHO852
and a URA3 marker. To overproduce Pho4 and Clb2 proteins,
DNA fragments encoding each protein were cloned into pMF906, together with a TRP1 or a LEU2 marker to generate pMF869
(GAL10-PHO4-TRP1), pMF1084 (GAL10-PHO4-LEU2),
pMF922 (GAL10-CLB2-TRP1), and pMF1085 (GAL10-CLB2-LEU2).
Analysis of Mutant Phenotypes and Its
Suppression--
Utilization of nonfermentable carbon source,
production of acid phosphatase, and accumulation of glycogen were
assayed as described (11, 12, 28). Suppression of growth arrest of a
cln1 cln2 pho85 triple mutant was tested with strain MFY151 as described (19). Morphological defects were microscopically observed
with overnight culture, and cell number was counted with a
hemocytometer. Suppression of growth defect caused by overproduction of
Pho4 or Clb2 proteins was analyzed by streaking yeast transformants on
SD and SGal media supplemented with nutrients but lacking uracil and
leucine. For spotting cell suspension, overnight culture of yeast
transformants were adjusted to ~5 × 107 cells/ml,
and serial 10-fold dilutions of the suspension were plated on SD and
SGal media supplemented with nutrients but lacking uracil, leucine, and tryptophan.
Immunoprecipitation and Kinase Assay--
Preparation of cell
extracts, immunoprecipitation, and kinase assay were as described (19).
Briefly, after the induction of the production of HA-cyclin and Cdk5 in
SGal medium at 30 °C for 3 h, the extracts were prepared from
cells suspended in lysis buffer by vortexing with glass beads (0.45-mm
diameter). To 50 µl of the extract containing ~200 µg of protein,
1 µl of anti-HA monoclonal antibody (HAmAb; clone 16B12, Berkeley
Antibody Company) or 1 µl of anti-GST antibody (GST Ab) was added,
and the mixture was incubated on ice for 1 h. The immunocomplex
was recovered by absorbing with Protein A-Sepharose 6B (Amersham
Pharmacia Biotech) for 1 h at 4 °C, washed three times with
radioimmunoprecipitation assay buffer (lysis buffer supplemented with
150 mM NaCl) and twice with kinase assay buffer, and
subjected to kinase assay using Pho4, Sic1, or histone H1 as substrate.
Immunoblotting of Cdk5 and HA-cyclins were performed essentially as
described (19) using anti-Cdk5 monoclonal antibody (a gift of G. Patrick and L.-H. Tsai) at 1:500 dilution and HAmAb at 1:1000 dilution, respectively.
 |
RESULTS AND DISCUSSION |
Suppression of pho85 Mutant Phenotypes by Cdk5--
Among
pleiotropic pho85 mutant phenotypes, we tested
constitutive expression of acid phosphatase (11), growth arrest of a
cln1 cln2 pho85 triple mutant (16, 17), accumulation of glycogen (12, 13), failure to grow on nonfermentable carbon sources
(13, 28), abnormal morphology (29), and growth arrest caused by Pho4 or
Clb2 overproduction (this work). Overproduction of mouse Cdk5 kinase
failed to suppress the first three phenotypes (Fig.
1) but could suppress the other mutant
phenotypes (Figs. 2 and
3). Cdk5 could restore growth of
pho85 cells on glycerol + lactate medium (Fig.
2A). Overproduction of Pho4 or Clb2 proteins directed by the
GAL10 promoter caused a growth defect in the absence of
Pho85 kinase, which was suppressed by overproduction of Cdk5 kinase
(Fig. 2B). Overproduction of Cdk5 itself did not affect the
growth of pho85 cells (Fig. 2B).
pho85 mutant cells become large (29) and show an apparent
defect in separation of daughter cells, resulting in multiple-budded
cells (Fig. 3A). They did not separate after extensive
sonication under which conditions the wild-type cells did. The ratio of
cells with morphological defects to the total cells reached ~33% in
pho85 cells, which was decreased to 1.8% by expression
of PHO85 and to 3.8% by that of CDK5 (Fig.
3A). Thus Cdk5 could function in yeast to suppress some of
pho85 mutant phenotypes.

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Fig. 1.
pho85 mutant
phenotypes not suppressed by mouse Cdk5 kinase. Phenotypes studied
and tested strains (MFY115 and MFY116) harboring plasmids producing
Pho85 (pMF1079), Cdk5 (pMF1057), or vector (pMF558) are as indicated.
