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J Virol, January 1998, p. 564-577, Vol. 72, No. 1
0022-538X/98/$04.00+0
Copyright © 1998, American Society for Microbiology. All rights reserved.
Genetic Determinants of Rous Sarcoma Virus
Particle Size
Neel K.
Krishna,1
Stephen
Campbell,2,
Volker M.
Vogt,2 and
John W.
Wills1,*
Department of Microbiology and Immunology,
Pennsylvania State University College of Medicine, Hershey,
Pennsylvania 17033,1 and
Section of
Biochemistry, Molecular and Cell Biology, Cornell University,
Ithaca, New York 148532
Received 11 July 1997/Accepted 29 September 1997
 |
ABSTRACT |
The Gag proteins of retroviruses are the only viral products
required for the release of membrane-enclosed particles by budding from
the host cell. Particles released when these proteins are expressed
alone are identical to authentic virions in their rates of budding,
proteolytic processing, and core morphology, as well as density and
size. We have previously mapped three very small, modular regions of
the Rous sarcoma virus (RSV) Gag protein that are necessary for
budding. These assembly domains constitute only 20% of RSV Gag, and
alterations within them block or severely impair particle formation.
Regions outside of these domains can be deleted without any effect on
the density of the particles that are released. However, since density
and size are independent parameters for retroviral particles, we
employed rate-zonal gradients and electron microscopy in an exhaustive
study of mutants lacking the various dispensable segments of Gag to
determine which regions would be required to constrain or define the
particle dimensions. The only sequence found to be absolutely critical
for determining particle size was that of the initial capsid cleavage
product, CA-SP, which contains all of the CA sequence plus the spacer
peptides located between CA and NC. Some regions of CA-SP appear to be more important than others. In particular, the major homology region
does not contribute to defining particle size. Further evidence for
interactions among CA-SP domains was obtained from genetic
complementation experiments using mutant
NC, which lacks the RNA
interaction domains in the NC sequence but retains a complete CA-SP
sequence. This mutant produces low-density particles heterogeneous in
size. It was rescued into particles of normal size and density, but
only when the complementing Gag molecules contained the complete CA-SP
sequence. We conclude that CA-SP functions during budding in a manner
that is independent of the other assembly domains.
 |
INTRODUCTION |
Particle assembly of retroviruses is
conducted by the Gag polyprotein, which is able to direct budding at
the plasma membrane in the absence of the pol and
env gene products or of the viral RNA genome
(40). Gag proteins are synthesized on free ribosomes in a
cytosolic compartment and are then transported to the plasma membrane.
At this point, roughly 2,000 Gag molecules interact to drive the
budding process. During or shortly after budding, the viral protease
(PR) cleaves the Gag molecules into their mature protein products
(23), the matrix (MA), capsid (CA), and nucleocapsid (NC);
however, proteolytic activity is not required for particle production.
For Rous sarcoma virus (RSV), the focus of this report, several
additional cleavage products
p2a, p2b, p10, spacer peptides (SP), and
PR itself
are liberated upon proteolytic cleavage (see Fig. 1)
(2, 21, 29, 31). Particles released when Gag is expressed
alone are identical to authentic virions in their rates of budding,
proteolytic processing, and core morphology, as well as density and
size.
The mechanism by which Gag directs budding is unknown, but significant
advances have been made in dissecting this complex event. Studies with
RSV and human immunodeficiency virus (HIV) Gag have revealed three
small assembly domains, M, L, and I (Fig. 1), that are required for
particle formation. The M domain provides a membrane-binding function
and is located at the amino terminus in both the RSV and HIV Gag
proteins (1, 28, 42). The L domain maps to a proline-rich
sequence within RSV p2b and the C-terminal p6 sequence in HIV Gag. It
is believed to operate very late in budding, at the membrane-bud
separation step (16, 18, 27, 39). The interaction (I)
domain, which is present in two copies within NC, mediates productive
interactions between Gag proteins to produce particles of the proper
buoyant density (1, 38, 43). Further evidence for the
important interactions mediated by I domains is the observation that
previously characterized large-deletion mutant RSV Gag proteins lacking
these domains cannot be rescued into particles when coexpressed with
wild-type Gag. However, mutant Gag proteins that retain a functional
copy of I but lack either the M or L domain can still be rescued
(39, 42).
While mutations within the assembly domains block or severely cripple
particle formation, regions that lie outside these domains can be
removed with no effect on the release of particles of normal density.
Moreover, although the primary amino acid sequences and the order of M,
L, and I differ between RSV and HIV, these functions are fully
exchangeable between the two Gag proteins (1, 27, 28).
While much progress has been made in understanding how Gag functions
during budding, there is little evidence to suggest how it defines the
size of a particle. There is some indication in the literature that the
CA sequence is important. In the case of RSV, it has been found that
large deletions that remove half of CA and most of the p10 sequence
result in particles that are very heterogeneous in size
(38), but those studies are difficult to interpret because
of the severity of the deletions. Other studies have suggested that
regions surrounding the CA sequence are critical for particle size and
morphology. For instance, it has recently been demonstrated that the
addition of CA to the NC sequences of RSV and HIV enables the resulting
CA-NC protein, in the presence of RNA, to self-assemble in vitro into
tubular structures (3). In the case of RSV, addition of
further N-terminal sequences, for example, p10, p2b, p2a, and part of
MA, results in the assembly of spherical particles with dimensions
similar to those of authentic virions (4). Along with these
findings, linker insertions and deletions made within the CA domain of
HIV Gag have been found to alter the size of the particles (5, 10,
32). Taken together, these results indicate that additional
functions within Gag are needed to constrain the size of the emerging
particle but they do not define the exact regions involved.
To precisely map the size-determining regions of RSV, we have employed
rate-zonal gradients and electron microscopy (EM) to systematically
study the effect of deletions throughout the Gag protein. The only
region we found to be critical for determining particle size is the
CA-SP sequence, which is the initial capsid species released from Gag
and which contains all of the CA sequence plus the spacer peptides.
Some regions of this capsid intermediate appear to be more important
than others. Thus, while the CA-SP sequence of RSV Gag is dispensable
for budding, it is critical for producing particles of uniform and
proper size.
 |
MATERIALS AND METHODS |
Previously described Gag constructs.
The RSV gag
gene was obtained from pATV-8, an infectious molecular clone of the RSV
Prague C genome (33). All of the gag alleles (see
Fig. 1) were expressed in simian (COS-1) cells by using the simian
virus 40-based mammalian expression vector we have described previously
(42). Many of these alleles have been previously reported:
pSV.Myr0 (wild type) (42), pSV.Myr1
(42), pSV.Myr1.3h (37), pSV.
MA1
(42), pSV.H32R.
MB (28),
pSV.Myr1.
MA6 (25), pSV.Myr1.
MA7
(25), pSV.Myr1.
MA8 (25),
pSV.Myr1.
MA9 (25), pSV.Myr0.
p2a
(39), pSV.Myr0.
p2b.ip6 (27), pSV.Myr1.R-3K (39), pSV.Myr1.R-3A (39), pSV.Myr1.R-3J (38,
39), pSV.Myr1.DM1 (38, 39), pSV.Myr1.Es-Bg
(8), pSV.Myr1.L171I (8), pSV.Myr1.LOC1 (8), pSV.Myr1.LOC2 (8), pSV.Myr0.
SP3
(30), pSV.Myr1.
SP9 (7, 30),
pSV.Myr0.
SP12 (30), pSV.Myr1.Bg-Xm (8),
pSV.Myr1.LON1 (8), pSV.Myr1.Sm-Bs (39), and
pSV.Myr1.
NC (43). In some cases, the activity of the
retroviral protease was eliminated in these constructs by substituting
the aspartic acid in the active site with either isoleucine (D37I)
(6, 34, 41) or serine (D37S) (6), changes which
have no effect on particle release, density, or size (see below). All
plasmids were propagated in Escherichia coli DH-1 cells and
selected by using medium containing 100 µg of ampicillin per ml.
Construction of additional Gag mutants.
Mutant
pSV.Myr1.
MA6E was constructed by digesting pSV.Myr1.
MA6 with
MluI and SpeI and discarding the small fragment.
The sticky ends were then treated with Klenow fragment to realign the
gag reading frame, and the plasmid was religated. This
deletion encodes a protein which contains one foreign residue (Asp)
between amino acids 11 and 99 of Gag.
Deletion mutants
QM1,
p10.31,
p10.52, LOC3, LOC4, LOC5, LOC6,
LOC7, LOC8, LOC9, and LOC10 were constructed by
oligonucleotide-directed mutagenesis using uracylated, single-stranded
MGAG DNA in a manner similar to that described previously
(42). The sequences of the mutagenic oligonucleotides are
indicated here along with diagnostic restriction endonuclease sites
(with the sequence of the sites underlined and the enzymes in
parentheses):
QM1, 5'-CCTCCTCCTCCTTATGCGGCCGCGGAACAGTCAAGG-3' (NotI);
p10.31, 5'-GGGAGAGCAGCAGGGCAGGGTCAGGGAGGAGC-3';
p10.52, 5'-AGTGGTTTGTATCCTACTAGTCCCGTGGTGGCCATG-3'
(SpeI); LOC3,
5'-CTGTAGTGATTAAGACTAGTTTGATCACAAGACTG-3' (SpeI); LOC4,
5'-ACGGTCAGGACCAAGACTAGTGCGCTTATGTCCTCC-3'
(SpeI); LOC5,
5'-CCGCATGACGTCACTAGTTATGCCTTATGGATGG-3'
(SpeI); LOC6,
5'-TGGGGAGTCCAACTCACTAGTCACCCAGCGAACGG-3' (SpeI); LOC7,
5'-GGGGGGAACGGACTAGTGTGGGCAACCCACAG-3'
(SpeI); LOC8, 5'-GCCGCATTATTAAGAACTAGTCAGGCGTTTAGAGA-3'
(SpeI); LOC9,
5'-GTTGAGGGGTCAGATACTAGTTGCTTTAGGCAGAAGT-3' (SpeI); LOC10,
5'-ACAGCACCCTCCACTAGTCTAGACAGGCAGAAG-3'
(SpeI, XbaI). As a result of including
restriction endonuclease sites to these oligonucleotides, extra amino
acid residues were introduced at the site of the deletion:
QM1
contains two foreign amino acids (Ala-Ala), as do
p10.52, LOC4,
LOC6, LOC8, and LOC9 (Thr-Ser), but LOC3, LOC5, LOC7, and LOC10 each
contain one foreign amino acid (Ser). All mutations were confirmed by
DNA sequencing. The gag alleles were then transferred from
the replicative-form DNA into the pSV.Myr0 plasmid by exchanging the
XhoI-BlpI fragments (for mutants
p10.31 and
p10.52), XhoI-BglII fragments (for mutants LOC3 to LOC8), and BlpI-EcoRI fragments (for
mutants LOC9 and LOC10).
QM1 was transferred into plasmid
pSV.Myr1.D37S by an XhoI-BlpI exchange.
Recombinants were screened by restriction endonuclease mapping, and two
independent clones from each mutagenesis experiment were characterized
to confirm that no unwanted mutations were found elsewhere in the
gag gene.
Transfection of cells.
COS-1 cells were grown in Dulbecco's
modified Eagle medium (Gibco BRL) supplemented with 3% fetal bovine
serum and 7% bovine calf serum (Hyclone, Inc.). RSV-infected turkey
embryo fibroblasts were propagated in supplemented F10 medium as
previously described (20). COS-1 cells in 60-mm-diameter
plates were transfected by the DEAE-dextran-chloroquine method as
described previously (41). Before transfection, the plasmid
DNAs were digested with XbaI and ligated at a concentration
of 25 µg/ml. This step removes the bacterial plasmid sequence and
joins the 3' end of the gag gene with the simian virus 40 late polyadenylation signal for high-level expression (41).
Plasmid pSV.Myr0.LOC10 was prepared for transfection by digestion with
BssHII and ClaI, treatment with Klenow fragment,
and religation of the plasmid. This step, which has the same outcome as
XbaI digestion, was exploited since an extra XbaI
site had been created by the LOC10 deletion. Typically, 1 µg of DNA
was applied to each monolayer. For cotransfections, the cells received
0.5 µg of DNA each.
Metabolic labeling and sucrose gradient analysis.
At 48 h after transfection, COS-1 cells were starved for 0.5 h in
methionine-free, serum-free Dulbecco's medium and then labeled in 0.6 ml of labeling medium supplemented with
L-[35S]methionine (50 µCi, >1,000 Ci/mmol)
for 8 h. After the labeling period, the medium from each plate was
collected and transferred to a microcentrifuge tube, and cellular
debris was removed by centrifugation at 15,000 × g for
1 min. For the rate-zonal gradients, labeled particles containing a Gag
protein of wild-type density and size was mixed with the samples to
provide an internal control. In some cases, infectious RSV was included
as the internal control. This virus was grown in turkey embryo
fibroblasts and labeled with
L-[35S]methionine as described above. The
mixture was then layered onto 11.5-ml, 10 to 30% sucrose and
centrifuged at 83,500 × g (26,000 rpm) at 4°C for 30 min in a Beckman SW41Ti rotor. Fractions (0.6 ml) were collected
through the bottom of each tube and mixed with lysis buffer containing
protease inhibitors. The Gag proteins in each fraction were
immunoprecipitated with a rabbit antiserum against RSV (reactive with
MA, CA, NC, and PR), electrophoresed in a sodium dodecyl sulfate-12%
polyacrylamide gel (SDS-PAGE), and detected by fluorography as
previously described (37, 38, 41). The resulting films were
quantitated by laser densitometry. All gradients were repeated at least
once to confirm the results.
Virus-like particle isolation and analysis by EM.
At 48 h posttransfection, medium containing virus-like particles was
collected and prepared for EM as previously described (34).
Briefly, cellular debris was removed from the medium by low-speed
centrifugation at 11,950 × g for 10 min in a Sorvall SS-34 rotor. The particles contained in the supernatant were then pelleted through a 15% sucrose-STE (100 mM NaCl, 10 mM Tris
[pH 7.5], 1 mM EDTA) cushion at 108,760 × g for 90 min in a Beckman 50.2 Ti rotor. The particle-containing pellets were
softened in STE for 1 h at 4°C before resuspension by pipetting
and storage at 4°C. Particles were negatively stained with 2% uranyl
acetate.
For thin sections, transfected cells were fixed for 2 h in 0.1 M
sodium cacodylate (pH 7.4)-3% glutaraldehyde, washed in 0.1
M sodium
cacodylate (pH 7.4), and then postfixed in 1% OsO
4 in
the
same buffer for 2 h at 4°C. The cells were then rinsed in
0.1 M
sodium maleate (pH 5.2), stained with 1% uranyl acetate
in 0.1 M
sodium maleate (pH 6.0) for 1 h in the dark, rinsed again
with
sodium maleate, and serially dehydrated with ethanol. The
cells were
lifted from the plates with propylene oxide and pelleted
by
centrifugation for 2 min at 15,000 ×
g in a
microcentrifuge
before embedding in Spurr embedding medium. Thin
sections were
counterstained with 2% uranyl acetate and lead citrate.
 |
RESULTS |
To ascertain whether particle size determinants could be mapped to
a particular region of RSV Gag, we studied the effects of deletions
throughout this protein (Fig. 1). To this
end, we employed a transient mammalian cell expression system in which RSV-like particles are efficiently produced (41, 42). In
this system, the wild-type Gag protein (designated Myr0 to indicate the
lack of myristate at the N terminus; 41) drives the
release of particles that are identical to authentic virions in terms of their rates of budding, core morphology, size, density, and proteolytic processing of the mature cleavage products (1, 2, 7,
37, 41, 42).

