Determination of Substrate Motifs for Human Chk1 and hCds1/Chk2
by the Oriented Peptide Library Approach*
Ted
O'Neill
,
Lauren
Giarratani
,
Ping
Chen§,
Lakshmanan
Iyer¶,
Chang-Hun
Lee
**,
Matthew
Bobiak
,
Fumihiko
Kanai§§,
Bin-Bing
Zhou
,
Jay H.
Chung
, and
Gary A.
Rathbun
¶¶
From the
Center for Blood Research, Department of
Pediatrics, Children's Hospital, Harvard Medical School, Boston,
Massachusetts 02115, § Agouron Pharmaceuticals, Inc.,
San Diego, California 92121, ¶ Research Computing Center, Harvard
Medical School, Boston, Massachusetts 02115,
Laboratory of
Biochemical Genetics, HLBI, National Institutes of Health,
Bethesda, Maryland 20892, the

Department of Oncology Research,
GlaxoSmithKline, King of Prussia, Pennsylavania 19406, and the
§§ Department of Medicine, Beth Israel Deaconess
Hospital, Harvard Medical School, Boston, Massachusetts 02115
Received for publication, December 7, 2001, and in revised form, January 24, 2002
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ABSTRACT |
Mammalian Chk1 and Chk2 are two Ser/Thr effector
kinases that play critical roles in DNA damage-activated cell cycle
checkpoint signaling pathways downstream of ataxia
telangiectasia-mutated and ataxia telangiectasia-related. Endogenous
substrates have been identified for human hCds1/Chk2 and Chk1; however,
the sequences surrounding the substrate residues appear unrelated, and
consensus substrate motifs for the two Ser/Thr kinases remain unknown.
We have utilized peptide library analyses to develop specific, highly preferred substrate motifs for hCds1/Chk2 and Chk1. The optimal motifs
are similar for both kinases and most closely resemble the previously
identified Chk1 and hCds1/Chk2 substrate target sequences in Cdc25C and
Cdc25A, the regulation of which plays an important role in S and
G2M arrest. Essential residues required for the
definition of the optimal motifs were also identified. Utilization of
the peptides to assay the substrate specificities and catalytic
activities of Chk1 and hCds1/Chk2 revealed substantial differences
between the two Ser/Thr kinases. Structural modeling analyses of the
peptides into the Chk1 catalytic cleft were consistent with Chk1 kinase
assays defining substrate suitability. The library-derived substrate
preferences were applied in a genome-wide search program, revealing
novel targets that might serve as substrates for hCds1/Chk2 or Chk1
kinase activity.
 |
INTRODUCTION |
In the presence of DNA damage or incomplete DNA replication,
eukaryotic cells activate cell cycle checkpoints that temporarily halt
the cell cycle to permit DNA repair or completion of DNA replication to
take place. In the presence of extensive damage or absence of timely
repair, these checkpoint signaling pathways may also trigger a pathway
that effects programmed cell death or apoptosis (reviewed in Refs. 1
and 2). DNA damage-activated cell cycle checkpoints are regulated in
part by the phosphoinositide kinase family of checkpoint components,
including the yeast Rad3 in Schizosaccharomyces pombe
(3-5), Mec1/Tel1 in Saccharomyces cerevisiae (6, 7),
mammalian ataxia telangiectasia-mutated (ATM)1 (8), ATM/Rad3-related
(ATR) (9), MEI-41 in Drosophila (10, 11), and X-ATM and
X-ATR in Xenopus (12). These checkpoint kinases
regulate the activities of two downstream effector serine/threonine kinases, Cds1 and Chk1, that are evolutionarily conserved. The Cds1
family includes conserved representatives from the yeasts (Cds1 in
fission yeast and Rad53 in budding yeast) to man (hCds1/Chk2, hereafter
termed Chk2) (13-21). This family of kinases is characterized by the
presence of an N-terminal SQ-TQ cluster, followed by a Forkhead-associated domain and a C-terminal kinase domain. The Chk1
kinase family (called grp in Drosophila) contains an
N-terminal kinase domain, C-terminal SQ cluster, and a TRF "domain"
(see Ref. 22 and reviewed in Ref. 23). ATM and ATR phosphorylation of
certain residues within the TQ or SQ sequences modulates mammalian Chk2
and Chk1 kinase activity, respectively (23).
Analyses utilizing the yeast systems have been critical in
understanding the roles of Chk1 and Chk2 in DNA damage responses. In
S. pombe, Chk1 is the effector of the G2M DNA
damage checkpoint pathway and is downstream of the Rad3 kinase (24),
whereas in S. cerevisiae, Chk1 is downstream of Mec1 (25).
One of the best defined and well characterized targets of Chk1 is
Cdc25C, the dual specificity tyrosine/threonine phosphatase that
dephosphorylates the mitotic inducer Cdc2 on Thr14 and
Tyr15, resulting in Cdc2 Ser/Thr kinase activity that
drives mitosis (23). Chk1 phosphorylation of Cdc25C promotes the
binding of a 14-3-3 protein, which sequesters Cdc25C in the cytoplasm
(26-30). Cds1 is the effector of the replication checkpoint pathway
and is required for cells to survive treatments that block replication, such as hydroxyurea (31, 32). Cds1 appears to arrest cells in
G2 by phosphorylating Cdc25C on amino acid residues also
targeted by Chk1 (29, 30). In the absence of Cds1, Chk1 can sometimes act to impose a checkpoint delay (26, 31, 33) indicating the existence
of a partial functional overlap between the two kinases. In addition to
inactivating Cdc25C, Cds1 is essential for transcriptional
up-regulation of Mik1, a tyrosine kinase that phosphorylates and
inhibits Cdc2 in replication checkpoint-arrested cells (31, 34).
The Chk1 and Chk2 Ser/Thr kinases also play important roles in cell
cycle checkpoint signaling pathways in higher organisms (20, 35). In
Xenopus and Drosophila, Chk1 functions not only in a checkpoint triggered by UV-damaged DNA but also in an S phase checkpoint triggered by a replication blockade (36-38).
Cds1/Rad53/Chk2 homologues, termed CeCds1, CeCds2, and Dmnk/Chk2,
respectively, have been identified in Caenorhabditis elegans
and Drosophila (20, 39, 40). In C. elegans,
CeCds1 and CeCds2 are required for meiotic recombination; loss of
Dmnk/Chk2 in Drosophila results in ionizing radiation
sensitivity, resistance to ionizing radiation-induced apoptosis, and
genetic instability (41).
