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J Virol, January 1998, p. 796-801, Vol. 72, No. 1
0022-538X/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.
Transient Viral DNA Replication and Repression of
Viral Transcription Are Supported by the C-Terminal Domain of the
Bovine Papillomavirus Type 1 E1 Protein
Maureen C.
Ferran and
Alison A.
McBride*
Laboratory of Viral Diseases, National
Institute of Allergy and Infectious Diseases, National Institutes
of Health, Bethesda, Maryland
Received 21 August 1997/Accepted 30 September 1997
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ABSTRACT |
The bovine papillomavirus type 1 E1 protein is important for viral
DNA replication and transcriptional repression. It has been proposed
that the full-length E1 protein consists of a small N-terminal and a
larger C-terminal domain. In this study, it is shown that an E1
polypeptide containing residues 132 to 605 (which represents the
C-terminal domain) is able to support transient viral DNA replication,
although at a level lower than that supported by the wild-type protein.
This domain can also repress E2-mediated transactivation from the P89
promoter as well as the wild-type E1 protein can.
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TEXT |
The bovine papillomavirus type 1 (BPV-1) genome replicates as a stable nuclear episome. In addition to
cellular proteins, the viral origin of replication and the E1 and E2
proteins are necessary for DNA replication (31). The origin
consists of an AT-rich region and an E1 and E2 binding site (16,
30, 31, 37). The E1 protein initiates DNA replication by binding
to the origin (6, 33, 36), and the E2 protein is a
transcriptional transactivator that cooperatively binds to the origin
with E1 (22, 25, 36). E1 also represses viral transformation
(8, 20) and can regulate viral gene expression (9,
18). The E2 protein can activate transcription from several viral
promoters (24). The P89 promoter is located just downstream
from the replication origin, and E1 can significantly repress
E2-mediated transactivation of this promoter (9, 18, 24).
The E1 proteins are well-conserved among papillomaviruses. There is
moderate homology of the N-terminal 120 amino acids and high homology
of the C-terminal 450 amino acids among E1 proteins. A short
nonconserved sequence links these regions (19). This fact
suggests that E1 might consist of two separate structural domains
linked by a short spacer region. The E1 protein also has minimal
sequence homology with simian virus 40 (SV40) large T antigen. Homology
between these proteins exists primarily in the nuclear localization
sequence (NLS) in the N-terminal region of both proteins and in the ATP
binding motif in the C-terminal region (2, 11). A second
protein, E1-M, is encoded by the E1 open reading frame (ORF) and
consists of the putative N-terminal domain (residues 1 to 129) linked
to 13 amino acids of a downstream ORF (28). No function has
been assigned to E1-M, but its existence lends support to the
hypothesis that the N-terminal region of E1 constitutes a separate
domain. The putative N-terminal domain of E1 contains the NLS
(11) and multiple phosphorylation sites (11, 40).
There are reports that polypeptides containing the N-terminal region
can interact and cooperatively bind to the origin with E2 (1, 10,
29). However, other studies have shown that E1 polypeptides
containing the putative C-terminal domain can interact with E2 and
cooperatively bind to the origin as efficiently as wild-type
E1 (17, 19, 39). Based on these findings, we have postulated
that the E1 protein is comprised of two distinct functional domains
(see Fig. 1).
EE-E1132-605 can cooperatively bind to the origin with
the E2 protein.
Our previous studies have shown that E1 residues
162 to 605 (E1162-605) are required for cooperative
origin binding with E2 (19). Thus,
E1132-605 with the EE epitope (EE-E1132-605)
should specifically bind the origin and this binding should be enhanced by E2. This hypothesis was tested by a DNA-protein
coimmunoprecipitation assay. 35S-labeled E1 and E2 proteins
were expressed by TNT coupled transcription and translation (Promega)
from plasmids containing a T7 RNA polymerase promoter. The E1 proteins
contain a short EE epitope (5) fused to their N termini to
enable immunoprecipitation of the truncated E1 protein. Plasmid
p5'EE-pTM1E1 encodes the entire E1 polypeptide with the EE epitope
(19). pTZEE-E1132-605 was generated by placing the NruI-to-BglII (nucleotides 840 to 1515)
fragment of pTZE1 (which contains BPV-1 nucleotides 840 to 2766 downstream from the T7 promoter in pTZ18R [U.S. Biochemicals]) with
an NruI-to-BglII fragment that encodes the EE
epitope, the SV40 T antigen NLS (MGEEEEYMPMEGPKKKRKV), and
sequences of E1. Full-length E2 was expressed from pTZkzE2 (15). A diagram of the E1 proteins used in this study is
shown in Fig. 1.

