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Molecular Biology, Pathobiology and Genetics |
1 Laboratory of Molecular Gerontology, National Institute on Aging, NIH, Baltimore, Maryland; 2 Laboratory of Human Carcinogenesis, National Cancer Institute, NIH, Bethesda, Maryland; and 3 Montefiore Medical Center, Department of Radiation Oncology, and Albert Einstein Cancer Center, Bronx, New York
Requests for reprints: Robert M. Brosh, Jr., Laboratory of Molecular Gerontology, National Institute on Aging, NIH, 5600 Nathan Shock Drive, Baltimore, MD 21224. Phone: 410-558-8578; Fax: 410-558-8157; E-mail: BroshR{at}grc.nia.nih.gov.
| Abstract |
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-irradiation that introduces DNA strand breaks. Analysis of the protein interactions among purified recombinant WRN, RPA, and p53 proteins indicate that all three protein pairs bind with similar affinity in the low nanomolar range. In vitro studies show that p53 inhibits RPA-stimulated WRN helicase activity on an 849-bp M13 partial duplex substrate. p53 also inhibited WRN unwinding of a short (19-bp) forked duplex substrate in the absence of RPA. WRN unwinding of the forked duplex substrate was specific, because helicase inhibition mediated by p53 was retained in the presence of excess competitor DNA and was significantly reduced or absent in helicase reactions catalyzed by a WRN helicase domain fragment lacking the p53 binding site or the human RECQ1 DNA helicase, respectively. p53 effectively inhibited WRN helicase activity on model DNA substrate intermediates of replication/repair, a 5' ssDNA flap structure and a synthetic replication fork. Regulation of WRN helicase activity by p53 is likely to play an important role in genomic integrity surveillance, a vital function in the prevention of tumor progression.
Key Words: Werner syndrome helicase p53 RPA genomic stability
| Introduction |
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The tumor suppressor gene p53 plays a critical role in the DNA damage response pathway to activate checkpoint control in mammalian cells. Loss of p53 function results in genomic instability, a key feature of carcinogenesis (reviewed in refs. 911). Key components of checkpoint control mediated by p53 include arrest of cell cycle progression, inhibition of DNA replication, and activation of DNA repair. A DNA damage signaling pathway leads to elevated p53, which up-regulates transcription of several genes, including the cyclin-dependent kinase inhibitor p21 (12, 13) . In addition to growth arrest, p53 mediates damage-induced apoptosis in certain cell types (14). Induction of apoptosis by p53 is thought to be important for the removal of cells from the population that are unable to repair the damage.
Several recent findings suggest that p53 and WRN proteins function together to maintain genomic stability: (a) p53-mediated apoptosis is attenuated in Werner syndrome cells (15); (b) overexpression of WRN results in enhanced p53-dependent transcriptional activity (16); (c) Sp1-mediated transcription of the WRN gene is modulated by p53 (17); and (d) WRN/ knockout mice display accelerated mortality in a p53-null background (18). In support of a molecular interaction between WRN and p53, a physical interaction between the proteins has been reported (15, 16). Further work has shown p53 can modulate WRN exonuclease activity (19) and Holliday junction unwinding (20).
Recently, several physical and functional interactions between helicase domain-containing proteins and p53 have been discovered. p53 binds to the human transcription factor IIH subunits XPB and XPD and inhibits their helicase activities (21, 22). p53 also interacts with BLM (23, 24), the Cockayne syndrome group B protein (22), and SV40 large T antigen (25, 26). p53 is also able to inhibit the helicase activity catalyzed by the large T antigen (27, 28) as well as its replication function (29). In addition to helicases, p53 physically and functionally interacts with the ssDNA binding protein replication protein A (RPA; refs. 30, 31). p53 inhibits ssDNA binding by RPA and blocks SV40 viral replication via its interaction with RPA (30).
Our recent work showed that RPA physically interacts with WRN (32), BLM (33), and RECQ1 (34) helicases and stimulates their respective helicase activities. A specific interaction between human RecQ helicases and RPA is further supported by the absolute requirement for RPA in the WRN-, BLM-, or RECQ1-catalyzed unwinding of long DNA duplexes (3234). Because RPA has been shown to have roles in DNA replication, recombination, and repair, human RecQ helicases are likely to function with the ssDNA binding protein during one or more of these processes.
