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Vol. 12, Issue 12, 3987-3999, December 2001


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*Department of Molecular Biophysics and Biochemistry, Yale
University School of Medicine, New Haven, Connecticut 06520-8114;
§Haartman Institute and Helsinki University Central
Hospital, SF-00014 Helsinki, Finland; and
Cellular
Biochemistry and Biophysics Program, Memorial Sloan-Kettering Cancer
Center, New York, New York 10021
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ABSTRACT |
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In normal cells, activation of cyclin-dependent kinases (cdks) requires binding to a cyclin and phosphorylation by the cdk-activating kinase (CAK). The Kaposi's sarcoma-associated herpesvirus encodes a protein with similarity to D-type cyclins. This KSHV-cyclin activates CDK6, alters its substrate specificity, and renders CDK6 insensitive to inhibition by the cdk inhibitor p16INK4a. Here we investigate the regulation of the CDK6/KSHV-cyclin kinase with the use of purified proteins and a cell-based assay. We find that KSHV-cyclin can activate CDK6 independent of phosphorylation by CAK in vitro. In addition, CAK phosphorylation decreased the p16INK4a sensitivity of CDK6/KSHV-cyclin complexes. In cells, expression of CDK6 or to a lesser degree of a nonphosphorylatable CDK6T177A together with KSHV-cyclin induced apoptosis, indicating that CDK6 activation by KSHV-cyclin can proceed in the absence of phosphorylation by CAK in vivo. Coexpression of p16 partially protected cells from cell death. p16 and KSHV-cyclin can form a ternary complex with CDK6 that can be detected by binding assays as well as by conformational changes in CDK6. The Kaposi's sarcoma-associated herpesvirus has adopted a clever strategy to render cell cycle progression independent of mitogenic signals, cdk inhibition, or phosphorylation by CAK.
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INTRODUCTION |
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The sequential activation of cyclin-dependent kinases (cdks)
promotes cell cycle transitions. CDK4 and CDK6 bind to D-type cyclins
and are active in G1, CDK2/cyclin E complexes function in late G1,
CDK2/cyclin A complexes function in S phase, and CDC2/cyclin B and A
complexes function in G2/M. The activities of cdks are regulated by
protein-protein interactions (with cyclins, inhibitors, and assembly
factors), protein degradation, transcriptional control, subcellular
localization, and multiple phosphorylations (Pines, 1995
; Sherr and
Roberts, 1995
; King et al., 1996
; Solomon and Kaldis, 1998
).
Viral infection frequently targets downstream targets of cdks,
resulting in inappropriate cell cycle progression.
Cyclin binding activates cdks by inducing conformational changes in the
structure of cdks (Jeffrey et al., 1995
; Pavletich, 1999
).
Cyclins are unstable proteins that are synthesized and degraded
periodically during the cell cycle. Transcriptional control (Koch and
Nasmyth, 1994
) and ubiquitin-mediated degradation (King et
al., 1996
) ensure the proper and irreversible timing of cell cycle
regulatory events. Cyclins have also been shown to affect the substrate
specificity of cdks (Peeper et al., 1993
; Kelly et
al., 1998
; Schulman et al., 1998
; Cross et
al., 1999
).
Maximal activation of cdks requires phosphorylation of certain residues
as well as dephosphorylation of others. The dual-specificity phosphatase CDC25 removes phosphates from inhibitory phosphorylation sites (Thr-14 and Tyr-15 in human CDK2) that have been phosphorylated by the WEE1/MYT1 protein kinases (Solomon and Kaldis, 1998
).
Phosphorylation of an activating threonine (Thr-160 in CDK2 and Thr-177
in CDK6) by the cdk-activating kinase (CAK; reviewed by Kaldis, 1999
)
is accompanied by structural changes in the T-loop (also called the activation segment), allowing the phosphate group to interact with
several other residues and thereby acting as an organizing center in
the catalytic cleft (Russo et al., 1996b
). Mutation of the
activating threonine to an unphosphorylatable amino acid prevents
activation of vertebrate cdks (Desai et al., 1992
; Solomon et al., 1992
; Connell-Crowley et al., 1993
; Kato
et al., 1994
; Matsuoka et al., 1994
) and
equivalent mutants are unable to support growth in yeast (Gould
et al., 1991
; Cismowski et al., 1995
).
Two very different CAKs have been identified. In species other than
budding yeast, CAK is composed of a catalytic subunit, CDK7 (Fesquet
et al., 1993
; Poon et al., 1993
; Solomon et
al., 1993
; Tassan et al., 1994
; also called MO15); a
regulatory subunit, cyclin H (Fisher and Morgan, 1994
;
Mäkelä et al., 1994
); and an assembly factor,
MAT1 (Devault et al., 1995
; Fisher et al., 1995
;
Tassan et al., 1995
). All three of these proteins have also been found to be subunits of the general transcription factor TFIIH
(Roy et al., 1994
; Serizawa et al., 1995
;
Shiekhattar et al., 1995
; Adamczewski et al.,
1996
), which phosphorylates the C-terminal domain (CTD) of the large
subunit of RNA polymerase II. CDK7 prefers to phosphorylate cdk/cyclin
complexes; monomeric cdks are poor substrates (Fisher and Morgan, 1994
;
Kaldis et al., 1998
). In contrast, the budding yeast CAK
consists of a single, distantly related protein kinase, Cak1p (Espinoza
et al., 1996
; Kaldis et al., 1996
; Thuret
et al., 1996
). Cak1p is an essential kinase that is
responsible for phosphorylation and activation of the yeast cdk Cdc28p
in vivo (Kaldis et al., 1996
; Thuret et al.,
1996
). Cak1p preferentially phosphorylates monomeric cdks; cyclin
binding to cdks decreases phosphorylation by Cak1p (Kaldis et
al., 1998
; Brown et al., 1999
). Furthermore, Cak1p
phosphorylates and activates several human cdks (Espinoza et
al., 1996
; Kaldis et al., 1996
, 1998
; Thuret et
al., 1996
).
