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Nodar Makharashvili Tian Mi Olga Koroleva Sergey Korolev 《The Journal of biological chemistry》2009,284(3):1425-1434
RecF pathway proteins play an important role in the restart of stalled
replication and DNA repair in prokaryotes. Following DNA damage, RecF, RecR,
and RecO initiate homologous recombination (HR) by loading of the RecA
recombinase on single-stranded (ss) DNA, protected by ssDNA-binding protein.
The specific role of RecF in this process is not well understood. Previous
studies have proposed that RecF directs the RecOR complex to boundaries of
damaged DNA regions by recognizing single-stranded/double-stranded (ss/ds) DNA
junctions. RecF belongs to ABC-type ATPases, which function through an
ATP-dependent dimerization. Here, we demonstrate that the RecF of
Deinococcus radiodurans interacts with DNA as an ATP-dependent dimer,
and that the DNA binding and ATPase activity of RecF depend on both the
structure of DNA substrate, and the presence of RecR. We found that RecR
interacts as a tetramer with the RecF dimer. RecR increases the RecF affinity
to dsDNA without stimulating ATP hydrolysis but destabilizes RecF binding to
ssDNA and dimerization, likely due to increasing the ATPase rate. The
DNA-dependent binding of RecR to the RecF-DNA complex occurs through specific
protein-protein interactions without significant contributions from RecR-DNA
interactions. Finally, RecF neither alone nor in complex with RecR
preferentially binds to the ss/dsDNA junction. Our data suggest that the
specificity of the RecFOR complex toward the boundaries of DNA damaged regions
may result from a network of protein-protein and DNA-protein interactions,
rather than a simple recognition of the ss/dsDNA junction by RecF.Homologous recombination
(HR)2 is one of the
primary mechanisms by which cells repair dsDNA breaks (DSBs) and ssDNA gaps
(SSGs), and is important for restart of stalled DNA replication
(1). HR is initiated when
RecA-like recombinases bind to ssDNA forming an extended nucleoprotein
filament, referred to as a presynaptic complex
(2). The potential for genetic
rearrangements dictates that HR initiation is tightly regulated at multiple
levels (1). During replication,
the ssDNA-binding protein (SSB) protects transiently unwound DNA chains,
preventing interactions with recombinases. Following DNA damage, recombination
mediator proteins (RMPs) initiate HR by facilitating the formation of the
recombinase filaments with ssDNA, while removing SSB
(3,
4). Mutations in human proteins
involved in HR initiation are linked to cancer predisposition, chromosome
instability, UV sensitivity, and premature aging diseases
(4–8).
To date, little is known about the mechanism by which RMPs regulate the
formation of the recombinase filaments on the SSB-protected ssDNA.In Escherichia coli, there are two major recombination pathways,
RecBCD and RecF (9,
10). A helicase/nuclease
RecBCD complex processes DSBs and recruits RecA on ssDNA in a
sequence-specific manner
(11–13).
The principle players in the RecF pathway are the RecF, RecO, and RecR
proteins, which form an epistatic group that is important for SSG repair, for
restart of stalled DNA replication, and under specific conditions, can also
process DSBs
(14–20).
Homologs of RecF, -O, and -R are present in the majority of known bacteria
(21), including
Deinococcus radiodurans, extremely radiation-resistant bacteria that
lacks the RecBCD pathway, yet is capable of repairing thousands of DSBs
(22,
23). In addition, the sequence
or functional homologs of RecF pathway proteins are involved in similar
pathways in eukaryotes that include among others WRN, BLM, RAD52, and BRCA2
proteins
(4–8).The involvement of all three RecF, -O, and -R proteins in HR initiation is
well documented by genetic and cellular approaches
(18,
24–30),
yet their biochemical functions in the initiation process remain unclear,
particularly with respect to RecF. RecO and RecR proteins are sufficient to
promote formation of the RecA filament on SSB-bound ssDNA in vitro
(27). The UV-sensitive
phenotype of recF mutants can be suppressed by RecOR overexpression,
suggesting that RecF may direct the RMP complex to DNA-damaged regions where
HR initiation is required
(31). In agreement with this
hypothesis, RecF dramatically increases the efficiency of the RecA loading at
ds/ssDNA junctions with a 3′ ssDNA extension under specific conditions
(32). RecF and RecR proteins
also prevent the RecA filaments from extending into dsDNA regions adjacent to
SSGs (33). These data suggest
that RecF may directly recognize an ss/dsDNA junction structure
(34). However, DNA binding
experiments have not provided clear evidence to support such a hypothesis
(11).The targeting promoted by RecF may also occur through more complex
processes. RecF shares a high structural similarity with the head domain of
Rad50, an ABC-type ATPase that recognizes DSBs and initiates repair in archaea
and eukaryotes (35). All known
ABC-type ATPases function as oligomeric complexes in which a sequence of
inter- and intra-molecular interactions is triggered by the ATP-dependent
dimerization and the dimer-dependent ATP hydrolysis
(36–39).
RecF is also an ATP-dependent DNA-binding protein and a weak DNA-dependent
ATPase (11,
40). RecF forms an
ATP-dependent dimer and all three conserved motifs (Walker A, Walker B, and
“signature”) of RecF are important for ATP-dependent dimerization,
ATP hydrolysis, and functional resistance to DNA damage
(35). Thus, RecF may function
in recombination initiation through a complex pathway of protein-protein and
DNA-protein interactions regulated by ATP-dependent RecF dimerization.In this report, we present a detailed characterization of the RecF
dimerization, and its role in the RecF interaction with various DNA
substrates, with RecR, and in ATP hydrolysis. Our data outline the following
key findings. First, RecF interacts with DNA as a dimer. Second, neither RecF
alone nor the RecFR complex preferentially binds the ss/dsDNA junction.
Finally, RecR changes the ATPase activity and the DNA binding of RecF by
destabilizing the interaction with ssDNA, and greatly enhancing the
interaction with dsDNA. Our results suggest that the specificity of RecF for
the boundaries of SSGs is likely to result from a sequence of protein-protein
interaction events rather than a simple RecF ss/dsDNA binding, underlining a
highly regulated mechanism of the HR initiation by the RecFOR proteins. 相似文献
3.
Eun-Yeong Bergsdorf Anselm A. Zdebik Thomas J. Jentsch 《The Journal of biological chemistry》2009,284(17):11184-11193
Members of the CLC gene family either function as chloride channels or as
anion/proton exchangers. The plant AtClC-a uses the pH gradient across the
vacuolar membrane to accumulate the nutrient
in this organelle. When AtClC-a was
expressed in Xenopus oocytes, it mediated
exchange
and less efficiently mediated Cl–/H+ exchange.