Mammalian Chk2 is activated by ATM phosphorylation of Thr68
in response to DNA double strand breaks (42-44), and this
phosphorylation event is required for Chk2 activation loop
autophosphorylation necessary for Chk2 kinase activity (45). Vertebrate
Chk1 is activated by ATR-mediated phosphorylation of several Ser
residues in a C-terminal SQ cluster including Ser317 and
Ser345 (35, 36, 46). Targeted mutation Chk2 and Chk1 in
mice have demonstrated profound differences in cellular requirements
for the two effector kinases. Both Chk1
/
and Chk2
/
ES cells
exhibit defective G2/M DNA damage checkpoint function (35,
47, 48). However, Chk1 is an essential gene as targeted mutation
of Chk1 results in an early embryonic lethal phenotype (35, 48). Chk2 loss of function has not been characterized with regard to the effects
of germ line loss, rather only in the context of certain effects on ES
cells and partial effects on T cell development in a Rag1
/
blastocyst complementation analysis. In this context, Chk2 functional
loss is not ES cell or T cell lethal (47). Chk2
/
T cells fail to
stabilize p53 after ionizing radiation and appear resistant to
radiation-induced apoptosis (47). Loss of Chk1 function is ES cell
lethal, and during development, Chk1 null cells appear to die of
spontaneous apoptosis.
Chk2 phosphorylates Ser988 of Brca-1 (49) and
Ser20 of p53 (50, 51) in response to double strand DNA
breaks. Chk1 also phosphorylates Ser20 of p53 in
vitro (47, 50, 51). Phosphorylation of Brca-1 by Chk2 in response
to DNA damage is required for survival after DNA damage.
Phosphorylation of p53 Ser20 blocks the ability of Mdm2 to
complex with p53 and shunt the latter into a degradation pathway,
allowing the G1 checkpoint to be activated by p53 (52).
In vitro, Chk1 and Chk2 both phosphorylate Ser216 of Cdc25C. Chk2 also phosphorylates
Ser123 in Cdc25A after double-stranded DNA breaks in an
ATM-dependent manner resulting in a replication stage S
phase cell cycle checkpoint (53). Chk1 has been shown to phosphorylate
Cdc25A, Cdc25B, and Cdc25C in vitro (54).
Whereas the substrate motifs in Cdc25C and Cdc25A are similar,
the motifs of other endogenous substrates targeted by Chk2 and Chk1
appear unrelated (see Table I). Thus, the
two Ser/Thr kinases are considered "versatile" protein kinases with
a potentially wide range of acceptable substrate targets (51). We have
utilized an oriented, degenerate peptide library approach to determine clear, unambiguous substrate specificities for human Chk2 and Chk1.
Library-derived optimal peptides were compared with peptides representing the endogenous substrates in terms of Chk2 and Chk1 phosphorylation activities and utilized as probes to show both strong
similarities as well as striking differences between the two Ser/Thr
kinases. The substrate motifs established from peptide library analyses
were also used in a genome-wide search program in an attempt to
identify additional potential targets that might serve as novel
substrates for Chk2 or Chk1.
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Table I
Endogenous substrate targets of Chk2 and Chk1 lack a common motif
The Cdc25C and Cdc25A isotypes contain motifs that are similar to each
other but are dissimilar to Brca-1 and p53.
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EXPERIMENTAL PROCEDURES |
Mammalian C1 and Chk1 Recombinant Protein--
Full-length Chk1
was subcloned into baculovirus expression vector pFASTBAC with
glutathione S-transferase (GST) fused to N terminus of Chk1
via a linker containing a thrombin cleavage site. Spodoptera
frugiperda (Sf9) cells expressing GST-Chk1 were scaled up,
harvested, and then frozen until purification. To purify Chk1, a frozen
cell pellet was resuspended on ice in lysis buffer containing 50 mM Tris-HCl, pH 7.5, 250 mM NaCl, 1 mM DTT, 0.1% Brij, a protease inhibitor mixture (2 µg/ml
E64, 1 mM 4-(2-aminoethyl)benzenesulfonyl fluoride, and 1 µg/ml pepstatin A), and 1 mM sodium orthovanadate, homogenized with a Tekmar tissuemizer, and disrupted through
Microfluid fluidizer (M110-Y). The extracts were centrifuged at
100,000 × g for 30 min. The supernatant was added to
glutathione-Sepharose 4B (Amersham Biosciences AB) beads equilibrated
in wash buffer (20 mM Tris-HCl, pH 7.0, 10 mM
MgCl2, 100 mM NaCl, 1 mM DTT,
protease mixture) and rocked at 4 °C for 30 min. The suspension was
transferred into a column and allowed to pack; the wash buffer was then
applied extensively. The GST-Chk1 was eluted from the column with 10 mM glutathione in 50 mM Tris-HCl, pH 8.0, collected, and dialyzed into 25 mM HEPES, pH 7.5, 50 mM KCl, and 5 mM DTT. GST-Chk1 sample was
further purified by Superdex 200 (equilibrated with the dialysis buffer), at 4 °C, and more than 90% purity was estimated based on
SDS-PAGE and silver staining analysis (Silver Stain Plus; Bio-Rad).
Purification of Strep-tagged Chk2
(ST-Chk2)--
Recombinant human Chk2 was produced in baculovirus
using a MaxBac2.0 transfection kit (Invitrogen) as described previously (18). ST-Chk2 protein from the lysate was then purified using a
StrepTactin-Sepharose column (Genosys Biotechnologies, Inc.). Briefly,
the lysate (~15 ml) was applied to the column (1 ml) in buffer
containing 100 mM Tris-HCl, pH 8.0, 1 mM EDTA.
After washing the column five times with the same buffer,
Strep-tagged Cds1 was eluted with a buffer containing 2.5 mM desthiobiotin, 100 mM Tris-HCl, pH 8.0, 1 mM EDTA. Purity of the eluate was assessed by silver
staining using Silver Stain Plus (Bio-Rad).
Peptide Libraries--
Peptide libraries utilized in this
analysis to derive consensus substrate motifs for Cds1 and Chk1
were designated as follows: RXXS,
MAXXXXRXXSXXXXAKKK; SI,
MAXXXXXSIAKKK; SF, MAXXXXXSFXXXXAKKK; SQ, MAXXXXXXSQXXXXAKKK; SP,
MAXXXXSPXXXXAKKK; 4S4+ or 4S4
,
MAXXXXSAKKK; 4T4+ or 4T4
,
MAXXXXTXXXXAKKK; 4Y4+ or 4Y4
,
MAXXXXYXXXXAKKK. Degenerate positions in
the sequences are represented by X in which all amino
acids were represented with the exception of Cys; + or
indicates the presence or absence of Tyr, Ser, and Thr at the
degenerate positions. To assay peptide libraries with maximum degeneracy at non-fixed positions, and thus provide the truest preference values, we analyzed libraries that included Ser, Thr, and
Tyr and compared the results to those with only the fixed target
residue for phosphorylation by Chk1 and Chk2. We saw no striking
differences between the two sets of libraries with fixed central Ser or
Thr (see for example, Fig. 1B, and data not shown). Inclusion of Ser and Thr in the fixed Tyr library enhanced the phosphorylation of the 4Y4 library by Chk1 and Chk2 (data not shown)
indicating preferences for aromatic hydrophobic residues N- or
C-terminal to phosphorylated Ser or Thr.