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FIG. 1.
(A) Diagram of the two putative functional domains of
the BPV-1 E1 protein. The regions of E1 required for nuclear
localization (NLS) (11), ATP binding (26), origin
binding, and cooperative origin binding with E2 (19) have
been previously reported. (B) E1 proteins used in this study. The
filled rectangles represent EE epitopes, and the open rectangles
represent the SV40 T-antigen NLS. Arrows indicate the positions of
TTLs. wt, wild type.
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The E1 and/or E2 protein was added to a mixture of three
32P-labeled DNA fragments derived from plasmid KS+/origin
(
25), one
of which contained origin sequences (BPV-1
nucleotides 7781 to
7946 and 1 to 83). DNA-protein complexes were
immunoprecipitated
with an antibody against the EE epitope
(
19). All incubations
were performed at room temperature.
The coprecipitated protein
and DNA present in the complexes was
analyzed by sodium dodecyl
sulfate-polyacrylamide gel electrophoresis.
Both the DNA and the
protein components can be observed if the samples
are not heated.
The gels were exposed to two films; the film closest to
the gel
contains the
35S and
32P signals, and
the second film has only the
32P DNA signal. These
experiments showed that E1 proteins coprecipitated
much greater amounts
of the origin-containing fragment than they
did of the two larger
nonspecific fragments. As shown in Fig.
2A, EE-E1
132-605 (lane 4) was
able to bind specifically to the
origin as efficiently as EE-E1 (lane
3). Addition of E2 increased
origin-specific binding of EE-E1 and
EE-E1
132-605 approximately
100-fold (compare lanes 5 and 6 to lanes 3 and 4). These results
confirm that E1 residues 132 to 605 are sufficient for origin-specific
binding and cooperative binding to
the origin with E2.

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FIG. 2.
Origin binding properties of truncated E1 proteins. The
EE-E1132-605 protein was tested for DNA binding activity in
a DNA-protein coimmunoprecipitation assay. Lane 1 contains 1 ng (1/200)
of the input 32P-labeled DNA probe. The origin-containing
fragment (ori) is indicated by an arrow. Lane 2 contains 35 µl of
unprogrammed lysate; lanes 3 to 6 contain 35 µl of in
vitro-translated E1 protein, as described above each lane; and lanes 5 to 7 contain 25 µl of lysate containing E2. The amount of total
lysate per assay was kept constant by addition of control lysate. In
all lanes the DNA-protein complexes were immunoprecipitated with the EE
antibody. Percentages of origin binding were quantitated with a
PhosphorImager, and levels of cooperative origin binding are expressed
relative to the amount of binding found when only EE-E1 was added,
which was given a value of 1. Only the 32P signal is shown.
wt, wild-type; nt, nucleotides. (B) Transient-replication properties of
the truncated E1 proteins in CHO cells. Results of a representative
transient-replication assay are shown. In each lane, cells were
electroporated with replicon DNA; pCGE2 expression vector (where
indicated); and pUC18 (lane 1), pCGMluE1 (lanes 2 and 3), pCGEE-E1
(lanes 4 and 5), pCGEE-E1132-605 (lane 6), or
pCGEE-E1132-519 (lane 7). Replication activity was
quantitated with a PhosphorImager and is expressed relative to
wild-type E2-plus-EE-E1 activity, which was given a value of 100%.
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EE-E1132-605 can support transient viral
replication.