Mutating the “gating glutamate” Glu-203 to alanine resulted in an
uncoupled anion conductance that was larger for Cl– than
. Replacing the “proton
glutamate” Glu-270 by alanine abolished currents. These could be
restored by the uncoupling E203A mutation. Whereas mammalian endosomal ClC-4
and ClC-5 mediate stoichiometrically coupled
2Cl–/H+ exchange, their
transport is largely uncoupled from
protons. By contrast, the AtClC-a-mediated
accumulation in plant vacuoles
requires tight
coupling. Comparison of AtClC-a and ClC-5 sequences identified a proline in
AtClC-a that is replaced by serine in all mammalian CLC isoforms. When this
proline was mutated to serine (P160S), Cl–/H+
exchange of AtClC-a proceeded as efficiently as
exchange, suggesting a role of this residue in
exchange. Indeed, when the corresponding serine of ClC-5 was replaced by
proline, this Cl–/H+ exchanger gained efficient
coupling. When inserted into the model Torpedo chloride channel
ClC-0, the equivalent mutation increased nitrate relative to chloride
conductance. Hence, proline in the CLC pore signature sequence is important
for
exchange and conductance both in
plants and mammals. Gating and proton glutamates play similar roles in
bacterial, plant, and mammalian CLC anion/proton exchangers.CLC proteins are found in all phyla from bacteria to humans and either
mediate electrogenic anion/proton exchange or function as chloride channels
(1). In mammals, the roles of
plasma membrane CLC Cl– channels include transepithelial
transport
(2–5)
and control of muscle excitability
(6), whereas vesicular CLC
exchangers may facilitate endocytosis
(7) and lysosomal function
(8–10)
by electrically shunting vesicular proton pump currents
(11). In the plant
Arabidopsis thaliana, there are seven CLC isoforms
(AtClC-a–AtClC-g)2
(12–15),
which may mostly reside in intracellular membranes. AtClC-a uses the pH
gradient across the vacuolar membrane to transport the nutrient nitrate into
that organelle (16). This
secondary active transport requires a tightly coupled
exchange. Astonishingly, however, mammalian ClC-4 and -5 and bacterial EcClC-1
(one of the two CLC isoforms in Escherichia coli) display tightly
coupled Cl–/H+ exchange, but anion flux is largely
uncoupled from H+ when
is transported
(17–21).
The lack of appropriate expression systems for plant CLC transporters
(12) has so far impeded
structure-function analysis that may shed light on the ability of AtClC-a to
perform efficient
exchange. This dearth of data contrasts with the extensive mutagenesis work
performed with CLC proteins from animals and bacteria.The crystal structure of bacterial CLC homologues
(22,
23) and the investigation of
mutants (17,
19–21,
24–29)
have yielded important insights into their structure and function. CLC
proteins form dimers with two largely independent permeation pathways
(22,
25,
30,
31). Each of the monomers
displays two anion binding sites
(22). A third binding site is
observed when a certain key glutamate residue, which is located halfway in the
permeation pathway of almost all CLC proteins, is mutated to alanine
(23). Mutating this gating
glutamate in CLC Cl– channels strongly affects or even
completely suppresses single pore gating
(23), whereas CLC exchangers
are transformed by such mutations into pure anion conductances that are not
coupled to proton transport
(17,
19,
20). Another key glutamate,
located at the cytoplasmic surface of the CLC monomer, seems to be a hallmark
of CLC anion/proton exchangers. Mutating this proton glutamate to
nontitratable amino acids uncouples anion transport from protons in the
bacterial EcClC-1 protein (27)
but seems to abolish transport altogether in mammalian ClC-4 and -5
(21). In those latter
proteins, anion transport could be restored by additionally introducing an
uncoupling mutation at the gating glutamate
(21).The functional complementation by AtClC-c and -d
(12,
32) of growth phenotypes of a
yeast strain deleted for the single yeast CLC Gef1
(33) suggested that these
plant CLC proteins function in anion transport but could not reveal details of
their biophysical properties. We report here the first functional expression
of a plant CLC in animal cells. Expression of wild-type (WT) and mutant
AtClC-a in Xenopus oocytes indicate a general role of gating and
proton glutamate residues in anion/proton coupling across different isoforms
and species. We identified a proline in the CLC signature sequence of AtClC-a
that plays a crucial role in
exchange. Mutating it to serine, the residue present in mammalian CLC proteins
at this position, rendered AtClC-a Cl–/H+ exchange
as efficient as
exchange. Conversely, changing the corresponding serine of ClC-5 to proline
converted it into an efficient
exchanger. When proline replaced the critical serine in Torpedo
ClC-0, the relative conductance of
this model Cl– channel was drastically increased, and
“fast” protopore gating was slowed. 相似文献
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Mikael K. Schnizler Katrin Schnizler Xiang-ming Zha Duane D. Hall John A. Wemmie Johannes W. Hell Michael J. Welsh 《The Journal of biological chemistry》2009,284(5):2697-2705
The acid-sensing ion channel 1a (ASIC1a) is widely expressed in central and
peripheral neurons where it generates transient cation currents when
extracellular pH falls. ASIC1a confers pH-dependent modulation on postsynaptic
dendritic spines and has critical effects in neurological diseases associated
with a reduced pH. However, knowledge of the proteins that interact with
ASIC1a and influence its function is limited. Here, we show that
α-actinin, which links membrane proteins to the actin cytoskeleton,
associates with ASIC1a in brain and in cultured cells. The interaction
depended on an α-actinin-binding site in the ASIC1a C terminus that was
specific for ASIC1a versus other ASICs and for α-actinin-1 and
-4. Co-expressing α-actinin-4 altered ASIC1a current density, pH
sensitivity, desensitization rate, and recovery from desensitization.
Moreover, reducing α-actinin expression altered acid-activated currents
in hippocampal neurons. These findings suggest that α-actinins may link
ASIC1a to a macromolecular complex in the postsynaptic membrane where it
regulates ASIC1a activity.Acid-sensing ion channels
(ASICs)2 are
H+-gated members of the DEG/ENaC family
(1–3).
Members of this family contain cytosolic N and C termini, two transmembrane
domains, and a large cysteine-rich extracellular domain. ASIC subunits combine
as homo- or heterotrimers to form cation channels that are widely expressed in
the central and peripheral nervous systems
(1–4).
In mammals, four genes encode ASICs, and two subunits, ASIC1 and ASIC2, have
two splice forms, a and b. Central nervous system neurons express ASIC1a,
ASIC2a, and ASIC2b
(5–7).
Homomeric ASIC1a channels are activated when extracellular pH drops below 7.2,
and half-maximal activation occurs at pH 6.5–6.8
(8–10).
These channels desensitize in the continued presence of a low extracellular
pH, and they can conduct Ca2+
(9,
11–13).