Cdks can be inhibited by the binding of inhibitory proteins termed
CKIs. Two families of CKIs have been identified (reviewed by Sherr and
Roberts, 1995
, 1999
). Members of the Cip/Kip family inhibit all cdks
and include p21Cip1 (El-Deiry et al.,
1993
; Gu et al., 1993
; Harper et al., 1993
), p27Kip1 (Polyak et al., 1994
;
Toyoshima and Hunter, 1994
), and p57Kip2 (Lee
et al., 1995
; Matsuoka et al., 1995
). Members of
the INK4 family are specific for CDK4 and CDK6 and include
p15INK4b (Hannon and Beach, 1994
),
p16INK4a (Serrano et al., 1993
),
p18INK4c (Guan et al., 1994
; Hirai
et al., 1995
), and p19INK4d (Chan
et al., 1995
; Hirai et al., 1995
). All CKIs
prevent the activating phosphorylation of cdks by CDK7, either by
inducing a conformational change or by steric hindrance (Aprelikova
et al., 1995
; Kaldis et al., 1998
);
phosphorylation of cdks by Cak1p is not affected by CKIs (Kaldis
et al., 1998
).
The Kaposi's sarcoma-associated herpesvirus (KSHV or human herpesvirus
8; reviewed by Brooks et al., 1997
; Ganem, 1997
;
Boshoff and Weiss, 1998
; Moore and Chang, 1998
) encodes a functional
cyclin D homolog (Russo et al., 1996a
) termed v-cyclin or
KSHV-cyclin. Like the related v-cyclin from herpesvirus saimiri (Jung
et al., 1994
), the KSHV-cyclin can activate CDK6 (Jung
et al., 1994
; Chang et al., 1996
; Godden-Kent
et al., 1997
; Li et al., 1997
). CDK6/KSHV-cyclin complexes can phosphorylate the Retinoblastoma protein (Rb) and, unlike
CDK6/cyclin D complexes, can also phosphorylate histone H1 (Jung
et al., 1994
; Godden-Kent et al., 1997
; Li
et al., 1997
; Ellis et al., 1999
; Mann et
al., 1999
), p27 (Ellis et al., 1999
; Mann et
al., 1999
), Id-2 (Mann et al., 1999
), Orc1 (Laman
et al., 2001
), and CDC25A (Mann et al., 1999
).
CDK6/KSHV-cyclin complexes have been reported to be insensitive to
inhibition by p16 (Swanton et al., 1997
) and to be
insensitive (Swanton et al., 1997
) or less sensitive (Ellis
et al., 1999
) to inhibition by p27 in vitro. Ectopic
expression of KSHV-cyclin in mammalian cell lines overcomes p16-induced
cell cycle arrest (Swanton et al., 1997
) and induces phosphorylation and degradation of p27 (Ellis et al., 1999
;
Mann et al., 1999
). Therefore, KSHV-cyclin expression can
bypass normal growth regulatory mechanisms and induce S-phase (Laman
et al., 2001
) in infected cells (reviewed by Swanton
et al., 1999
). Transfection of cells with CDK6 and
KSHV-cyclin leads to a high level of cell death (Ojala et
al., 1999
). Recent results suggest that phosphorylation and
subsequent inactivation of Bcl-2 may be required for this apoptosis
(Ojala et al., 2000
). Recently the crystal structure of the
CDK6/KSHV-cyclin/p18INK4c complex has been solved
and demonstrates that the KSHV-cyclin binds almost exclusively to the
"PSTAIRE"-helix (Jeffrey et al., 2000
). In contrast,
cyclin A binds to CDK2 via the "PSTAIRE"-helix, the T-loop, and the
C-terminal lobe (Jeffrey et al., 1995
; Russo et
al., 1996b
).
Here we examine the regulation of the CDK6/KSHV-cyclin kinase in vitro using purified proteins as well as in a cell-based assay. We find that KSHV-cyclin can activate CDK6 in the absence of CAK phosphorylation and that the insensitivity of CDK6/KSHV-cyclin toward p16 is dependent on the phosphorylation status of CDK6. Both CDK6/KSHV-cyclin and to a lesser extent CDK6T177A/KSHV-cyclin complexes can induce apoptosis in vivo. These results indicate that KSHV-cyclin activates CDK6 in a different way than endogenous cyclin D.
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MATERIALS AND METHODS |
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Protein Expression and Purification
Wild-type human CDK2, GST-CDK6, CDK6/p16 complexes, and
CDK7/cyclin H (Russo, 1997
; Russo et al., 1998
), and
GST-Cak1p (Kaldis et al., 2000
) were expressed in
baculovirus-infected insect cells and purified. The following proteins
were expressed in bacteria and purified as described: cyclin
A173-432 (Russo, 1997
), human GST-CDK2, GST-CDK2T160A, GST-CDK6,
GST-CDK6T177A, p16,
GST-Rb605-928, and
His6-p27 (Kaldis et al., 1998
).
KSHV-cyclin was cloned into the NcoI (5') and
SalI (3') sites of pCool (a modified version of pGEX-2T
[Amersham Pharmacia Biotech, Piscataway, NJ] (N. Pavletich,
unpublished data) via polymerase chain reaction (PCR). The
GST-KSHV-cyclin fusion protein was expressed in Escherichia
coli and affinity purified by glutathione-agarose chromatography
in 25 mM Tris pH 7.5, 200 mM NaCl, and 5 mM dithiothreitol (DTT). Human
CDK6 was expressed in insect cells as described (Russo et
al., 1998
). CDK6/GST-KSHV-cyclin complexes were expressed and purified as described (Jeffrey et al., 2000
). For in vitro
transcription and translation, an NcoI-BamHI
fragment containing KSHV-cyclin was removed from pCool and cloned into
the
13Tb vector (Gautier et al., 1991
) to create PKB375.