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FIG. 1.
Alterations of the RSV Gag protein. The wild-type (WT)
RSV Gag protein (Myr0) is shown at the top. The vertical lines
represent viral PR cleavage sites, which separate the mature Gag
products (MA, p2a, p2b, p10, CA, SP, NC, and PR) as indicated. The
horizontal bar above the Gag protein denotes CA-SP (CA plus the spacer
peptides). The shaded region within CA marks the MHR. Numbers refer to
amino acid residues. Thick, solid bars underneath the Gag protein
indicate assembly domains required for budding (M, L, and I).
Illustrated below Myr0 are the deletion and substitution mutants
utilized in this study. The open box at the amino terminus of some of
the constructs denotes the M domain of the Src oncoprotein (Myr1). The
shaded region in H32R. MB and p2b.ip6 indicates substitution of
the RSV Gag M and L domains for the HIV equivalents, respectively. The
vertical line in Myr1.L171I indicates a substitution of leucine for
isoleucine. The column to the left lists the names of the mutants. The
column to the right summarizes the size distribution of the mutants as
follows: U, particles that are uniform in size; Sm, particles that are
uniform in size but smaller in diameter; Het, particles that are
heterogeneous in size.
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All of the mutants in this study, with just two exceptions, produce
particles of normal density (1.16 to 1.18 g/ml) (9). One exception is mutant
NC (Fig. 1), which lacks both I domains and
therefore produces particles that are dramatically lower in density
(1.14 to 1.15 g/ml). The other exception is a group of mutants in
which the RSV M domain is completely replaced with smaller
membrane-binding domains (Fig. 1,
MA1, Myr1.
MA6E, and H32R
MB). The density shift in this case is minor, however, and the
particles band at a density (1.15 to 1.16 g/ml) that overlaps the
normal range for wild-type retroviral particles.
Control experiments.
Particles produced in the transient
expression system were analyzed for size by using rate-zonal
sedimentation gradients. For this, culture supernatants containing
radiolabeled particles were harvested and cellular debris was removed.
A radiolabeled Gag protein of wild-type size was always added to the
supernatants to provide an internal control, and the particle mixtures
were layered onto 11.5-ml, 10 to 30% sucrose gradients and centrifuged for 0.5 h at 83,500 × g. After centrifugation,
the gradients were fractionated and Gag proteins were
immunoprecipitated and separated by SDS-PAGE. The resulting X-ray films
were then subjected to scanning densitometry to determine the position
and amount of Gag protein in the gradients. Under these sedimentation
conditions, particles migrate according to their relative sizes. When
interpreting the rate-zonal gradients, it is important to note that the
position of the peak fraction relative to the internal control and the distribution of the particles in the gradient (e.g., heterogeneous versus uniform) are more important than the heights of the peaks. Rate-zonal gradients provide an important advantage over EM analysis, in that they reveal large differences in particle size and provide information on the total population of particles released from the
cell. That is, Gag proteins will be detected whether they are present
in particles of recognizable morphology or not.
To determine whether Gag proteins produced in our transient expression
system are of a size similar to authentic, wild-type
virus, infectious
RSV produced in turkey embryo fibroblasts were
run in a gradient along
with Gag-only particles produced from
COS-1 cells. To distinguish the
proteins in the transiently produced
particles from those of the
authentic virus, a Gag mutant was
employed that lacks protease activity
(Myr0.D37S) and therefore
releases only uncleaved Gag precursors.
Following centrifugation,
the two types of particles were found in the
same fractions (Fig.
2A), and the
distribution of particle sizes was uniform and homogeneous
in each
case. Thus, proteolytic maturation of the Gag protein
does not
influence the size of the particles. This was confirmed
in an
experiment in which the protease-positive and protease-negative
Gag-only particles were both produced by transient expression
(Fig.
2B). The addition of a foreign membrane-binding domain to
the N
terminus of Gag (i.e., the Src membrane-binding domain,
which is
present in many of our constructs) also did not affect
particle size
(Fig.
2C). Moreover, this substitution, combined
with nearly complete
deletion of the protease (mutant 3h, which
lacks the last 117 amino
acids of Gag), also had no effect on
size (Fig.
2D), as previously
reported (
38). From these control
experiments, it appeared
that the extremities of Gag do not control
particle size.