Chk2 and Chk1 Kinase Assays--
The reaction buffer for Chk2
consisted of a final concentration of 10 mM HEPES, pH 7.5, 75 mM KCl, 10 mM MgCl2 0.5 mM EDTA, 1.25 mM DTT, 100 µM cold
ATP, 10 µCi of [
-32P]ATP, 100 ng of recombinant
human Chk2 in a 30-µl total reaction volume at 30 °C. Small scale
peptide library analyses were conducted utilizing 100 µg of each
library. To assay Chk1 phosphorylation activity, the reaction buffer
utilized consisted of 20 mM HEPES, pH 7.5, 50 mM KCl,10 mM MgCl2, 0.1 mM EGTA, 100 µM cold ATP, 10 µCi of
[
-32P]ATP, 50-100 ng of Chk1 in a total volume of 30 µl at 30 °C. To monitor peptide phosphorylation by Chk2 or Chk1, 2 µl of the reaction mix was transferred to an Eppendorf tube
containing an equal volume of 30% acetic acid to halt the reaction,
and 2.5-3.0 µl were spotted onto to P-81 phosphocellulose paper
squares and allowed to air dry. These samples were washed three times
in 1% o-phosphoric acid (5 min per wash), placed in
scintillation vials, and counted. Peptide phosphorylation experiments
including kinetic assays and relative velocities of Chk2 and Chk1 were
reproduced multiple times at several concentrations.
Large Scale Peptide Library Analyses--
Large scale analyses
to determine preferred substrate motifs for Chk2 and Chk1 were
performed using the RXXS, SF, SI, and SQ peptide libraries.
Large scale peptide library assays were scaled up 10-fold and repeated
at least twice for each library using the methods described previously
(55, 56). Approximately 1% of each library was phosphorylated in the
appropriate reaction conditions in the presence of 300 µM
ATP and 0.33 µCi of [
-32P]ATP; the kinase reaction
was terminated by the addition of acetic acid, and the reaction was
desalted and partially purified using a 1 ml of DEAE-Sephacel (Sigma)
column. Radiolabeled fractions were pooled, lyophilized, reconstituted
in distilled H2O, and applied to a ferric chelation
nitrilotriacetic acid-agarose column as described previously (56, 57).
Eluted phosphopeptides were pooled, lyophilized, reconstituted in
distilled H2O, and sequenced. To determine amino acid
preferences at each position in the sequenced peptides, each cycle was
first internally normalized for all amino acids present at that cycle
using a program designed to analyze relative amino acid abundance at
each cycle (56).
 |
RESULTS |
Mammalian Chk1 and Chk2 Preferentially Phosphorylate the RXXS Fixed
Degenerate Peptide Library--
To establish whether Chk1 and Chk2
exhibit preferences for distinct substrate motifs, we assayed
phosphorylation of several different fixed, degenerate peptide
libraries by the two Ser/Thr kinases. We included the most degenerate
libraries fixed at only a central Ser, Thr, or Tyr (i.e.
4S4, 4T4 and 4Y4, respectively) as part of an unbiased survey of Chk1
and Chk2 target phosphorylation preferences. Fig.
1A shows that Chk2 prefers the
RXXS peptide library that contains a fixed Arg at the
3-position (N-terminal) relative to the fixed Ser targeted by Chk2
kinase activity (Fig. 1A). Ser appears more highly selected
than Thr as a target for phosphorylation by Chk2 in the context of the
peptide libraries. A second tier of strongly selected libraries is that
with hydrophobic residues (Phe and Ile) fixed at the +1-position
(C-terminal) relative to Ser, as well as a degenerate library with a
central SQ sequence (Fig. 1A). A library with Pro at +1
relative to Ser was not significantly phosphorylated by Chk2 (Fig.
1A).

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Fig. 1.
Phosphorylation of several fixed, degenerate
peptide libraries reveal similarities and differences in library
substrate preferences of Chk2 (A) and Chk1
(B). Peptide library compositions are listed
under "Experimental Procedures." Depicted are representative
experiments of small scale analyses in which 100 µg of each library
was added to a Chk2 or Chk1 kinase reaction in the presence of
radioisotope and assayed for phosphorylation at the indicated time
points. Both Chk2 and Chk1 prefer the Ser and RXXS libraries
but differ in their comparative phosphorylation of other peptide
libraries.
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Chk1 Exhibits Similarities and Significant Differences to Chk2
Regarding Peptide Library Preferences--
Consistent with Chk2, Chk1
also selected the RXXS library but diverged from Chk2 in
that the SI peptide library appeared equivalently phosphorylated
compared with the RXXS library (Fig. 1B). The SF peptide library is also highly preferred; therefore, similar to Chk2,
Chk1 also selects a hydrophobic residue at the +1-position. The SQ
library (Fig. 1B) is modestly selected by Chk1; similar to
Chk2, the SP library is less preferred and Chk1 also appeared to prefer
Ser over Thr as the residue targeted for phosphorylation. Our results
indicate that the
3- and +1-positions relative to a Ser targeted for
phosphorylation appear to constitute a minimum selected motif for both
Chk1 and Chk2.
Fig. 2, A and B,
shows that the kinase-inactive (KI) versions of Chk2 and Chk1 failed to
phosphorylate the RXXS peptide library, indicating that
phosphorylation was carried out by the catalytic site of Chk1 and Chk2
and not that of an associated enzyme. Chk2 KI continued to express an
apparent low level autophosphorylation activity (data not shown). There
was no detectable Ser/Thr autophosphorylation of Chk1 KI.

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Fig. 2.
Lack of KI Chk2 K249R (A)
and Chk1 D130A (B) phosphorylation activity for
preferred peptide libraries indicates specificity of catalytic activity
by kinase-active (KA) versions of the two Ser/Thr
kinases.
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Selection of a Distinct Core Substrate Motif by Chk2--
The
results shown in Fig. 1, A and B, indicated that
we could utilize data from several unrelated peptide libraries in large scale analyses to develop optimal substrate motifs for Chk2 and Chk1.
We assayed the most highly selected RXXS library to
determine whether there was a strong selection for residues at
positions in addition to the fixed Arg at position
3 as well as to
confirm the predilection for hydrophobic residues at the C-terminal
+1-position adjacent to Ser. To verify the strong preference of Chk1
and Chk2 for Arg or a basic residue at position
3, we employed
peptide libraries fixed at the +1-position but degenerate at
3. For
these latter analyses we assayed the SI, SF, and SQ libraries. An amino acid was considered strongly selected or preferred at a given cycle if its normalized value was greater than 1.00 (base line) (shown
in Tables II and
III).