KSHV-cyclin was transcribed and translated in vitro with the use of the
TNT-coupled reticulocyte lysate system (Promega, Madison, WI)
according to the manufacturer's instructions with 1 µCi of
[35S]methionine (PerkinElmer Life Sciences,
Boston, MA) per microliter of reaction volume.
A C-terminal PKA site was introduced into p16 by PCR using GST-p16
(Russo et al., 1998
) as a template and the following
oligonucleotides: 5'-GCC GTG ACG TCA GAA TTC ATG GAG CCT
TCG GCT GAC-3' and 5'-GCT AGG CAT GTC GGA TCC CTA AAC ACT
GGC CCG CCG ACT ACT GCC ATC GGG GAT GTC TGA-3'. The PCR product was
digested with EcoRI (5') and BamHI (3')
(underlined sequences in oligonucleotides) and ligated into pCool cut
with the same enzymes. The expression and purification of
p16PKA was identical to that of GST-KSHV-cyclin
(see above).
Antibodies and Reagents
Mouse monoclonal antibodies recognizing the Myc epitope (9E10) or HA epitope (12CA5) were from Babco (Berkeley, CA), whereas rabbit polyclonal antibodies against CDK6 (C-21), cyclin D1 (HD11), and p16 (H-156) were from Santa Cruz Biotechnology (Santa Cruz, CA). Hoechst 33342 was obtained from Sigma (St. Louis, MO).
Prephosphorylation of cdks
Prephosphorylation of cdks was performed essentially as
described (Kaldis et al., 1998
). Five microliters of CAK (19 ng of GST-Cak1p or 30 ng of CDK7/cyclin H complexes) was incubated for 30 min at room temperature with 5 µl of substrate mix containing 0.1 µg of GST-CDK6, CDK6/p16 complexes, or CDK2, 0.5 mM ATP, 5 mM
MgCl2, 50 µg/ml creatine kinase, and 35 mM
phosphocreatine in EB (80 mM
-glycerophosphate pH 7.3, 20 mM EGTA,
15 mM MgCl2, 10 mM DTT, 1 mg/ml ovalbumin, and
1× protease inhibitors [10 µg/ml each of leupeptin, chymostatin,
and pepstatin; Chemicon, Temecula, CA]).
Complex Formation
GST-CDK6 (0.1 µg) (with or without prephosphorylation on
Thr-177 by Cak1p), GST-CDK6T177A, CDK2 (with or
without prephosphorylation on Thr-160 by Cak1p), or
GST-CDK2T160A was incubated with 0.1 µg of
KSHV-cyclin (Figures 2 and 4) or with the indicated amounts of
KSHV-cyclin (Figures 1 and 3) in buffer A
(100 mM HEPES pH 7.5, 10 mM MgCl2, 1 mg/ml
ovalbumin, 10 mM DTT, 1× protease inhibitors [see above]; total
volume 10 µl). After incubation for 15 min at room temperature,
complexes were assayed for their activities as described below.
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Incubation with Inhibitors
Prephosphorylated cdk or unphosphorylated cdk (0.1 µg) bound
to 0.1 µg of cyclin was incubated for 30 min at room temperature with
the indicated amounts of p16 or His6-p27 (Figures
2 and 4) in buffer A (total volume 10 µl). Complexes were assayed for their activities as described below.
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Kinase Assays
Histone H1 Phosphorylation.
Ten microliters of each sample
was incubated with 1.5 µCi of [
-32P]ATP,
0.375 mM ATP, and 1.5 µg of histone H1 (Roche Molecular Biochemicals,
Indianapolis, IN) in EB (final volume 16 µl). After incubation for 15 min at room temperature, reactions were terminated by the addition of 7 µl of 5× SDS-PAGE sample buffer. After electrophoresis in 10%
polyacrylamide gels, phosphorylation was analyzed by autoradiography and quantified by phosphorimaging (Molecular Imager GS-250; Bio-Rad, Hercules, CA).
Rb Kinase Assay.
Activity was determined as described above
except that buffer A was used instead of EB. Ten microliters of each
sample was incubated with 1.5 µCi of
[
-32P]ATP, 0.375 mM ATP, and 5 µl of
GST-Rb605-928 (Kaldis et al., 1998
)
bound to glutathione-agarose beads in buffer A (final volume 16 µl).
After incubation for 15 min at room temperature, reactions were
terminated by the addition of 10 µl of 5× SDS-PAGE sample buffer.
Samples were processed as described above.
CTD Phosphorylation.
CTD kinase assays were performed
essentially as described (Cismowski et al., 1995
; Kaldis
et al., 1998
). Briefly, 10-µl samples were incubated in
the presence of 3 µCi of [
-32P]ATP, 0.375 µM ATP, and 4 µg of CTD peptide
[(YSPTSPS)4] in buffer A (see above). Reactions
were terminated after 15 min at room temperature by the addition of 7 µl of 5× SDS-PAGE sample buffer. Samples were processed as described above.
Phosphorylation of CDK6 by Cak1p and CDK7
CDK6 or CDK6/p16 complexes (0.1 µg) were incubated with the
indicated amounts of KSHV-cyclin or with 0.1 µg of KSHV-cyclin and
with the indicated amounts of p16 in buffer A (total volume 8 µl).
Five microliters of CAK (19 ng of GST-Cak1p or 30 ng CDK7/cyclin H
complexes) was incubated with the substrates in the presence of 5 µCi
of [
-32P]ATP, 10 µM ATP, and 20 mM
MgCl2 in buffer A (final volume 16 µl). The
reactions were terminated after 30 min at room temperature by the
addition of 7 µl of 5× SDS-PAGE sample buffer and analyzed as
described above for the CAK assay.
Binding of p16, KSHV-Cyclin, and CDK6
Binding of Radiolabeled p16 to CDK6/KSHV-Cyclin.