The p53-RPA, RPA-WRN, and p53-WRN connections suggest that the phenotypes of cancer and genomic instability in Werner syndrome may possibly involve p53 modulation of WRN catalytic functions affected by RPA. To investigate this possibility, we have directly examined the effect of p53 on WRN helicase activity in the presence or absence of RPA. Our results show that p53 can modulate RPA-dependent WRN helicase activity on a long 849-bp DNA substrate. On forked DNA structures with a short (19-bp) duplex region, p53 directly inhibited WRN helicase activity in a specific manner. Regulation of DNA unwinding activity by p53 is relevant to the important roles of RecQ helicases in the maintenance of genome stability.
| Materials and Methods |
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Coimmunoprecipitation Experiments. MRC-5 and AG111395 cells (1 x 107) were collected by low-speed centrifugation, washed in cold PBS, and lysed in whole cell lysis buffer [50 mmol/L Tris-HCl (pH 7.4), 150 mmol/L NaCl, 5 mmol/L EDTA, 1% NP40, 2 mmol/L Na3VO4, 10 mmol/L NaF] containing protease inhibitors (Roche, Indianapolis, IN). For coimmunoprecipitation experiments, whole cell lysate (1 mg protein) was incubated with either rabbit polyclonal anti-WRN antibody (H-300, 1:40 dilution, Santa Cruz Biotechnology, Santa Cruz, CA) or normal rabbit IgG (Santa Cruz Biotechnology) either in the presence or in the absence of ethidium bromide (10 µg/mL) for 4 to 6 hours at 4°C. The mixture was subsequently tumbled with 40 µL protein G agarose (Roche) at 4°C overnight. Beads were washed thrice with the whole cell lysis buffer supplemented with 0.1% Tween 20. Protein complexes were eluted by boiling in SDS sample buffer and resolved on 10% polyacrylamide Tris-glycine SDS gels followed by transfer to polyvinylidene difluoride membranes (Amersham Biosciences, Piscataway, NJ). The membranes were blocked with 5% nonfat dry milk in PBS containing 0.1% Tween 20 and probed for WRN, RPA, and p53 using antibodies against WRN (mouse monoclonal at 1:250, BD Transduction, San Diego, CA), 70- and 32-kDa subunits of RPA (Ab-1 and Ab-3 at 1:20, Oncogene Research, San Diego, CA), and p53 (Ab-6 at 1:1,000, Oncogene Research), respectively, followed by horse anti-mouse IgG conjugated to horseradish peroxidase (Amersham Biosciences). Proteins on immunoblot were detected using Enhanced Chemiluminescence Plus (Amersham Biosciences).
Proteins. Baculovirus constructs for recombinant hexa-histidine-tagged, full-length wild-type or exonuclease-defective WRN protein (WRN-E84A, designated X-WRN) were kindly provided by Dr. Matthew Gray (University of Washington, Seattle, WA) and Dr. Judith Campisi (Lawrence Berkeley National Laboratory, Berkeley, CA), respectively. Amplified baculovirus was used to infect Sf9 insect cells for WRN protein overexpression, and WRN was purified to apparent homogeneity as described elsewhere (35). Recombinant glutathione S-transferase-WRN500-946 fusion protein was overexpressed in Escherichia coli and purified using glutathione beads (Amersham Biosciences) as described previously (35). Recombinant human RECQ1 helicase was overexpressed in insect cells using a baculovirus encoding recombinant RECQ1 kindly provided by Dr. Alessandro Vindigni (International Center for Genetic Engineering and Biotechnology, Trieste, Italy) and purified as described elsewhere (34). Human RPA containing all three subunits (RPA70, RPA32, and RPA14) was purified as described previously (36). p53 was purified as described previously (22). T4 polynucleotide kinase was obtained from New England Biolabs (Beverly, MA). T7 Sequenase version 2.0 was purchased from U.S. Biochemical (Cleveland, OH).