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FIG. 2.
Control experiments. COS-1 cells transfected with the
indicated gag derivatives or RSV-infected turkey embryo
fibroblasts were labeled with [35S]methionine for 8 h. After the labeling period, the medium from each plate was collected
and mixed with labeled control particles. The mixture was then layered
onto 10 to 30% sucrose and centrifuged at 83,500 × g
at 4°C for 0.5 h. Fractions were collected through the bottom of
each tube, immunoprecipitated with a polyclonal rabbit antiserum
against RSV, electrophoresed in an SDS-12% polyacrylamide gel,
and detected by fluorography. The autoradiogram was then
quantitated by laser densitometry. Arrows indicate the direction of
sedimentation.
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Further evidence of this was obtained by examining the Src chimera
(Myr1) and protease deletion mutant (3h) by thin-section
EM. Both
produced budding structures and released particles typical
of C-type
retrovirus morphogenesis (Fig.
3). Due to the presence
of an active protease, Myr1 was processed to produce electron-dense
cores, as expected (Fig.
3A). Mutant 3h particles lack the PR
domain
and therefore retained the concentric ring structure typical
of
immature particles (Fig.
3B). Three concentric rings were observed.
The
outer ring was associated with the lipid envelope. Ten nanometers
further toward the center was another, lighter-staining ring.
The
innermost, darkly staining ring had a diameter of about 40
nm and was
located about 10 nm central to the middle ring. Consistent
with the
rate-zonal gradient data, the particles produced by both
Myr1 and 3h
were homogeneous in size and shape.