To determine if the truncated E1 protein could
support transient viral DNA replication, E1 expression plasmids were
transfected into CHO cells by electroporation (31) together
with the E2 expression vector pCGE2 (31) and a plasmid
containing the replication origin (p716; nucleotides 4786 to 7946 and 1 to 83) (34). pCGMluE1 expresses the E1 protein from the
cytomegalovirus early promoter (31) and contains an
MluI (nucleotide 7352)-to-BamHI (nucleotide 4451)
BPV-1 fragment with a deletion from AvrII (nucleotide 2766) to BstXI (nucleotide 3881). pCGEE-E1 was derived from
pCGMluE1 and encodes the full-length E1 gene with the EE epitope fused to its N terminus. pCGEE-E1132-605 encodes the C-terminal
region of E1 (amino acids 132 to 605) with the EE epitope and NLS fused to its N terminus. pCGEE-E1132-519 was derived from
pCGEE-E1132-605 by insertion of a translation termination
linker (TTL) at the BstEII site (nucleotide 2405). Five days
posttransfection, low-molecular-weight DNA was isolated, digested with
both DpnI and HindIII or MboI and
HindIII, and analyzed by Southern blot hybridization
with a 32P-labeled long control region (LCR) DNA fragment
(nucleotides 6987 to 7946 and 1 to 36). DNA that has undergone
replication in eukaryotic cells is resistant to cleavage by
DpnI but sensitive to MboI digestion. The
linearized DpnI-resistant replicon migrates as a 3.2-kb
fragment.
As shown in Fig.
2A, EE-E1
132-605 was able to support viral
DNA replication (lane 6) when it was expressed with E2, although
to a
much lesser extent than the wild-type E1 and EE-E1 proteins
did (lanes
3 and 5, respectively). The level of replication observed
ranged
between 6 and 16% of that of the wild type (based on results
from
eight experiments). This low level of replication was confirmed
by
MboI digestion (data not shown). EE-E1
132-519
(lane 7) was
not able to support detectable replication. These results
indicate
that the C-terminal region of E1 (EE-E1
132-605) is
able to support
low-level DNA replication and therefore contains all
basic functions
required for initiation of DNA synthesis.
To confirm that the truncated E1 proteins were stably expressed, the E1
expression vectors (pCGEE-E1, pCGEE-E1
132-605, and
pCGEE-E1
132-519) were transfected into COS-7 cells. The E1
proteins
were labeled with [
35S]methionine and isolated
by immunoprecipitation with the EE antibody.
This analysis showed that
the truncated EE-E1 proteins were expressed
at least as well as the
full-length EE-E1 protein (data not shown).
Therefore, the reduced
ability of the EE-E1
132-605 protein to
support replication
is not due to protein instability.
Although the putative C-terminal domain of E1 contains the basic
functions necessary to support replication, the N-terminal
domain must
have an important auxiliary function(s) needed for
efficient
replication. Similar results have been found with SV40
large T antigen.
The analogous C-terminal region of T antigen
(residues 83 to 708)
retains helicase activity and binds SV40
origin DNA with reduced
affinity but can support reduced levels
of DNA replication in vitro
(
32). The truncated polypeptide
also oligomerizes
incorrectly on SV40 DNA. Thus, the first 82
residues of T antigen are
not strictly required for DNA replication
but may play a role in
correct hexamer assembly and efficient
origin binding (
32).
A similar region of polyomavirus large
T antigen can also support
reduced amounts of viral replication
in vivo (
4). The E1
protein initially binds the origin as a
complex with E2 and then
undergoes a transition to a trimeric
or hexameric form that no longer
contains E2 (
3,
13,
21).
In this study,
EE-E1
132-605 bound the replication origin as well
as the
wild-type protein; however, its ability to form hexamers
has not been
investigated. The EE-E1
132-605 protein may be deficient
in
efficient oligomerization and therefore may not be able to
support
wild-type levels of replication.
The 5' region of the E1 ORF also encodes the E1-M protein. This protein
has been detected in virally transformed cells, but
its function is
unknown (
28). A BPV-1 genome that does not express
E1-M can
replicate with a stability and copy number similar to
those of
wild-type DNA (
7). Therefore, E1-M does not appear
to be
essential for stable replication. However, E1-M may have
a regulatory
function and its existence strengthens the hypothesis
that full-length
E1 is comprised of two domains.
EE-E1132-605 is sufficient for repression of the viral
P89 promoter.
The E1 protein can repress E2-transactivated
chloramphenicol acetyltransferase (CAT) expression from the P89
promoter (9, 18). To determine if the C-terminal region of
E1 can support this function, primary BEF (bovine embryo fibroblast)
cells were cotransfected with the E1 and E2 expression plasmids and the
p1066 reporter plasmid, as described previously (18). p1066
contains the LCR and P89 promoter upstream from the CAT gene (Fig.
