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Quang-Kim Tran Jared Leonard D. J. Black Owen W. Nadeau Igor G. Boulatnikov Anthony Persechini 《The Journal of biological chemistry》2009,284(18):11892-11899
We have investigated the possible biochemical basis for enhancements in NO
production in endothelial cells that have been correlated with agonist- or
shear stress-evoked phosphorylation at Ser-1179. We have found that a
phosphomimetic substitution at Ser-1179 doubles maximal synthase activity,
partially disinhibits cytochrome c reductase activity, and lowers the
EC50(Ca2+) values for calmodulin binding and enzyme
activation from the control values of 182 ± 2 and 422 ± 22
nm to 116 ± 2 and 300 ± 10 nm. These are
similar to the effects of a phosphomimetic substitution at Ser-617 (Tran, Q.
K., Leonard, J., Black, D. J., and Persechini, A. (2008) Biochemistry
47, 7557–7566). Although combining substitutions at Ser-617 and Ser-1179
has no additional effect on maximal synthase activity, cooperativity between
the two substitutions completely disinhibits reductase activity and further
reduces the EC50(Ca2+) values for calmodulin binding and
enzyme activation to 77 ± 2 and 130 ± 5 nm. We have
confirmed that specific Akt-catalyzed phosphorylation of Ser-617 and Ser-1179
and phosphomimetic substitutions at these positions have similar functional
effects. Changes in the biochemical properties of eNOS produced by combined
phosphorylation at Ser-617 and Ser-1179 are predicted to substantially
increase synthase activity in cells at a typical basal free Ca2+
concentration of 50–100 nm.The nitric-oxide synthases catalyze formation of NO and
l-citrulline from l-arginine and O2, with
NADPH as the electron donor
(1). The role of NO generated
by endothelial nitricoxide synthase
(eNOS)2 in the
regulation of smooth muscle tone is well established and was the first of
several physiological roles for this small molecule that have so far been
identified (2). The
nitric-oxide synthases are homodimers of 130–160-kDa subunits. Each
subunit contains a reductase and oxygenase domain
(1). A significant difference
between the reductase domains in eNOS and nNOS and the homologous P450
reductases is the presence of inserts in these synthase isoforms that appear
to maintain them in their inactive states
(3,
4). A calmodulin (CaM)-binding
domain is located in the linker that connects the reductase and oxygenase
domains, and the endothelial and neuronal synthases both require
Ca2+ and exogenous CaM for activity
(5,
6). When CaM is bound, it
somehow counteracts the effects of the autoinhibitory insert(s) in the
reductase. The high resolution structure for the complex between
(Ca2+)4-CaM and the isolated CaM-binding domain from
eNOS indicates that the C-ter and N-ter lobes of CaM, which each contain a
pair of Ca2+-binding sites, enfold the domain, as has been observed
in several other such CaM-peptide complexes
(7). Consistent with this
structure, investigations of CaM-dependent activation of the neuronal synthase
suggest that both CaM lobes must participate
(8,
9).Bovine eNOS can be phosphorylated in endothelial cells at Ser-116, Thr-497,
Ser-617, Ser-635, and Ser-1179
(10–12).
There are equivalent phosphorylation sites in the human enzyme
(10–12).
Phosphorylation of the bovine enzyme at Thr-497, which is located in the
CaM-binding domain, blocks CaM binding and enzyme activation
(7,
11,
13,
14). Ser-116 can be basally
phosphorylated in cells (10,
11,
13,
15), and dephosphorylation of
this site has been correlated with increased NO production
(13,
15). However, it has also been
reported that a phosphomimetic substitution at this position has no effect on
enzyme activity measured in vitro
(13). Ser-1179 is
phosphorylated in response to a variety of stimuli, and this has been reliably
correlated with enhanced NO production in cells
(10,
11). Indeed, NO production is
elevated in transgenic endothelium expressing an eNOS mutant containing an
S1179D substitution, but not in tissue expressing an S1179A mutant
(16). Shear stress or insulin
treatment is correlated with Akt-catalyzed phosphorylation of Ser-1179 in
endothelial cells, and this is correlated with increased NO production in the
absence of extracellular Ca2+
(17–19).
Akt-catalyzed phosphorylation or an S1179D substitution has also been
correlated with increased synthase activity in cell extracts at low
intracellular free [Ca2+]
(17). Increased NO production
has also been observed in cells expressing an eNOS mutant containing an S617D
substitution, and physiological stimuli such as shear-stress, bradykinin,
VEGF, and ATP appear to stimulate Akt-catalyzed phosphorylation of Ser-617 and
Ser-1179 (12,
13,
20). Although S617D eNOS has
been reported to have the same maximum activity in vitro as the wild
type enzyme (20), in our hands
an S617D substitution increases the maximal CaM-dependent synthase activity of
purified mutant enzyme ∼2-fold, partially disinhibits reductase activity,
and reduces the EC50(Ca2+) values for CaM binding and
enzyme activation (21).In this report, we describe the effects of a phosphomimetic Asp
substitution at Ser-1179 in eNOS on the Ca2+ dependence of CaM
binding and CaM-dependent activation of reductase and synthase activities. We
also describe the effects on these properties of combining this substitution
with one at Ser-617. Finally, we demonstrate that Akt-catalyzed
phosphorylation and Asp substitutions at Ser-617 and Ser-1179 have similar
functional effects. Our results suggest that phosphorylation of eNOS at
Ser-617 and Ser-1179 can substantially increase synthase activity in cells at
a typical basal free Ca2+ concentration of 50–100
nm, while single phosphorylations at these sites produce smaller
activity increases, and can do so only at higher free Ca2+
concentrations. 相似文献
3.
Maika Deffieu Ingrid Bhatia-Ki??ová Bénédicte Salin Anne Galinier Stéphen Manon Nadine Camougrand 《The Journal of biological chemistry》2009,284(22):14828-14837
The antioxidant N-acetyl-l-cysteine prevented the
autophagy-dependent delivery of mitochondria to the vacuoles, as examined by
fluorescence microscopy of mitochondria-targeted green fluorescent protein,
transmission electron microscopy, and Western blot analysis of mitochondrial
proteins. The effect of N-acetyl-l-cysteine was specific
to mitochondrial autophagy (mitophagy). Indeed, autophagy-dependent activation
of alkaline phosphatase and the presence of hallmarks of non-selective
microautophagy were not altered by N-acetyl-l-cysteine.
The effect of N-acetyl-l-cysteine was not related to its
scavenging properties, but rather to its fueling effect of the glutathione
pool. As a matter of fact, the decrease of the glutathione pool induced by
chemical or genetical manipulation did stimulate mitophagy but not general
autophagy. Conversely, the addition of a cell-permeable form of glutathione
inhibited mitophagy. Inhibition of glutathione synthesis had no effect in the
strain Δuth1, which is deficient in selective mitochondrial
degradation. These data show that mitophagy can be regulated independently of
general autophagy, and that its implementation may depend on the cellular
redox status.Autophagy is a major pathway for the lysosomal/vacuolar delivery of
long-lived proteins and organelles, where they are degraded and recycled.
Autophagy plays a crucial role in differentiation and cellular response to
stress and is conserved in eukaryotic cells from yeast to mammals
(1,
2). The main form of autophagy,
macroautophagy, involves the non-selective sequestration of large portions of
the cytoplasm into double-membrane structures termed autophagosomes, and their
delivery to the vacuole/lysosome for degradation. Another process,
microautophagy, involves the direct sequestration of parts of the cytoplasm by
vacuole/lysosomes. The two processes coexist in yeast cells but their extent
may depend on different factors including metabolic state: for example, we
have observed that nitrogen-starved lactate-grown yeast cells develop
microautophagy, whereas nitrogen-starved glucose-grown cells preferentially
develop macroautophagy (3).Both macroautophagy and microautophagy are essentially non-selective, in
the way that autophagosomes and vacuole invaginations do not appear to
discriminate the sequestered material. However, selective forms of autophagy
have been observed (4) that
target namely peroxisomes (5,
6), chromatin
(7,
8), endoplasmic reticulum
(9), ribosomes
(10), and mitochondria
(3,
11–13).
Although non-selective autophagy plays an essential role in survival by
nitrogen starvation, by providing amino acids to the cell, selective autophagy
is more likely to have a function in the maintenance of cellular structures,
both under normal conditions as a “housecleaning” process, and
under stress conditions by eliminating altered organelles and macromolecular
structures
(14–16).
