Bovine papilloma virus (BPV)-encoded E2 protein enhances binding

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  • Proc. Natl. Acad. Sci. USAVol. 90, pp. 2865-2869, April 1993Biochemistry

    Bovine papilloma virus (BPV)-encoded E2 protein enhances bindingof El protein to the BPV replication origin

    (origin binding/origin unwinding/DNA replication)

    YEON-SOO SEO*, FRIEDEMANN MULLER*, MONIKA LUSKYt, EMMA GIBBS*, HAE-YEONG KIMt,BARBARA PHILLIPS*, AND JERARD HURWITZ**Graduate Program in Molecular Biology, Sloan-Kettering Cancer Center, 1275 York Avenue, New York, NY 10021; tDepartment of Microbiology, CornellUniversity Graduate School of Medical Sciences, 1300 York Avenue, New York, NY 10021; and tDepartment of Developmental Biology and Cancer, AlbertEinstein College of Medicine, 1300 Morris Park, Bronx, NY 10461

    Contributed by Jerard Hurwitz, December 28, 1992

    ABSTRACT The replication of bovine papilloma virus(BPV) DNA in vivo requires two viral-encoded proteins, El andE2, while all other proteins are derived from the host. Wedescribed previously the isolation of the El protein and showedthat it contains multiple functions required for BPV DNAreplication. The BPV transcription factor E2 was shown byothers to stimulate BPV DNA replication in vitro. Here, wepresent results that account for the role of the E2 protein. TheEl protein bound selectively to the BPV minimal origin ofreplication. This process required MgCl2 and ATP for maxaleffi'ciency. The El protein also catalyzed a BPV origin-dependent DNA unwinding reaction. In this report, we showthat at low levels of El protein, origin binding could bestimulated up to 40-fold by the E2 protein, provided that theDNA contained an E2 binding site. Consistent with this result,the E2 protein stimulated the origin-specific unwinding reac-tion catalyzed by El, but it had no effect on the nonspecificEl-catalyzed helicase activity. In the absence of an E2 bindingsite, both origin-dependent binding and unwinding reactionswith the El protein were unaffected by the E2 protein. Theseresults suggest that E2 participates in the initiation of BPVDNA replication by enhancing El binding to the BPV or4ign viaDNA-protein and protein-protein interactions.

    Bovine papilloma virus (BPV) provides an attractive modelsystem to study the regulation of eukaryotic DNA replica-tion. The viral DNA is maintained in BPV transformed cellsas a nuclear plasmid with a constant copy number (1). Recentstudies indicate that in vivo BPV DNA replication requirestwo BPV viral-encoded proteins-the 68-kDa El protein andthe 48-kDa E2 protein (2). In addition, the minimal originsequence that supports BPV DNA replication has beenidentified (nt 7911-22 of the BPV type 1 genome) (3, 4). Thissequence contains a binding site for the El protein (El BS)and part of a sequence that acts as a binding site for the E2protein (E2 BS).The replication of BPV oril DNA in vitro, using extracts

    of a mouse mammary tumor cell line (FM3A), was recentlyestablished in Botchan's laboratory (4). They demonstratedthat DNA synthesis required the BPV minimal origin and theEl protein, whereas all other required proteins were suppliedby uninfected mouse cell extracts. At low concentrations ofEl protein, the replication reaction was stimulated markedlyby the E2 protein (4).We have described the isolation of the El protein and

    showed that it supported BPV ori+ DNA replication in vitro(5). We also demonstrated that this protein possessed anumber of different activities required for BPV DNA repli-cation. These include (i) a DNA helicase activity, for which

    the protein translocates in the 3' to 5' direction, (ii) a BPVoril DNA binding activity that is stimulated by ATP andMgCl2, and (iii) the capacity to unwind covalently closedcircular ori+ DNA leading to highly unwound DNA products(5). Thus, the role of El in the BPV system is analogous tothat of large tumor antigen (T antigen) in the replication ofsimian virus 40 (SV40) DNA (6-8). However, a notabledifference between the two systems is the requirement for theE2 protein in the BPV replication system.

    In this report, we have examined the interaction of the Elprotein with BPV ori+ DNA fragments by nitrocellulose filterbinding and unwinding assays. We observed that incubationat 37C in the presence ofATP stimulated formation ofthe Elprotein-BPV ori+ DNA complex and unwinding ofori+ DNAfragments. Both reactions were markedly stimulated by theE2 protein, provided the DNA contained an E2 BS. Theseresults demonstrate the involvement of the E2 protein ininitiation of BPV DNA replication and account for its re-quirement in this system.

    MATERIALS AND METHODSCell Cultures and Recombinant Baculoviruses. Growth of

    the mouse FM3A cell line and preparation of extracts and therecombinant baculoviruses containing wild-type BPV El andE2 genes were as described (4, 9). The El protein used herecontained the hemagglutinin epitope of influenza virus (10)followed by a thrombin cleavage site.Enzymes and DNA. Human single-stranded DNA binding