3A) (24). In this experiment
we used plasmids pCGMluE1 and pCGEagE1 (which was derived from pCGMluE1
by deletion of sequences between MluI [nucleotide 7352]
and EagI [nucleotide 619]) (31). Plasmid C59
was used to express E2 (38). E2 transactivates P89 by
binding to E2 sites in the LCR (24), and as expected, CAT
expression from p1066 was greatly increased (approximately 23-fold) in
the presence of E2 (Fig. 3B). Cotransfection with pCGEagE1 or pCGMluE1 resulted in dramatic repression of E2-mediated CAT production from P89.
However, pCGEagE1 repressed P89 expression to a greater extent than
pCGMluE1 (approximately 10-fold versus 4-fold repression). This may be
due to different levels of expression of E1 from the two plasmid
backgrounds. Plasmid pCGEagE1 encodes only the E1 ORF, but pCGMluE1
also encodes the E6 and E7 ORFs (31). Coexpression of
EE-E1132-605 (which is in the pCGMluE1 background) also
resulted in severely repressed levels of CAT production from P89
(approximately 17-fold repression). The C-terminal region of E1
consistently inhibited P89 activity to a greater extent than wild-type
E1 expressed from pCGEagE1 or pCGMluE1 did. This may be due to the
higher levels of this protein that were detected by
immunoprecipitation. EE-E1132-519 repressed P89 minimally,
even though it contains the E1 DNA binding domain. However,
E1132-519 is unable to cooperatively bind to the origin
with the E2 protein. These results indicate that the entire C-terminal
region of E1 is necessary and sufficient for repression of E2-mediated
transactivation of P89.

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FIG. 3.
(A) Structure of the p1066 reporter plasmid. The open
rectangle represents the LCR sequences, and the shaded rectangle
represents the CAT gene. Filled circles represent the 12 E2 binding
sites (12), and an open circle represents the E1 binding
site. The E2-responsive element (E2RE1) (23), BPV-1
promoters, and the origin of replication (ORI) are also shown. (B)
Repression by E1 of E2-transactivated P89 promoter activity. Results
from a representative CAT assay are shown. The reporter plasmid p1066
was cotransfected into BEF cells with the indicated E1 and/or E2 (C59)
expression vector. Each plasmid was tested in approximately 10 experiments. CAT activities are expressed as percentages of
acetylation. (C) E1 repression of E2-transactivated CAT expression from
heterologous promoters. The values were averaged from results of three
experiments. Reporter plasmids p964 (shaded bars) and pTKM6 (filled
bars) were cotransfected into BEF cells with the indicated E1 and E2
(C59) expression vectors. CAT activities are expressed as
percentages of acetylation.
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EE-E1132-605 can repress heterologous E2-responsive
promoters.
The ability of E1 to repress E2-transactivated CAT
expression from two heterologous E2-responsive promoters was tested to determine if the observed repression was specific to P89. It has been
previously shown that E2-responsive heterologous promoters are also
repressed by E1. One study found minimal repression of E2-responsive
heterologous promoters (18), while another reported more
significant repression (9). p964 contains E2-responsive element 1 (E2RE1) upstream from the SV40 promoter
(24) and is transactivated by E2 (Fig. 3C). Wild-type E1
proteins (expressed from pCGEagE1 and pCGMluE1) and
EE-E1132-605 were able to repress the E2-responsive SV40
promoter (approximately 6-, 3.5-, and 4.5-fold repression,
respectively); however, repression was less than that observed with
p1066. Plasmid pTKM6 contains six E2 binding sites upstream of the
thymidine kinase (TK) promoter (27). E2 also efficiently
transactivated expression from this plasmid. The E2-responsive TK
promoter was repressed approximately 3.5-fold by pCGEagE1 but was not
repressed by pCGMluE1. The ability of these wild-type E1 constructs to
repress transcription may be due to different levels of E1 expression.
EE-E1132-605 repressed E2 transactivation from the TK
promoter approximately 2.6-fold; however, this repression was also less
than that seen for P89 (approximately 17-fold repression) (Fig. 3B).