ASIC1a is required for acid-evoked currents in central nervous system neurons;
disrupting the gene encoding ASIC1a eliminates H+-gated currents
unless extracellular pH is reduced below pH 5.0
(5,
7).Previous studies found ASIC1a enriched in synaptosomal membrane fractions
and present in dendritic spines, the site of excitatory synapses
(5,
14,
15). Consistent with this
localization, ASIC1a null mice manifested deficits in hippocampal
long term potentiation, learning, and memory, which suggested that ASIC1a is
required for normal synaptic plasticity
(5,
16). ASICs might be activated
during neurotransmission when synaptic vesicles empty their acidic contents
into the synaptic cleft or when neuronal activity lowers extracellular pH
(17–19).
Ion channels, including those at the synapse often interact with multiple
proteins in a macromolecular complex that incorporates regulators of their
function (20,
21). For ASIC1a, only a few
interacting proteins have been identified. Earlier work indicated that ASIC1a
interacts with another postsynaptic scaffolding protein, PICK1
(15,
22,
23). ASIC1a also has been
reported to interact with annexin II light chain p11 through its cytosolic N
terminus to increase cell surface expression
(24) and with
Ca2+/calmodulin-dependent protein kinase II to phosphorylate the
channel (25). However, whether
ASIC1a interacts with additional proteins and with the cytoskeleton remain
unknown. Moreover, it is not known whether such interactions alter ASIC1a
function.In analyzing the ASIC1a amino acid sequence, we identified cytosolic
residues that might bind α-actinins. α-Actinins cluster membrane
proteins and signaling molecules into macromolecular complexes and link
membrane proteins to the actincytoskeleton (for review, Ref.
26). Four genes encode
α-actinin-1, -2, -3, and -4 isoforms. α-Actinins contain an
N-terminal head domain that binds F-actin, a C-terminal region containing two
EF-hand motifs, and a central rod domain containing four spectrin-like motifs
(26–28).
The C-terminal portion of the rod segment appears to be crucial for binding to
membrane proteins. The α-actinins assemble into antiparallel homodimers
through interactions in their rod domain. α-Actinins-1, -2, and -4 are
enriched in dendritic spines, concentrating at the postsynaptic membrane
(29–35).
In the postsynaptic membrane of excitatory synapses, α-actinin connects
the NMDA receptor to the actin cytoskeleton, and this interaction is key for
Ca2+-dependent inhibition of NMDA receptors
(36–38).
α-Actinins can also regulate the membrane trafficking and function of
several cation channels, including L-type Ca2+ channels,
K+ channels, and TRP channels
(39–41).To better understand the function of ASIC1a channels in macromolecular
complexes, we asked if ASIC1a associates with α-actinins. We were
interested in the α-actinins because they and ASIC1a, both, are present
in dendritic spines, ASIC1a contains a potential α-actinin binding
sequence, and the related epithelial Na+ channel (ENaC) interacts
with the cytoskeleton (42,
43). Therefore, we
hypothesized that α-actinin interacts structurally and functionally with
ASIC1a. 相似文献
10.
Jacamo R Sinnett-Smith J Rey O Waldron RT Rozengurt E 《The Journal of biological chemistry》2008,283(19):12877-12887
Protein kinase D (PKD) is a serine/threonine protein kinase rapidly
activated by G protein-coupled receptor (GPCR) agonists via a protein kinase C
(PKC)-dependent pathway. Recently, PKD has been implicated in the regulation
of long term cellular activities, but little is known about the mechanism(s)
of sustained PKD activation. Here, we show that cell treatment with the
preferential PKC inhibitors GF 109203X or Gö 6983 blocked rapid
(1–5-min) PKD activation induced by bombesin stimulation, but this
inhibition was greatly diminished at later times of bombesin stimulation
(e.g. 45 min). These results imply that GPCR-induced PKD activation
is mediated by early PKC-dependent and late PKC-independent mechanisms.
Western blot analysis with site-specific antibodies that detect the
phosphorylated state of the activation loop residues Ser744 and
Ser748 revealed striking PKC-independent phosphorylation of
Ser748 as well as Ser744 phosphorylation that remained
predominantly but not completely PKC-dependent at later times of bombesin or
vasopressin stimulation (20–90 min). To determine the mechanisms
involved, we examined activation loop phosphorylation in a set of PKD mutants,
including kinase-deficient, constitutively activated, and PKD forms in which
the activation loop residues were substituted for alanine. Our results show
that PKC-dependent phosphorylation of the activation loop Ser744
and Ser748 is the primary mechanism involved in early phase PKD
activation, whereas PKD autophosphorylation on Ser748 is a major
mechanism contributing to the late phase of PKD activation occurring in cells
stimulated by GPCR agonists. The present studies identify a novel mechanism
induced by GPCR activation that leads to late, PKC-independent PKD
activation.A rapid increase in the synthesis of lipid-derived second messengers with
subsequent activation of protein phosphorylation cascades has emerged as a
fundamental signal transduction mechanism triggered by multiple extracellular
stimuli, including hormones, neurotransmitters, chemokines, and growth factors
(1). Many of these agonists
bind to G protein-coupled receptors
(GPCRs),4 activate
heterotrimeric G proteins and stimulate isoforms of the phospholipase C
family, including β, γ, δ, and ε (reviewed in Refs.
1 and
2). Activated phospholipase Cs
catalyze the hydrolysis of phosphatidylinositol 4,5-bisphosphate to produce
the second messengers inositol 1,4,5-trisphosphate and diacylglycerol (DAG).
Inositol 1,4,5-trisphosphate mobilizes Ca2+ from intracellular
stores (3,
4) whereas DAG directly
activates the classic (α, β, and γ) and novel (δ,
ε, η, and θ) isoforms of PKC
(5–7).
Although it is increasingly recognized that each PKC isozyme has specific
functions in vivo
(5–8),
the mechanisms by which PKC-mediated signals are propagated to critical
downstream targets remain incompletely defined.PKD, also known initially as PKCμ
(9,
10), and two recently
identified serine protein kinases termed PKD2
(11) and PKCν/PKD3
(12,
13), which are similar in
overall structure and primary amino acid sequence to PKD
(14), constitute a new protein
kinase family within the Ca2+/calmodulin-dependent protein kinase
group (15) and separate from
the previously identified PKCs
(14). Salient features of PKD
structure include an N-terminal regulatory region containing a tandem repeat
of cysteine-rich zinc finger-like motifs (termed the cysteine-rich domain)
that confers high affinity binding to phorbol esters and DAG
(9,
16,
17), followed by a pleckstrin
homology (PH) domain that negatively regulates catalytic activity
(18,
19). The C-terminal region of
the PKDs contains its catalytic domain, which is distantly related to
Ca2+-regulated kinases.In unstimulated cells, PKD is in a state of low kinase catalytic activity
maintained by the N-terminal domain, which represses the catalytic activity of
the enzyme by autoinhibition. Consistent with this model, deletions or single
amino acid substitutions in the PH domain result in constitutive kinase
activity
(18–20).