Nucleotides and DNA. M13mp18 single-stranded circular DNA was from New England Biolabs. The two oligonucleotides used for the 34-bp telomeric forked duplex DNA substrate were 5'-TTTTTTTTTTTTTTTTTAGGGTTAGGGTTAGGGTTAGGGCATGCACTAC-3' and 5'-GTAGTGCATGCCCTAACCCTAACCCTAACCCTAACCCTAATTTTTTTTTTTTTTT-3'. Yeast tRNA was from Boehringer Mannheim (Indianapolis, IN). [
-32P]ATP was from Perkin Elmer (Wellesley, MA).
Duplex DNA Helicase Substrates. The 849-bp M13mp18 partial duplex substrate was constructed as described previously (32). Briefly, the gel-purified 849-bp duplex DNA fragment from the HaeIII digest of M13mp18 RF was treated with calf intestinal phosphatase to remove 5' phosphates and subsequently labeled at their 5' ends using T4 polynucleotide kinase and [
-32P]ATP. The complementary fragments were then annealed to M13mp18 ssDNA circle. M13 partial duplex DNA substrates were purified by gel filtration column chromatography using A-5M resin (Bio-Rad, Hercules, CA). The 34-bp forked duplex DNA substrate was prepared as described previously (37). The 19-bp forked duplex, 26-nucleotide 5' flap with either the upstream or the downstream primer 5' 32P labeled, and synthetic replication fork DNA substrates were constructed as described previously (38).
Helicase Assays. Helicase assay reaction mixtures (20 µL) for assays using the 849-bp M13 partial duplex substrate (0.125 nmol/L) contained 40 mmol/L Tris (pH 7.4), 4 mmol/L MgCl2, 5 mmol/L DTT, 2 mmol/L ATP, 0.5 mg/mL tRNA, and the indicated concentration of WRN protein. For WRN or WRN500-946 helicase assays using the oligonucleotide-based duplex substrates, reaction mixtures (20 µL) contained 30 mmol/L HEPES (pH 7.5), 40 mmol/L KCl, 8 mmol/L MgCl2, 2 mmol/L ATP, 100 ng/µL bovine serum albumin (BSA), 5% glycerol, and DNA substrate concentrations indicated in the figure legends. For those WRN helicase reactions containing RPA or wild-type p53, the concentrations are indicated in the figure legends. Reaction mixtures were preincubated with RPA and the indicated concentration of p53 protein on ice for 4 minutes and subsequently initiated by the addition of WRN protein. WRN helicase reactions were incubated at either 24°C for 60 minutes for the assays using the M13 partial duplex substrates or 37°C for 15 minutes using the oligonucleotide-based duplex substrates. For RECQ1 helicase assays, reaction mixtures (20 µL) contained 20 mmol/L Tris-HCl (pH 7.4), 8 mmol/L DTT, 5 mmol/L MgCl2, 5 mmol/L ATP, 10 mmol/L KCl, 4% (w/v) sucrose, 80 µg/mL BSA, and 0.5 nmol/L forked duplex DNA substrate. RECQ1 helicase reactions were incubated at 37°C for 15 minutes. Reactions were terminated by the addition of 10 µL of 50 mmol/L EDTA-40% glycerol-0.9% SDS-0.1% bromophenol blue-0.1% xylene cyanol. The products of helicase reactions were resolved on 6 or 12% nondenaturing polyacrylamide gels. Radiolabeled DNA species in polyacrylamide gels were visualized using a PhosphorImager and quantitated using the ImageQuant software (Molecular Dynamics, Piscataway, NJ). The percentage helicase substrate unwound was calculated as described previously (38).
For ssDNA competitor experiments, p53 (42 nmol/L) was preincubated with the indicated concentrations (0-50 nmol/L) of "unlabeled" ssDNA (25-mer oligonucleotide) in standard helicase reaction buffer for unwinding assays with oligonucleotide-based substrates (see above) containing 2 mmol/L ATP for 3 minutes at 24°C. Forked duplex substrate (10 fmol radiolabeled 19 bp, final concentration 0.5 nmol/L) and WRN (final concentration 3 nmol/L) was simultaneously added to the reaction mixture after the 3-minute preincubation and incubated subsequently for 7 minutes at 37°C. Reactions were then quenched and resolved on native polyacrylamide gels as described above. Typically, 70% to 85% of the forked duplex substrate were unwound in reactions lacking the DNA competitor molecule. Unwinding (% control) is expressed relative to the control reactions lacking the competitor DNA.