EE-E1132-519 did not significantly repress either
heterologous promoter. These results indicate that the C-terminal
region of the E1 protein can repress E2-transactivated transcription
from heterologous promoters. However, as seen with wild-type E1, the level of repression is reduced compared to that of the P89 promoter.
The DNA binding function of E1 is not absolutely required for
repression of viral transcription.
A previous study indicated that
binding of E1 to the origin is crucial for repression of transcription
(18), while another study found that an E1 binding site is
not necessary (9). To investigate if E1 DNA binding is
necessary for repression of E2-mediated transactivation, E1 proteins
defective for DNA binding were tested in the repression assay (Fig.
4). PCGEagE1-based plasmids LPM4, LPM5,
and LPM6 containing these mutations were obtained from Michael Botchan
(29). XmaCI-to-BstEII fragments from
these plasmids were subcloned into pT7E1 to generate plasmids p1588,
p1589, and p1585, respectively.

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FIG. 4.
(A) DNA binding activity of E1 proteins containing
mutations in the DNA binding domain. The left gel demonstrates E1
origin-specific binding, and the right gel demonstrates E1-E2
cooperative origin binding. Lanes 1 and 7 contain 1 ng (1/200) of input
probe DNA, and the origin-containing fragment is indicated (Ori); lane
2 contains unprogrammed lysate; lanes 3 to 6 and 8 to 11 contain 35 µl of in vitro-translated E1 proteins, as described above each lane;
and lanes 8 to 12 contain 25 µl of E2 protein lysate. The amount of
total lysate per assay was kept constant by addition of control lysate.
The positions of the E1 and E2 proteins are indicated. In each lane the
DNA-protein complexes were immunoprecipitated with the E1-specific
antibody SSQN (25), eluted from beads, and analyzed by
sodium dodecyl sulfate-polyacrylamide gel electrophoresis. The
percentages of origin binding were quantitated with a PhosphorImager,
and levels of cooperative origin binding were expressed relative to the
amount of binding found when only E1 was added, which was given a value
of 1. The gel shows both 35S and 32P signals.
n7781-83, nucleotides 7781 to 7783. (B) Effects of point mutations in
the DNA binding domain of E1 on the protein's ability to repress
E2-mediated transactivation. The values were averaged from results of
three experiments. Reporter plasmids p1066 (darkly shaded bars), p964
(lightly shaded bars), and pTKM6 (filled bars) were cotransfected into
BEF cells with the indicated E1 (pCGEagE1) and/or E2 (C59) expression
vector. Each plasmid was tested in several independent experiments. CAT
activities are expressed as percentages of acetylation.
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The ability of these mutated E1 proteins to bind the replication origin
was tested by the DNA-protein coimmunoprecipitation
assay described
above. The results are shown in Fig.
4A. E1 was
able to bind the origin
alone, and addition of E2 enhanced its
origin-specific binding 30-fold.
LPM4 and LPM6 E1 proteins were
defective in origin binding in the
absence of E2 (lanes 4 and
6), and binding was only minimally enhanced
in the presence of
E2 (five- and fourfold, respectively) (lanes 9 and
11). LPM5 was
not able to significantly bind the origin alone; however,
E2 rescued
its ability to bind the origin (compare lanes 5 and 10).
These
results confirm the findings of Thorner et al. (
29),
although
the levels of origin binding in the presence of E2 were found
to be slightly higher in our study. Correspondingly, LPM4 and
LPM6
proteins are unable to support DNA replication and LPM5 is
able to
support reduced levels of DNA replication (
29).
As shown in Fig.
4B, all of the E1 proteins defective for DNA binding
were able to repress the P89 and heterologous promoters
at least as
well as the wild-type E1 protein did (Fig.
4A). Cotransfection
with an
E1.TTL control plasmid (
18), which should not express
any
functional E1 protein, did not significantly repress P89.