CDK6/GST-KSHV-cyclin complexes (0.1 µg) were prephosphorylated by
CDK7/cyclin H as described above for 150 min at room temperature. Five
micrograms of p16PKA was phosphorylated using 60 U of PKA (P-2645; Sigma) in the presence of 20 µCi of
[
-32P]ATP, 20 µM ATP, 200 mM
MgCl2, 25 mM Tris pH 7.5, 200 mM NaCl, and 1 mM
DTT (total volume 20 µl). After incubation for 150 min at room
temperature, 200 ng of PKI (P-0300; Sigma) was added. Radiolabeled
p16PKA (0.24 µg) was incubated with the
cyclin/cdk complexes for 60 min at room temperature, followed by the
addition of 150 µl of EB containing 0.5% NP-40 and 20 µl of
glutathione-agarose beads (Sigma). After rotating the slurry for 120 min at room temperature, beads were pelleted and washed three times
with 300 µl of EB containing 0.5% NP-40 followed by four washings in
EB. Beads were resuspended in 13 µl of 5× SDS-PAGE sample buffer and
run on 10% SDS-PAGE, followed by autoradiography and phosphorimaging.
Binding of Radiolabeled KSHV-Cyclin to CDK6.
Unphosphorylated GST-CDK6, phosphorylated GST-CDK6,
GST-CDK6T177A, unphosphorylated GST-CDK6/p16
complexes, or phosphorylated GST-CDK6/p16 complexes (0.2 µg) (see
above) were incubated with 5 µl of 35S-labeled
KSHV-cyclin, precipitated, run on SDS-PAGE gels, and analyzed by
phosphorimaging as has been described (Kaldis et al., 2000
).
Cell Culture and Transfections
U2OS human osteosarcoma cells were routinely cultured in a
humidified 5% CO2 atmosphere at 37°C in DMEM,
supplemented with 10% (wt/vol) fetal calf serum. Transient
transfection into U2OS cells was performed as previously described
(Ojala et al., 1999
). DNA precipitates were washed at
20 h and the cells were placed in fresh medium. Cells were
analyzed 28 h later.
Kinase Activities from Transfected Cells
Transfected U2OS cells were lysed into 1% NP-40 lysis buffer
(20 mM NaPO4 pH 7.4, 1% NP-40, 250 mM NaCl, 5 mM
EDTA, 5 mM DTT, 1 mM phenylmethylsulfonyl fluoride, 2 µg/ml
leupeptin, and 1.5 µg/ml aprotinin) supplemented with 25 mM
-glycerophosphate. For measurement of CDK6-associated activity in
vitro, the complexes were immunoprecipitated for 2 h at 4°C
using anti-hemagglutinin (HA) antibody. Immunocomplexes were bound to
protein A-Sepharose beads for an additional hour at 4°C and washed
four times with the lysis buffer followed by one wash with the kinase
buffer (20 mM Tris pH 7.5, 50 mM KCl, 7.5 mM
MgCl2, 1 mM DTT, 25 mM
-glycerophosphate, 1 mM
phenylmethylsulfonyl fluoride, 2 µg/ml leupeptin, and 1.5 µg/ml
aprotinin). Kinase reactions were performed in the presence of 2 µCi
of [
-32P]ATP for 15 min at 30°C using 5 µg of GST-Rb (prepared according to Matsushime et al.,
1994
) and 4 µg of histone H1 as substrates in kinase buffer.
Phosphorylated proteins were analyzed on 10% SDS-polyacrylamide gels
followed by autoradiography.
Indirect Immunofluorescence and Apoptosis Assay
Transfected U2OS cells on coverslips were fixed with 3.5%
(wt/vol) paraformaldehyde, permeabilized with 0.1% Triton X-100 for 5 min, and labeled as described previously (Ojala et al., 1999
). DNA was stained with Hoechst 33342 (0.5 µg/ml) for 5 min, and
the coverslips were mounted in 50% glycerol in phosphate-buffered saline on glass slides and viewed under a fluorescence microscope. Transfected cells were scored by expression of Myc-tagged KSHV-cyclin (detected with 9E10). Apoptotic and normal morphologies in transfected KSHV-cyclin-positive cells were scored and quantified from the Hoechst
morphology of nuclei, and the results were displayed as the percentage
of apoptotic or protected cells, respectively. At least 100 transfected
cells were scored for each sample and the results are based on three
independent experiments.
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RESULTS |
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CAK-independent Activation of CDK6 by KSHV-Cyclin
We studied the activation of recombinant purified CDK6 by
KSHV-cyclin toward Rb (Figure 1A), histone H1 (Figure 1B), and the CTD
of RNA polymerase II peptide (Figure 1C). CDK6 prephosphorylated on
Thr-177 (filled circles) by yeast Cak1p displayed good activity. (We
used Cak1p for these experiments because it can efficiently phosphorylate monomeric cdks, unlike CDK7 [Kaldis et al.,
1998
]; see below.) Surprisingly, even unphosphorylated CDK6 (open
circles) was activated toward all three substrates by KSHV-cyclin
(Figure 1). Activation of CDK6 by cellular D-type cyclins depends
absolutely on Thr-177 phosphorylation (Aprelikova et al.,
1995
; Iavarone and Massagué, 1997
; Kaldis et al.,
1998
; negative data not shown). Confirming these results, bacterially
expressed CDK6T177A (open squares) was also
activated by KSHV-cyclin toward Rb, histone H1, and the CTD peptide. We
have shown previously that CDK6T177A cannot be
phosphorylated by CAK and cannot be activated by D-type cyclins (Kaldis
et al., 1998
; negative data not shown). Quantification of
the results revealed that CDK6/KSHV-cyclin complexes used histone H1
more efficiently than the physiological CDK6 substrate Rb (Figure 1D).
The CTD peptide was a rather poor substrate. Interestingly, Rb was
equally well phosphorylated by all forms of CDK6 (phosphorylated CDK6,
unphosphorylated CDK6, and CDK6T177A) with
KSHV-cyclin (Figure 1A), whereas there were clear differences in the
phosphorylation of the other substrates by the different forms of CDK6.