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Table II
Selected amino acids at positions N- and C-terminal to the
phosphorylated serine in degenerate peptide libraries that were
quantitatively phosphorylated by Chk2
The phosphorylated peptides were isolated, pooled and batch-sequenced
by Edman degradation. Preference values were determined as described
(55). A value of 1.00 is considered a normalized
base-line value. Residues exhibiting the highest preference values are
shown. Xaa indicates no strong amino acid preference at a given cycle.
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Table III
Chk1 substrate preferences
The phosphorylated peptides were isolated, pooled and batch sequenced
by Edman degradation. Preference values were determined as described
(55). A value of 1.00 is considered a normalized
base-line value. Residues exhibiting the highest preference values are
shown. Xaa indicates no strong amino acid preference at a given cycle.
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Results derived from large scale peptide library analyses for Chk2
established consistently strong preferences at the
7-,
5-,
3-,
and +1-positions relative to the phosphorylated serine. At position
7, both hydrophobic and basic residues (Phe, Met, and Arg) were
highly selected indicating a predisposition for charged residues with
bulky side chains at that position. All four peptide libraries showed a
strong selection for hydrophobic aliphatic residues, in particular, Leu
and Ile, at the
5-position. A strong preference for arginine at
position
3 was clearly evident in the SI, SF, and SQ libraries (Table
II) thus confirming initial peptide library screening.
An examination of the amino acid preferences C-terminal to the fixed
Ser in the RXXS library reveals a strong selection for hydrophobic amino acids, particularly Phe and Ile at the +1-position when +1 was degenerate (Table II and data not shown). These preferences are consistent with the high level of phosphorylation observed in small
scale SF and SI peptide library assays (Fig. 1A). The preferences observed at the +3- and +4-position are characterized by
bulky amino acids (Table II). With the exception of the +1-position, the N-terminal positions appeared to demonstrate the strongest predisposition for consistent selection of a given residue. We conclude
that the minimal consensus substrate of Chk2 as defined by the peptide
library analyses consists of
7(Arg/Phe)
6(Arg/hydrophobic)
5(Leu/Ile)
4(Lys/Arg)
3(Arg)
2(Xaa)
1(Xaa) Ser
+1(Phe/Ile) +2(Phe/Ile/Arg).
Definition of a Consensus Substrate Motif for Chk1--
Chk1
substrate motif preferences exhibited strong similarities to those of
Chk2 as well clear differences (Table III). Similar to Chk2, a basic
amino acid is strongly selected at the
3-position, with Arg
demonstrating the highest preference values. Aliphatic hydrophobic
amino acids, with Leu predominating, are highly preferred by Chk1 at
position
5 as was the case for Chk2. We also found a preference for
Arg at position
5 in addition to selection for hydrophobic residues
at this site when the
3-position is fixed for Arg. Leucine and
arginine appeared at
7 also consistent preferences at this position
by Chk2. Analysis of the RXXS library revealed that optimal
preferences for Chk1 at position +1 are hydrophobic residues (Phe and
Met; Table III). Similar to Chk2, the +2-, +3-, and +4-positions were
unremarkable for specific preferences. Taken together, the simplest
consensus substrate for Chk1 is
7(Leu/Arg)
6(Xaa)
5(Leu/hydrophobic/Arg)
4(basic/Val)
3(Arg/Lys)
2(Tyr/Xaa)
1(Xaa) Ser +1(Phe/Met/hydrophobic).
Phosphorylation of Optimal Peptide Substrates and Peptides
Representing Endogenous Targets by Chk1 and Chk2--
Based upon the
results of amino acid substrate preferences summarized in Tables II and
III, we generated predicted optimal peptide substrates (Table
IV) for Chk1 and Chk2, designated
Chk1-tide and Chk2-tide, respectively. Fig.
3A shows that the Chk-tides and Cdc25C are highly suited as substrates for Chk1 catalytic activity
followed by modest phosphorylation of Brca-1. As substrates for Chk2
kinase activity, only the Chk-tides were optimal substrates. The Brca-1
and Cdc25C peptides were much less suited as substrates for Chk2 (Fig.
3B).
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Table IV
Peptide substrates
Peptides represent specific endogenous substrate targets
(Cdc25CSer216, Brca-1Ser988, and p53Ser20) of Chk2
and Chk1, consensus optimal peptides (termed Chk2-tide and Chk1-tide,
respectively) derived from large scale library analyses, and the
Chk2-tide peptide with positions L( 5)A or R( 3) substitutions.
Single letter codes are used to represent amino acids. Lysines at the
C-terminal ends of several peptides were added to ensure solubility.
Composition of the Chk2-tide and Chk1-tide peptides was obtained from
two sources. 1) The strongest preferences (e.g. positions
5, 3, and +1) were acquired from analysis of several peptide
libraries (see Tables II and III). 2) For positions within the
Chk1-tide and Chk2-tide peptides that exhibited only mild or modest
preferences in the peptide libraries analyses, selection of a residue
at a given position depended upon relative abundance of the amino acid
as demonstrated by its increase from the previous cycle (data not
shown).
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Fig. 3.
Chk2 and Chk1 differentially phosphorylate
specific peptide substrates. Shown are representative
phosphorylation assays of 50 µM peptide substrate by Chk2
(A) or 25 µM peptide substrate by Chk1
(B). p53 S20* indicates synthetic
phospho-Ser15 version of the p53Ser20 peptide (see Table
IV).
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Ser20 in p53 has been identified as a substrate target of
Chk2 and Chk1. However, we found that the p53Ser20 peptide, which contains the amino acid sequence surrounding Ser20 in p53,
was not phosphorylated by either Chk kinase (Table IV; Fig. 3,
A and B). Because Ser15 within the
Leu-Ser15-Gln-Glu motif within p53 has been
identified as a target for ATM kinase activity (56, 58, 59), we asked
whether a phospho-Ser15 version of the p53Ser20 peptide
might serve to prime the C-terminal Ser20 site for
subsequent Chk2/Chk1 phosphorylation (see Table IV). We found that
presenting either kinase with the phospho-Ser15 p53Ser20
peptide resulted in no increase in phosphorylation of the peptide by
either Chk2 or Chk1 (Fig. 3, A and B).
Because the
5- and
3-positions were highly selected as key residues
in substrate preferences for Chk1 and Chk2 (Tables II and III), these
sites were mutated to alanine in the Chk2-tide peptide to assess their
importance in the definition of an optimal substrate. Fig.