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FIG. 3.
Thin-section EM of cells and virus-like particles. At
48 h posttransfection, cells were examined by thin-section EM as
described in Materials and Methods. (A) Myr1 particles were homogeneous
in size with condensed cores. (B) 3h particles had immature morphology
with three rings. (C) Es-Bg particles had noncondensed cores. (D) R-3J
particles were heterogeneous in size with condensed cores. Most cores
were not in the plane of section or were acentric (arrows). (E) R-3J
budding particles; initial bud (left), late bud (center), and released
mature particle (right). (F) R-3J.D37S particles were heterogeneous in
size with immature morphology. The peripheral material often had gaps.
Only two rings were visible. (G) R-3J, flattened patches of protein
accumulated on the surface of cells. (H) R-3J.D37S particles budding
between patches of accumulated protein. Bars, 100 nm.
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The Gag derivatives also were examined by negative staining. Most of
the particles did not allow the stain to penetrate the
lipid envelope
and therefore only provided information on the
overall shape and size
of the particles. In some instances, the
stain did enter the particle
to reveal the internal structure
(Fig.
4). Central cores produced by proteolytic
maturation were
evident in Myr1 (Fig.
4A). Penetration of the stain
into the center
of the particles which had an inactive PR (D37I in Fig.
4B) or
lacked a PR (3h in Fig.
4C) suggested that the center of the
particle
was hollow, as expected, with the protein located at the
periphery.
Striations similar to those reported for immature HIV
(
19,
26,
36) were also clearly visible in D37I and 3h (Fig.
4B and C,
respectively).

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FIG. 4.
Negative-stain EM of virus-like particles. At 48 h
posttransfection, virus-like particles were collected by centrifugation
and negatively stained with 2% uranyl acetate as described in
Materials and Methods. A, Myr1; B, D37I; C, 3h; D, Es-Bg; E, R-3J.D37S;
F, DM1. The arrow in C indicates the striated pattern in D37I and 3h.
Bars, 100 nm.
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The diameters of individual negatively stained particles were
determined from photographic negatives (Table
1). The average
diameters of Myr1, D37I,
and 3h were essentially the same and
identical to previously reported
measurements for other retroviruses
(
9). However, it is
interesting that even these homogeneous
particles are not identical in
size but display some variability
in particle diameter. This has been
observed for other retroviruses,
too. For instance, it has been
reported that authentic HIV particles
vary in diameter between 90 and
160 nm (
32) or 95 and 175 nm
(
10), which is
remarkably consistent with the values obtained
for Myr1, D37I, and 3h
(Table
1). Because all of these Gag derivatives
make normal-size
particles, they could be used as controls in
subsequent experiments to
map the genetic determinants of particle
size.
Replacement of the first half of MA with smaller M domains.
We
began our systematic analysis of RSV Gag with mutants that lack
sequences within the first half of MA. We have previously reported that
small deletions within the first 85 residues of MA, which constitute
the M domain, are defective for budding; however, budding is restored
when the membrane-binding domain from Src is placed at the amino
terminus (1, 42). In mutants
MA1 and
MA6E, the
complete M domain (contained in segments of 84 and 98 residues,
respectively) has been replaced with the small Src membrane-binding
domain (Fig. 1). When analyzed for particle size, both mutants produced
a uniform population of particles that were slightly smaller than the
internal control (Fig. 5A and B). The
shift of the peak to a position two fractions higher in the gradient
was quite reproducible (data not shown). It may be that removal of the
bulky 85-amino-acid M domain of RSV allows the membrane to be pulled
closer to the core, thereby reducing slightly the diameter of the
particle; alternatively, the lower overall mass of the particles might
result in the slight shift (see Discussion). This phenotype was not
limited to the Src chimeras but was found in all chimeras in which the
RSV M domain had been replaced with a smaller M domain, including
mutant H32R
MB (Fig. 5C), which has the 32-residue-long M domain of
HIV Gag in place of the first 99 residues of RSV Gag (28),
and Fyn
MB, in which the first 99 amino acids of MA are replaced with
the membrane-binding domain of the Fyn oncoprotein (data not shown).
The precise explanation of this minor shift to a higher position in the
gradient remains to be determined (see Discussion); however, we
conclude from these results that the M domain does not contribute
greatly to particle size.