Strand Displacement Synthesis Reactions. WRN and p53 were preincubated on ice for 3 minutes in the presence of 10 fmol of a 26-nucleotide 5' flap substrate (upstream primer 5' 32P labeled) in 30 mmol/L HEPES (pH 7.5), 40 mmol/L KCl, 8 mmol/L MgCl2, 2 mmol/L ATP, 100 µg/mL BSA, 0.5 µmol/L deoxynucleotide triphosphates, and 5% glycerol. T7 Sequenase (U.S. Biochemical, 25 mU) was added and the 20 µL reactions were incubated at 37°C for 5 minutes and terminated with the addition of 10 µL formamide loading buffer. Reactions were resolved on 20% denaturing gels containing 7 mol/L urea. Radiolabeled DNA species in polyacrylamide gels were visualized using a PhosphorImager.
Electrophoretic Mobility Shift Assays. Electrophoretic mobility shift assays were similar to those described previously (20). Briefly, reaction mixtures (20 µL) contained 30 mmol/L HEPES (pH 7.5), 40 mmol/L KCl, 8 mmol/L MgCl2, 100 ng/µL BSA, 5% glycerol, 0.5 nmol/L of the 19-bp forked duplex DNA substrate, and the indicated p53 concentrations. Reactions were incubated at 24°C for 20 minutes followed by fixation for 10 minutes at 37°C in the presence of 0.25% glutaraldehyde. Products were resolved by 5% nondenaturing PAGE at 4°C for 2.5 hours and visualized using a PhosphorImager.
ELISA Detection of Protein Interaction among WRN, RPA, and p53. Purified WRN, p53 or RPA proteins were diluted to a concentration of 1 ng/µL in carbonate buffer [0.016 mol/L Na2CO3, 0.034 mol/L NaHCO3 (pH 9.6)], coated to appropriate wells of a 96-well microtiter plate (50 µL/well), and allowed to incubate overnight at 4°C. Control wells were incubated with carbonate buffer and incubated overnight at 4°C. Wells were aspirated and blocked for 2 hours at 30°C with blocking buffer (3% BSA in PBS with 0.5% Tween 20). Wells were aspirated and washed again; all washing steps were done with the blocking buffer. Wells were then coated with serial dilutions of WRN, RPA, or p53 in 30 mmol/L HEPES (pH 7.5), 40 mmol/L KCl, 8 mmol/L MgCl2, 100 ng/µL BSA, and 5% glycerol starting with 36 nmol/L protein. For the ethidium bromide treatment, 10 µg/mL ethidium bromide were included in the incubation with WRN, RPA, or p53 during the binding step. Following incubation for 1 hour at 30°C, wells were aspirated, washed five times, and allowed to incubate for 1 hour at 30°C with anti-WRN (1:500, rabbit polyclonal, Novus Biologicals, Littleton, CO), anti-RPA (1:100 mouse monoclonal, Oncogene Research), or anti-p53 antibody (1:1,000, Oncogene Research) diluted in blocking buffer. Following three washings, horseradish peroxidaseconjugated anti-rabbit (1:5,000, Santa Cruz Biotechnology) or anti-mouse (1:5,000, Amersham Biosciences) antibody was added to the wells and incubated for 30 minutes at 30°C. After washing five times, WRN and p53 were detected using OPD substrate (Sigma). The reaction was terminated after 3 minutes with 3 N H2SO4 and absorbance readings were taken at 490 nm. The absorbance was corrected for the background signal in the presence of BSA.