Cells producing acid phosphatase encoded by PHO5 and those
accumulating glycogen are stained dark.
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Fig. 2.
pho85 mutant
phenotypes suppressed by mouse Cdk5 kinase including inability to grow
on glycerol plus lactate (A) and growth defect caused
by overproduction of Pho4 or Clb2 (B). In
panel A, combinations of tested strains (MFY115 and MFY116)
and plasmids expressing CDK5 (pMF1057), PHO85
(pMF1079), or vector (pMF558) are as indicated. In panel B,
combinations of plasmids introduced into pho85 cells
(MFY164) are similarly indicated. Pho4 (pMF1084), Clb2 (pMF1085), and
Cdk5 (pMF1086) were overproduced under the control of the
GAL10 promoter.
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Fig. 3.
Abnormal morphology of
pho85 cells and its suppression by Cdk5
kinase (A) and the effect of a deletion of individual
Pho85-cyclin gene on the suppression efficiency
(B). About 300 cells were counted to determine
the ratio of cells with morphological defects in individual
experiments. The data shown are an average of three separate
experiments and standard errors were ±1% for
PHO85+, +Pho85, or +Cdk5, and ±5% for +vector
experiments. A, the combination of strains (MFY115 and
MFY116) and plasmids (pMF558, pMF1079, and pMF1057) are as indicated.
B, each line shows the ratio of cells with morphological
defects in double mutants (MFY165, MFY176, MFY166, MFY167, and MFY168)
harboring vector alone (pMF558), Pho85- (pMF1079), or Cdk5- (pMF1057)
producing plasmids.
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Cdk5 Kinase Can Phosphorylate Pho4 in Vitro--
Ten cyclin-like
proteins are known to interact with Pho85, and among them Pho85
complexed with Pcl1, Pcl2, Pcl9, Pcl10, or Pho80 was shown to
phosphorylate Pho4 in vitro (16-18, 30, 31). These facts
led us to a hypothesis that Cdk5 may associate with Pho85-cyclin(s) to
phosphorylate Pho4, resulting in suppression of the growth defect
caused by Pho4 overproduction. To test this idea, we first
immunoprecipitated Cdk5 from yeast extracts and assayed its kinase
activity on Pho4, Sic1, and histone H1. As shown in Fig.
4A, immunoprecipitated Cdk5
could phosphorylate Pho4 and histone H1, with more efficient
phosphorylation of the latter (lanes 1 and 3),
but failed to phosphorylate Sic1 to a detectable level (lane
2). Pho85 kinase, on the other hand, could phosphorylate Pho4 and
Sic1 but not histone H1 (lanes 6-8). Control experiments
(lanes 4 and 5) did not give a detectable level
of Pho4 phosphorylation. These results demonstrate that Cdk5 kinase can
phosphorylate Pho4 as well as histone H1 in vitro.

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Fig. 4.
Mouse Cdk5 kinase can phosphorylate Pho4 and
form a complex with Pho85-cyclins. A, activities of Cdk5 and
Pho85 kinases in vitro. Cdk5 and GST-Pho85 were
immunoprecipitated from cell extracts of MFY116 with anti-Cdk5 and GST
Ab, respectively, and the immunoprecipitates were subjected to kinase
assay. The bands corresponding to phosphorylated substrates are
indicated. B, coimmunoprecipitation of Cdk5 with
Pho85-cyclins and kinase activity of the immunocomplex on Pho4.
Extracts were prepared from MFY161 cells producing Cdk5 and individual
HA-cyclin, and the epitope-tagged cyclin was precipitated with HAmAb.
The immunoprecipitates were then subjected to kinase assay with Pho4 as
substrate and to immunoblotting with anti-Cdk5 Ab to detect the
presence of Cdk5 in the immunocomplex. C, presence of
individual HA-tagged Pho85-cyclins in the extracts used for the
coimmunoprecipitation experiment was analyzed by loading ~40 µg of
proteins onto SDS-polyacrylamide gel, followed by immunoblotting with
HAm Ab. Positions of molecular weight marker proteins are designated at
the left side of the panel.