Physiological activation of PKD within cells occurs via a
phosphorylation-dependent mechanism first identified in our laboratory
(21). In response to cellular
stimuli, PKD is converted from a low activity form into a persistently active
form that is retained during isolation from cells, as shown by in
vitro kinase assays performed in the absence of lipid co-activators
(21,
22). PKD activation has been
demonstrated in response to engagement of specific GPCRs either by regulatory
peptides
(23–30)
or lysophosphatidic acid (27,
31,
32); signaling through
Gq, G12, Gi, and Rho
(27,
31–34);
activation of receptor tyrosine kinases, such as the platelet-derived growth
factor receptor (23,
35,
36); cross-linking of B-cell
receptor and T-cell receptor in B and T lymphocytes, respectively
(37–40);
and oxidative stress
(41–44).Throughout these studies, multiple lines of evidence indicated that PKC
activity is necessary for rapid PKD activation within intact cells. For
example, rapid PKD activation was selectively and potently blocked by cell
treatment with preferential PKC inhibitors (e.g. GF 109203X or
Gö 6983) that do not directly inhibit PKD catalytic activity
(21,
22), implying that PKD
activation in intact cells is mediated, directly or indirectly, through PKCs.
In line with this conclusion, cotransfection of PKD with active mutant forms
of “novel” PKCs (PKCs δ, ε, η, and θ)
resulted in robust PKD activation in the absence of cell stimulation
(21,
44–46).
Many reports demonstrated the operation of a rapid PKC/PKD signaling cascade
in response to multiple GPCR agonists in a broad range of cell types,
including normal and cancer cells (reviewed in Ref.
14). Our previous studies
identified Ser744 and Ser748 in the PKD activation loop
(also referred as the activation segment or T-loop) as phosphorylation sites
critical for PKC-mediated PKD activation (reviewed in Ref.
14). Collectively, these
findings demonstrated the existence of rapidly activated PKC-PKD protein
kinase cascade(s) and raised the possibility that some PKC-dependent
biological responses involve PKD acting as a downstream effector.PKD has been reported recently to mediate several important cellular
activities and processes, including signal transduction
(30,
47–49),
chromatin modification (50),
Golgi organization and function
(51,
52), c-Jun function
(47,
53,
54), NFκB-mediated gene
expression (43,
55,
56), and cell survival,
migration, and differentiation and DNA synthesis and proliferation (reviewed
in Ref. 14). Thus, mounting
evidence indicates that PKD has a remarkable diversity of both its signal
generation and distribution and its potential for complex regulatory
interactions with multiple downstream pathways, leading to multiple responses,
including long term cellular events. Despite increasing recognition of its
importance, very little is known about the mechanism(s) of sustained PKD
activation as opposed to the well documented rapid, PKC-dependent PKD
activation.The results presented here demonstrate that prolonged GPCR-induced PKD
activation is mediated by sequential PKC-dependent and PKC-independent phases
of regulation. We report here, for the first time, that PKD
autophosphorylation on Ser748 is a major mechanism contributing to
the late phase of PKD activation occurring in cells stimulated by GPCR
agonists. The present studies expand previous models of PKD regulation by
identifying a novel mechanism induced by GPCR activation that leads to late,
PKC-independent PKD activation. 相似文献
11.
Lata Balakrishnan Patrick D. Brandt Laura A. Lindsey-Boltz Aziz Sancar Robert A. Bambara 《The Journal of biological chemistry》2009,284(22):15158-15172
Base excision repair, a major repair pathway in mammalian cells, is
responsible for correcting DNA base damage and maintaining genomic integrity.
Recent reports show that the Rad9-Rad1-Hus1 complex (9-1-1) stimulates enzymes
proposed to perform a long patch-base excision repair sub-pathway (LP-BER),
including DNA glycosylases, apurinic/apyrimidinic endonuclease 1 (APE1), DNA
polymerase β (pol β), flap endonuclease 1 (FEN1), and DNA ligase I
(LigI). However, 9-1-1 was found to produce minimal stimulation of FEN1 and
LigI in the context of a complete reconstitution of LP-BER. We show here that
pol β is a robust stimulator of FEN1 and a moderate stimulator of LigI.
Apparently, there is a maximum possible stimulation of these two proteins such
that after responding to pol β or another protein in the repair complex,
only a small additional response to 9-1-1 is allowed. The 9-1-1 sliding clamp
structure must serve primarily to coordinate enzyme actions rather than
enhancing rate. Significantly, stimulation by the polymerase involves
interaction of primer terminus-bound pol β with FEN1 and LigI. This
observation provides compelling evidence that the proposed LP-BER pathway is
actually employed in cells. Moreover, this pathway has been proposed to
function by sequential enzyme actions in a “hit and run”
mechanism. Our results imply that this mechanism is still carried out, but in
the context of a multienzyme complex that remains structurally intact during
the repair process.The mammalian genome experiences constant stress from both external and
internal factors that causes genomic instability. Eukaryotic cells have
developed a number of DNA repair pathways that correct DNA damage before it
results in permanent chromosomal alteration. Base excision repair
(BER)3 is the major
pathway responsible for reversing DNA damage sustained by individual
nucleotide bases. Mammalian BER is initiated by DNA glycosylases, which
recognize structural alteration of a nitrogenous base and excise it leaving an
intact sugar-phosphate backbone with an apurinic/apyrimidinic (AP) site
(1). AP sites in humans are
detected by AP endonuclease 1 (APE1) that cleaves the phosphate backbone of
the damaged strand, leaving a nick with a 3′-OH group and a
5′-deoxyribose phosphate (dRP) residue. The dRP-bordered nick is not a
substrate for ligation. If the dRP residue is not oxidized or reduced, repair
can proceed via a short patch-BER pathway, in which the dRP residue is removed
by the 5′-lyase activity of DNA polymerase β (pol β), which
concurrently fills in the 1-nt gap, and the resulting nick is sealed by the
DNA ligase III-XRCC1 complex
(2-4).However, if the oxidative state of the dRP is altered, the lyase activity
of pol β is inhibited, but the polymerase activity of pol β can
still displace the oxidized or reduced dRP residue into a 2-10-nt 5′
flap intermediate, which will then be cleaved by FEN1 and subsequently joined
by LigI
(4-7).
This process is known as long patch-base excision repair (LP-BER). Recent
studies examining the relevance of the two different pathways in
vitro predict a predominant role for short patch-BER in the cell as
compared with LP-BER (8).