ELISA Data Analysis. The fraction of the immobilized WRN, RPA, or p53 bound to the microtiter well that was specifically bound by WRN or p53 protein was determined from the ELISA assays. A Hill plot was used to analyze the data as described previously (33).
| Results |
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Effect of p53 on WRN Helicase Activity on M13 Partial Duplex Substrates. To determine if p53 exerts a direct effect on WRN unwinding of standard B-form duplex DNA, we preincubated WRN helicase (92 nmol/L monomer) with increasing amounts of p53 (0, 47, 94, and 184 nmol/L monomer) before incubation with a M13 28-bp partial duplex DNA substrate and found that p53 did not stimulate or inhibit WRN-catalyzed unwinding of the M13 partial duplex (19). Moreover, p53 (47-184 nmol/L) did not stimulate WRN helicase activity on the 28-bp partial duplex substrate with an amount of WRN protein (26 nmol/L monomer) that unwinds only 10% of the duplex DNA substrate (19).
We reported previously a physical and functional interaction between WRN and RPA (32). The presence of RPA stimulates WRN helicase to unwind DNA duplexes as long as 849 bp (32). p53 has been shown to associate with RPA both in vivo and in vitro (30, 31, 39). In addition, human p53 can inhibit SV40 viral DNA replication by its association with RPA (30). The nature of the replication function of RPA that is inhibited by p53 is not known. We hypothesized that p53 may inhibit RPA-dependent WRN helicase activity. To address this issue, an 849-bp M13 partial duplex DNA substrate was tested for WRN helicase activity in the presence of RPA and increasing concentrations of p53 (0, 47, 94, and 188 nmol/L p53 monomer). Inhibition of WRN helicase activity was detected at a p53 concentration of 47 nmol/L (Fig. 1, lane 3) and more evident at p53 concentrations of 94 and 188 nmol/L (Fig. 1, lanes 4 and 5). At 188 nmol/L p53, WRN unwinding of the 849-bp substrate was inhibited
70% compared with WRN helicase reactions lacking p53. Addition of up to 4-fold more RPA (final concentration 372 nmol/L) in the WRN helicase reaction on the 849-bp duplex substrate did not alleviate the p53 inhibition (data not shown), suggesting that the mechanism of p53 inhibition involves more than simply p53 sequestration of RPA. Inhibition of WRN helicase activity was dependent on the duplex length of the M13 substrate, because less inhibition was observed for 341- or 100-bp partial duplex substrates, and p53 failed to inhibit WRN helicase activity on a 69-bp M13 partial duplex substrate in the presence of RPA (data not shown).
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7,000 nucleotides) raised the question if p53 might retain its ability to modulate WRN-catalyzed DNA unwinding on a more physiologic substrate with reduced ssDNA character. Biochemical characterization of the DNA substrate specificity of the WRN helicase showed that a forked DNA duplex with noncomplementary 3' and 5' ssDNA tails is a preferred structure for DNA unwinding by WRN (38). Forked DNA substrates are important DNA structural intermediates in a variety of DNA metabolic pathways, including replication, repair, and recombination. To investigate if p53 modulates WRN helicase activity on B-form DNA of a more physiologically relevant substrate, we tested the effect of p53 on RPA-dependent WRN helicase activity on a 34-bp duplex with 15-nucleotide 3' and 5' ssDNA tails. Because WRN may have a direct role in telomere metabolism, we chose a forked duplex of human telomeric repeat sequences (TTAGGG). In order for this telomeric duplex substrate to be unwound by WRN, RPA is required in the helicase reaction (37). We elected to test the effect of p53 on RPA-stimulated helicase activity of a mutant WRN protein (X-WRN) devoid of exonuclease activity due to a missense mutation in the active site of the exonuclease domain. The use of purified X-WRN recombinant protein enabled us to examine the effect of p53 on RPA-stimulated WRN helicase on the 34-bp forked duplex substrate without having to take into account the inhibitory effect of p53 on WRN 3' to 5' exonuclease activity that can degrade from the 3' termini of blunt ends of forked duplex molecules that the helicase does not efficiently unwind (37).