For instance, the phosphorylated CDK6/KSHV-cyclin complex was a poor
kinase for both CTD and histone H1 (Figure 1, B and C).
Unphosphorylated CDK6/KSHV-cyclin, and to some extent the
CDK6T177A mutant, phosphorylated the CTD peptide
and histone H1 much better than did phosphorylated CDK6. These results
indicate that phosphorylation of the activating threonine (Thr-177)
influences substrate specificity, similar to what was reported for
CDK2/cyclin A (Kaldis et al., 2000
).
CDK6/KSHV-Cyclin Inhibition by p16
In preliminary experiments, we found that KSHV-cyclin was unable
to activate unphosphorylated CDK6/p16 complexes (our unpublished data), despite a previous report indicating that
CDK6/KSHV-cyclin complexes are insensitive to p16 (Swanton et
al., 1997
). We traced this discrepancy to whether CDK6 was
phosphorylated on Thr-177. This finding led us to investigate the
inhibition of CDK6/KSHV-cyclin by CKIs in more detail.
First, we verified that our purified CKIs were active. Both p16 and p27
inhibited the ability of CDK6/cyclin D1 complexes to phosphorylate Rb
(Figure 2A). The CDK6/cyclin D1 complexes used here were phosphorylated
on the activating threonine, which is essential for the activity of
these complexes (see DISCUSSION). We next incubated CDK6/KSHV-cyclin
complexes with increasing amounts of p16 or p27 and then assayed kinase
activity toward Rb, histone H1, and the CTD-peptide. Both p16 and p27
inhibited the activity of unphosphorylated CDK6/KSHV-cyclin complexes
toward all three substrates (Figure 2B). Because these results were
inconsistent with previous reports showing that CDK6/KSHV-cyclin
complexes could evade inhibition by p16 (Swanton et al.,
1997
), we repeated the experiment using CDK6/KSHV-cyclin complexes that
were prephosphorylated on Thr-177 of CDK6. Interestingly, p16 was
unable to inhibit these prephosphorylated CDK6/KSHV-cyclin complexes
(Figure 2C), whereas Thr-177 phosphorylation had no effect on
inhibition by p27 (Figure 2C). Nevertheless, high concentrations of p16
were still able to partially inhibit Thr-177 phosphorylated
CDK6/KSHV-cyclin complexes toward the CTD-peptide (Figure 2C, bottom,
lanes 2 and 3), which seems to be more sensitive than Rb and histone
H1. As expected, mutant CDK6T177A/KSHV-cyclin
complexes (in the absence or presence of Cak1p, which is unable to
phosphorylate CDK6T177A; Kaldis et
al., 1998
) remained sensitive to p16 and p27 (Figure 2D). Previous
reports have disagreed over whether p27 can inhibit CDK6/KSHV-cyclin
complexes (Godden-Kent et al., 1997
; Swanton et
al., 1997
; Ellis et al., 1999
; Mann et al.,
1999
). Thus, although some forms of CDK6/KSHV-cyclin can resist
inhibition by p16, all forms of CDK6/KSHV-cyclin appear to be sensitive
to p27 under the conditions used in our experiments.
Activation of CDK2 by KSHV-Cyclin
We next investigated the activation of CDK2 by KSHV-cyclin.
Although the KSHV-cyclin shares similarity with D-type cyclins and
activates CDK6 (a physiological partner of D-type cyclins), KSHV-cyclin
was also shown to bind and activate CDK2 (Mann et al., 1999
;
Laman et al., 2001
). The ability of KSHV-cyclin to activate
a G1-S cdk (CDK2) as well as a G1 cdk (CDK6) could have profound
implications for the mechanism of viral control of the cell cycle. We
found that KSHV-cyclin weakly activated Thr-160 phosphorylated CDK2
toward Rb and histone H1 (Figure 3A). The activity toward the CTD peptide was low compared with that of CDK2/cyclin A, which is a good CTD kinase (Figure
4A). In contrast, KSHV-cyclin failed to
activate the histone H1 kinase activity of unphosphorylated CDK2,
weakly activated its Rb kinase activity, and only activated its CTD
kinase activity at high KSHV-cyclin concentrations (Figure 3B).
KSHV-cyclin did not activate a CDK2T160A mutant
toward histone H1 and partially activated it toward Rb (Figure 3, A and
B), although CDK2T160A/KSHV-cyclin proved to be
the best CTD kinase (Figure 3C). The activation of CDK2 by KSHV-cyclin
increased much more gradually with increasing KSHV-cyclin concentration
and required higher concentrations of KSHV-cyclin than were needed to
activate CDK6.
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Inhibition of CDK2/KSHV-Cyclin by p16
We examined the sensitivity of CDK2/KSHV-cyclin complexes to
inhibition by p27 and p16. p16 is a specific inhibitor of CDK4 and CDK6
and normally cannot inhibit CDK2/cyclin complexes (Serrano et
al., 1993
). We confirmed this observation using CDK2/cyclin A
complexes that were phosphorylated on Thr-160 by Cak1p. As expected, p27 inhibited CDK2/cyclin A toward all substrates, whereas p16 had no
effect (Figure 4A). p27 also inhibited all CDK2/KSHV-cyclin complexes,
whether or not CDK2 was phosphorylated on Thr-160 (Figure 4, B and C).
However, although phosphorylated CDK2/KSHV-cyclin complexes were
largely resistant to inhibition by p16 (Figure 4B), the weak CTD kinase
activity of the unphosphorylated CDK2/KSHV-cyclin complexes was
completely inhibited (Figure 4C). We only used the CTD peptide as a
substrate in this experiment because neither histone H1 nor Rb was
significantly phosphorylated by this complex (Figure 3C). Furthermore,
mutant CDK2T160A/KSHV-cyclin complexes (that
cannot be phosphorylated by Cak1p) remained sensitive to p16 and p27,
as expected (Figure 4D). Thus, KSHV-cyclin can confer p16 sensitivity
on CDK2, which is normally insensitive to the INK4 family of CKIs.