Because the cell undergoes constant repair of damaged bases, it is very
difficult to assess the relative use of one pathway over the other in
vivo. Studies using plasmid DNA containing defined DNA damage have been
used as an indirect approach to evaluate the role of the two different BER
pathways in cells and the size of the DNA repair patches
(9). Results from these studies
have shown that repair patches of 6-12 nucleotides are generated during repair
of plasmids that contain a single base lesion, at least supporting the
existence of LP-BER in vivo.LP-BER has also been proposed to proceed by either a PCNA-dependent
sub-pathway involving the use of DNA pol δ/ε or a PCNA-independent
sub-pathway that uses only DNA pol β. However, most LP-BER reconstitution
experiments in vitro indicate that pol β works more efficiently
than pol δ with the other proposed LP-BER proteins. FEN1 is known to
stimulate pol β-mediated DNA synthesis on an LP-BER substrate suggesting
that these two proteins interact functionally and mechanistically
(10). pol β has also been
shown to interact with LigI by co-immunoprecipitation experiments indicating
that they might be a part of a multiprotein DNA repair complex
(11).The heterotrimeric protein complex, Rad9, Rad1, and Hus1 (the 9-1-1
complex), plays a significant role in the early recognition of DNA damage and
recruiting appropriate proteins to repair sites. The 9-1-1 complex interacts
with several of the proteins involved in the proposed BER pathways, including
DNA glycosylases
(12-14),
APE1 (15), pol β
(16), FEN1
(17,18),
and LigI (19,
20). In a recent report
(15), the 9-1-1 complex was
shown to interact both physically and functionally with APE1 and pol β
and to stimulate their respective activities. Stimulation of the endonuclease
ensures the abasic site is recognized and cleaved off efficiently. Stimulation
of nucleotide addition by pol β is expected to promote the LP-BER
sub-pathway, as 9-1-1 stimulates the strand displacement activity of pol
β, thereby requiring FEN1 flap cleavage before ligation to repair the
site of damage. Because 9-1-1 is structurally similar to the sliding clamp
PCNA, early studies were focused on determining the effects of 9-1-1 on DNA
replication and repair proteins previously shown to be stimulated by PCNA. The
9-1-1 complex has been reported to stimulate both FEN1 cleavage
(17,
18) and nick sealing by LigI
(20) in vitro.
However, the 9-1-1 clamp poorly stimulated FEN1 and LigI in the entire
LP-BER-reconstituted system as compared with strong stimulation by 9-1-1 of
individual cognate substrates
(15). The authors
(15) suggest that FEN1 and
LigI evolved to respond to stimulation by PCNA and not 9-1-1 during LP-BER.
The issue with this explanation is that it does not take into consideration
how LP-BER would be efficiently carried out when damage-induced p21 binds and
inhibits PCNA (21).To define how 9-1-1 interacts with the components of BER, we have
reconstituted the entire LP-BER pathway using purified human enzymes and
substrates that simulate an abasic site created after recognition and cleavage
of damaged base by a glycosylase. Similar to results of Gembka et al.
(15), we observe much less
stimulation of either FEN1 or LigI by 9-1-1 in the fully reconstituted system
compared with 9-1-1 stimulation of FEN1 on a flap substrate or LigI on a
nicked substrate alone. Our subsequent analysis of the protein-protein
interactions among the various LP-BER enzymes provides insight into why the
9-1-1 clamp exhibits minimal stimulation in the reconstituted system.
Moreover, our mechanistic characterization of the significant role of pol
β in mediating the activities of various enzymes in the multiprotein
repair complex both explains the behavior of 9-1-1 and strongly suggests the
existence of the LP-BER pathway in vivo. 相似文献
12.
13.
14.
Rosanna Pescini Gobert Monique van den Eijnden Cedric Szyndralewiez Catherine Jorand-Lebrun Dominique Swinnen Linfeng Chen Corine Gillieron Fiona Pixley Pierre Juillard Patrick Gerber Caroline Johnson-L��ger Serge Halazy Montserrat Camps Agnes Bombrun Margaret Shipp Pierre-Alain Vitte Vittoria Ardissone Chiara Ferrandi Dominique Perrin Christian Rommel Rob Hooft van Huijsduijnen 《The Journal of biological chemistry》2009,284(17):11385-11395
15.
A key set of reactions for the initiation of new DNA strands during herpes
simplex virus-1 replication consists of the primase-catalyzed synthesis of
short RNA primers followed by polymerase-catalyzed DNA synthesis
(i.e. primase-coupled polymerase activity). Herpes primase
(UL5-UL52-UL8) synthesizes products from 2 to ∼13 nucleotides long.
However, the herpes polymerase (UL30 or UL30-UL42) only elongates those at
least 8 nucleotides long. Surprisingly, coupled activity was remarkably
inefficient, even considering only those primers at least 8 nucleotides long,
and herpes polymerase typically elongated <2% of the primase-synthesized
primers. Of those primers elongated, only 4–26% of the primers were
passed directly from the primase to the polymerase (UL30-UL42) without
dissociating into solution. Comparing RNA primer-templates and DNA
primer-templates of identical sequence showed that herpes polymerase greatly
preferred to elongate the DNA primer by 650–26,000-fold, thus accounting
for the extremely low efficiency with which herpes polymerase elongated
primase-synthesized primers. Curiously, one of the DNA polymerases of the host
cell, polymerase α (p70-p180 or p49-p58-p70-p180 complex), extended
herpes primase-synthesized RNA primers much more efficiently than the viral
polymerase, raising the possibility that the viral polymerase may not be the
only one involved in herpes DNA replication.Herpes simplex virus 1
(HSV-1)2 encodes seven
proteins essential for replicating its double-stranded DNA genome; five of
these encode the heterotrimeric helicase-primase (UL5-UL52-UL8 gene products)
and the heterodimeric polymerase (UL30-UL42 gene products)
(1,
2). The helicase-primase
unwinds the DNA at the replication fork and generates single-stranded DNA for
both leading and lagging strand synthesis. Primase synthesizes short RNA
primers on the lagging strand that the polymerase presumably elongates using
dNTPs (i.e. primase-coupled polymerase activity). These two protein
complexes are thought to replicate the viral genome on both the leading and
lagging strands (1,
2).Previous studies have focused on the helicase-primase and polymerase
separately. The helicase-primase contains three subunits, UL5, UL52, and UL8
in a 1:1:1 ratio
(3–5).
The UL5 subunit has helicase-like motifs and the UL52 subunit has primase-like
motifs, yet the minimal active complex that demonstrates either helicase or
primase activities contains both UL5 and UL52
(6,
7). Although the UL8 subunit
has no known catalytic activity, several functions have been proposed,
including enhancing helicase and primase activities, enhancing primer
synthesis on ICP8 (the HSV-1 single-stranded binding protein)-coated DNA
strands, and facilitating formation of the replisome
(8–12).