As shown in Fig. 2, lane 3, the 34-bp forked duplex was not detectably unwound by X-WRN (1.5 nmol/L monomer). However, in the presence of RPA (9.8 nmol/L), WRN helicase unwound 62% of the 34-bp duplex (Fig. 2, lane 4). The presence of p53 in the WRN-RPA helicase reaction resulted in the inhibition of WRN helicase activity as evidenced by the disappearance of the released strands with the concomitant appearance of intact duplex DNA substrate resolved on the native polyacrylamide gel (Fig. 2, lanes 5-9). Inhibition of WRN helicase activity on the 34-bp forked duplex substrate was p53 concentration dependent. At the highest p53 concentration tested (123 nmol/L), WRN helicase activity was inhibited by
50% of the control (no p53) unwinding reaction. These results show that p53 effectively inhibits WRN helicase activity that requires RPA to unwind forked DNA duplexes as short as 34 bp. These results also show that the inhibition of RPA-dependent WRN helicase activity exerted by p53 does not require long ssDNA regions on the helicase substrate because the forked duplex with 15-nucleotide 3' and 5' ssDNA tails is effectively inhibited by p53. We conclude that RPA-dependent WRN-catalyzed unwinding of the telomeric duplex fork is significantly reduced by p53.
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p53 Inhibition of WRN Helicase Activity on DNA Replication and Repair Intermediates. Our previous studies showed that WRN helicase efficiently unwinds two important DNA intermediates of replication/repair, a 5' ssDNA flap and a synthetic replication fork (38). WRN was able to translocate on the lagging strand of the synthetic replication fork to unwind duplex ahead of the fork. For the 5' flap structure, WRN specifically displaced the 5' flap oligonucleotide, suggesting a role of WRN in Okazaki fragment processing or DNA repair. To address a potential role of p53 in modulation of WRN helicase activity on these replication/repair intermediates, we tested for its effect on WRN-catalyzed unwinding of the 5' flap (Fig. 7A) or synthetic replication fork structures (Fig. 7C). The results, shown quantitatively in Fig. 7B and D, show that p53 effectively inhibited WRN helicase activity on both DNA substrates. The ability of p53 to block WRN unwinding of the replication fork structure indicates that the p53 inhibition does not require any preexisting ssDNA in the helicase substrate to prevent WRN from unwinding the DNA structure.
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Physical Analysis of the Protein Interactions among WRN, p53, and RPA. Collectively, the results from the p53-WRN helicase studies suggested that direct protein interactions among WRN, RPA, and p53 are likely to be important in the inhibition of WRN helicase activity on the various DNA substrates. To characterize the physical protein interactions, we did ELISA studies to determine the relative binding affinities of the protein pairs (WRN-RPA, WRN-p53, and RPA-p53). Purified recombinant p53 protein (0-36 nmol/L) was incubated in the presence of 3% BSA with WRN or RPA that had been immobilized on microtiter wells. Bound p53 was detected using anti-p53 antibodies. The specificity of this interaction was shown by very low absorbance values (0.089 ± 0.012 A490) for wells that had been precoated with BSA compared with the intense signal obtained with WRN or RPA (Fig. 8A). The colorimetric signal from the WRN-p53 or RPA-p53 interaction was both dose dependent and saturable. The data analyzed by Scatchard binding theory using a Hill plot were linear, indicating a single site on p53 for binding to either WRN or RPA. The apparent dissociation constants (Kd) for p53-WRN and p53-RPA were 1.81 and 2.22 nmol/L, respectively (Table 1), indicating that p53 binds to WRN with similar affinity to that observed with the p53-RPA interaction.
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The colorimetric signals from the WRN-p53 (Fig. 8C), WRN-RPA (Fig. 8C), and RPA-p53 (Fig. 8D) interactions were resistant to the presence of ethidium bromide during binding, indicating that a contaminating DNA bridge was not responsible for the positive signal.