The SV40 and
TK promoters were slightly repressed by the E1.TTL
construct. This
repression could be due to competition between
the cytomegalovirus
promoters in pCGEagE1 and the E1.TTL plasmid
for binding cellular
transcription factors. Even LPM4 and LPM6,
which are deficient in
origin binding even in the presence of
E2 (
29), repressed
transcription of all three promoters as well
as wild-type E1 did. The
very low level of cooperative origin
binding observed with the mutated
E1 proteins may be sufficient
for repression. However, this possibility
does not explain the
observed repression of pTKM6, which does not
contain a known E1
binding site. Alternatively, these results imply
that the DNA
binding function of the E1 protein is not necessary for
repression
of viral transcription and that this repression is not
specific
to promoters containing an E1 binding site. LMP4 and LMP6,
which
are defective for replication, are able to efficiently repress
transcription. Therefore, these results confirm previous findings
that
DNA replication is not correlated with transcriptional repression
(
9,
18).
There are several mechanisms by which E1 may repress transactivation.
Repression may be due to an E1-E2 complex that binds
the origin region
upstream from P89 and blocks binding of essential
transcription
factors. Alternatively, E1 might block the regions
of the E2 protein
that interact with and activate the basal transcriptional
machinery
(independent of E1 DNA binding). Both mechanisms may
act to repress
E2-mediated transactivation from the origin-containing
plasmid p1066,
which is most efficiently repressed by E1. pTKM6
contains no known E1
binding site and is the least repressed of
the promoters. Repression of
this promoter may be due to E1 blocking
the ability of E2 to activate
transcription. p964 shows intermediate
repression; this plasmid
contains E2RE
1 (which contains four high-affinity
E2
binding sites) upstream from the SV40 early promoter. Yang
and Botchan
have reported that E1 binds sequences within E2RE
1 in the
presence of E2 (
35). Binding of E1 to the E2RE
1
may increase
repression of E2-mediated transactivation. Unbound E1 or
E1-E2
proteins may also indirectly repress transcription by
sequestering
essential cellular transcription factors. Nonspecific
repression
may be due to squelching, since the E1.TTL construct (which
should
not express functional E1 protein) decreased E2-mediated
transactivation
somewhat (Fig.
4B). Nonspecific repression may also be
due to
cellular toxicity of the E1 protein. This study did not attempt
to define the mechanism of E1-mediated transcriptional repression
but
attempted to determine which functions of E1 were supported
by the
putative C-terminal domain. These experiments show that
EE-E1
132-605 repressed E2-mediated transactivation from the
P89
promoter and two heterologous promoters in a manner similar to
that
of the full-length E1 protein.
Wild-type E1 (pCGEagE1) and EE-E1
132-605 were able to
repress E2-mediated transactivation of heterologous promoters that
lacked
an E1 binding site (pTKM6). In addition, E1 proteins defective
for DNA binding and cooperative DNA binding (LPM4 and LPM6) repressed
transcription of all three promoters, indicating that origin-specific
binding by E1 is not necessary for transcriptional regulation.
A recent
study by Mansky et al. also found that efficient DNA
binding is not
required for repression (
14). This result suggests
that
repression of transcription can occur by direct protein-protein
interaction and does not necessarily require E1-E2 complex binding
to DNA. Indirect evidence that protein-protein interaction is
necessary
for transcriptional repression comes from EE-E1
132-519.
This truncated protein was not able to support detectable viral
replication, significantly repress E2-mediated transactivation
from
P89, or bind the origin with E2 (
19). The inability of
this
protein to interact with E2 may explain why it did not significantly
repress transcription.
In summary, an E1 polypeptide containing residues 132 to 605 of the E1
protein was able to support origin-specific DNA binding,
cooperative
origin binding with the E2 protein, reduced transient
viral DNA
replication, and repression of E2-mediated transactivation.
These
results indicate that the C-terminal region of the E1 protein
can act
as a functional domain. Although the N-terminal region
was not
absolutely required for the transient-replication functions
of E1, it
must have some properties that are important for efficient
viral DNA
replication.
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ACKNOWLEDGMENTS |
We thank Jodi Vogel and Carl Baker for critical reviews of the
manuscript.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: Laboratory of
Viral Diseases, NIAID, NIH, Building 4, Room 137, 4 Center Dr., MCS
0455, Bethesda, MD 20892-0455. Phone: (301) 496-1370. Fax: (301)
480-1497. E-mail: alison_mcbride{at}nih.gov.
 |
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J Virol, January 1998, p. 796-801, Vol. 72, No. 1
0022-538X/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.
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