Although primase will synthesize short
(2–3
nucleotides long) primers on a variety of template sequences, synthesis of
longer primers up to 13 nucleotides long requires the template sequence,
3′-deoxyguanidine-pyrimidine-pyrimidine-5′
(13). Primase initiates
synthesis at the first pyrimidine via the polymerization of two purine NTPs
(13). Even after initiation at
this sequence, however, the vast majority of products are only 2–3
nucleotides long (13,
14).The herpes polymerase consists of the UL30 subunit, which has polymerase
and 3′ → 5′ exonuclease activities
(1,
2), and the UL42 subunit, which
serves as a processivity factor
(15–17).
Unlike most processivity factors that encircle the DNA, the UL42 protein binds
double-stranded DNA and thus directly tethers the polymerase to the DNA
(18). Using pre-existing DNA
primer-templates as the substrate, the heterodimeric polymerase (UL30-UL42)
incorporates dNTPs at a rate of 150 s–1, a rate much faster
than primer synthesis (for primers >7 nucleotides long, 0.0002–0.01
s–1) (19,
20).We examined primase-coupled polymerase activity by the herpes primase and
polymerase complexes. Although herpes primase synthesizes RNA primers
2–13 nucleotides long, the polymerase only effectively elongates those
at least 8 nucleotides long. Surprisingly, the polymerase elongated only a
small fraction of the primase-synthesized primers (<1–2%), likely
because of the polymerase elongating RNA primer-templates much less
efficiently than DNA primer-templates. In contrast, human DNA polymerase
α (pol α) elongated the herpes primase-synthesized primers very
efficiently. The biological significance of these data is discussed. 相似文献
16.
Motoki Takaku Shinichi Machida Noriko Hosoya Shugo Nakayama Yoshimasa Takizawa Isao Sakane Takehiko Shibata Kiyoshi Miyagawa Hitoshi Kurumizaka 《The Journal of biological chemistry》2009,284(21):14326-14336
The RAD51 protein is a central player in homologous recombinational repair.
The RAD51B protein is one of five RAD51 paralogs that function in the
homologous recombinational repair pathway in higher eukaryotes. In the present
study, we found that the human EVL (Ena/Vasp-like) protein, which is suggested
to be involved in actin-remodeling processes, unexpectedly binds to the RAD51
and RAD51B proteins and stimulates the RAD51-mediated homologous pairing and
strand exchange. The EVL knockdown cells impaired RAD51 assembly onto damaged
DNA after ionizing radiation or mitomycin C treatment. The EVL protein alone
promotes single-stranded DNA annealing, and the recombination activities of
the EVL protein are further enhanced by the RAD51B protein. The expression of
the EVL protein is not ubiquitous, but it is significantly expressed in breast
cancer-derived MCF7 cells. These results suggest that the EVL protein is a
novel recombination factor that may be required for repairing specific DNA
lesions, and that may cause tumor malignancy by its inappropriate
expression.Chromosomal DNA double strand breaks
(DSBs)2 are potential
inducers of chromosomal aberrations and tumorigenesis, and they are accurately
repaired by the homologous recombinational repair (HRR) pathway, without base
substitutions, deletions, and insertions
(1–3).
In the HRR pathway (4,
5), single-stranded DNA (ssDNA)
tails are produced at the DSB sites. The RAD51 protein, a eukaryotic homologue
of the bacterial RecA protein, binds to the ssDNA tail and forms a helical
nucleoprotein filament. The RAD51-ssDNA filament then binds to the intact
double-stranded DNA (dsDNA) to form a three-component complex, containing
ssDNA, dsDNA, and the RAD51 protein. In this three-component complex, the
RAD51 protein promotes recombination reactions, such as homologous pairing and
strand exchange
(6–9).The RAD51 protein requires auxiliary proteins to promote the homologous
pairing and strand exchange reactions efficiently in cells
(10–12).
In humans, the RAD52, RAD54, and RAD54B proteins directly interact with the
RAD51 protein
(13–17)
and stimulate the RAD51-mediated homologous pairing and/or strand exchange
reactions in vitro
(18–21).
The human RAD51AP1 protein, which directly binds to the RAD51 protein
(22), was also found to
stimulate RAD51-mediated homologous pairing in vitro
(23,
24). The BRCA2 protein
contains ssDNA-binding, dsDNA-binding, and RAD51-binding motifs
(25–33),
and the Ustilago maydis BRCA2 ortholog, Brh2, reportedly stimulated
RAD51-mediated strand exchange
(34,
35). Most of these
RAD51-interacting factors are known to be required for efficient RAD51
assembly onto DSB sites in cells treated with ionizing radiation
(10–12).The RAD51B (RAD51L1, Rec2) protein is a member of the RAD51 paralogs, which
share about 20–30% amino acid sequence similarity with the RAD51 protein
(36–38).
RAD51B-deficient cells are hypersensitive to DSB-inducing agents,
such as cisplatin, mitomycin C (MMC), and γ-rays, indicating that the
RAD51B protein is involved in the HRR pathway
(39–44).
Genetic experiments revealed that RAD51B-deficient cells exhibited
impaired RAD51 assembly onto DSB sites
(39,
44), suggesting that the
RAD51B protein functions in the early stage of the HRR pathway. Biochemical
experiments also suggested that the RAD51B protein participates in the early
to late stages of the HRR pathway
(45–47).In the present study, we found that the human EVL (Ena/Vasp-like) protein
binds to the RAD51 and RAD51B proteins in a HeLa cell extract. The EVL protein
is known to be involved in cytoplasmic actin remodeling
(48) and is also overexpressed
in breast cancer (49). Like
the RAD51B knockdown cells, the EVL knockdown cells partially impaired RAD51
foci formation after DSB induction, suggesting that the EVL protein enhances
RAD51 assembly onto DSB sites. The purified EVL protein preferentially bound
to ssDNA and stimulated RAD51-mediated homologous pairing and strand exchange.
The EVL protein also promoted the annealing of complementary strands. These
recombination reactions that were stimulated or promoted by the EVL protein
were further enhanced by the RAD51B protein. These results strongly suggested
that the EVL protein is a novel factor that activates RAD51-mediated
recombination reactions, probably with the RAD51B protein. We anticipate that,
in addition to its involvement in cytoplasmic actin dynamics, the EVL protein
may be required in homologous recombination for repairing specific DNA
lesions, and it may cause tumor malignancy by inappropriate recombination
enhanced by EVL overexpression in certain types of tumor cells. 相似文献
17.
18.