Direct Binding of CDK6, KSHV-Cyclin, and p16
The above-mentioned experiments suggested that a trimeric
CDK6/KSHV-cyclin/p16 complex is formed. To test this possibility directly, we incubated p16 with CDK6 and GST-KSHV-cyclin, and recovered
GST-KSHV-cyclin and associated proteins via binding to
glutathione-agarose beads. Before binding, the p16 was radiolabeled by
phosphorylating an engineered C-terminal site with PKA. Only background
binding of p16 to GST-KSHV-cyclin was observed in the absence of CDK6
(Figure 5A, column 1). p16 associated
with GST-KSHV-cyclin in the presence of unphosphorylated CDK6 (Figure
5A, column 2), demonstrating ternary complex formation. Interestingly,
p16 displayed a significant but reduced binding for Thr-177
phosphorylated CDK6/KSHV-cyclin complexes in this experiment (Figure
5A, column 3).
|
In a second approach to assess the impact of p16 on the ability of
KSHV-cyclin to bind to CDK6 (Figure 5B), radiolabeled KSHV-cyclin was
incubated with various forms of CDK6 and the amount of KSHV-cyclin associated with CDK6 at different times was quantitated. We found that
KSHV-cyclin bound most efficiently to phosphorylated CDK6; binding was
reduced by ~50% to unphosphorylated CDK6 or to
CDK6T177A. Prebinding of p16 either to
phosphorylated or unphosphorylated CDK6 reduced binding of KSHV-cyclin
by 25-50%. Half-maximal binding occurred in 7-11 s and binding did
not increase appreciably at much longer incubation times. These
kinetics are similar to that obtained using cyclin A and CDK2 (Kaldis
et al., 2000
). The results in Figure 5, A and B, demonstrate
that heterotrimeric CDK6/KSHV-cyclin/p16 complexes are formed, but that
the relative binding is affected by the phosphorylation state of CDK6
and appears to be dependent on the order of complex formation.
Probing the Conformation of the T-loop by Phosphorylation by CAK
As an alternative way to detect the heterotrimeric complex, we
used yeast Cak1p and human CDK7/cyclin H as probes for T-loop conformations after binding of CDK6 to p16 and/or KSHV-cyclin. We
previously reported that Cak1p prefers to phosphorylate the activating
site on monomeric cdks and that binding of CKIs had little effect on
the phosphorylation of either monomeric or cyclin-bound cdks (Kaldis
et al., 1998
). In contrast, CDK7/cyclin H preferentially phosphorylates cdk/cyclin complexes and this phosphorylation is inhibited by binding of CKIs. We examined the phosphorylation of CDK6
by Cak1p and CDK7/cyclin H in the presence of increasing concentrations
of KSHV-cyclin (Figure 6, A and B). As
reported for CDK2 and cyclin A (Kaldis et al., 1998
), Cak1p
phosphorylated CDK6 very well in the absence of cyclin but
progressively less well as more KSHV-cyclin was present (Figure 6A,
top). When we used CDK7/cyclin H, phosphorylation of CDK6 was
stimulated by increasing amounts of KSHV-cyclin (Figure 6B, top).
|
Interestingly, KSHV-cyclin had no effect on the Cak1p phosphorylation of CDK6 in CDK6/p16 complexes (Figure 6A, bottom), indicating that p16 could maintain CDK6 in a conformation available for phosphorylation by Cak1p. The level of phosphorylation indicated that essentially all CDK6 molecules were bound to a p16 molecule. In contrast, KSHV-cyclin stimulated the phosphorylation of CDK6 in CDK6/p16 complexes by CDK7/cyclin H (Figure 6B, bottom). Thus, KSHV-cyclin maintains CDK6 in a conformation available for phosphorylation by CDK7/cyclin H even in the presence of p16, which usually inhibits phosphorylation by CDK7/cyclin H. The level of phosphorylation indicated that most of the CDK6 molecules were bound to KSHV-cyclin. Taken together, these results imply that most CDK6 molecules are in a CDK6/KSHV-cyclin/p16 complex.
Activity of CDK6/KSHV-Cyclin Complexes In Vivo
To test whether our findings applied in vivo, we transfected cells
with CDK6 or CDK6T177A, KSHV-cyclin or cyclin D1,
and p16 or vector. The complexes were immunoprecipitated via an HA-tag
on the CDK6 subunit and assayed for Rb kinase activity in vitro (Figure
7). Both CDK6/cyclin D1 and
CDK6/KSHV-cyclin complexes displayed strong activity toward Rb (lanes 2 and 6), whereas in the absence of cyclin no activity was observed (lane
1). Immunoblotting with an antibody against CDK6 showed
that similar amounts of CDK6 were present in each of the KSHV-cyclin
samples (Figure 7, bottom). Importantly, this blot also demonstrates
the modest level of CDK6-HA overexpression compared with endogenous
CDK6 in these experiments. In contrast, although
CDK6T177A-cyclin D1 complexes had no detectable
Rb kinase activity (lane 7),
CDK6T177A/KSHV-cyclin complexes retained
significant Rb kinase activity (compare lanes 2 and 3), indicating that
KSHV-cyclin could at least partially overcome the requirement for
activating phosphorylation in vivo. The activity of
CDK6T177A/KSHV-cyclin was higher than that of
CDK6/cyclin D. In addition, whereas the activity of CDK6/cyclin D1
complexes was completely inhibited by p16 (compare lanes 6 and 8), the
activity of CDK6/KSHV-cyclin complexes partially resisted the action of
p16 (compare lanes 2 and 4). This finding is consistent with the
existence of both phosphorylated and unphosphorylated subpopulations of
CDK6. In the presence of KSHV-cyclin, p16 could inhibit the
unphosphorylated subpopulation of CDK6, but not the phosphorylated
subpopulation of CDK6.