4, A and B, shows
that the L(
5)A and R(
3)A substitutions substantially diminished the
suitability of the Chk2-tide peptide as a substrate target for both
Ser/Thr kinases. The
3-position appeared the most critical of the two
positions because the presence of Ala at this position abrogated the
ability of Chk2-tide to act as a substrate for the two kinases. In
contrast to Chk2, the
5-position is significantly more important as a
key residue in the Chk2-tide sequence for Chk1 as substitution of Ala
for Leu at this position drastically reduced the ability of the L(
5)A peptide to serve as a substrate for Chk1 (Fig. 4B). As
little or no phosphorylation of the R(
3)A and p53Ser20 peptides was observed, the two were not included in subsequent analyses.

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Fig. 4.
Representative experiment showing that
alanine substitutions at the highly selected 5- and 3-positions
vary in their effects on Chk2-tide peptide substrate suitability for
Chk2 (A) and Chk1 (B).
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Analysis of Chk2 and Chk1 Catalytic Activities in Terms of Peptide
Substrates--
Although there were substantial similarities in the
requirements for a minimal optimal core substrate motif for Chk2 and
Chk1 (Table IV; also see above), a more detailed comparison of Chk2 and
Chk1 catalytic activities revealed striking differences between the two
Ser/Thr kinases (Table V). Peptide
substrate Km values determined for Chk2 were
relatively high, suggesting that Km appears to play
a much less important role in the overall definition of peptide
substrate suitability. As was the case in previous studies of peptide
substrates for basophilic kinases (i.e. kinases preferring
substrates with a basic residue at position
3) such as AKT and
several of the PKC isotypes (60), the
Vmax/Km ratios appeared to
reflect the most informative values regarding peptide substrate
suitability for Chk2. The
Vmax/Km values of Chk2-tide
and Chk1-tide indicated that the library-generated peptides were
equivalent as the two most highly suited substrates for Chk2 kinase
activity. The L(
5)A substitution resulted in a markedly poorer
substrate as indicated by the 4.6-fold reduction in
Vmax/Km value compared with
"wild type" Chk2-tide (Table V). The peptide representing mammalian
Cdc25C Ser216 exhibited the lowest
Vmax and
Vmax/Km values; this peptide showed a 16-fold loss when compared with Chk2-tide. Surprisingly, Vmax/Km ratios indicated that
the Brca-1 peptide, with Pro at position
3, was ~3-fold better
suited than Cdc25C as a substrate for Chk2. However,
Vmax/Km values of Brca-1 indicated that this peptide was 5-6-fold less suitable compared with
the library-derived peptides, probably because of the presence of Pro
instead of Arg at the critical
3-position. In the context of the
Chk2-tide substrate, Ala substituted for Arg at
3 appears to be a
more severe substitution for both Chk2 and Chk1 as it effectively
abolishes the ability of this peptide to serve as a substrate target.
These results suggest that the Chk2-tide sequence, in contrast to that
of the Brca-1 peptide, lacks the capability to compensate for the
R(
3)A substitution.
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Table V
Vmax, Km, and Vmax/Km values of
Chk2-tide, Chk1-tide, and peptides representing endogenous substrates
Chk2 and Chk1 Vmax and Km values
of peptides represent peptide library-derived and endogenous
substrates. Each peptide was assayed multiple times at several
different concentrations. For Chk2, these concentrations ranged from 10 µM to 2 mM; for Chk1, concentrations ranging
from 10 to 600 µM were assayed.
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Chk1 exhibits significant differences to Chk2 in that the
Km values for the peptides are low and generally
more reflective of the differences in peptide substrate suitability
(Table V). We found that distinct from Chk2 in which Chk2-tide and
Chk1-tide demonstrate comparable
Vmax/Km values, the Chk1-tide peptide is 3-fold better suited as a substrate for Chk1. A major difference is that the Cdc25C peptide is much better suited as a
substrate for Chk1 than Brca-1, as reflected in the equivalent Vmax/Km values for the Cdc25C
and Chk2-tide peptide substrates for Chk1 (Table V). Similar to Chk2,
the Brca-1 peptide is a better substrate for Chk1 than the
L(
5)A-substituted peptide. Our results indicate that for both Chk
kinases, the
5-position and
3-positions together played critical
roles as a driving force in optimal substrate selection from the
degenerate peptide libraries. We found that consistent with previous
studies (55, 61), peptides with high
Vmax/Km ratios are selected
from the peptide libraries by both Chk1 and Chk2.
For all tested peptides except one, Chk2 demonstrated higher relative
velocities than Chk1 in terms of ATP turnover (Table VI) ranging from ~3.0- to 8.0-fold
greater activity, depending on the peptide. The one interesting
exception to the overall greater catalytic activity of Chk2
versus Chk1 occurred when the Cdc25C peptide was analyzed,
providing further support for the better suitability of this sequence
for Chk1. Together, the data suggest that although Chk2 and Chk1 select
extremely similar consensus substrate motifs, the two Ser/Thr kinases
vary substantially in both single peptide preferences as well in terms
of catalytic activity.
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Table VI
Comparative relative velocities of Chk2 and Chk1 phosphorylation
activity
Comparative relative velocities of Chk2 and Chk1 catalytic activities
using library-derived and endogenous substrate peptides (25 µM) are shown.
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Distinct from Chk2 but similar to the AKT peptide library analyses
(61), Chk1, in addition to a selection for aliphatic hydrophobic amino
acids at the
5-position, also demonstrated a preference for Arg at
this position in the RXXS library (Table III). At position
7, Chk1 and Chk2 selected Leu, Phe, Met, and Arg. The potential motif
of Arg-Xxx-Arg-Xxx-Arg-Xxx-Xxx-Ser
(hydrophobic) as a substrate for Chk1 leaves open the intriguing
possibility for AKT, PKC
, and Chk1 to target shared downstream
substrates and potentially convergent signaling pathways.
Interestingly, a comparison of Chk1 and Chk2 phosphorylation of AKTide,
the peptide sequence identified as an optimal substrate for AKT kinase
activity (61), shows a striking specificity of this peptide to serve as
a substrate for Chk1 versus minimal AKTide phosphorylation by Chk2 (Fig. 5). We are currently
investigating whether a potential AKT-Chk1 link exists in
vivo. AKTide joins the Cdc25C peptide and Chk1-tide as substrates
that clearly distinguish Chk1 and Chk2 kinase activities.