Rebecca A. Chanoux Bu Yin Karen A. Urtishak Amma Asare Craig H. Bassing Eric J. Brown 《The Journal of biological chemistry》2009,284(9):5994-6003
Chromosomal abnormalities are frequently caused by problems encountered
during DNA replication. Although the ATR-Chk1 pathway has previously been
implicated in preventing the collapse of stalled replication forks into
double-strand breaks (DSB), the importance of the response to fork collapse in
ATR-deficient cells has not been well characterized. Herein, we demonstrate
that, upon stalled replication, ATR deficiency leads to the phosphorylation of
H2AX by ATM and DNA-PKcs and to the focal accumulation of Rad51, a marker of
homologous recombination and fork restart. Because H2AX has been shown to play
a facilitative role in homologous recombination, we hypothesized that H2AX
participates in Rad51-mediated suppression of DSBs generated in the absence of
ATR. Consistent with this model, increased Rad51 focal accumulation in
ATR-deficient cells is largely dependent on H2AX, and dual deficiencies in ATR
and H2AX lead to synergistic increases in chromatid breaks and translocations.
Importantly, the ATM and DNA-PK phosphorylation site on H2AX
(Ser139) is required for genome stabilization in the absence of
ATR; therefore, phosphorylation of H2AX by ATM and DNA-PKcs plays a pivotal
role in suppressing DSBs during DNA synthesis in instances of ATR pathway
failure. These results imply that ATR-dependent fork stabilization and
H2AX/ATM/DNA-PKcs-dependent restart pathways cooperatively suppress
double-strand breaks as a layered response network when replication
stalls.Genome maintenance prevents mutations that lead to cancer and age-related
diseases. A major challenge in preserving genome integrity occurs in the
simple act of DNA replication, in which failures at numerous levels can occur.
Besides the mis-incorporation of nucleotides, it is during this phase of the
cell cycle that the relatively stable double-stranded nature of DNA is
temporarily suspended at the replication fork, a structure that is susceptible
to collapse into
DSBs.2 Replication
fork stability is maintained by a variety of mechanisms, including activation
of the ATR-dependent checkpoint pathway.The ATR pathway is activated upon the generation and recognition of
extended stretches of single-stranded DNA at stalled replication forks
(1-4).
Genome maintenance functions for ATR and orthologs in yeast were first
indicated by increased chromatid breaks in ATR-/- cultured cells
(5) and by the
“cut” phenotype observed in Mec1 (Saccharomyces
cerevisiae) and Rad3 (Schizosaccharomyces pombe) mutants
(6-9).
Importantly, subsequent studies in S. cerevisiae demonstrated that
mutation of Mec1 or the downstream checkpoint kinase Rad53 led to increased
chromosome breaks at regions of the genome that are inherently difficult to
replicate (10), and a
decreased ability to reinitiate replication fork progression following DNA
damage or deoxyribonucleotide depletion
(11-14).In vertebrates, similar replication fork stabilizing functions have been
demonstrated for ATR and the downstream protein kinase Chk1
(15-20).
Several possible mechanisms have been put forward to explain how ATR-Chk1 and
orthologous pathways in yeast maintain replication fork stability, including
maintenance of replicative polymerases (α, δ, and ε) at forks
(17,
21), regulation of branch
migrating helicases, such as Blm
(22-25),
and regulation of homologous recombination, either positively or negatively
(26-29).Consistent with the role of the ATR-dependent checkpoint in replication
fork stability, common fragile sites, located in late-replicating regions of
the genome, are significantly more unstable (5-10-fold) in the absence of ATR
or Chk1 (19,
20). Because these sites are
favored regions of instability in oncogene-transformed cells and preneoplastic
lesions (30,
31), it is possible that the
increased tumor incidence observed in ATR haploinsufficient mice
(5,
32) may be related to subtle
increases in genomic instability. Together, these studies indicate that
maintenance of replication fork stability may contribute to tumor
suppression.It is important to note that prevention of fork collapse represents an
early response to problems occurring during DNA replication. In the event of
fork collapse into DSBs, homologous recombination (HR) has also been
demonstrated to play a key role in genome stability during S phase by
catalyzing recombination between sister chromatids as a means to re-establish
replication forks (33).
Importantly, a facilitator of homologous recombination, H2AX, has been shown
to be phosphorylated under conditions that cause replication fork collapse
(18,
34).Phosphorylation of H2AX occurs predominantly upon DSB formation
(34-38)
and has been reported to require ATM, DNA-PKcs, or ATR, depending on the
context
(37-42).
Although H2AX is not essential for HR, studies have demonstrated that H2AX
mutation leads to deficiencies in HR
(43,
44), and suppresses events
associated with homologous recombination, such as the focal accumulation of
Rad51, BRCA1, BRCA2, ubiquitinated-FANCD2, and Ubc13-mediated chromatin
ubiquitination (43,
45-51).
Therefore, through its contribution to HR, it is possible that H2AX plays an
important role in replication fork stability as part of a salvage pathway to
reinitiate replication following collapse.If ATR prevents the collapse of stalled replication forks into DSBs, and
H2AX facilitates HR-mediated restart, the combined deficiency in ATR and H2AX
would be expected to dramatically enhance the accumulation of DSBs upon
replication fork stalling. Herein, we utilize both partial and complete
elimination of ATR and H2AX to demonstrate that these genes work cooperatively
in non-redundant pathways to suppress DSBs during S phase. As discussed, these
studies imply that the various components of replication fork protection and
regeneration cooperate to maintain replication fork stability. Given the large
number of genes involved in each of these processes, it is possible that
combined deficiencies in these pathways may be relatively frequent in humans
and may synergistically influence the onset of age-related diseases and
cancer. 相似文献
19.
The Src homology phosphotyrosyl phosphatase 2 (SHP2) plays a positive role
in HER2-induced signaling and transformation, but its mechanism of action is
poorly understood. Given the significance of HER2 in breast cancer, defining a
mechanism for SHP2 in the HER2 signaling pathway is of paramount importance.
In the current report we show that SHP2 positively modulates the
Ras-extracellular signal-regulated kinase 1 and 2 and the
phospoinositide-3-kinase-Akt pathways downstream of HER2 by increasing the
half-life the activated form of Ras. This is accomplished by dephosphorylating
an autophosphorylation site on HER2 that serves as a docking platform for the
SH2 domains of the Ras GTPase-activating protein (RasGAP). The net effect is
an increase in the intensity and duration of GTP-Ras levels with the overall
impact of enhanced HER2 signaling and cell transformation. In conformity to
these findings, the HER2 mutant that lacks the SHP2 target site exhibits an
enhanced signaling and cell transformation potential. Therefore, SHP2 promotes
HER2-induced signaling and transformation at least in part by
dephosphorylating a negative regulatory autophosphorylation site. These
results suggest that SHP2 might serve as a therapeutic target against breast
cancer and other cancers characterized by HER2 overexpression.The Src homology phosphotyrosyl phosphatase 2
(SHP2)2 functions as a
positive effector of cell growth and survival
(1–4),
migration and invasion
(5–8),
and morphogenesis and transformation
(9–11).