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We next studied an interaction of Cdk5 with Pho85-cyclins by
coimmunoprecipitation from cell extracts prepared from
pho85 cells overproducing Cdk5 and either HA-Pcl1, -Pcl2,
-Pcl6, -Pcl9, or -Pho80. Any combination of the Pho85-cyclins and Cdk5
kinase could phosphorylate Pho4, and Pcl2-Cdk5 appeared most efficient (Fig. 4B, lane 10, top panel). The
observation that Cdk5 was detected in the immunocomplexes with Pcl1,
Pcl2, Pcl6, Pcl9, or Pho80 suggests that the kinase can interact with
these Pho85-cyclins in yeast cells (Fig. 4B, lanes 9-13,
bottom panel). Western blotting analysis of the cell
extracts demonstrated that there were no significant differences in the
amount of HA-cyclins in the extracts (Fig. 4C).
Possible Cyclin Partner of Cdk5 in Yeast--
It is believed that
combination with different cyclins is responsible for distinct Pho85
function (31). For example, Pho80-Pho85 phosphorylates Pho4 to repress
PHO5 expression (30); Pcl8, Pcl10-Pho85 acts on Gsy2 to
regulate glycogen synthesis (31); and Pcl1-Pho85 phosphorylates Sic1
for its prompt degradation (19). Therefore, Cdk5 may associate with
specific Pho85-cyclin(s) to suppress different pho85
mutant phenotypes. To answer this, we analyzed Cdk5 function in double
mutant cells where pho85 was combined with
pcl1 , pcl2 , pcl6 ,
pcl9 , or pho80 mutations.
With respect to morphological defects of the double mutants, Cdk5
kinase could reduce the ratio of cells with abnormal shape, but not as
efficiently as in pho85 single mutant cells, and a deletion of PCL1 or PCL9 appeared to result in
less efficient suppression than did that of the other cyclin genes
(Fig. 3B). Expression of Pho85 kinase in the double mutants
gave similar effect. These results suggest that cyclin(s) other than
those tested may be required for Pho85 and Cdk5 to affect cell
morphology or that cyclins interacting with either kinase to regulate
cell morphology are redundant although individual cyclin may contribute to the suppression to a different extent.
Next we tested suppression of the growth defect caused by
overproduction of Pho4 or Clb2 in the double mutants. As shown in Fig.
5, overproduction of these proteins
caused the growth defect in the double mutants as well as in
pho85 single mutant, and even in the wild-type cells
(Fig. 5, panels B1 and B2). These single or
double mutants could grow normally on galactose medium (panel
B3). Overproduction of Cdk5 together with Pho4 could restore the
growth of pho85 and the wild-type cells (Fig. 5,
panel C1). The suppression by Cdk5 appeared dependent on a
specific Pho85-cyclin: the absence of Pcl1, Pcl6, Pcl9, or Pho80 did
not appear to affect the suppression efficiency, whereas that of Pcl2
resulted in almost no suppression by Cdk5 kinase (panel C1),
suggesting that the Pcl2-Cdk5 complex may be most crucial to overcome
the growth defect. To the contrary, Pho85 kinase did not show a
specific requirement of cyclin to counteract the effect of Pho4
overproduction: the double and pho85 single mutants
showed similar level of growth recovery by Pho85 (panel
D1).

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Fig. 5.
Effect of a deletion of individual
Pho85-cyclin gene on the suppression by Cdk5 (pMF1086) or Pho85
(pMF1079) of the growth defect caused by overproduction of Pho4 (pMF869
or pMF1084; panel 1) or Clb2 (pMF922 or pMF1085;
panel 2). Each cell suspension was adjusted to
~5 × 107 cells/ml, and serial 10-fold dilutions
were spotted on SD or SGal medium supplemented with nutrients but
lacking uracil, leucine, and tryptophan. The relevant genotypes of
strains (MFY115, MFY164, MFY165, MFY175, MFY166, MFY167, and MFY168)
and a combination of plasmids introduced into each strain are as
indicated.
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In the case of the growth defect caused by Clb2 overproduction, Cdk5
showed very weak suppression in the pho85
pcl6 mutant, whereas, in the other double mutants, it
could suppress the defect as efficiently as in pho85
single mutant (panel C2), suggesting that Cdk5 may be highly
dependent on Pcl6 to counteract the overproduction effect of Clb2. This
is in clear contrast to the function of Pho85 where PCL6 was
dispensable (panel D2), whereas the other Pho85-cyclins tested might individually contribute to the Pho85 function to a certain
extent (panel D2). Overproduction of Cdk5 or Pho85 alone did
not affect the growth of strains tested (panels C3 and
D3). Taken together, these results suggest that the
suppression by Cdk5 of the growth defect caused by Pho4 or Clb2 was
dependent on a specific Pho85-cyclin.