Selective autophagy targeting mitochondria, termed mitophagy, may be
particularly relevant to stress conditions. The mitochondrial respiratory
chain is both the main site and target of
ROS4 production
(17). Consequently, the
maintenance of a pool of healthy mitochondria is a crucial challenge for the
cells. The progressive accumulation of altered mitochondria
(18) caused by the loss of
efficiency of the maintenance process (degradation/biogenesis de
novo) is often considered as a major cause of cellular aging
(19–23).
In mammalian cells, autophagic removal of mitochondria has been shown to be
triggered following induction/blockade of apoptosis
(23), suggesting that
autophagy of mitochondria was required for cell survival following
mitochondria injury (14).
Consistent with this idea, a direct alteration of mitochondrial permeability
properties has been shown to induce mitochondrial autophagy
(13,
24,
25). Furthermore, inactivation
of catalase induced the autophagic elimination of altered mitochondria
(26). In the yeast
Saccharomyces cerevisiae, the alteration of
F0F1-ATPase biogenesis in a conditional mutant has been
shown to trigger autophagy
(27). Alterations of
mitochondrial ion homeostasis caused by the inactivation of the
K+/H+ exchanger was shown to cause both autophagy and
mitophagy (28). We have
reported that treatment of cells with rapamycin induced early ROS production
and mitochondrial lipid oxidation that could be inhibited by the hydrophobic
antioxidant resveratrol (29).
Furthermore, resveratrol treatment impaired autophagic degradation of both
cytosolic and mitochondrial proteins and delayed rapamycin-induced cell death,
suggesting that mitochondrial oxidation events may play a crucial role in the
regulation of autophagy. This existence of regulation of autophagy by ROS has
received molecular support in HeLa cells
(30): these authors showed
that starvation stimulated ROS production, namely H2O2,
which was essential for autophagy. Furthermore, they identified the cysteine
protease hsAtg4 as a direct target for oxidation by
H2O2. This provided a possible connection between the
mitochondrial status and regulation of autophagy.Investigations of mitochondrial autophagy in nitrogen-starved lactate-grown
yeast cells have established the existence of two distinct processes: the
first one occurring very early, is selective for mitochondria and is dependent
on the presence of the mitochondrial protein Uth1p; the second one occurring
later, is not selective for mitochondria, is not dependent on Uth1p, and is a
form of bulk microautophagy
(3). The absence of the
selective process in the Δuth1 mutant strongly delays and
decreases mitochondrial protein degradation
(3,
12). The putative protein
phosphatase Aup1p has been also shown to be essential in inducing mitophagy
(31). Additionally several Atg
proteins were shown to be involved in vacuolar sequestration of mitochondrial
GFP (3,
12,
32,
33). Recently, the protein
Atg11p, which had been already identified as an essential protein for
selective autophagy has also been reported as being essential for mitophagy
(33).The question remains as to identify of the signals that trigger selective
mitophagy. It is particularly intriguing that selective mitophagy is activated
very early after the shift to a nitrogen-deprived medium
(3). Furthermore, selective
mitophagy is very active on lactate-grown cells (with fully differentiated
mitochondria) but is nearly absent in glucose-grown cells
(3). In the present paper, we
investigated the relationships between the redox status of the cells and
selective mitophagy, namely by manipulating glutathione. Our results support
the view that redox imbalance is a trigger for the selective elimination of
mitochondria. 相似文献
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6.
Gunthard Stübs Volker Fingerle Bettina Wilske Ulf B. G?bel Ulrich Z?hringer Ralf R. Schumann Nicolas W. J. Schr?der 《The Journal of biological chemistry》2009,284(20):13326-13334
Borrelia burgdorferi sensu lato is the causative agent of Lyme
disease (LD), an infectious disease occurring in North America, Europe, and
Asia in different clinical stages. B. burgdorferi sensu lato
encompasses at least 12 species, with B. burgdorferi sensu stricto,
B. garinii, and B. afzelii being of highest clinical
importance. Immunologic testing for LD as well as recent vaccination
strategies exclusively refer to proteinaceous antigens. However, B.
burgdorferi sensu stricto exhibits glycolipid antigens, including
6-O-acylated cholesteryl β-d-galactopyranoside
(ACGal), and first the data indicated that this compound may act as an
immunogen. Here we investigated whether B. garinii and B.
afzelii also possess this antigen, and whether antibodies directed
against these compounds are abundant among patients suffering from different
stages of LD. Gas-liquid chromatography/mass spectroscopy and NMR spectroscopy
showed that both B. garinii and B. afzelii exhibit ACGal in
high quantities. In contrast, B. hermsii causing relapsing fever
features 6-O-acylated cholesteryl β-d-glucopyranoside
(ACGlc). Sera derived from patients diagnosed for LD contained antibodies
against ACGal, with 80% of patients suffering from late stage disease
exhibiting this feature. Antibodies reacted with ACGal from all three B.
burgdorferi species tested, but not with ACGlc from B. hermsii.
These data show that ACGal is present in all clinically important B.
burgdorferi species, and that specific antibodies against this compound
are frequently found during LD. ACGal may thus be an interesting tool for
improving diagnostics as well as for novel vaccination strategies.Lyme disease (LD)2
is caused by B. burgdorferi sensu lato (s.l.) and is transmitted by
ticks of the genus Ixodes
(1,
2). It is the most common
tick-borne disease in the U.S. with an incidence of 6 per 100,000, with
endemic areas such as Connecticut reaching 111 cases per 100,000
(3). LD is also frequent in
Asia and Europe, particularly in Germany, Austria, Slovenia, and Sweden
(2,
4). B. burgdorferi
s.l. comprises at least 12 species with B. burgdorferi sensu stricto
(Bbu), B. garinii (Bga), and B. afzelii (Baf) being of
highest clinical importance
(2). In the U.S., LD is
exclusively caused by Bbu, whereas in Europe all human pathogenic species are
found, with Bga and Baf being predominant
(2,
5,
6). LD is an infectious disease
occurring in different clinical stages: early localized infection is indicated
by erythema migrans (EM) in ∼70–90% of the patients
(7–9),
and early disseminated infection often causes neurological manifestations,
such as facial palsy, meningitis, meningoradiculitits, or meningoencephalitis
(early neuroborreliosis (NB))
(2,8,9).
The cardinal manifestation of late stage LD in the U.S. is Lyme arthritis
(LA), with ∼70% of the untreated EM cases developing this syndrome
(10,
11). In Europe, next to
arthritis, acrodermatitis chronica atrophicans (ACA) is a frequent late
manifestation, and has been associated with Baf
(11).Currently, diagnosis of LD is generally based on assessment of clinical
features in combination with immunologic serum testing, where both ELISA and a
confirming immunoblot are required
(12,
13). However, because in
Europe and Asia at least three species are causing LD, there is a substantial
variation of immunodominant antigens, which requires the combination of
various homologous antigens for effective serodiagnosis
(14–16).
Immunologic evaluation in these areas is therefore complicated, and no
consensus has been established yet
(12). In comparison to
diagnostic procedures, vaccination strategies directed against LD so far have
also been based on proteinaceous antigens: in the 1990s, recombinant vaccines
based on OspA were found to be effective
(17), but the production was
discontinued, one reason being the high production costs in comparison to
early treatment (2). Another
concern raised against this approach was a potential triggering of autoimmune
diseases by vaccination with Osps due to a similarity between an
immunodominant epitope in OspA and human leukocyte function-associated
antigen-1 (18).In contrast to proteins, information on membrane glycolipids in
Borrelia available today is rather scarce. In 1978, a preliminary
compositional analysis of lipid extracts of B. hermsii causing
relapsing fever (RF) indicated the presence of monoglucosyldiacylglycerol and
acylated as well as non-acylated cholesteryl glucosides
(19). Later, studies on Bbu
indicated the presence of complex glycolipids as well, but no chemical
analysis was performed (20,
21). A more recent study
identified mono-α-d-galactosyldiacylglycerol (MGalD) in Bbu,
and first data indicated that antibodies present in sera obtained from LD
patients detected this antigen
(22). We and others were
recently able to show that Bbu furthermore exhibits cholesteryl
6-O-acyl-β-d-galactopyranoside (ACGal) as well as its
non-acylated counterpart, cholesteryl β-d-galactopyranoside
(βCGal) (23,
24). Patient sera reacted with
ACGal more frequently as compared with MGalD
(23), and antibodies could be
raised in mice by intraperitoneal injection
(24), indicating that this
compound is a strong immunogen.The aim of this study was to elucidate whether ACGal is a common structure
present in the most relevant B. burgdorferi species of clinical
importance, and whether it is a specific feature of Borrelia causing
LD. Furthermore, we aimed at defining the frequency of the occurrence of
antibodies against this antigen in patients suffering from LD. To this end, we
performed a comparative structural analysis of glycolipid fractions of Bbu as
well as the two other B. burgdorferi s.l. species of clinical
importance, Baf and Bga, in comparison with B. hermsii (Bhe), the
causative agent of relapsing fever. We found ACGal to be present in all B.
burgdorferi species tested, whereas Bhe exhibited cholesteryl
6-O-acyl-β-d-glucopyranoside (ACGlc) instead.