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FIG. 5.
Deletions that lead to smaller particles. Particle sizes
were analyzed as described in the legend to Fig. 2.
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Deletions within the second half of MA, p2, and p10.
The next
set of four deletions span the second half of MA, which is dispensable
for particle assembly and infectivity in avian cells (25).
These mutants (
MA6,
MA7,
MA8, and
MA9) collectively lack
the residues from 87 in MA to 161 within p2a (Fig. 1). For the most
part, these deletions had no effect on particle size (Fig.
6A to D). In the case of
MA6, the
particles were slightly smaller than the internal control (Fig. 6A) but
the density was identical to that of the wild type (data not shown).
Moving further down the Gag protein, we found that when all of p2a was
deleted, particles of uniform size were released as well (Fig. 6E). It was not possible to analyze a p2b deletion, since this cleavage product
contains the proline-rich L domain and its removal blocks particle
release (27, 39). However, it was possible to test a
chimera,
p2b.ip6 (Fig. 1), in which the p2b domain of RSV Gag has
been replaced with the L domain from p6 of HIV Gag (27). The
foreign amino acid sequence had no effect on particle size (Fig. 6F).

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FIG. 6.
Alterations in the second half of MA, p2a, p2b, and p10.
Particle sizes were analyzed as described in the legend to Fig. 2.
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Next, we analyzed mutants that lack various amounts of the p10
sequence.

QM1 lacks the first third of p10, while

p10.31
and

p10.52 have internal deletions (Fig.
1).

QM1 released particles
as efficiently as the wild type, but

p10.31 and

p10.52 exhibited
reduced levels (data not shown). The lower yield of particles
from
these two p10 mutations was consistent with previously published
deletions within p10 (
11). The reduction in budding for
these
latter two mutants is probably due to a conformational problem
because large mutants with most of p10 and a large amount of CA
deleted
(such as R-3A and R-3J [Fig.
1]) release particles at
wild-type
levels (
39). Nevertheless, particles produced by all
three
of our p10 mutants were homogeneous and uniform in size
(Fig.
6G to I).

p10.31 and

p10.52 appeared to sediment slightly
more slowly than
the control particles, similar to the M domain
substitutions (Fig.
5);
however, unlike

MA1,

MA6, and H32R

MB,
the p10 deletion mutants
possessed wild-type density (data not
shown). It may be that large
deletions within p10 decrease the
distance between the membrane-binding
domain and the core, resulting
in smaller particles (see Discussion),
but this does not explain
why

QM1 is not shifted to the same extent.
Collectively, the results shown so far indicate that deletions within
MA, p2, and p10 (i.e., the first third of RSV Gag) have
no effect on
uniform particle release. Our next step was to determine
whether
deletions within the CA sequence would alter particle
size.
Large internal deletions within Gag.
To analyze what impact CA
deletions have on particle size, we initially made use of three large
internal deletion mutants (R-3K, R-3A, and R-3J in Fig. 1) which lack
various amounts of p10 and CA. R-3K, R-3A, and R-3J have been
previously shown to produce dense particles at the same efficiency as
wild-type Gag (39). However, the particles released by these
mutants were found to be extremely heterogeneous in size, with material
spread throughout the gradient (Fig. 7A
to C). Mutant DM1, which combines the R-3J and 3h deletions (38,
39), produced a heterogeneous profile of particles as well (Fig.
7D). Because p10 deletion mutants are not heterogeneous in particle
size, we hypothesized that the defects of these large deletion mutants
would map to the CA sequence (see below).