|
p16 Reduces Apoptosis Induced by CDK6/KSHV-Cyclin
To determine whether CAK-independent activation of CDK6 by
KSHV-cyclin plays a physiological role in vivo, we took advantage of a
previous observation indicating that expression of CDK6 together with
KSHV-cyclin results in high levels of apoptosis (Ojala et al., 1999
). This is a sensitive assay because 80% of the cells undergo cell death within 24 h of transfection. We tested the CDK6T177A mutant and the effect of p16 in this
system (Figure 8). Expression of
CDK6T177A with KSHV-cyclin led to cell death in
40% of the cells, whereas catalytically inactive
CDK6D163N had no effect (our unpublished
data; Ojala et al., 1999
). This indicates that
CDK6T177A displays biological activity when
expressed in cells. p16 expression in combination with CDK6 and
KSHV-cyclin reduced apoptosis roughly 50% (from 80 to 40%, indicating
that there are CDK6 molecules in these cells that can be inhibited by
p16; Figure 8, B-D), possibly because they are not phosphorylated on
Thr-177. This result correlates nicely with our findings in Figures 2
and 7.
|
| |
DISCUSSION |
|---|
|
|
|---|
In this study, we have investigated the activation of CDK6 by a cyclin encoded by the Kaposi's sarcoma-associated herpesvirus. In vitro, KSHV-cyclin could activate CDK6 in the absence of phosphorylation by CAK. However, unphosphorylated CDK6/KSHV-cyclin complexes were sensitive to p16INK4a, whereas CAK-phosphorylated CDK6/KSHV-cyclin complexes were not sensitive. Unlike D-type cyclins, KSHV-cyclin could also weakly activate CDK2, although this activation was CAK dependent. Furthermore, the residual activity of unphosphorylated CDK2/KSHV-cyclin complexes could be inhibited by p16. When expressed in cells, nonphosphorylatable CDK6T177A displayed kinase activity preferentially toward Rb (our unpublished data) and was able to induce apoptosis when coexpressed with KSHV-cyclin, although to a lesser extent than wild-type CDK6. p16 could suppress the ability of CDK6/KSHV-cyclin to induce cell death.
Activation of CDK6 by KSHV-cyclin is unconventional and very strong. So
far all cell cycle cdk/cyclin complexes examined have required
phosphorylation of the activating threonine within the T-loop by CAK
for full activity (Gould et al., 1991
; Desai et al., 1992
; Solomon et al., 1992
; Connell-Crowley
et al., 1993
; Fisher and Morgan, 1994
; Kato et
al., 1994
; Matsuoka et al., 1994
; Aprelikova et
al., 1995
; Kaldis et al., 1996
, 1998
). The only exception is CDK7 and its orthologs, where binding of the assembly factor MAT1 to the CDK7/cyclin H complex can substitute for activating phosphorylation (Fisher et al., 1995
; Kimmelman et
al., 1999
). Studies in yeast demonstrated that mutation of the
activating threonine of Cdc28p (in Saccharomyces cerevisiae)
or of Cdc2 (in Schizosaccharomyces pombe) rendered yeast
cells inviable (Gould et al., 1991
; Cismowski et
al., 1995
), demonstrating that the activating phosphorylation was
essential. How does activation of CDK6 by KSHV-cyclin, but not by
cellular D-type cyclins, bypass this requirement? One intriguing
possibility is that KSHV-cyclin binding induces a conformation in the
unphosphorylated T-loop of CDK6 that resembles that of the
phosphorylated T-loop of CDK2 (see below). In contrast to CDK6,
activation of CDK2 by KSHV-cyclin was mostly CAK dependent, weak, and
linearly correlated to the amount of KSHV-cyclin used.
Our conclusions would be weakened if some of the cdks that have been
purified from insect cells were partially phosphorylated on the
activating threonine by an endogenous insect cell kinase. We are
confident, however, that our insect cell-expressed monomeric cdks are
completely unphosphorylated because 1) mass spectroscopy analysis of
CDK2 (Jeffrey et al., 1995
) and CDK6 (Russo et
al., 1998
) used in this study showed only masses for the
unphosphorylated forms; 2) unphosphorylated CDK2/cyclin
A173-432 complexes displayed undetectable
activity toward histone H1 (Kaldis et al., 1998
); and 3)
mutant GST-CDK6T177A, which cannot be
phosphorylated by CAK (Kaldis et al., 1998
), was still
activated by the KSHV-cyclin (Figure 1).
Inhibition by CKIs
p16 belongs to the INK4 family of inhibitors that are specific for
CDK4 and CDK6 and are normally unable to inhibit CDK2 (Serrano et
al., 1993
). Ectopic expression of KSHV-cyclin overcomes p16 induced cell cycle arrest and CDK6/KSHV-cyclin complexes have been
reported to be resistant to p16 (Swanton et al., 1997
). Our experiments extend this understanding by showing that unphosphorylated CDK6/KSHV-cyclin complexes are inhibited by p16 (Figure 2C) but that
phosphorylation by CAK makes these complexes less sensitive to p16
(Figure 2B). Similar results have recently been reported for p18
(Jeffrey et al., 2000
). These findings suggest that CDK6 in
the immunoprecipitated CDK6/KSHV-cyclin complexes used by others (Swanton et al., 1997
) were already phosphorylated on
Thr-177. Nevertheless, when p16 is expressed in cells it is partially
able to inhibit CDK6/KHSV-cyclin activity (Figure 7) and to reduce CDK6/KSHV-cyclin-induced apoptosis (Figure 8). Furthermore, the affinity of p16 for CDK6 in such complexes was reduced upon activating phosphorylation of CDK6, a finding that has not previously been observed for CKI-cdk interactions. Such an effect was unexpected because p16 binds to CDK6 far from the T-loop (Brotherton et
al., 1998
; Russo et al., 1998
; Jeffrey et
al., 2000
).
In contrast to p16, p27 inhibited every cdk/cyclin complex we tested.