Antibodies against ACGal could be detected in the majority of patients
diagnosed for arthritis or acrodermatitis, and these failed to cross-react
with ACGlc. These data demonstrate that ACGal is an abundant, but still highly
specific antigen in B. burgdorferi and thus a promising candidate for
vaccine development and improvement of serologic methods. 相似文献
7.
J. Shawn Goodwin Gaynor A. Larson Jarod Swant Namita Sen Jonathan A. Javitch Nancy R. Zahniser Louis J. De Felice Habibeh Khoshbouei 《The Journal of biological chemistry》2009,284(5):2978-2989
The psychostimulants d-amphetamine (AMPH) and methamphetamine
(METH) release excess dopamine (DA) into the synaptic clefts of dopaminergic
neurons. Abnormal DA release is thought to occur by reverse transport through
the DA transporter (DAT), and it is believed to underlie the severe behavioral
effects of these drugs. Here we compare structurally similar AMPH and METH on
DAT function in a heterologous expression system and in an animal model. In
the in vitro expression system, DAT-mediated whole-cell currents were
greater for METH stimulation than for AMPH. At the same voltage and
concentration, METH released five times more DA than AMPH and did so at
physiological membrane potentials. At maximally effective concentrations, METH
released twice as much [Ca2+]i from internal
stores compared with AMPH. [Ca2+]i responses to
both drugs were independent of membrane voltage but inhibited by DAT
antagonists. Intact phosphorylation sites in the N-terminal domain of DAT were
required for the AMPH- and METH-induced increase in
[Ca2+]i and for the enhanced effects of METH on
[Ca2+]i elevation. Calmodulin-dependent protein
kinase II and protein kinase C inhibitors alone or in combination also blocked
AMPH- or METH-induced Ca2+ responses. Finally, in the rat nucleus
accumbens, in vivo voltammetry showed that systemic application of
METH inhibited DAT-mediated DA clearance more efficiently than AMPH, resulting
in excess external DA. Together these data demonstrate that METH has a
stronger effect on DAT-mediated cell physiology than AMPH, which may
contribute to the euphoric and addictive properties of METH compared with
AMPH.The dopamine transporter
(DAT)3 is a main
target for psychostimulants, such as d-amphetamine (AMPH),
methamphetamine (METH), cocaine (COC), and methylphenidate (Ritalin®). DAT
is the major clearance mechanism for synaptic dopamine (DA)
(1) and thereby regulates the
strength and duration of dopaminergic signaling. AMPH and METH are substrates
for DAT and competitively inhibit DA uptake
(2,
3) and release DA through
reverse transport
(4–9).
AMPH- and METH-induced elevations in extracellular DA result in complex
neurochemical changes and profound psychiatric effects
(2,
10–16).
Despite their structural and pharmacokinetic similarities, a recent National
Institute on Drug Abuse report describes METH as a more potent stimulant than
AMPH with longer lasting effects at comparable doses
(17). Although the route of
METH administration and its availability must contribute to the almost four
times higher lifetime nonmedical use of METH compared with AMPH
(18), there may also be
differences in the mechanisms that underlie the actions of these two drugs on
the dopamine transporter.Recent studies by Joyce et al.
(19) have shown that compared
with d-AMPH alone, the combination of d- and
l-AMPH in Adderall® significantly prolonged the time course of
extracellular DA in vivo. These experiments demonstrate that subtle
structural features of AMPH, such as chirality, can affect its action on
dopamine transporters. Here we investigate whether METH, a more lipophilic
analog of AMPH, affects DAT differently than AMPH, particularly in regard to
stimulated DA efflux.METH and AMPH have been reported as equally effective in increasing
extracellular DA levels in rodent dorsal striatum (dSTR), nucleus accumbens
(NAc) (10,
14,
20), striatal synaptosomes,
and DAT-expressing cells in vitro
(3,
6). John and Jones
(21), however, have recently
shown in mouse striatal and substantia nigra slices, that AMPH is a more
potent inhibitor of DA uptake than METH. On the other hand, in synaptosomes
METH inhibits DA uptake three times more effectively than AMPH
(14), and in DAT-expressing
COS-7 cells, METH releases DA more potently than AMPH (EC50 = 0.2
μm for METH versus EC50 = 1.7
μm for AMPH) (5).
However, these differences do not hold up under all conditions. For example,
in a study utilizing C6 cells, the disparity between AMPH and METH was not
found (12).The variations in AMPH and METH data extend to animal models. AMPH- and
METH-mediated behavior has been reported as similar
(22), lower
(20), or higher
(23) for AMPH compared with
METH. Furthermore, although the maximal locomotor activation response was less
for METH than for AMPH at a lower dose (2 mg/kg, intraperitoneal), both drugs
decreased locomotor activity at a higher dose (4 mg/kg)
(20). In contrast, in the
presence of a salient stimuli, METH is more potent in increasing the overall
magnitude of locomotor activity in rats yet is equipotent with AMPH in the
absence of these stimuli
(23).The simultaneous regulation of DA uptake and efflux by DAT substrates such
as AMPH and METH, as well as the voltage dependence of DAT
(24), may confound the
interpretation of existing data describing the action of these drugs. Our
biophysical approaches allowed us to significantly decrease the contribution
of DA uptake and more accurately determine DAT-mediated DA efflux with
millisecond time resolution. We have thus exploited time-resolved, whole-cell
voltage clamp in combination with in vitro and in vivo
microamperometry and Ca2+ imaging to compare the impact of METH and
AMPH on DAT function and determine the consequence of these interactions on
cell physiology.We find that near the resting potential, METH is more effective than AMPH
in stimulating DAT to release DA. In addition, at efficacious concentrations
METH generates more current, greater DA efflux, and higher Ca2+
release from internal stores than AMPH. Both METH-induced or the lesser
AMPH-induced increase in intracellular Ca2+ are independent of
membrane potential. The additional Ca2+ response induced by METH
requires intact phosphorylation sites in the N-terminal domain of DAT.
Finally, our in vivo voltammetry data indicate that METH inhibits
clearance of locally applied DA more effectively than AMPH in the rat nucleus
accumbens, which plays an important role in reward and addiction, but not in
the dorsal striatum, which is involved in a variety of cognitive functions.
Taken together these data imply that AMPH and METH have distinguishable
effects on DAT that can be shown both at the molecular level and in
vivo, and are likely to be implicated in the relative euphoric and
addictive properties of these two psychostimulants. 相似文献
8.
Obidimma C. Ezezika Noah S. Younger Jia Lu Donald A. Kaiser Zachary A. Corbin Bradley J. Nolen David R. Kovar Thomas D. Pollard 《The Journal of biological chemistry》2009,284(4):2088-2097
Expression of human profilin-I does not complement the
temperature-sensitive cdc3-124 mutation of the single profilin gene
in fission yeast Schizosaccharomyces pombe, resulting in death from
cytokinesis defects. Human profilin-I and S. pombe profilin have
similar affinities for actin monomers, the FH1 domain of fission yeast formin
Cdc12p and poly-l-proline (Lu, J., and Pollard, T. D. (2001)
Mol. Biol. Cell 12, 1161–1175), but human profilin-I does not
stimulate actin filament elongation by formin Cdc12p like S. pombe
profilin. Two crystal structures of S. pombe profilin and homology
models of S. pombe profilin bound to actin show how the two profilins
bind to identical surfaces on animal and yeast actins even though 75% of the
residues on the profilin side of the interaction differ in the two profilins.