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|
FIG. 7.
Large deletions spanning the p10-CA junction. Particle
sizes were analyzed as described in the legend to Fig. 2.
|
|
To corroborate the rate-zonal gradient data and demonstrate that the
heterogeneous profile of particles was not a result of
aggregation, we
analyzed three of these large deletion mutants
by thin-section and
negative-stain EM. R-3J and R-3J.D37S differ
in having or not having an
active protease, respectively. Both
produced heterogeneously sized
particles ranging in size from
normal to extremely large, disrupted
particles (Fig.
3D and F,
respectively). For the larger particles
produced by R-3J, the
cores were either not present within the plane of
section, aberrant,
or off center (Fig.
3D). It was not clear whether
the core was
located at a fixed distance from the lipid envelope, which
in
normal-size particles would place it at the center, or whether
the
off-center cores represent a random distribution of free-floating
cores. When the PR was inactivated (R-3J.D37S), the viral protein
remained associated with the lipid envelope in discontinuous patches
of
electron-dense material and no cores were evident (Fig.
3F).
A
horseshoe-shaped patch of dense material was commonly observed,
as if
the circumference of the particles was not completely enclosed
with
protein. Similar results have been reported for HIV when
small
deletions were made in the N-terminal half of CA (
10).
Normal budding structures were present for both R-3J and R-3J.D37S
(Fig.
3E), but large accumulations of protein underneath the plasma
membrane, with little if any curvature, were the predominant structures
observed in the cells (Fig.
3G and H, respectively).
Negative-stain EM analysis of R-3J.D37S (Fig.
4E) and DM-1 (Fig.
4F)
confirmed that these particles are heterogeneous in size.
Penetration
of the stain into the center of the particles with
an inactive PR
(R-3J.D37S in Fig.
4E) or lacking the PR sequence
(DM1 in Fig.
4F)
suggested that the center of the particle was
hollow, as expected, with
the protein located at the periphery.
When the size distributions of
R-3J, R-3J.D37S, and DM-1 were
quantitated from negative-stain images,
the particles were found
to have a very heterogeneous profile, as
predicted by the sedimentation
analysis (Table
1). The EM results may
underrepresent the number
of larger particles because numerous
disrupted particles were
observed, but only spherical particles were
counted. In particular,
the R-3J and R-3J.D37S Gag proteins differed
only in PR activity,
but R-3J produced smaller particles on average.
Presumably, the
largest mature particles from R-3J were less stable
during purification
or negative staining than the same-size immature
particles from
R-3J.D37S. DM-1 produced an even wider range of particle
sizes
as measured by EM, but such differences could not be detected
in
gradients.
Small deletions within CA.
Having found that large deletions
that extend into CA result in heterogeneously sized particles, we
decided to see what effect much smaller mutations solely within CA
would have. It was possible that certain regions within CA would be
critical for determining particle size, with others being dispensable.
Mutants LOC3 through LOC8 lack 10- to 11-amino-acid segments between
the beginning of CA and the major homology region (MHR; Fig. 1). All of
these mutants produced particles that were heterogeneous in size (Fig. 8A to F). Some produced more of a broad
peak which overlapped the control particles (LOC3 to 5), while others
produced material that was decidedly larger than the control (LOC6 to
8).
A larger deletion mutant, Es-Bg, which lacks the MHR along with some
flanking sequences, produced particles with a broad peak
that
overlapped control particles (Fig.
8G). Thin-section EM (Fig.
3C) and
negative-stain EM (Fig.
4D) of this mutant revealed particles
that were
heterogeneous in size. However, both EM and rate-zonal
gradient data
analysis demonstrated that Es-Bg particles are not
as heterogeneous in
size as some of the other CA deletions. The
internal morphology of
Es-Bg was interesting. Instead of a central,
collapsed core, material
seemed to be evenly distributed throughout
the volume of Es-Bg
particles (Fig.
3C and
4D) even though an
active protease is present
(data not shown; see reference
8).
The thin
sectioning and negative staining suggested that Es-Bg
has a defect in
core assembly.
To look more closely at the MHR, we made use of mutant L171I
(
8), in which a conserved Leu residue within the MHR is
replaced
with Ile. L171I has no effect on particle release, but when
this
point mutation is built back into the viral genome, the resulting
viruses are noninfectious in avian cells. When analyzed for size,
homogeneous particles were observed (Fig.
8H). Thus, although
the MHR
region may be critical for proper maturation of the viral
core
(
8), it does not play an important role in defining particle
size.
Four additional deletions within the last quarter of the CA sequence
also produced heterogeneously sized particles (Fig.
8I
to L). Mutants
LOC1 and LOC2 appeared as broad peaks that overlapped
the internal
control, whereas LOC9 and LOC10 particles were more
heterogeneous.
While the smaller deletions within CA produced
particles with various
degrees of heterogeneity, all of the CA
mutations analyzed (with the
exception of L171I) had some effect
on particle size. Thus, it appears
that CA provides a very critical
determinant of particle size.
Spacer peptide deletions.
The CA sequence is initially
released from Gag with a small (12-residue) spacer peptide at its C
terminus following cleavage between the peptide and the NC sequences
(Fig. 1) (7). This form of CA, previously referred to as CA1
(7), is referred to here as CA-SP for clarity. Over the
course of several hours after particle release, cleavages within the
spacer peptide result in the appearance of two new products that
actually run more slowly in SDS-PAGE (2, 7). Recent studies
(30) have demonstrated that in mature virus, the CA protein
exists as fully mature CA (formerly named CA2) and a form of CA that
retains three residues of the spacer, CA-S (formerly referred to as
CA3). When precise deletions of these spacer peptides were made
(mutants
SP3,
SP9, and
SP12; Fig. 1) and the peptides were
separately expressed in avian cells, virions were efficiently
assembled, but none of the mutants were infectious (7, 30).
Sedimentation analysis revealed that all three mutants were
heterogeneous in size (Fig. 9A to C).
Thus, it appears that the CA and SP sequences in Gag provide a very
critical size determinant.
Deletions within NC.
Another mutant, Bg-Xm (Fig. 1), contains
a deletion which removes that portion of the CA sequence downstream of
the MHR and the first third of NC, effectively removing the spacer
peptides and the surrounding sequence. This deletion produced
heterogeneously sized particles (Fig. 9D), which we attributed to
deletion of the C-terminal region of CA-SP. However, it was also
possible that the extension of the deletion into NC contributed to the defect in particle size. This was explored by using NC deletion mutants.
LON1 and Sm-Bs, which lack sequences within NC and retain one copy of
the I domain (Fig.
1), produced particles that were
uniform and
homogeneous in size (Fig.
10A and B).
The slightly
smaller size relative to the internal control of these
uniformly
sized particles might be a consequence of the reduced mass
resulting
from these large deletions (see Discussion). In contrast,

NC,
with almost all of NC deleted, produced particles that were
heterogeneous
in size (Fig.
10C). The latter result was not surprising,
since

NC lacks both copies of the I domain and releases particles
with
low density (
43). If the I domains are not present,
proper interactions
cannot take place among the Gag proteins and
heterogeneous particles
with low density are produced. Thus, along with
having an intact
CA-SP domain, the Gag protein must have at least one
copy of the
I domain to produce particles that are uniform and
homogeneous
in size.
Complementation rescue mediated by CA-SP.
If CA-SP controls
the size of RSV, then it most probably does so through self (i.e.,
CA-SP-CA-SP) interactions. The properties of mutant
NC provided an
opportunity to test this idea. This is the only mutant we have found
that produces heterogeneously sized particles even though it retains
the complete CA-SP sequence. We hypothesized that the CA-SP sequence is
properly folded in this mutant but the absence of I domains results in
local concentrations of Gag that are too low to permit self
interactions (i.e., CA-SP interactions themselves are too weak to
create high-density particles).
To test the ability of

NC to participate in Gag interactions, it was
coexpressed with Gag molecules that have all the assembly
domains (M,
L, and I) and either a mutant or a complete CA-SP
sequence (illustrated
in Fig.
11, top row). When CA deletion
mutant
R-3J or Es-Bg was used, no interactions were observed, as shown
by the continued appearance of mutant

NC in particles of lower
density (Fig.
11, left column). Similar results were obtained with
mutant R-3K (data not shown). In contrast, when

NC was coexpressed
with mutant 3h (which lacks protease but retains CA-SP), it was
found
in particles normal in both density and size (Fig.
11, right
column).
The simplest interpretation of this result is that the
CA-SP sequence
of

NC is indeed properly folded and provides a
means for the mutant
Gag protein to be rescued into normal particles.