Utilization of the Peptide Library-derived Substrate Motifs for
Chk2 and Chk1 to Identify Novel Targets in Data Base Searches--
The
data in Tables II and III for Chk2 and Chk1 was used to develop
preference matrices that were then applied to the SCANSITE genomic
search program (62) to identify potential novel substrates of Chk2 and
Chk1. Multiple possible substrates were selected in the data base
searches for mouse, human (Table
VII), and the yeasts (Table VIII). Some of the substrate
targets appearing to have a role in regulation of developmental
processes, DNA expression, or DNA repair are listed. Potential targets
are organized from the highest match percentiles (i.e.
candidate molecules containing sequences that theoretically best
matched the peptide library-derived motifs) to the lowest, ranging from
0.002% for Cdc25C to 0.089% for Rad51 for Chk1 (Table VII). For Chk2,
values ranged from 0.014% for the DMR-N9 protein and 0.067% for
DCAMKL1 to less highly matched possible substrates (0.154% for Rag1).
For Chk1, the Rag1 preference value was 0.054%, which is theoretically
a better match.
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Table VII
SCANSITE genomic search using peptide library-selected substrate motifs
for Chk1 and Chk2
Potential substrates for Chk2 and Chk1 in mammalian genome-wide data
base searches utilizing the SCANSITE search program described
previously (62). Shown are selected candidates listed
in descending order of theoretically the best percentile matches (0.001 to 0.154%). The Chk1 and Chk2 search matrices were generated through
the combined results shown in Tables II and III and as described in
Table IV. The position of the possible substrate Ser or Thr within the
sequence is indicated numerically.
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Table VIII
SCANSITE search of potential substrates of Chk1 and Cds1/Rad53 in S. cerevisiae and S. pombe
Potential substrates for Chk2 and Chk1 in yeast genome-wide data base
searches utilizing the SCANSITE search program described previously
(62). Shown are selected candidates listed in
descending order of theoretically the best percentile matches (0.001 to
0.154%). The Chk1 and Chk2 search matrices were generated through the
combined results shown in Tables II and III and as described in Table
IV. The position of the possible substrate Ser or Thr within the
sequence is indicated numerically. S.C., S. cerevisiae;
S.P., S. pombe.
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The highest match percentile for Chk1 was Cdc25C at Ser216
(0.002%) and Ser309 (0.020%) in Cdc25B. For Chk2, only
Ser309 in Cdc25B was selected in the search analysis, and
the match percentile for this sequence indicated that it was modest
compared with other more highly selected Chk2 targets (data not shown). Lack of a strong match for Cdc25C Ser216 in the SCANSITE
data base analysis is in keeping with our experimental results showing
that the Cdc25C peptide is a much stronger target substrate for Chk1
than Chk2. Noteworthy, however, is the recent finding that targeted
mutation of Cdc25C creating a functionally null gene resulted in no
abnormalities in mice indicating that the other Cdc25 members are
apparently able to substitute for the roles occupied by Cdc25C (63).
Cdc25A at Ser123 has been recently identified as a
downstream target of ATM and Chk2 in a replication checkpoint pathway
(53). The preference values generated in the SCANSITE search indicate
that Cdc25A is a better substrate for Chk2 than Chk1 (data not shown).
 |
DISCUSSION |
The oriented peptide library approach has been utilized to derive
consensus substrate motifs for Chk1 and Chk2, two Ser/Thr effector
kinases that play critical but different downstream roles in DNA
damage-activated cell cycle checkpoint signaling pathways. Because
several independent peptide libraries, each containing over
108 independent potential substrate targets, were analyzed
for each kinase, we conclude that the substrate motifs selected in
these analyses, which are similar for both, are compelling. For both Chk2 and Chk1, we observed striking preferences for certain amino acids
at the
7-,
5-,
3-, and +1-positions relative to the
phosphorylated Ser. The peptide substrate motif selected by both
Ser/Thr kinases most strongly resembles the sequences containing
Ser216 in mammalian Cdc25C, Ser309 in Cdc25B,
and Ser123 in Cdc25A. The peptide library-derived motifs
versus previously identified endogenous substrates and the
differences in the catalytic activities of the two kinases raise
interesting questions in terms of Chk1 and Chk2 regulation and function
(discussed in more detail below). The selected substrate motifs define
Chk2 and Chk1 as additional members within a growing list of basophilic
Ser/Thr kinases important in various stress-related responses,
including C-TAK1, the protein kinase C (PKC) family of isoenzymes,
mammalian AMP-activated protein kinase, SNF1,
calcium/calmodulin-dependent kinase, phosphorylase kinase,
and AKT (protein kinase B). All have in common a strong preference for
basic residues at the
3-position, particularly arginine, and
hydrophobic residues at the +1-position relative to the phosphorylated
Ser (60, 61, 64-66).
Chk1 and Chk2 are similar to PKC
I and II, and PKCµ (60) in
exhibiting a strong selection for Leu at
5. Substitution of Ala for
Leu at position
5 resulted in a moderate loss of the ability of the
optimal Chk2-tide peptide to serve as a substrate for Chk2 and a much
more severe impact with regard to Chk1, reflecting a difference between
Chk1 and Chk2. The impairment of substrate suitability resulting from
the L(
5)A substitution is supported by the high preference values for
aliphatic hydrophobic residues observed in the peptide library analyses
for both Ser/Thr kinases. Modeling analysis of a linear Cdc25C peptide
into the Chk1 catalytic pocket indicates a strong potential for an
important anchoring function served by hydrophobic residues at
positions
5 and +1 (67) which extend toward the hydrophobic pockets
H1 and H3, respectively (see Fig.
6A). The Cdc25C and peptide
library-derived Chk1-tide and Chk2-tide peptides contain the
appropriate residues at these crucial positions (Fig. 6,
A-C). Fig. 6E shows that Ala at position
5 in
the Chk2-tide peptide clearly appears insufficient as an anchor
substitute for the H1 pocket.

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Fig. 6.
Peptides are modeled into the
catalytic cleft of the Chk1 kinase domain molecular surface using
INSIGHT II (65). Peptides substrates are as follows: Cdc25C
(A), Chk1-tide (B), Chk2-tide (C),
Brca-1 (D), and the L( 5)A/R( 3)A peptide (representing a
Chk2-tide peptide containing Ala substitutions at both the 5- and
3-positions) (E). The peptides, represented from the 5-
to the +3-positions, are shown as stick models with non-polar, acidic,
and basic side chains represented in violet, red, and
blue, respectively. Atom type in the peptides are denoted by
red, oxygen; green, carbon; blue,
nitrogen; and yellow, sulfur. The peptides were docked into
the Chk1 catalytic cleft based upon the structure of the ternary
complex of PHK , AMP-PNP, and the MC-peptide substrate (67, 90, 91).