Overexpression of human profilin-I in fission yeast expressing native profilin
also causes cytokinesis defects incompatible with viability. Human profilin-I
with the R88E mutation has no detectable affinity for actin and does not have
this dominant overexpression phenotype. The Y6D mutation reduces the affinity
of human profilin-I for poly-l-proline by 1000-fold, but
overexpression of Y6D profilin in fission yeast is lethal. The most likely
hypotheses to explain the incompatibility of human profilin-I with Cdc12p are
differences in interactions with the proline-rich sequences in the FH1 domain
of Cdc12p and wider “wings” that interact with actin.The small protein profilin not only helps to maintain a cytoplasmic pool of
actin monomers ready to elongate actin filament barbed ends
(2), but it also binds to type
II poly-l-proline helices
(3,
4). The actin
(5) and
poly-l-proline
(6–8)
binding sites are on opposite sides of the profilin molecule, so profilin can
link actin to proline-rich targets. Viability of fission yeast depends
independently on profilin binding to both actin and poly-l-proline,
although cells survive >10-fold reductions in affinity for either ligand
(1).Fission yeast Schizosaccharomyces pombe depend on formin Cdc12p
(9,
10) and profilin
(11) to assemble actin
filaments for the cytokinetic contractile ring. Formins are multidomain
proteins that nucleate and assemble unbranched actin filaments
(12). Formin FH2 domains form
homodimers that can associate processively with the barbed ends of growing
actin filaments (13,
14). FH2 dimers slow the
elongation of barbed ends
(15). Most formin proteins
have an FH1 domain linked to the FH2 domain. Binding profilin-actin to
multiple polyproline sites in an FH1 domain concentrates actin near the barbed
end of an actin filament associated with a formin FH2 homodimer. Actin
transfers very rapidly from the FH1 domains onto the filament end
(16) allowing profilin to
stimulate elongation of the filament
(15,
17).We tested the ability of human (Homo sapiens,
Hs)7 profilin-I to
complement the temperature-sensitive cdc3-124 mutation
(11) in the single fission
yeast profilin gene with the aim of using yeast to characterize human profilin
mutations. The failure of expression of Hs profilin-I to complement the
cdc3-124 mutation prompted us to compare human and fission yeast
profilins more carefully. We report here a surprising incompatibility of Hs
profilin-I with fission yeast formin Cdc12p, a crystal structure of fission
yeast profilin, which allowed a detailed comparison with Hs profilin, and
mutations that revealed how overexpression of Hs profilin-I compromises the
viability of wild-type fission yeast. 相似文献
9.
Kelvin B. Luther Hermann Schindelin Robert S. Haltiwanger 《The Journal of biological chemistry》2009,284(5):3294-3305
The Notch receptor is critical for proper development where it orchestrates
numerous cell fate decisions. The Fringe family of
β1,3-N-acetylglucosaminyltransferases are regulators of this
pathway. Fringe enzymes add N-acetylglucosamine to O-linked
fucose on the epidermal growth factor repeats of Notch. Here we have analyzed
the reaction catalyzed by Lunatic Fringe (Lfng) in detail. A mutagenesis
strategy for Lfng was guided by a multiple sequence alignment of Fringe
proteins and solutions from docking an epidermal growth factor-like
O-fucose acceptor substrate onto a homology model of Lfng. We
targeted three main areas as follows: residues that could help resolve where
the fucose binds, residues in two conserved loops not observed in the
published structure of Manic Fringe, and residues predicted to be involved in
UDP-N-acetylglucosamine (UDP-GlcNAc) donor specificity. We utilized a
kinetic analysis of mutant enzyme activity toward the small molecule acceptor
substrate 4-nitrophenyl-α-l-fucopyranoside to judge their
effect on Lfng activity. Our results support the positioning of
O-fucose in a specific orientation to the catalytic residue. We also
found evidence that one loop closes off the active site coincident with, or
subsequent to, substrate binding. We propose a mechanism whereby the ordering
of this short loop may alter the conformation of the catalytic aspartate.
Finally, we identify several residues near the UDP-GlcNAc-binding site, which
are specifically permissive toward UDP-GlcNAc utilization.Defects in Notch signaling have been implicated in numerous human diseases,
including multiple sclerosis
(1), several forms of cancer
(2-4),
cerebral autosomal dominant arteriopathy with sub-cortical infarcts and
leukoencephalopathy (5), and
spondylocostal dysostosis
(SCD)3
(6-8).
The transmembrane Notch signaling receptor is activated by members of the DSL
(Delta, Serrate, Lag2) family of ligands
(9,
10). In the endoplasmic
reticulum, O-linked fucose glycans are added to the epidermal growth
factor-like (EGF) repeats of the Notch extracellular domain by protein
O-fucosyltransferase 1
(11-13).
These O-fucose monosaccharides can be elongated in the Golgi
apparatus by three highly conserved
β1,3-N-acetylglucosaminyltransferases of the Fringe family
(Lunatic (Lfng), Manic (Mfng), and Radical Fringe (Rfng) in mammals)
(14-16).
The formation of this GlcNAc-β1,3-Fuc-α1,
O-serine/threonine disaccharide is necessary and sufficient for
subsequent elongation to a tetrasaccharide
(15,
19), although elongation past
the disaccharide in Drosophila is not yet clear
(20,
21). Elongation of
O-fucose by Fringe is known to potentiate Notch signaling from Delta
ligands and inhibit signaling from Serrate ligands
(22). Delta ligands are termed
Delta-like (Delta-like1, -2, and -4) in mammals, and the homologs of Serrate
are known as Jagged (Jagged1 and -2) in mammals. The effects of Fringe on
Drosophila Notch can be recapitulated in Notch ligand in
vitro binding assays using purified components, suggesting that the
elongation of O-fucose by Fringe alters the binding of Notch to its
ligands (21). Although Fringe
also appears to alter Notch-ligand interactions in mammals, the effects of
elongation of the glycan past the O-fucose monosaccharide is more
complicated and appears to be cell type-, receptor-, and ligand-dependent (for
a recent review see Ref.
23).The Fringe enzymes catalyze the transfer of GlcNAc from the donor substrate
UDP-α-GlcNAc to the acceptor fucose, forming the GlcNAc-β1,3-Fuc
disaccharide
(14-16).
They belong to the GT-A-fold of inverting glycosyltransferases, which includes
N-acetylglucosaminyltransferase I and β1,4-galactosyltransferase
I (17,
18). The mechanism is presumed
to proceed through the abstraction of a proton from the acceptor substrate by
a catalytic base (Asp or Glu) in the active site. This creates a nucleophile
that attacks the anomeric carbon of the nucleotide-sugar donor, inverting its
configuration from α (on the nucleotide sugar) to β (in the
product) (24,
25). The enzyme then releases
the acceptor substrate modified with a disaccharide and UDP. The Mfng
structure (26) leaves little
doubt as to the identity of the catalytic residue, which in all likelihood is
aspartate 289 in mouse Lfng (we will use numbering for mouse Lunatic Fringe
throughout, unless otherwise stated). The structure of Mfng with UDP-GlcNAc
soaked into the crystals (26)
showed density only for the UDP portion of the nucleotide-sugar donor and no
density for two loops flanking either side of the active site. The presence of
flexible loops that become ordered upon substrate binding is a common
observation with glycosyltransferases in the GT-A fold family
(18,
25). Density for the entire
donor was observed in the structure of rabbit
N-acetylglucosaminyltransferase I
(27). In this case, ordering
of a previously disordered loop upon UDP-GlcNAc binding may have contributed
to increased stability of the donor. In the case of bovine
β1,4-galactosyltransferase I, a section of flexible random coil from the
apo-structure was observed to change its conformation to α-helical upon
donor substrate binding (28).
Both loops in Lfng are highly conserved, and we have mutated a number of
residues in each to test the hypothesis that they interact with the
substrates. The mutagenesis strategy was also guided by docking of an
EGF-O-fucose acceptor substrate into the active site of the Lfng
model as well as comparison of the Lfng model with a homology model of the
β1,3-glucosyltransferase (β3GlcT) that modifies O-fucose on
thrombospondin type 1 repeats
(29,
30). The β3GlcT is
predicted to be a GT-A fold enzyme related to the Fringe family
(17,
18,
29). 相似文献
10.