In receptor-tyrosine kinase signaling
(12–14),
SHP2 positively transduces the Ras-extracellular signal-regulated kinase 1 and
2 (ERK1/2) and the phosphoinositide-3-kinase-Akt (or protein kinase B)
signaling pathways. SHP2 also promotes cell transformation induced by the
constitutively active form of fibroblast growth factor receptor 3 and v-Src
(9,
11). The discovery of
germline-activating SHP2 mutations in Noonan and LEOPARD syndrome patients
(15–18)
and the subsequent experimental demonstration of these phenotypes in knockin
and transgenic mice expressing these mutants
(19,
20) has led to the conclusion
that disregulation of SHP2 is responsible for these disease states.
Furthermore, somatic activating SHP2 mutations were discovered in juvenile
myelomonocytic leukemia, acute myelogenous leukemia, and chronic
myelomonocytic (18,
21) and are suggested to play
a causative role.SHP2 possesses two Src homology 2 (SH2) domains in the N-terminal region
that allow the protein to localize to substrate microdomains after tyrosyl
phosphorylation of interacting proteins. The phosphotyrosyl phosphatase (PTP)
domain in the C-terminal region is responsible for dephosphorylation of target
substrates (13,
22). Mutation of the critical
Cys residue in the active site of SHP2 abolishes its phosphatase activity,
leading to the production of a dominant-negative protein
(23). The activity of SHP2 is
regulated by an intramolecular conformational switch. SHP2 assumes a
“closed conformation” when inactive and an “open
conformation” when active. In the closed conformation the N-SH2 domain
interacts with the PTP domain, physically impeding the activity of the enzyme.
Upon engagement of the SH2 domains with phosphotyrosine, the PTP domain is
relieved of autoinhibition and dephosphorylates target substrates
(23–26).
Interaction between specific residues on the N-SH2 and the PTP domains
mediates the closed conformation. Mutation of these residues leads to a
constitutively active SHP2, and the occurrence of such mutations in humans
causes the development of Noonan syndrome and associated leukemia
(16–18).Recently, we have shown that inhibition of SHP2 in the HER2-positive breast
cancer cell lines abolishes mitogenic and cell survival signaling and reverses
transformation, leading to differentiation of malignant cells into a normal
breast epithelial phenotype
(27). Given the significance
of HER2 in breast cancer, the finding that SHP2 plays a positive role was very
interesting. We, thus, sought to investigate the molecular mechanism that
underlies the positive role of SHP2 in HER2-induced signaling and
transformation. To do so, it was first necessary to decipher the identity of
SHP2 substrates whose dephosphorylation promotes the oncogenic functions of
HER2. Using the recently developed substrate-trapping mutant of SHP2 as a
reagent (28), we have
identified HER2 itself as an SHP2 substrate. We have further shown that SHP2
dephosphorylates an autophosphorylation site on HER2 that serves as a docking
site for the SH2 domains of the Ras GTPase-activating protein (Ras-GAP), the
down-regulator of Ras. This effect of SHP2 increases the intensity and
duration of GTP-Ras levels with the overall impact of enhanced HER2 signaling
and cell transformation. 相似文献
20.
Formin-homology (FH) 2 domains from formin proteins associate processively
with the barbed ends of actin filaments through many rounds of actin subunit
addition before dissociating completely. Interaction of the actin
monomer-binding protein profilin with the FH1 domain speeds processive barbed
end elongation by FH2 domains. In this study, we examined the energetic
requirements for fast processive elongation. In contrast to previous
proposals, direct microscopic observations of single molecules of the formin
Bni1p from Saccharomyces cerevisiae labeled with quantum dots showed
that profilin is not required for formin-mediated processive elongation of
growing barbed ends. ATP-actin subunits polymerized by Bni1p and profilin
release the γ-phosphate of ATP on average >2.5 min after becoming
incorporated into filaments. Therefore, the release of γ-phosphate from
actin does not drive processive elongation. We compared experimentally
observed rates of processive elongation by a number of different FH2 domains
to kinetic computer simulations and found that actin subunit addition alone
likely provides the energy for fast processive elongation of filaments
mediated by FH1FH2-formin and profilin. We also studied the role of FH2
structure in processive elongation. We found that the flexible linker joining
the two halves of the FH2 dimer has a strong influence on dissociation of
formins from barbed ends but only a weak effect on elongation rates. Because
formins are most vulnerable to dissociation during translocation along the
growing barbed end, we propose that the flexible linker influences the
lifetime of this translocative state.Formins are multidomain proteins that assemble unbranched actin filament
structures for diverse processes in eukaryotic cells (reviewed in Ref.
1). Formins stimulate
nucleation of actin filaments and, in the presence of the actin
monomer-binding protein profilin, speed elongation of the barbed ends of
filaments
(2-6).
The ability of formins to influence elongation depends on the ability of
single formin molecules to remain bound to a growing barbed end through
multiple rounds of actin subunit addition
(7,
8). To stay associated during
subunit addition, a formin molecule must translocate processively on the
barbed end as each actin subunit is added
(1,
9-12).
This processive elongation of a barbed end by a formin is terminated when the
formin dissociates stochastically from the growing end during translocation
(4,
10).The formin-homology
(FH)2 1 and
2 domains are the best conserved domains of formin proteins
(2,
13,
14). The FH2 domain is the
signature domain of formins, and in many cases, is sufficient for both
nucleation and processive elongation of barbed ends
(2-4,
7,
15). Head-to-tail homodimers
of FH2 domains (12,
16) encircle the barbed ends
of actin filaments (9). In
vitro, association of barbed ends with FH2 domains slows elongation by
limiting addition of free actin monomers. This “gating” behavior
is usually explained by a rapid equilibrium of the FH2-associated end between
an open state competent for actin monomer association and a closed state that
blocks monomer binding (4,
9,
17).Proline-rich FH1 domains located N-terminal to FH2 domains are required for
profilin to stimulate formin-mediated elongation. Individual tracks of
polyproline in FH1 domains bind 1:1 complexes of profilin-actin and transfer
the actin directly to the FH2-associated barbed end to increase processive
elongation rates
(4-6,
8,
10,
17).Rates of elongation and dissociation from growing barbed ends differ widely
for FH1FH2 fragments from different formin homologs
(4). We understand few aspects
of FH1FH2 domains that influence gating, elongation or dissociation. In this
study, we examined the source of energy for formin-mediated processive
elongation, and the influence of FH2 structure on elongation and dissociation
from growing ends. In contrast to previous proposals
(6,
18), we found that fast
processive elongation mediated by FH1FH2-formins is not driven by energy from
the release of the γ-phosphate from ATP-actin filaments. Instead, the
data show that the binding of an actin subunit to the barbed end provides the
energy for processive elongation. We found that in similar polymerizing
conditions, different natural FH2 domains dissociate from growing barbed ends
at substantially different rates. We further observed that the length of the
flexible linker between the subunits of a FH2 dimer influences dissociation
much more than elongation. 相似文献