Using this template as a model, Arg 3 of the substrate may
play a critical role in its interaction with Glu91
(depicted in green) of Chk1 by providing stabilization of
the nearby ribose sugar of adenine, resulting in alignment of the
-phosphoryl for catalytic transfer (67, 91). The catalytic
Asp130 is indicated in orange. Surface
hydrophobic pockets are indicated as follows (64): H1
(Phe93, Ile96, and Pro98),
dark blue; H2 (Leu206, Thr170,
and Pro172), red; and H3 (Leu171,
Val174, Leu1178, Leu179, and
Met167), yellow. Leu206
(magenta) is shared between H1 and H2. H1 and H3 are
predicted as important regions that anchor substrate positions 5 and
+1. Residues Ile 4 and Phe 2 in the Brca-1
peptide may provide a critical additional anchor by fitting into the H2
cluster.
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|
We were surprised to find that the Brca-1 peptide appears 3-fold better
suited than Cdc25C as a substrate for Chk2 because it lacked the
critical basic residue at position
3. In our analyses, the
3-position is least forgiving in terms of a substitution in the
context of the Chk2-tide peptide; the R(
3)A mutation effectively abolished the ability of the peptide to serve as a substrate for either
Chk kinase. Crystallographic analysis of the Chk1 kinase domain
suggests that Arg
3 in a Cdc25C substrate peptide is the
only residue that can interact directly with Glu91 within
the glycine-rich stretch of the N-terminal loop of the Chk1 kinase
domain (67). Substitution of Ala at position
3 in the otherwise
highly suitable Chk2-tide sequence results in loss of the essential
role of the
3-position and a profound loss of the ability of the
peptide to serve as a substrate for either Chk1 and Chk2 (Fig.
6D, Fig. 4, A and B).
At position
3 in the Brca-1 peptide, Pro appears better tolerated by
both Chk1 and Chk2 suggesting that this residue may be a less severe
replacement. However, although Brca-1 lacks Arg at position
3, it
contains the strongly preferred Leu and Phe anchors at positions
5
and +1, respectively (Table IV and Fig. 6D). The
7-position in the Brca-1 sequence is also a Pro residue, consistent
with peptide library preferences of Chk1 and Chk2 for a basic or an
aliphatic hydrophobic residue at this position. Additionally, when the
Brca-1 peptide was docked into the Chk1 catalytic pocket, we noted that
Ile and Phe at positions
4 and
2, respectively, may provide an
important added anchoring capacity in terms of the H2 cluster of
hydrophobic residues represented by Thr170,
Pro172, and Leu206 (Fig. 6D). This
extra anchor may provide sufficient added stability of the Brca-1
peptide to enable it to serve as a modest substrate. Notably, however,
both Chk-tides and the Cdc25C peptide, all with Arg at position
3,
fare significantly better as substrates than the Brca-1 peptide for
Chk-1.
It is puzzling, however, that in the context of Chk2 catalytic
activity, the Brca-1 peptide, with Pro at
3, serves as a better substrate than Cdc25C, the sequence of which appears to fulfill all the
necessary requirements for a good substrate. Our results suggest that
within the context of Chk2-tide, there is another position within a
substrate sequence important for optimal Chk2 phosphorylation activity.
One possible candidate is Glu at the +3-position in Cdc25C which may
not be an ideal amino acid at this position for Chk2 kinase activity.
In this regard, Chk2 may differ from Chk1 (the latter of which lacks an
activation loop Thr motif) and resemble cAMP-dependent
protein kinase, PKC, Cdc2, and CK1 in a strong preference for a
hydrophobic or basic residue at the +3-position in a substrate (see
Tables II-IV) (60, 66). Notably, the two Chk-tides, both optimal
substrates for Chk2, both contain an aliphatic hydrophobic amino acid
at the +3-position, and the Brca-1 peptide contains a lysine at this
position. The +3-position may be important for substrate stabilization
within the Chk2 catalytic cleft through interaction with
phosphothreonine in the Chk2 activation loop (60, 66, 68).
Alternatively, the ability of Cdc25C to serve as a highly preferred
substrate for Chk2 phosphorylation may require modulation of Chk2
kinase activity by as yet undefined interacting components. Another
possibility may be a required stabilization or structural modification
of a seemingly optimal Cdc25C substrate sequence within the catalytic cleft of Chk2 that occurs in the context of the entire Cdc25C protein structure.
Critical residues for human Chk1 substrate specificity were mapped
using a Xenopus Cdc25C Ser287 template peptide
(the sequence of which is highly conserved with human Cdc25C
Ser216 sequence) to derive a "minimal" core Cdc25C
peptide substrate sequence (65, 69, 70). In this study, aliphatic
hydrophobic residues were preferred at the
5-position, whereas
arginine and lysine were selected at position
3. Mutation of these
positions to Ala substantially diminished the substrate suitability of
the peptides for Chk1 kinase activity (70). These results are very similar to our findings using the peptide libraries and our analysis of
the Leu
5 and Arg
3 positions in Chk2-tide.
Interestingly, substrate efficiency of the Xenopus minimal
Cdc25C peptide was diminished but not abrogated following an M(+1)A
substitution (70). Our results showing that the SQ peptide library
provided a modest substrate may likewise indicate that the requirement
for a hydrophobic residue at +1 is not absolute (Fig. 2B and
Table III). We conclude that in terms of relative importance for Chk1
and Chk2 substrate preferences, positions
3 >
5
+1.
The peptide library-derived substrate motifs and peptide modeling
analyses provide rationales for Chk1 and Chk2 phosphorylation of the
endogenous substrates Cdc25C, Cdc25A (and Cdc25B), and Brca-1. Our
study fails to support phosphorylation of p53 Ser20 by
either Ser/Thr kinase. The disparity in our results versus other studies (50, 51) may be due to our utilization of peptide substrates incapable of forming higher order structures that result in
the dimerization or tetramerization of p53. Such a configuration is
apparently required to generate an adequate target substrate motif of
the Ser20 sequence in p53 for Chk2 and Chk1 (50, 51)
coupled with a potential intrinsic versatility in the ability of the
two effector kinases to phosphorylate a broad range of substrates (51).
This wide ranging capacity was not immediately obvious in our analyses of Chk1 and Chk2 kinase activity although some modest flexibility was
clearly evident as shown by phosphorylation of the Brca-1 peptide and SQ peptide library phosphorylation.
It is uncertain from our study how the structure of p53 at
Ser20 might be altered through oligomerization such that it
develops a functional substrate for Chk2 and Chk1. Thus, other
explanations for apparent Chk2- or Chk1-dependent p53
Ser20 phosphorylation may also be relevant. For example,
Chk2 and Chk1 may function upstream to activate a yet unidentified
Ser/Thr kinase that specifically targets and phosphorylates
Ser20 in p53. S. pombe Chk1 has been identified
in a complex with several other components (71, 72), and
Xenopus Chk1 has been isolated in association with a
component termed Claspin (73). It is conceivable that a given complex
containing either Chk kinase might serve to alter substrate specificity
and enhance the capability of Chk1 or Chk2 to target a motif that is
normally much less than ideal. These and other complexes may also
participate in regulating localization of Chk1 and Chk2, thus altering
accessibility of two highly active Ser/Thr kinases and promoting an
extended association with a less ideal substrate or dissociation from a
substrate containing a more optimal motif.