Li Min Zhongmin Jin Ljubica Caldovic Hiroki Morizono Norma M. Allewell Mendel Tuchman Dashuang Shi 《The Journal of biological chemistry》2009,284(8):4873-4880
N-Acetylglutamate synthase (NAGS) catalyzes the first committed step in
l-arginine biosynthesis in plants and micro-organisms and is subject to feedback
inhibition by l-arginine. This study compares the crystal structures of NAGS from
Neisseria gonorrhoeae (ngNAGS) in the inactive T-state with
l-arginine bound and in the active R-state complexed with CoA and
l-glutamate. Under all of the conditions examined, the enzyme consists of two stacked
trimers. Each monomer has two domains: an amino acid kinase (AAK) domain with an AAK-like fold
but lacking kinase activity and an N-acetyltransferase (NAT) domain
homologous to other GCN5-related transferases. Binding of l-arginine to the AAK
domain induces a global conformational change that increases the diameter of the hexamer by
∼10 Å and decreases its height by
∼20Å. AAK dimers move 5Å outward along their
2-fold axes, and their tilt relative to the plane of the hexamer decreases by
∼4°. The NAT domains rotate ∼109° relative to
AAK domains enabling new interdomain interactions. Interactions between AAK and NAT domains on
different subunits also change. Local motions of several loops at the
l-arginine-binding site enable the protein to close around the bound ligand, whereas
several loops at the NAT active site become disordered, markedly reducing enzymatic specific
activity.l-Arginine biosynthesis in most micro-organisms and plants involves the initial
acetylation of l-glutamate by N-acetylglutamate synthase (NAGS, EC
2.3.1.1)2 to produce N-acetylglutamate
(NAG). NAG is then converted by NAG kinase (NAGK, EC 2.7.2.8) to NAG-phosphate and subsequently
to N-acetylornithine (1, 2). Two alternative reactions are used to remove the acetyl
group from acetylornithine. The linear pathway uses N-acetylornithine
deacetylase (EC 3.5.1.16) to catalyze the metal-dependent hydrolysis of the acetyl group to form
l-ornithine and acetate, whereas the acetyl recycling pathway transfers the acetyl
group from N-acetylornithine to l-glutamate, producing
l-ornithine and NAG. This reaction is catalyzed by ornithine acetyltransferase (EC
2.3.1.35).In the linear pathway, NAGS is the only target of feedback inhibition by l-arginine.
In contrast, in the acetyl cycling pathway l-arginine may inhibit NAGS and NAGK or
ornithine acetyltransferase (3). Structure
determinations of l-arginine-insensitive (4)
and l-arginine-sensitive NAGKs (5) provided
insights into the structural basis of l-arginine inhibition of NAGK.
l-Arginine-insensitive Escherichia coli (ec) NAGK is
a homodimer (4), whereas l-arginine-sensitive
NAGKs from Thermotoga maritima (tm) and Pseudomonas
aeruginosa (pa) are hexamers formed by pair-wise interlacing of the
N-terminal helices of three ecNAGK-like dimers, to create a second type of
dimer interface. l-Arginine binding to a site close to the C terminus induces global
conformational changes that expands the ring by ∼8 Å and decreases the
tilt of the ecNAGK-like dimers relative to the plane of the ring by
∼6°. The inhibition mechanism was proposed to involve the
enlargement of an active site located close to the l-arginine-binding site.Because of the sequence similarity between NAGK and NAGS, it was speculated that they may have
similar l-arginine-binding sites and hexameric ring structures (5). However, our recent structural determination of NAGS from
Neisseria gonorrhoeae (ng) revealed the active site to be
located in the NAT domain, >25 Å away from the proposed
l-arginine-binding site (6). Therefore, the
allosteric mechanism of NAGS is likely to be different from that of
l-arginine-sensitive NAGKs. Here we compare the structures of ngNAGS
in the inactive T-state with l-arginine bound and in the R-state complexed with CoA and
l-glutamate and determine the structural basis for the allosteric inhibition of NAGS
by l-arginine. 相似文献
11.
Karla Frydenvang L. Leanne Lash Peter Naur Pekka A. Postila Darryl S. Pickering Caleb M. Smith Michael Gajhede Makoto Sasaki Ryuichi Sakai Olli T. Pentika?nen Geoffrey T. Swanson Jette S. Kastrup 《The Journal of biological chemistry》2009,284(21):14219-14229
The prevailing structural model for ligand activation of ionotropic
glutamate receptors posits that agonist efficacy arises from the stability and
magnitude of induced domain closure in the ligand-binding core structure. Here
we describe an exception to the correlation between ligand efficacy and domain
closure. A weakly efficacious partial agonist of very low potency for
homomeric iGluR5 kainate receptors, 8,9-dideoxyneodysiherbaine (MSVIII-19),
induced a fully closed iGluR5 ligand-binding core. The degree of relative
domain closure, ∼30°, was similar to that we resolved with the
structurally related high affinity agonist dysiherbaine and to that of
l-glutamate. The pharmacological activity of MSVIII-19 was
confirmed in patch clamp recordings from transfected HEK293 cells, where
MSVIII-19 predominantly inhibits iGluR5-2a, with little activation apparent at
a high concentration (1 mm) of MSVIII-19 (<1% of mean
glutamate-evoked currents). To determine the efficacy of the ligand
quantitatively, we constructed concentration-response relationships for
MSVIII-19 following potentiation of steady-state currents with concanavalin A
(EC50 = 3.6 μm) and on the nondesensitizing receptor
mutant iGluR5-2b(Y506C/L768C) (EC50 = 8.1 μm).
MSVIII-19 exhibited a maximum of 16% of full agonist efficacy, as measured in
parallel recordings with glutamate. Molecular dynamics simulations and
electrophysiological recordings confirm that the specificity of MSVIII-19 for
iGluR5 is partly attributable to interdomain hydrogen bond residues
Glu441 and Ser721 in the iGluR5-S1S2 structure. The
weaker interactions of MSVIII-19 with iGluR5 compared with dysiherbaine,
together with altered stability of the interdomain interaction, may be
responsible for the apparent uncoupling of domain closure and channel opening
in this kainate receptor subunit.Ionotropic glutamate receptors
(iGluRs)3 are central
to fast excitatory synaptic transmission in the central nervous system and are
involved in numerous physiological and pathophysiological processes. The
iGluRs consist of three different classes of receptors,
N-methyl-d-aspartic acid (NMDA),
α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA), and kainate
receptors (1), which are
assembled as tetramers in a dimer of dimers configuration
(2,
3). These receptors can be
considered as multidomain proteins, composed of an extracellular
N-terminal domain, a ligand-binding core made of discontinuous S1 and
S2 segments that form two lobes (domains D1 and D2), three
transmembrane-spanning regions (M1–M3) with a re-entrant loop between M1
and M2, and finally a cytoplasmic region
(1).Ligand-binding cores of iGluRs assume tertiary structures in solution that
reproduce the pharmacological profiles of full-length receptors.
Crystallographic studies of ligand-binding core complexes from representative
members of all three iGluR subtypes
(4–6)
as well as the ligand-binding core of the structurally related δ2
subunit in complex with d-serine
(7) have yielded unprecedented
insight into structural correlates of iGluR function. Binding of agonists to
iGluR ligand-binding cores can be described as a “Venus flytrap”
mechanism. In the resting state, the ligand-binding core is present in an open
form that is stabilized by antagonists
(4,
8,
9). When an agonist binds to
the ligand-binding core, a rotational change in conformation occurs, resulting
in domain closure of the D1 and D2 lobes around a central hinge region
(4,
6). In full-length receptors,
this domain closure is thought to result in the opening of the ion channel
(receptor activation). The extents of domain closure of ligand-binding cores
of AMPA and kainate receptor subunits are correlated with the activation and
the desensitization of the receptor
(9,
10).However, previous studies have questioned the association between the
degree of domain closure of the ligand-binding core and channel opening or
agonist efficacy. For example, AMPA was shown to induce a more closed
structure of the ligand-binding core of the mutated iGluR2(L650T) than was
expected from its partial agonist efficacy
(11,
12). Also, no correlation
between domain closure and agonist efficacy has been demonstrated for the NR1
subunit of NMDA receptors
(13).In this study, we present the first example of a nonmutated kainate
receptor that lacks the correlation between domain closure and efficacy. We
tested if two structurally related kainate receptor ligands, one an agonist
and one described previously as an antagonist
(14), conformed to the
prevailing structural model of ligand-induced activity. The high affinity
agonist dysiherbaine (DH) is a natural excitotoxin originally isolated from a
marine sponge (15,
16), whereas
8,9-dideoxyneodysiherbaine (MSVIII-19) is a synthetic analog that inhibits
activation of iGluR5 receptors
(14). To investigate receptor
interactions with the two closely related compounds as well as the degree of
domain closure introduced by the compounds, we determined the crystal
structures of DH and MSVIII-19 in complex with the ligand-binding core of the
kainate receptor subunit iGluR5 (iGluR5-S1S2). These two structures, along
with functional studies, provide novel insights into the mechanism of kainate
receptor activation, inhibition, and desensitization. 相似文献
12.