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FIG. 11.
Complementation rescue mediated by CA-SP. (Top row) To
test the ability of NC to participate in Gag interactions, it was
coexpressed with Gag molecules that have all the assembly domains (M,
L, and I) and either a mutant or a complete CA-SP sequence. The white
boxes indicate the CA sequence. COS-1 cells were cotransfected with
NC and the rescuing gag allele. At 48 h after
transfection, cells were labeled with [35S]methionine for
8 h. After the labeling period, the medium from each plate was
collected. The particles were then layered onto 10 to 50% sucrose and
centrifuged to equilibrium at 83,500 × g at 4°C for
16 h. Fractions were collected through the bottom of each tube,
immunoprecipitated with a polyclonal rabbit antiserum against RSV,
electrophoresed in an SDS-12% polyacrylamide gel, and detected by
fluorography. The autoradiogram was then quantitated by laser
densitometry. Left column, density gradient of cotransfected R-3J and
NC, as well as Es-Bg and NC, particles. Right column, density and
rate-zonal gradients of cotransfected 3h and NC particles. Particle
sizes were analyzed as described in the legend to Fig. 2. Arrows
indicate the direction of sedimentation.
|
|
 |
DISCUSSION |
In this study, we have shown that the size determinants within the
RSV Gag protein map to just one region, CA-SP, the segment of Gag
consisting of CA plus the spacer peptides located between CA and NC.
CA-SP is the first capsid protein species to be released from Gag. It
previously was referred to as CA1 (7, 30), but we have
adopted the new name to better clarify its structure, which is
analogous to that of the initial cleavage product of HIV, variously
called p25, CA-p2, or CA-SP1. While the sequence comprising CA-SP lies
outside of the assembly domains (M, L, and I) and is completely
dispensable for budding, this study demonstrates that it plays a
fundamental role in constraining the size of the emerging particle. We
use the term "particle" in a broad sense, operationally defined as
a Gag protein released into the medium in a particulate form with a
density similar to that of wild-type virions. However, in those cases
where we have looked, objects with the appearance of true virus-like
particles have always been seen (i.e., particles are membrane enclosed,
have electron-dense cores, etc.).
The major method we employed to analyze particle size, rate-zonal
sedimentation in sucrose gradients, has both advantages and limitations
that bear on the interpretation of the data presented. The advantages
include the display of the entire population of particles and the
standardization provided by internal markers. Among the limitations are
the relative lack of sensitivity of sedimentation rate to small changes
in size. For particles different in sizes but invariant in density,
this rate is directly proportional to the mass and inversely
proportional to the frictional coefficient. For example, for a sphere
of uniform density, a doubling in mass increases the diameter by the
1/3 power and thus the frictional coefficient (which is proportional to
the cross section) by the 2/3 power. As a consequence, the
sedimentation rate will increase only by a factor of 21/3,
or about 26%. This value corresponds to only a few fractions of the
collected gradient. Seen in this light, even small changes in the peak
positions of the deletion mutants imply significant mass differences,
with particles near the bottom of the gradients having masses many
times larger than that of wild-type virions. For deletion mutants
showing the most heterogeneous sedimentation profiles, the budded
particles may not be spherical, as suggested by some of the EM results,
and thus may have increased frictional coefficients and even larger
sizes than expected of spherical particles with this sedimentation
rate. On the other hand, a sedimentation profile coinciding with that
of wild-type virions does not necessarily imply a completely
homogeneous distribution of particles. Recent cryo-EM measurements of
murine leukemia virus (44) and baculovirus-expressed HIV
virus-like particles (12) show that, unlike icosahedral viruses, these retroviruses are not entirely uniform in size. It
remains to be seen to what degree those results can be extrapolated to
avian retroviruses. However, as reported here (Table 1), homogeneous RSV Gag virus-like particles do appear to exhibit variability in
particle diameter.
It should be noted that analysis of one of our mutants,
SP9, using
rate-zonal gradients (Fig. 9B) is at odds with our previously published
EM data which showed that this mutant re-leases particles identical to
those of the wild type (7). While
SP9 can produce particles similar in morphology and size to wild-type virions, a
certain subset of the population is more heterogeneous and may have
been overlooked by EM. The inability to recognize abnormally sized
particles by EM is a limitation of that method of measuring particle
size.
Model of RSV particle assembly.
Our understanding of how
particle assembly occurs during budding is illustrated in Fig.
12. The M, L, and I domains of the RSV
Gag protein provide the minimal budding machinery (Fig. 12A). The M
domain directs the Gag molecules to the plasma membrane; there,
neighboring Gag molecules interact through their I domains via RNA
(1, 38, 43). These strong interactions lead to tight packing
of the Gag molecules which, in turn, allows the CA-SP sequences to
establish contact with one other. The adjacent CA-SP interactions give
proper curvature to the bud as it emerges from the surface of the cell.
L is believed to function late in budding to separate the viral
particle from the cell surface. The result of this process is a viral
particle of uniform shape, density, and size.