In vivo Interaction of WRN with RPA and p53 in Untreated and DNA Damaged Cells. To explore the possibility that endogenous WRN, RPA, and p53 are associated with each other in vivo, we did coimmunoprecipitation experiments using whole cell lysates prepared from human diploid fibroblasts that were either untreated or treated with the replication inhibitor hydroxyurea or ionizing radiation that introduces DNA strand breaks. Polyclonal antibody against WRN protein was used to precipitate endogenous WRN and associated p53 or RPA. As shown in Fig. 9A, both p53 and RPA were coimmunoprecipitated with WRN in untreated cells (lane 4). The association of WRN with p53 and RPA was also evident in cells that had been exposed to 2 mmol/L hydroxyurea (lane 5) or 6 Gy ionizing radiation (lane 6). Input for the various lysates represented 10% of the total protein used for the coimmunoprecipitation (lanes 1-3). In control experiments, no detectable signal was obtained for WRN, RPA, or p53 when antibody was omitted or normal rabbit IgG was used in the immunoprecipitation reactions (data not shown). The specificity of the WRN antibody was shown by the result that RPA or p53 was not precipitated by the anti-WRN antibody from the WRN/ cell extracts in which WRN was absent (Fig. 9B). In addition, both p53 and RPA were coimmunoprecipitated with WRN by the anti-WRN antibody in the presence of ethidium bromide from the normal cell extracts (Fig. 9B), suggesting that a DNA bridge was not responsible for their coimmunoprecipitation. These results show that endogenous WRN-p53 and WRN-RPA complexes exist in human cells during normal DNA metabolism and persist during replication arrest or DNA processing in response to DNA damage.
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| Discussion |
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The ability of p53 to deter WRN unwinding of the 5' flap and synthetic replication fork structures suggests that p53 may modulate WRN helicase activity on DNA intermediates that arise during DNA replication and/or repair. A role of WRN in processing 5' DNA flap structures is suggested by our biochemical and genetic results that show a specific interaction between WRN and FEN-1 (35, 43, 44), a structure-specific nuclease implicated in trimming of 5' flaps created during strand displacement synthesis in either lagging strand replication or DNA repair processes, such as base excision repair (reviewed in ref. 45). The 5' flap substrate is efficiently unwound by WRN (38), and modulation of this activity by p53 may be important to prevent the creation of long 5' flaps resistant to subsequent processing by FEN-1. By its ability to regulate WRN helicase activity, p53 would serve to insure proper maturation of the newly synthesized lagging strand. In this context, we have shown that p53 modulates the ability of WRN helicase to facilitate strand displacement by DNA polymerase synthesis. p53 may be involved in replication- or repair-related processes by its ability to modulate WRN helicase activity on key DNA metabolic intermediates.
The inhibition of RPA-dependent WRN helicase activity on long DNA duplex substrates is of interest because p53 did not have an effect on WRN helicase activity on shorter partial duplex substrates characterized by the same M13 ssDNA backbone. The fact that p53, WRN, and RPA all bind ssDNA and each other makes it difficult to elucidate the mechanism of inhibition. Nonetheless, the results presented also show that WRN can block RPA-dependent unwinding of a more physiologically relevant substrate, the telomeric forked duplex, suggesting that the involvement of p53 in DNA transactions catalyzed by WRN may be biologically significant.
Information pertaining to the physical interaction sites among WRN, RPA, and p53 should prove useful to understanding the mechanism of p53 inhibition of WRN-catalyzed unwinding. WRN protein can bind to p53 via its COOH-terminal 419 residues, and an interaction domain for WRN has been mapped to the last 100 amino acids of p53 (full-length 393 amino acids; refs. 15, 16). Both an amino region [residues 1-73 (31) and 2-117 (30)] and a COOH region [residues 289-393 (30)] of p53 interact with the 70-kDa subunit of the RPA heterotrimer. Residues 1 to 221 and 411 to 492 of RPA70 interact with p53 (39). Thus, it is possible that p53 can bind to both WRN and RPA simultaneously; therefore, we cannot rule out that a dual protein interaction may be responsible for p53 inhibition of RPA-stimulated WRN helicase activity. WRN binds to the 70-kDa subunit of RPA, and the WRN binding motif is located within amino acids 100 to 300 and overlaps with the ssDNA binding domain (amino acids 150-450) of RPA70 (46). Because p53 interacts with the NH2-terminal half (residues 1-221) of the 70-kDa RPA subunit (39), it is possible that binding of p53 to the 70-kDa subunit prevents the interaction of RPA with WRN during the unwinding reaction. Alternatively, it was shown previously that p53 associates with RPA and prevents RPA from binding ssDNA (30). A more detailed understanding of the mechanism for RPA stimulation of WRN helicase activity will be helpful to delineate the precise mechanism of p53 inhibition of RPA-dependent WRN helicase activity.