Erin L. Westman David J. McNally Armen Charchoglyan Dyanne Brewer Robert A. Field Joseph S. Lam 《The Journal of biological chemistry》2009,284(18):11854-11862
The lipopolysaccharide of Pseudomonas aeruginosa PAO1 contains an
unusual sugar, 2,3-diacetamido-2,3-dideoxy-d-mannuronic acid
(d-ManNAc3NAcA). wbpB, wbpE, and wbpD
are thought to encode oxidase, transaminase, and N-acetyltransferase
enzymes. To characterize their functions, recombinant proteins were
overexpressed and purified from heterologous hosts. Activities of
His6-WbpB and His6-WbpE were detected only when both
proteins were combined in the same reaction. Using a direct MALDI-TOF mass
spectrometry approach, we identified ions that corresponded to the predicted
products of WbpB (UDP-3-keto-d-GlcNAcA) and WbpE
(UDP-d-GlcNAc3NA) in the coupled enzyme-substrate reaction.
Additionally, in reactions involving WbpB, WbpE, and WbpD, an ion consistent
with the expected product of WbpD (UDP-d-GlcNAc3NAcA) was
identified. Preparative quantities of UDP-d-GlcNAc3NA and
UDP-d-GlcNAc3NAcA were enzymatically synthesized. These compounds
were purified by high-performance liquid chromatography, and their structures
were elucidated by NMR spectroscopy. This is the first report of the
functional characterization of these proteins, and the enzymatic synthesis of
UDP-d-GlcNAc3NA and UDP-d-GlcNAc3NAcA.Gram-negative organisms such as Pseudomonas aeruginosa produce
lipopolysaccharide
(LPS)4 as an essential
component of the outer leaflet of the outer membrane. LPS can be conceptually
divided into three parts: lipid A, which anchors LPS into the membrane; core
oligosaccharide, which contributes to membrane stability; and the O-antigen,
which is a polysaccharide that extends away from the cell surface. In P.
aeruginosa, two types of O-antigen are observed: A-band O-antigen, which
is common to most strains, and B-band O-antigen, which is variable and
therefore used as the basis of the International Antigenic Typing Scheme
(1). P. aeruginosa
serotypes O2, O5, O16, O18, and O20 collectively belong to serogroup O2,
because they all share common backbone sugar structures in their O-antigen
repeat units consisting of two di-N-acetylated uronic acids and one
2-acetamido-2,6-dideoxy-d-galactose
(N-acetyl-d-fucosamine). The minor structural variations
in the O-antigen repeat units that differentiate this serogroup into five
serotypes are: the type of glycosidic linkage between O-units (alpha
versus beta) that is formed by the O-antigen polymerase (Wzy),
isomers present (d-mannuronic or l-guluronic acid), and
acetyl group substituents
(2–4).
The B-band O-antigen of P. aeruginosa PAO1 (serotype O5) contains a
repeating trisaccharide of
2-acetamido-3-acetamidino-2,3-dideoxy-d-mannuronic acid
(d-ManNAc3NAmA),
2,3-diacetamido-2,3-dideoxy-d-mannuronic acid
(d-ManNAc3NAcA), and 2-acetamido-2,6-dideoxy-d-galactose
(3).The biosynthesis of the two mannuronic acid derivatives has yet to be fully
understood and has been the subject of investigation by our group. To produce
UDP-d-ManNAc3NAcA, a five-step pathway has been proposed
(Fig. 1) that requires the
products of five genes localized to the B-band O-antigen biosynthesis cluster
(5). The O-antigen biosynthesis
cluster was shown to be identical for all serotypes within serogroup O2, which
further underscores the high similarity between these serotypes
(5). The five genes, including
wbpA, wbpB, wbpE, wbpD, and wbpI, have been shown to be
essential for B-band LPS biosynthesis, because knockout mutants of each of
these genes are deficient in B-band O-antigen
(6–8).
Homologs of all five of the proteins required for the
UDP-d-ManNAc3NAcA biosynthesis pathway are conserved in other
bacterial pathogens, including Bordetella pertussis, Bordetella
parapertussis, and Bordetella bronchiseptica.
Cross-complementation of P. aeruginosa knockout mutants lacking
wbpA, wbpB, wbpE, wbpD, or wbpI with the homologues from
B. pertussis could fully restore LPS production in the P.
aeruginosa LPS mutants, suggesting that the genes from B.
pertussis are functional homologs of the wbp genes
(7). Homologs of these genes
could be identified in diverse bacterial species, demonstrating the importance
of UDP-d-ManNAc3NAcA biosynthesis beyond its role in P.
aeruginosa (7).Open in a separate windowFIGURE 1.Proposed pathway for the biosynthesis of UDP-d-ManNAc3NAcA in
P. aeruginosa PAO1. The full names of the sugars are as follows:
GlcNAc, 2-acetamido-2-deoxy-d-glucose; GlcNAcA,
2-acetamido-2-deoxy-d-glucuronic acid; 3-keto-d-GlcNAcA,
2-acetamido-2-deoxy-d-ribo-hex-3-uluronic acid; GlcNAc3NA,
2-acetamido-3-amino-2,3-dideoxy-d-glucuronic acid; GlcNAc3NAcA,
2,3-diacetamido-2,3-dideoxy-d-glucuronic acid; ManNAc3NAcA,
2,3-diacetamido-2,3-dideoxy-d-mannuronic acid. Adapted from Ref.
8.The first enzyme of the UDP-d-ManNAc3NAcA biosynthesis pathway,
WbpA, is a 6-dehydrogenase that converts
UDP-2-acetamido-2-deoxy-d-glucose
(N-acetyl-d-glucosamine; UDP-d-GlcNAc) to
UDP-2-acetamido-2-deoxy-d-glucuronic acid
(N-acetyl-d-glucosaminuronic acid,
UDP-d-GlcNAcA) using NAD+ as a coenzyme
(9)
(Fig. 1). Following this, the
second step in UDP-d-ManNAc3NAcA biosynthesis is proposed to be an
oxidation reaction catalyzed by WbpB, forming
UDP-2-acetamido-2-deoxy-d-ribo-hex-3-uluronic acid
(3-keto-d-GlcNAcA), which in turn is used as the substrate for
transamination by WbpE, creating
UDP-2-acetamido-3-amino-2,3-dideoxy-d-glucuronic acid
(d-GlcNAc3NA).This residue is thought to be the substrate for WbpD, a putative
N-acetyltransferase of the hexapeptide acyltransferase superfamily
(10) that requires acetyl-CoA
as a co-substrate (8). WbpD has
been proposed to synthesize
UDP-2,3-diacetamido-2,3-dideoxy-d-glucuronic acid
(UDP-d-GlcNAc-3NAcA), which is utilized in the B-band O-antigen of
P. aeruginosa serotype O1. In P. aeruginosa serogroup O2,
the UDP-d-GlcNAc3NAcA is then epimerized by WbpI to create the
UDP-d-ManNAc3NAcA required for incorporation into B-band LPS
(11). A derivative of
UDP-d-ManNAc3NAcA is also used in the synthesis of B-band O-antigen
of P. aeruginosa serogroup O2. UDP-d-ManNAc3NAmA is
thought to be produced through additional modification of
UDP-d-ManNAc3NAcA via the action of WbpG, an amidotransferase,
which has also been demonstrated to be essential for the production of B-band
O-antigen (12,
13).In the current study, our aim was to define the function of WbpB, WbpE, and
WbpD, because only genetic evidence has previously been given for the
involvement of wbpB and wbpE
(7), and the reaction catalyzed
by WbpD could not be demonstrated due to the unavailability of its presumed
substrate, UDP-d-GlcNAc3NA
(8). The functional
characterization of these proteins is also important for understanding LPS
biosynthesis in B. pertussis, because the genes in the LPS locus of
this species, wlbA, wlbC, and wlbB, could cross-complement
knockouts of wbpB, wbpE, and wbpD, respectively, when
expressed in P. aeruginosa PAO1
(7). Furthermore, these three
proteins form a cassette for the generation of C-3 N-acetylated
hexoses and may be important for the biosynthesis of a variety of other
sugars. Capillary electrophoresis and MALDI-TOF mass spectrometry were used to
analyze reaction mixtures of WbpB and WbpE and showed that the expected
products were produced only when both enzymes were present together. Achieving
the enzymatic synthesis of the product of both enzymes, which was demonstrated
to be UDP-d-GlcNAc3NA by 1H NMR spectroscopy, was a key
breakthrough, because this rare sugar has never before been produced by any
means. UDP-d-GlcNAc3NA was also essential for use as the substrate
of WbpD, which not only allowed us to determine the enzymatic activity of this
protein but also allowed the enzymatic synthesis of
UDP-d-GlcNAc3NAcA to be achieved as well. Although this sugar had
previously been produced through a 17-step chemical synthesis
(11,
14), the 4-step concurrent
enzymatic reaction demonstrates the advantage of linking chemistry with
biology and represents a significant saving of both time and reagents as
compared with chemical synthesis. Finally, our data also showed the success in
reconstituting in vitro the 5-step pathway for the biosynthesis of
UDP-d-ManNAc3NAcA in P. aeruginosa. 相似文献
13.