    protein (HSSB) (11) and SV40 T antigen (12) were preparedas described. The El protein and plasmids pUCOM andpKSO were prepared as described by Seo et al. (5). pUCOMcontains El BS and half of E2 BS12 (nt 7911-22 ofBPV type1 genome). pKSO, a kind gift of M. Botchan (University ofCalifornia, Berkeley), contains the El BS plus the E2 BS11and -12 (nt 7805-100). pUCO-Xho, generated by insertion ofa commercially available Xho I linker into the unique Hpa Isite of the BPV origin in pUC/Msp (nt 7903-81) (3), was akind gift of A. Stenlund (Cold Spring Harbor Laboratory,Cold Spring Harbor, NY). pUCOMABS12 (nt 7911-16) wasgenerated by deleting the half E2 BS12 present in pUCOM.Plasmid DNAs were isolated by standard procedures (13) andpurified by two successive CsCl gradients. Linear duplexDNA fragments used to assay the El origin binding andunwinding activities were prepared by isolating the 232-bpEcoRl/Pvu II DNA fragment, 296-bp EcoRI/Pvu II DNAfragment, 290-bp EcoRI/Pvu II fragment, 366-bp EcoRI/PvuII DNA fragment, and the 242-bp EcoRI/BamHI DNA

    Abbreviations: BPV, bovine papilloma virus; SV40, simian virus 40;T antigen, large tumor antigen; HSSB, human single-stranded DNAbinding protein; BS, binding site(s); RFI, covalently closed circularduplex; DTT, dithiothreitol.

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  • Proc. Natl. Acad. Sci. USA 90 (1993)

    fragment by restriction cleavage of pUC19, pUCOM,pUCOMABS12, pUCO-Xho, and pKSO, respectively. Eachplasmid (4 pmol) was cleaved with EcoRI and labeled with[a-32P]dATP or [a-32P]dCTP with T4 DNA polymerase (Phar-macia) as described by Murakami and Hurwitz (14). Eachpossessed a specific activity of -5000 cpm/fmol.

    Purification and Assay of the E2 Protein. E2 protein wasprepared and measured as described (15) with some modifi-cations. Briefly, extracts from Sf9 cells, infected with arecombinant baculovirus that expressed the wild-type E2protein, were prepared as described for the isolation of SV40T antigen (12). The extract of infected cells (390 ml; 2.8mg/ml) was dialyzed against buffer A [25 mM potassiumphosphate, pH 6.5/10% (vol/vol) glycerol/l mM dithiothrei-tol (DTT)/0.2 mg of antipain per liter/0.1 mg of leupeptin perliter/0. 1 mM phenylmethylsulfonyl fluoride] containing 0.03M NaCl and directly loaded onto a phosphocellulose (P11;Whatman) column (5 x 10 cm; 200 ml) equilibrated withbuffer A containing 0.03 M NaCl. The column was washedsuccessively with 0.03, 0.3, and 0.7 M NaCl in buffer A. TheE2 protein, which eluted with 0.3 M NaCl, was diluted withbuffer A to 0.25 M NaCl and loaded onto a sequence-specificDNA affinity column. This column consisted of the multi-merized 21-bp oligonucleotide (5'-GGTCAAACCGTCT-TCGGTGCT-3') containing the E2 BS10 sequence (16) cou-pled to CNBr-Sepharose (17). The final preparation of E2protein complexed 1.2 nmol of a duplex DNA containing theE2 BS10 per mg of protein.

    Nitrocellulose Filter Binding Assay. Reaction mixtures (20,ul) containing 25 mM potassium phosphate, pH 7.5/10%glycerol/0.1 M potassium glutamate/i mM EDTA/0.5 mMDTT/7 mM MgCl2/4 mM ATP/bovine serum albumin (250,ug/ml)/0.5 ,g of a 1-kb DNA ladder (Bio-Rad) as competitorDNA/30 fmol of the substrate DNA and El protein, asindicated, were assembled on ice and incubated for 15 min at37C. These conditions are similar to those used by Yang etal. (4) and are referred to below as "footprinting conditions."An alternative reaction mixture (20 ,ul), similar to the repli-cation mixture described below, contained 30 mM creatinephosphate (diTris salt, pH 7.5), 7 mM MgCl2, 4 mM ATP, 0.5mM DTT, 4 ug of creatine phosphokinase, bovine serumalbumin (250 ,ug/ml), 0.5 jig of a 1-kb DNA ladder (Bio-Rad)as competitor DNA, 30 fmol of the substrate DNA, and Elprotein, as indicated and is referred to as "replication con-ditions." After incubation, reaction mixtures were thenpassed through alkaline-treated nitrocellulose filters (0.45,um; Millipore) (18) presoaked in wash buffer (0.1 M Tris HCl,pH 7.5). The filters were washed with three 1-ml aliquots ofwash buffer, dried, and assayed for radioactivity.

    Replication Assay. Reaction mixtures (40 ,ul) contained 30mM creatine phosphate (diTris salt, pH 7.5), 7 mM MgCl2, 4mM ATP, 0.5 mM DTT, 4 ,ug of creatine phosphokinase, 100,tM rNTPs, 25 ,uM dNTPs, 40 ,ug of FM3A extract, 0.4 jig ofHSSB, 80 ng of pKSO or pUCO-Xho RFI DNA, and 240 ngof pSVLD covalently closed circular duplex (RFI) DNA (19)as nonspecific competitor. Incorporation of [a-32P]dCTP wasmonitored by formation of acid-insoluble material.DNA Unwinding Assay. Unwinding of BPV ori+ DNA

    fragments with the El protein was performed using thereplication conditions described above. Reaction mixtures(20 p1l) contained 30 mM creatine phosphate (diTris salt, pH7.5), 7mM MgCl2, 0.5mM D