Although the substrate motifs selected by Chk1 and Chk2 appear similar,
a recent study determined that the anti-cancer agent UCN-01 blocked
Chk1 activity resulting in loss of Cdc25C phosphorylation yet left the
Chk2 pathway intact (74). This observation is consistent with our
results showing that the single exception in which Chk1 catalytic
activity is more robust than Chk2 involved phosphorylation of the
Cdc25C peptide (Tables V and VI). Together, these results underscore
the potentially essential positioning of the Cdc25 phosphatase family
downstream of Chk1 kinase activity in replication phase or
G2M checkpoint activation.
The Li Fraumeni syndrome in humans, which presents with tumor
development previously attributed to p53 functional loss, has in
certain cases been recently assigned to a Chk2 haploinsufficiency (75).
To date there are no reports of lymphoid cell tumor development in
Rag1-complemented Chk2
/
mice nor have there been studies yet
published that characterize germ line functional loss of Chk2 in mice.
Chk1, an essential gene for embryonic stem cells and critical
for early embryonic viability (35, 48), may be able to partially
compensate for loss of Chk2 in the context of T cell development and
maintain differentiated cell viability on the basis of common
recognition of overlapping substrate motifs. However, that tumor
progression in humans occurs as a result of a Chk2 loss or diminishment
of function indicates that not all roles of Chk2 can be rescued by Chk1.
The potential targets for mammalian Chk2 and Chk1 listed in Table VII
consist of several potentially relevant proteins in the checkpoint
response, including transcription factors, DNA repair molecules, and in
one case, a V(D)J recombinase component. Phosphatases and kinases
generally appearing to be important in development were also selected.
There are intriguing possibilities among these potential substrates.
For example, NEK2, a NIMA-related Ser/Thr kinase, may play an important
role in G2M transition in mitosis and may participate in
meiosis as well. A second interesting Ser/Thr kinase selected from the
Chk2 data base search is DCAMKL1 which contains homology to
Doublecortin and is thought to play a role in neuronal migration
and nervous system maturation (76). A third appealing candidate is
PCTAIRE-1, a member of an enigmatic family of Cdc2-like Ser/Thr kinases
consisting of two other related family members, which in some studies
have been shown to interact with 14-3-3 proteins upon phosphorylation
(77-80). PCTAIRE-1 is highly expressed in brain, and of particular
interest are reports (81-83) of PCTAIRE-1 expression in terminally
differentiated neuronal cells including Purkinje cells in rodents.
A striking and mysterious feature of ATM functional loss in humans is
the ataxic phenotype arising from a neurodegenerative process involving
not only Purkinje cell loss but also ectopic placement of these cells.
Granular and basket cell loss has also been described in
patients with ataxia telangiectasia (84). These cells may
accumulate unrepaired DNA damage in the absence of ATM during a
proliferative developmental phase, the consequences of which are only
evident in a subsequent post-mitotic phase (85). The possibility of
DCAMKL1 and PCTAIRE as potential downstream substrate targets of human
Chk2 (or Chk1) again raises the simple question whether the
neurodegenerative effects that result from loss of a phosphoinositide
kinase family member primarily remarkable for its DNA damage-activated
checkpoint function are also indirect. Substantial cytoplasmic ATM and
Chk2 have been observed in neuronal cells (86-89). Loss of ATM kinase
activity may at least in part be responsible for lack of appropriate
activation of critical downstream effector kinase(s) whose primary role
in nervous system development is not necessarily only related to a DNA
damage-activated cell cycle checkpoint function.
A high degree of conservation exists between yeast and mammalian DNA
damage-induced cell cycle checkpoint signaling pathways (23). In both,
an ATM-related phosphoinositide kinase activates a homologous
downstream effector kinase which then phosphorylates a conserved site
in both yeast and mammalian Cdc25 homologues. In S. pombe,
Cd25, Ser99 within the sequence
Arg-Thr-Leu-Phe-Arg-Ser-Leu-Ser99-Cys-Thr-Val-Glu-Thr-Pro
is specifically targeted for in vitro phosphorylation by
both Cds1 and Chk1 (30); this sequence was among the top four
percentile matches when the mammalian Chk1 and Ch2 substrate motifs
were tested against fission yeast Cdc25 (data not shown). Therefore, we
also probed yeast data bank sequences with the motifs determined for
human Chk1 and Chk2. As was the case in the mammalian search, high
match percentile matches in S. cerevisiae and S. pombe belonged to interacting factors with DNA and DNA repair
components important in replication and meiosis (Table VIII).
Collectively, therefore, the results underscore the evolutionary
conservation and importance of the Chk1 and Chk2 substrate target
motif:
5(hydrophobic/basic)
4(Xaa/basic)
3(Arg/basic)
2(Xaa)
1(Xaa) Ser/Thr +1(hydrophobic), as a critical module for
communication in multiple stress response signaling cascades related to
the basophilic family of Ser/Thr kinases.
 |
ACKNOWLEDGEMENTS |
We are grateful to Dr. Lewis C. Cantley for
critically reading the manuscript, thoughtful discussions, and
assistance with the SCANSITE data base search program. We also thank
Dr. Anna Russell for insights. We thank Patrick Lazorchak for assistance.
 |
FOOTNOTES |
*
The costs of publication of this
article were defrayed in part by the
payment of page charges. The article
must therefore be hereby marked
"advertisement" in
accordance with 18 U.S.C. Section
1734 solely to indicate this fact.
**
Present address: Dept. of Pathology, Yomsei University, College of
Medicine, Seoul 120-752, Korea.
¶¶
Supported by National Institutes of Health Grant
GM57018. To whom correspondence should be addressed: Center for Blood
Research, Dept. of Pediatrics, Children's Hospital, 200 Longwood Ave.,
Warren Alpert Bldg., Rm. 135, Harvard Medical School, Boston, MA 02115. Tel.: 617-278-3226, Fax: 617-278-3131; E-mail:
grathbun@cbr.med.harvard.edu.
Published, JBC Papers in Press, January 30, 2002, DOI 10.1074/jbc.M111705200
 |
ABBREVIATIONS |
The abbreviations used are:
ATM, ataxia
telangiectasia-mutated;
ATR, ataxia telangiectasia-related;
GST, glutathione S-transferase;
DTT, dithiothreitol;
KI, kinase-inactive;
PKC, protein kinase C;
ES, embryonic stem;
AMP-PNP, adenosine 5'-(
,
-imino)triphosphate.
 |
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