Parmil K. Bansal Amanda Nourse Rashid Abdulle Katsumi Kitagawa 《The Journal of biological chemistry》2009,284(6):3586-3592
The kinetochore, which consists of DNA sequence elements and structural
proteins, is essential for high-fidelity chromosome transmission during cell
division. In budding yeast, Sgt1 and Hsp90 help assemble the core kinetochore
complex CBF3 by activating the CBF3 components Skp1 and Ctf13. In this study,
we show that Sgt1 forms homodimers by performing in vitro and in
vivo immunoprecipitation and analytical ultracentrifugation analyses.
Analyses of the dimerization of Sgt1 deletion proteins showed that the
Skp1-binding domain (amino acids 1–211) contains the Sgt1
homodimerization domain. Also, the Sgt1 mutant proteins that were unable to
dimerize also did not bind Skp1, suggesting that Sgt1 dimerization is
important for Sgt1-Skp1 binding. Restoring dimerization activity of a
dimerization-deficient sgt1 mutant (sgt1-L31P) by using the
CENP-B (centromere protein-B) dimerization
domain suppressed the temperature sensitivity, the benomyl sensitivity, and
the chromosome missegregation phenotype of sgt1-L31P. These results
strongly suggest that Sgt1 dimerization is required for kinetochore
assembly.Spindle microtubules are coupled to the centromeric region of the
chromosome by a structural protein complex called the kinetochore
(1,
2). The kinetochore is thought
to generate a signal that arrests cells during mitosis when it is not properly
attached to microtubules, thereby preventing aberrant chromosome transmission
to the daughter cells, which can lead to tumorigenesis
(3,
4). The kinetochore of the
budding yeast Saccharomyces cerevisiae has been characterized
thoroughly, genetically and biochemically; thus, its molecular structure is
the most well detailed to date. More than 70 different proteins comprise the
budding yeast kinetochore, and several of those are conserved in mammals
(2).The budding yeast centromere DNA is a 125-bp region that contains three
conserved regions, CDEI, CDEII, and CDEIII
(5,
6). CDEI is bound by Cbf1
(7–9).
CDEIII (25 bp) is essential for centromere function
(10) and is the site where
CBF3 binds to centromeric DNA. CBF3 contains four proteins: Ndc10, Cep3, Ctf13
(11–18),
and Skp1 (17,
18), all of which are
essential for viability. Mutations in any of the four CBF3 proteins abolish
the ability of CDEIII to bind to CBF3
(19,
20). All of the described
kinetochore proteins, except the CDEI-binding Cbf1, localize to kinetochores
dependent on the CBF3 complex
(2). Therefore, the CBF3
complex is the fundamental structure of the kinetochore, and the mechanism of
CBF3 assembly is of major interest.We previously isolated SGT1, the skp1-4
kinetochore-defective mutant dosage suppressor
(21). Sgt1 and Skp1 activate
Ctf13; thus, they are required for assembly of the CBF3 complex
(21). The molecular chaperone
Hsp90 is also required for the formation of the Skp1-Ctf13 complex
(22). Sgt1 has two highly
conserved motifs that are required for protein-protein interaction, the
tetratricopeptide repeat
(TPR)2
(21) and the CS
(CHORD protein- and Sgt1-specific) motif. We and others
(23–26)
have found that both domains are important for the interaction with Hsp90. The
Sgt1-Hsp90 interaction is required for the assembly of the core kinetochore
complex; this interaction is an initial step in kinetochore assembly
(24,
26,
27) that is conserved between
yeast and humans (28,
29).In this study, we further characterized the molecular mechanism of this
assembly process. We found that Sgt1 forms dimers in vivo, and our
results strongly suggest that Sgt1 dimerization is required for kinetochore
assembly in budding yeast. 相似文献
14.
Xiaojun Li C. T. Ranjith-Kumar Monica T. Brooks S. Dharmaiah Andrew B. Herr Cheng Kao Pingwei Li 《The Journal of biological chemistry》2009,284(20):13881-13891
The RIG-I-like receptors (RLRs), RIG-I and MDA5, recognize single-stranded
RNA with 5′ triphosphates and double-stranded RNA (dsRNA) to initiate
innate antiviral immune responses. LGP2, a homolog of RIG-I and MDA5 that
lacks signaling capability, regulates the signaling of the RLRs. To establish
the structural basis of dsRNA recognition by the RLRs, we have determined the
2.0-Å resolution crystal structure of human LGP2 C-terminal domain bound
to an 8-bp dsRNA. Two LGP2 C-terminal domain molecules bind to the termini of
dsRNA with minimal contacts between the protein molecules. Gel filtration
chromatography and analytical ultracentrifugation demonstrated that LGP2 binds
blunt-ended dsRNA of different lengths, forming complexes with 2:1
stoichiometry. dsRNA with protruding termini bind LGP2 and RIG-I weakly and do
not stimulate the activation of RIG-I efficiently in cells. Surprisingly,
full-length LGP2 containing mutations that abolish dsRNA binding retained the
ability to inhibit RIG-I signaling.The innate immune response is the first line of defense against invading
pathogens; it is the ubiquitous system of defense against microbial infections
(1). Toll-like receptors
(TLRs)3 and RIG-I
(retinoic acid-inducible gene
1)-like receptors (RLRs) play key roles in innate immune response
toward viral infection
(2-5).
Toll-like receptors TLR3, TLR7, and TLR8 sense viral RNA released in the
endosome following phagocytosis of the pathogens
(6). RIG-I-like receptors RIG-I
and MDA5 detect viral RNA from replicating viruses in infected cells
(3,
7,
8). Stimulation of these
receptors leads to the induction of type I interferons (IFNs) and other
proinflammatory cytokines, conferring antiviral activity to the host cells and
activating the acquired immune responses
(4,
9).RIG-I discriminates between viral and host RNA through specific recognition
of the uncapped 5′-triphosphate of single-stranded RNA (5′ ppp
ssRNA) generated by viral RNA polymerases
(10,
11). In addition, RIG-I also
recognizes double-stranded RNA generated during RNA virus replication
(7,
12). Transfection of cells
with synthetic double-stranded RNA stimulates the activation of RIG-I
(13,
14). Synthetic dsRNA mimics,
such as polyinosinic-polycytidylic acid (poly(I·C)), can activate MDA5
when introduced into the cytoplasm of cells. Digestion of poly(I·C)
with RNase III transforms poly(I·C) from a ligand for MDA5 into a
ligand for RIG-I, suggesting that MDA5 recognizes long dsRNA, whereas RIG-I
recognizes short dsRNA (15).
Studies of RIG-I and MDA5 knock-out mice confirmed the essential roles of
these receptors in antiviral immune responses and demonstrated that they sense
different sets of RNA viruses
(12,
16).RIG-I and MDA5 contain two caspase recruiting domains (CARDs) at their N
termini, a DEX(D/H) box RNA helicase domain, and a C-terminal
regulatory or repressor domain (CTD). The helicase domain and the CTD are
responsible for viral RNA binding, whereas the CARDs are required for
signaling (3,
8). The current model of RIG-I
activation suggests that under resting conditions RIG-I is in a suppressed
conformation, and viral RNA binding triggers a conformation change that leads
to the exposure of the CARDs for the recruitment of the downstream protein
IPS-1 (also known as MAVS, Cardif, or VISA)
(14,
17). Limited proteolysis of
the RIG-I·dsRNA complex showed that RIG-I residues 792-925 of the CTD
are involved in dsRNA and 5′ ppp ssRNA binding
(14). The CTD of RIG-I
overlaps with the C terminus of the previously identified repressor domain
(18). The structures of RIG-I
and LGP2 (laboratory of genetics and
physiology 2) CTD in isolation have been determined by
x-ray crystallography and NMR spectroscopy
(14,
19,
20). A large, positively
charged surface on RIG-I recognizes the 5′ triphosphate group of viral
ssRNA (14,
19). RNA binding studies by
titrating RIG-I CTD with dsRNA and 5′ ppp ssRNA suggested that
overlapping sets of residues on this charged surface are involved in RNA
binding (14). Mutagenesis of
several positively charged residues on this surface either reduces or disrupts
RNA binding by RIG-I, and these mutations also affect the induction of
IFN-β in vivo
(14,
19). However, the exact nature
of how the RLRs recognize viral RNA and how RNA binding activates these
receptors remains to be established.LGP2 is a homolog of RIG-I and MDA5 that lacks the CARDs and thus has no
signaling capability (21,
22). The expression of LGP2 is
inducible by dsRNA or IFN treatment as well as virus infection
(21). Overexpression of LGP2
inhibits Sendai virus and Newcastle disease virus signaling
(21). When coexpressed with
RIG-I, LGP2 can inhibit RIG-I signaling through the interaction of its CTD
with the CARD and the helicase domain of RIG-I
(18). LGP2 could suppress
RIG-I signaling by three possible ways
(23): 1) binding RNA with high
affinity, thereby sequestering RNA ligands from RIG-I; 2) interacting directly
with RIG-I to block the assembly of the signaling complex; and 3) competing
with IKKi (IκB kinase ε) in the NF-κB signaling pathway for a
common binding site on IPS-1. To elucidate the structural basis of dsRNA
recognition by the RLRs, we have crystallized human LGP2 CTD (residues
541-678) bound to an 8-bp double-stranded RNA and determined the structure of
the complex at 2.0 Å resolution. The structure revealed that LGP2 CTD
binds to the termini of dsRNA. Mutagenesis and functional studies showed that
dsRNA binding is likely not required for the inhibition of RIG-I signaling by
LGP2. 相似文献
15.