The inhibition of WRN helicase activity by p53 is likely to have biological consequences. p53 is able to inhibit SV40 viral replication (29) and nuclear DNA replication in a transcription-free DNA replication extract from Xenopus eggs (47), suggesting that p53 may bind directly to proteins of the replication complex and interfere with DNA replication. RPA is required for replication of chromosomal DNA and displays specific functional and physical interactions with the WRN and BLM DNA helicases (32, 33). WRN may function during replication as suggested by the extended S phase (48) and a reduced frequency of initiation sites in Werner syndrome cells (49, 50). Genomic instability in Werner syndrome cells, characterized by extensive deletions and chromosomal rearrangements, may arise due to basic defects in a replication-associated process that involves both RPA and p53.
The interaction of p53 with WRN protein and/or the WRN-RPA complex may be critical to deter entry into S phase or to direct S-phase cells into apoptosis. Recent studies suggest that RPA binding by p53 is less important for growth suppression than the transactivation and transrepression functions of p53 (51). Thus, the p53-RPA interaction may be critical for other cellular processes, such as DNA repair or apoptosis. The attenuation of p53-mediated apoptosis in Werner syndrome cells (15) may possibly be explained by the absence of a p53-WRN direct interaction that could serve as a signal for programmed cell death. p53-mediated arrest of WRN-catalyzed unwinding during the initiation or elongation phases of DNA replication may be responsible for the apoptotic signal. Protein synthesis is not required for p53-induced apoptosis, suggesting that p53 directly targets downstream members, such as WRN, in the apoptotic pathway (52). Our findings suggest that the WRN as well as BLM enzymes (24) may be downstream targets of p53 in a pathway of DNA metabolism regulated by p53. p53 has been proposed to serve as a "molecular governor" of homologous recombination by functionally interacting with BLM and Rad51 during resolution of stalled replication forks, supporting a S-phase-specific and transcription-independent function of p53 (24).
In cells arrested in S phase with hydroxyurea, WRN exits the nucleolus and colocalizes with p53 in the nucleoplasm (19). It has been proposed that RecQ helicases may play a role in the processing of certain DNA structures at a stalled replication fork, such as the Holliday junction. p53 may function to inhibit WRN helicase activity at a replication fork or recombination intermediate by directly interacting with the DNA molecule. WRN unwinds the duplex region ahead of a synthetic replication fork (38) and p53 may serve to control this activity. Alternatively, p53 may have a role to inhibit strand exchange or replication fork regression that is promoted by Rad51 (53) and possibly facilitated by WRN.
p53 modulation of WRN catalytic function may be an important feature of p53-mediated apoptosis. Defects in this pathway may contribute to the prevalent cancer disposition in Werner syndrome patients. Spillare et al. (15) showed that p53-mediated apoptosis in Werner syndrome fibroblasts could be rescued by expression of wild-type WRN protein. It would be insightful to determine if expression of the COOH-terminal domain of WRN responsible for physical interaction with p53 is sufficient for rescue of the attenuated p53-mediated apoptosis in WS/ cells. Perhaps, other domains of WRN are also involved in p53-mediated apoptosis as they are required for enhancement of p53-dependent transcriptional activity (16). p53 may exert its effect on WRN via its interaction with RPA. The genomic instability and cancer predisposition observed in Werner syndrome may be related to a defect in p53-mediated apoptosis that is dependent on the helicase function of WRN. Precisely defining the cellular DNA metabolic pathways on which p53 regulates WRN function in vivo is the next challenge.
| Acknowledgments |
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We thank Mark Sawyer, a summer student in the Laboratory of Molecular Gerontology, National Institute on Aging, NIH, for technical assistance in helicase assays on oligonucleotide-based substrates and Dr. Vilhelm Bohr and the members of the Laboratory of Molecular Gerontology (National Institute on Aging) and Laboratory of Human Carcinogenesis (National Cancer Institute) for helpful discussions. We thank Drs. Alessandro Vindigni (ICGEB) and Cayetano von Kobbe (Laboratory of Molecular Gerontology, NIA, NIH) for RECQ1 baculovirus and GST-WRN500-946, respectively.
| Footnotes |
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Received 1/31/03. Revised 9/23/04. Accepted 11/ 5/04.
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