Godden-Kent et al. (1997)
also found that p27 inhibited CDK6/KSHV-cyclin complexes but others found that CDK6/KSHV-cyclin complexes were partially or completely resistant to p27 (Swanton et al., 1997
; Ellis et al., 1999
). We cannot
explain these contradictory findings, although it should be noted that
we used purified proteins throughout, whereas other studies used cell
extracts or immunoprecipitated proteins. Nevertheless, p27 inhibition
does not seem to play an important role in KSHV-infected cells because
KSHV-cyclin induces the phosphorylation and degradation of p27 (Ellis
et al., 1999
; Mann et al., 1999
), resulting in a
low level and short half-life of p27.
Structural Implications
Recently, the crystal structure of the squirrel monkey herpes
virus cyclin (Schulze-Gahmen et al., 1999
) and of the
unphosphorylated CDK6/KSHV-cyclin/p18INK4c
complex (Jeffrey et al., 2000
) have been solved.
Interestingly, the structure of the viral cyclin, despite considerable
sequence diversity, folds very similarly to cyclin A (Jeffrey et
al., 1995
, 2000
). The structure of CDK6/KSHV-cyclin is remarkable
because p18 binds to the identical domain as in monomeric CDK6 and
induces the same conformational changes (Brotherton et al.,
1998
; Russo et al., 1998
). Nevertheless, KSHV-cyclin binds
exclusively to the PSTAIRE helix of CDK6 without contacting the T-loop
or the C-terminal lobe (Jeffrey et al., 2000
). This is very
different from how cyclin A binds CDK2 via the PSTAIRE helix, the
T-loop, and the C-terminal lobe (Jeffrey et al., 1995
). The
question is whether this is an effect of p18 binding to CDK6 or a
general characteristic of the KSHV-cyclin. Despite binding only to the PSTAIRE helix, KSHV-cyclin binds strongly to CDK6 and fully activates it. The other remarkable aspect of the CDK6/KSHV-cyclin/p18 structure concerns the T-loop. The position of the T-loop is >30 Å away from
the active site in the CDK6/KSHV-cyclin/p18 and the CDK6/p16 structure
(Jeffrey et al., 2000
). Clearly, both the structures of
CDK6/p16 and CDK6/KSHV-cyclin/p18 are snapshots from inactive kinases
and further work will be needed to determine whether the phosphorylated
T-loop is closer to the active site (as in CDK2) or whether the
structure of CDK6 differs fundamentally from that of CDK2.
Our own data indicate that there is a delicate balance between
activating phosphorylation, p16 binding, and KSHV-cyclin binding. Depending on the combination of theses effects, CDK6 is active or not,
suggesting that the activating phosphorylation in this case is as
important as p16 or KSHV-cyclin. We think that p16 induces a
conformational change to the T-loop of CDK6 in the CDK6/KSHV-cyclin complex because it makes the T-loop available for phosphorylation by
Cak1p (Figure 6A, bottom). On the other hand, p16 does not prevent
CDK7/cyclin H from phosphorylating CDK6 in the CDK6/KSHV-cyclin complex
(Figure 6B, bottom), whereas in the CDK6/cyclin D/p16 complex it does
(Kaldis et al., 1998
). Taken together, these results suggest
that the T-loop in the CDK6/KSHV-cyclin/p16 complex might be much
closer to the active site in the active conformation than in the
unphosphorylated, inactive conformation (Jeffrey et al., 2000
).
Surprisingly, binding to KSHV-cyclin makes CDK2 susceptible to p16 inhibition (Figure 4). Because p16 appears to contact the cdk only, and not the cyclin subunit, this finding suggests that the reason CDK2 is normally insensitive to p16 lies in its tertiary structure, not its primary structure. KSHV-cyclin appears to alter the structure of CDK2 so that it resembles CDK6 and can interact with p16.
Viral Strategies to Run the Cell Cycle
DNA tumor viruses have a common goal: to hijack cells and run
their cell cycles independent of normal mitogenic signals. Only a few
viruses (including KSHV and herpesvirus saimiri) encode D-type cyclins
like the KSHV-cyclin. The otherwise closely related Epstein-Barr virus
does not encode a cyclin but induces the expression of the cellular
cyclin D2 (Sinclair et al., 1994
). Many DNA tumor viruses
instead inactivate Rb (Jansen-Dürr, 1996
), a downstream target of
cyclin D-associated kinases. The KSHV-cyclin is such a strong activator
of CDK6 (and to a lesser extent of CDK2) that there might be no need
for other cellular cyclin/cdk complexes to promote cell cycle
progression. The Kaposi's sarcoma-associated herpesvirus has adopted a
clever strategy to make cell cycle progression independent of mitogenic
signals, inhibition by CKIs, or phosphorylation by CAK.
There are still many unanswered questions regarding KSHV-cyclin function. What makes KSHV-cyclin such a potent activator of CDK6 compared with the cellular cyclins? Is the activation of CDK6 by KSHV-cyclin sufficient to promote full cell cycle progression? If we could inhibit KSHV-cyclin-mediated activation of CDK6, would that prevent HHV8 infection? Future studies will be needed to answer these important questions.
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ACKNOWLEDGMENTS |
|---|
We thank Nikola Pavletich and Alicia Russo for generous supply of reagents and exchange of results before publication. We also thank Adrienne Natrillo for technical support. For discussion, support, and comments on the manuscript, we thank Janet Burton, Aiyang Cheng, Daniel DiMaio, and Karen Ross. This work was supported by a long-term fellowship from the Swiss National Science Foundation (to P.K.) and by National Institutes of Health grant GM-47830 (to M.J.S.). M.J.S. was a Leukemia Society of America Scholar.
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FOOTNOTES |
|---|
Present addresses:
National Cancer Institute,
NCI-Frederick, Regulation of Cell Growth Laboratory, Bldg. 560/12-91A,
West 7th St., Frederick, MD 21702-1201;
¶Department of
Immunology, Schering-Plough Institute, Kenilworth, NJ 07033.
Corresponding authors. E-mail address:
Kaldis{at}ncifcrf.gov and Mark.Solomon{at}yale.edu.
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