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FIG. 12.
Model of RSV particle assembly. Assembly domains M
(black ovals), L (black triangles), and I (black circles) are
indicated. The squiggly line represents the CA-SP sequence. The
horizontal black line denotes the cell membrane. (A) Wild-type Gag
proteins interact to form a budding particle of uniform size and
density. (B) Gag mutants that harbor a CA deletion produce
heterogeneous particles of normal density. (C) Gag mutant that lack
functional I domains (open circles) but retain a properly folded CA-SP
domain produce heterogeneous particles of low density.
|
|
Deletions within CA-SP do not affect the rate of release of
high-density particles, since all three assembly domains are intact
(Fig.
12B). However, CA-SP deletions introduce disorder into the
size
determinant, and when these crippled Gag molecules accumulate
at the
plasma membrane, the CA-SP sequence is no longer able to
constrain the
size of the growing particle. This results in the
accumulation of
large, electron-dense patches of Gag protein underneath
the plasma
membrane (Fig.
3G and H). These patches rapidly pinch
off the cell
surface, producing heterogeneous particles of altered
morphology that
range in size from normal to extremely large.
Interactions provided by CA-SP alone are insufficient both to constrain
particle size and to provide the tight packing of
Gag protein needed
for high density (Fig.
12C). Gag molecules that
lack the I domains (as
indicated by the open ovals) but retain
a properly folded CA-SP domain
are targeted to the plasma membrane;
however, the wild-type CA-SP
domains have difficulty interacting
with one another, and this results
in the release of heterogeneous
particles that are light in density.
Complementation rescue experiments
demonstrated that such an I domain
mutant can be rescued into
dense particles of uniform size when
coexpressed with a Gag protein
containing an intact CA-SP sequence.
Thus, it appears that while
CA-SP is the major size determinant, it is
dependent upon NC to
bring the neighboring CA-SP domains into proper
juxtaposition
for interaction. Together, CA and NC provide the core
interactions
around which particle assembly occurs, as demonstrated by
the
self-assembly of in vitro-expressed RSV and HIV CA-NC in the
presence
of RNA (
3). Thus, as previously suggested
(
8), it appears
that CA and NC function as a unit although
they are proteolytically
cleaved during maturation. CA-SP may organize
the viral protein
within the particle as NC binds viral RNA. We predict
that the
assembly functions associated with CA-SP and NC can be
replaced
with capsid proteins of nonretroviral origin that are capable
of self-assembly in vivo, and such experiments are in progress.
Effects on core morphology.
While extensive deletions outside
of CA-SP had no effects on particle size, every deletion we analyzed
within CA-SP yielded particles that were abnormal in size. Some
mutations produced very large and heterogeneous particles (R-3J),
whereas others were not as varied (Es-Bg). Es-Bg was particularly
interesting because it lacks the MHR and some of the flanking sequence.
The MHR is the most highly conserved region within Gag proteins and is
involved in the maturation of the virion after budding (8, 24,
35). RSV MHR mutants exhibit defects in core stability and
display blocks to infectivity upon entry into the host cell (8). Interestingly, EM analysis of Es-Bg revealed no darkly staining central core but, instead, electron-dense material seemed to
be evenly distributed throughout the particle, consistent with a defect
in core assembly. This is in stark contrast to R-3J, in which the first
half of CA is deleted yet it still forms electron-dense cores. These
data suggest that the first half of CA is situated on the outside,
while the second half (including the MHR) lies toward the center of the
core. This interpretation is compatible with models of the HIV capsid
structure (13, 14, 17).
Smaller mutants.
While the CA-SP sequence provides the major
size determinant, replacement of the large membrane-binding domain of
RSV Gag with smaller ones invariably resulted in slightly smaller
particles (Fig. 5). Because the RSV membrane-binding domain is in tight contact with the viral membrane, substitution of a physically smaller M
domain may take up less space along the membrane and therefore result
in a smaller particle. It also appears that MA may contribute to a
small degree to the density of the particle. The idea of MA-MA
interactions is consistent with previous reports that I domain mutants
can still make particles, although these are low in density (1,
38, 43).
Two large deletions within p10 (

p10.31 and

p10.52) appeared to
produce smaller particles as well (Fig.
6H and I, respectively);
however, the density of these particles was not altered. In this
instance, p10 may act as a spacer region between the membrane-binding
domain and the core (CA and NC). Deletion of this spacer would
effectively bring the core closer to the membrane-binding domain
and
thus produce a smaller particle without altering its density.
We
predict that insertion of large polypeptides into the second
half of MA
or within p10 may result larger particles.
Although the membrane-binding domain mutants and p10 deletions produce
particles that sediment more slowly in a rate-zonal
gradient than the
internal control, it could be argued that the
lower overall mass of the
particles contributed to the slight
shift. While this is a plausible
explanation for the difference
in migration of these mutants, the
protease deletion mutant 3h,
in which 17% of Gag is deleted, is
perfectly normal in size and
diameter (Fig.
2D,
3B, and
4C; Table
1).
In contrast, the p10
deletion mutants and the mutants with smaller
membrane-binding
domains sediment slightly more slowly, even though
they have much
smaller deletions.
Size determinants in other retroviruses.
Although a systematic
search for size determinants has not been done for any other
retrovirus, there are reports in the literature that are consistent
with our findings. Linker insertion mutations and deletions within HIV
CA have been shown to produce particles heterogeneous in size with
diameters of 75 to 315 nm (32). These estimates are similar
to the values we have reported for the RSV CA deletions in Table 1
(R-3J, R-3J.D37S, and DM1). Moreover, previously published data on the
spacer peptide between CA and NC of HIV demonstrated that cells
expressing the protein containing a precise deletion of this region
released heterogeneous particles that were noninfectious
(22). However, there is reason to believe that our findings
with RSV may not apply to all retroviruses. In particular, work in our
laboratory suggests that the p6 sequence at the end of HIV Gag is very
important (15). Clearly, methodical searches for size
determinants in other Gag proteins are warranted.
In summary, we do not know much about the nature of the interactions
that the CA-SP domain provides, but it is clearly important
for
constraining particle size during budding. Our results suggest
that
studies of the mature capsid protein may not reveal the relevant
structures needed during assembly and budding since the spacer
peptides
are absent. Thus, a greater emphasis on the structural
properties of
CA-SP is warranted.
 |
ACKNOWLEDGMENTS |
This work was supported by grants from the National Institutes of
Health awarded to J.W.W. (CA-47482) and V.M.V. (CA-20081) and a grant
from the American Cancer Society awarded to J.W.W. (FRA-427).
We thank L. Parent for use of the Fyn
MB mutant.
 |
FOOTNOTES |
*
Corresponding author. Mailing address: Department of
Microbiology and Immunology, Pennsylvania State University College of Medicine, 500 University Dr., P.O. Box 850, Hershey, PA 17033. Phone:
(717) 531-3528. Fax: (717) 531-6522. E-mail:
jwills{at}bcmic.hmc.psu.edu.
Present address: ABL-Basic Research Program, NCI-Frederick Cancer
Research and Development Center, Frederick, MD 21702.
 |
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