In this paper we demonstrated that mouse Cdk5 kinase could suppress
some of pho85 mutant phenotypes. This limited function could stem from defective interaction with some Pho85-cyclins and/or
from failure to phosphorylate appropriate substrates to a sufficient
level. We could detect, by coimmunoprecipitation, an interaction of
Cdk5 with Pcl1, Pcl2, Pcl6, Pcl9, or Pho80 (Fig. 4B), but
Cdk5 function in vivo appeared to be dependent on specific Pho85-cyclins, as observed in the suppression of the growth defect caused by Pho4 or Clb2 overproduction (Fig. 5). Thus it is formally possible that Cdk5 fails to interact with specific cyclin(s) in vivo, resulting in failure to suppress certain pho85
mutant phenotypes. Alternatively, the affinity of Cdk5 for certain
Pho85-cyclins may not be strong enough to form a complex of full
activity, and/or complexes of Cdk5 and Pho85-cyclins may exhibit
altered or loosened substrate specificity compared with that exerted by
a combination of Pho85-cyclins and its native kinase. Either of these
could result in weak kinase activity unable to phosphorylate
appropriate substrates to a sufficient level. This idea can explain why
Cdk5 failed to suppress growth arrest of a cln1 cln2 pho85
mutant (Fig. 1). We previously demonstrated that Pcl1-Pho85 can
phosphorylate Sic1, targeting it to degradation, which is a major role
of Pho85 kinase in the absence of Cln1, 2-Cdc28 kinase activity for
cells to proceed through G1 (19). Although Cdk5 could
associate with Pcl1, it failed to phosphorylate Sic1 to a detectable
level (Fig. 4, A and B). This idea can also be
applied to the argument why Cdk5 that could phosphorylate Pho4 failed
to suppress constitutive expression of PHO5 (Fig. 1).
Phosphorylation of Pho4 regulates both its export from and import into
the nucleus (32, 33), and a recent report demonstrated that the
phosphorylation status affects the efficiency of translocation of the
transcription factor (34). We imagine that phosphorylation of Pho4 by
Cdk5 may decrease the level of the transcription factor in the nucleus
sufficient to inactivate transcription of genes responsible for the
growth arrest but not to the level enough to repress PHO5
expression. In other words, Pho4-responsive genes may have a different
threshold of the transcription factor in the nucleus.
Since the discovery that yeast Cdc28 kinase is a functional homologue
of mammalian Cdc2 and other Cdks functioning in the cell cycle, the
yeast system has been providing a convenient tool to study the
regulation mechanism of the cell cycle. In this paper, we demonstrated
that the mammalian Cdk family has another functional homologue of the
yeast Cdks. This discovery will lead to further understanding of the
function of Cdk5 and Pho85 kinases. The yeast system will provide a
tool to identify yet unknown factors that associate with p35-Cdk5 to
regulate events involved in neuronal developments. Conversely, Cdk5
kinase can be used to search for yeast proteins interacting with
cyclin-Pho85 complex to regulate cell-cycle progression and cell
morphology. These studies will provide more insights into regulatory
mechanisms of Cdks functioning in the events both related and
unrelated to the cell cycle.
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ACKNOWLEDGEMENTS |
We thank G. Patrick and H.-L. Tsai, for mouse
Cdk5 cDNA clone and Cdk5 monoclonal antibody, and M. Tanabe, for
technical assistance.
 |
FOOTNOTES |
*
This work was supported by grant-in-aids for scientific
research from Monbu-sho of Japan (to M. N., and A. T.) and by
Research Grants for Life Sciences and Medicine from the Keio University Medical Science Fund (to M. N.).The costs of publication of this article were defrayed in part by the
payment of page charges. The article
must therefore be hereby marked
"advertisement" in accordance with 18 U.S.C. Section
1734 solely to indicate this fact.
§
To whom correspondence should be addressed: Dept. of Microbiology,
Keio University School of Medicine, 35 Shinanomachi, Shinjuku, Tokyo
160-8582, Japan. Tel.: 81-3-3353-1211, ext. 62695; Fax: 81-3-5360-1508;
E-mail: mas@mc.med.keio.ac.jp.
2
Nishizawa, M., Suzuki, K., Fujino, M., Oguchi,
T., and Toh-e, A. (1999) Genes Cells, in press.
3
L.-H. Tsai, personal communication.
 |
ABBREVIATIONS |
The abbreviations used are:
Cdk, cyclin-dependent kinase;
GST, glutathione
S-transferase;
HA, hemagglutinin;
Ab, antibody.
 |
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