16.
Graham H. Diering John Church Masayuki Numata 《The Journal of biological chemistry》2009,284(20):13892-13903
NHE5 is a brain-enriched Na+/H+ exchanger that
dynamically shuttles between the plasma membrane and recycling endosomes,
serving as a mechanism that acutely controls the local pH environment. In the
current study we show that secretory carrier membrane proteins (SCAMPs), a
group of tetraspanning integral membrane proteins that reside in multiple
secretory and endocytic organelles, bind to NHE5 and co-localize predominantly
in the recycling endosomes. In vitro protein-protein interaction
assays revealed that NHE5 directly binds to the N- and C-terminal cytosolic
extensions of SCAMP2. Heterologous expression of SCAMP2 but not SCAMP5
increased cell-surface abundance as well as transporter activity of NHE5
across the plasma membrane. Expression of a deletion mutant lacking the
SCAMP2-specific N-terminal cytosolic domain, and a mini-gene encoding the
N-terminal extension, reduced the transporter activity. Although both Arf6 and
Rab11 positively regulate NHE5 cell-surface targeting and NHE5 activity across
the plasma membrane, SCAMP2-mediated surface targeting of NHE5 was reversed by
dominant-negative Arf6 but not by dominant-negative Rab11. Together, these
results suggest that SCAMP2 regulates NHE5 transit through recycling endosomes
and promotes its surface targeting in an Arf6-dependent manner.Neurons and glial cells in the central and peripheral nervous systems are
especially sensitive to perturbations of pH
(1). Many voltage- and
ligand-gated ion channels that control membrane excitability are sensitive to
changes in cellular pH
(1-3).
Neurotransmitter release and uptake are also influenced by cellular and
organellar pH (4,
5). Moreover, the intra- and
extracellular pH of both neurons and glia are modulated in a highly transient
and localized manner by neuronal activity
(6,
7). Thus, neurons and glia
require sophisticated mechanisms to finely tune ion and pH homeostasis to
maintain their normal functions.Na+/H+ exchangers
(NHEs)3 were
originally identified as a class of plasma membrane-bound ion transporters
that exchange extracellular Na+ for intracellular H+,
and thereby regulate cellular pH and volume. Since the discovery of NHE1 as
the first mammalian NHE (8),
eight additional isoforms (NHE2-9) that share 25-70% amino acid identity have
been isolated in mammals (9,
10). NHE1-5 commonly exhibit
transporter activity across the plasma membrane, whereas NHE6-9 are mostly
found in organelle membranes and are believed to regulate organellar pH in
most cell types at steady state
(11). More recently, NHE10 was
identified in human and mouse osteoclasts
(12,
13). However, the cDNA
encoding NHE10 shares only a low degree of sequence similarity with other
known members of the NHE gene family, raising the possibility that
this sodium-proton exchanger may belong to a separate gene family distantly
related to NHE1-9 (see Ref.
9).NHE gene family members contain 12 putative transmembrane domains
at the N terminus followed by a C-terminal cytosolic extension that plays a
role in regulation of the transporter activity by protein-protein interactions
and phosphorylation. NHEs have been shown to regulate the pH environment of
synaptic nerve terminals and to regulate the release of neurotransmitters from
multiple neuronal populations
(14-16).
The importance of NHEs in brain function is further exemplified by the
findings that spontaneous or directed mutations of the ubiquitously expressed
NHE1 gene lead to the progression of epileptic seizures, ataxia, and
increased mortality in mice
(17,
18). The progression of the
disease phenotype is associated with loss of specific neuron populations and
increased neuronal excitability. However, NHE1-null mice appear to
develop normally until 2 weeks after birth when symptoms begin to appear.
Therefore, other mechanisms may compensate for the loss of NHE1
during early development and play a protective role in the surviving neurons
after the onset of the disease phenotype.NHE5 was identified as a unique member of the NHE gene
family whose mRNA is expressed almost exclusively in the brain
(19,
20), although more recent
studies have suggested that NHE5 might be functional in other cell
types such as sperm (21,
22) and osteosarcoma cells
(23). Curiously, mutations
found in several forms of congenital neurological disorders such as
spinocerebellar ataxia type 4
(24-26)
and autosomal dominant cerebellar ataxia
(27-29)
have been mapped to chromosome 16q22.1, a region containing NHE5.
However, much remains unknown as to the molecular regulation of NHE5 and its
role in brain function.Very few if any proteins work in isolation. Therefore identification and
characterization of binding proteins often reveal novel functions and
regulation mechanisms of the protein of interest. To begin to elucidate the
biological role of NHE5, we have started to explore NHE5-binding proteins.
Previously, β-arrestins, multifunctional scaffold proteins that play a
key role in desensitization of G-protein-coupled receptors, were shown to
directly bind to NHE5 and promote its endocytosis
(30). This study demonstrated
that NHE5 trafficking between endosomes and the plasma membrane is regulated
by protein-protein interactions with scaffold proteins. More recently, we
demonstrated that receptor for activated
C-kinase 1 (RACK1), a scaffold protein that links
signaling molecules such as activated protein kinase C, integrins, and Src
kinase (31), directly
interacts with and activates NHE5 via integrin-dependent and independent
pathways (32). These results
further indicate that NHE5 is partly associated with focal adhesions and that
its targeting to the specialized microdomain of the plasma membrane may be
regulated by various signaling pathways.Secretory carrier membrane proteins (SCAMPs) are a family of evolutionarily
conserved tetra-spanning integral membrane proteins. SCAMPs are found in
multiple organelles such as the Golgi apparatus, trans-Golgi network,
recycling endosomes, synaptic vesicles, and the plasma membrane
(33,
34) and have been shown to
play a role in exocytosis
(35-38)
and endocytosis (39).
Currently, five isoforms of SCAMP have been identified in mammals. The
extended N terminus of SCAMP1-3 contain multiple Asn-Pro-Phe (NPF) repeats,
which may allow these isoforms to participate in clathrin coat assembly and
vesicle budding by binding to Eps15 homology (EH)-domain proteins
(40,
41). Further, SCAMP2 was shown
recently to bind to the small GTPase Arf6
(38), which is believed to
participate in traffic between the recycling endosomes and the cell surface
(42,
43). More recent studies have
suggested that SCAMPs bind to organellar membrane type NHE7
(44) and the serotonin
transporter SERT (45) and
facilitate targeting of these integral membrane proteins to specific
intracellular compartments. We show in the current study that SCAMP2 binds to
NHE5, facilitates the cell-surface targeting of NHE5, and elevates
Na+/H+ exchange activity at the plasma membrane, whereas
expression of a SCAMP2 deletion mutant lacking the N-terminal domain
containing the NPF repeats suppresses the effect. Further we show that this
activity of SCAMP2 requires an active form of a small GTPase Arf6, but not
Rab11. We propose a model in which SCAMPs bind to NHE5 in the endosomal
compartment and control its cell-surface abundance via an Arf6-dependent
pathway. 相似文献
17.
18.
Takafumi Tasaki Adriana Zakrzewska Drew D. Dudgeon Yonghua Jiang John S. Lazo Yong Tae Kwon 《The Journal of biological chemistry》2009,284(3):1884-1895
The N-end rule pathway is a ubiquitin-dependent system where E3 ligases
called N-recognins, including UBR1 and UBR2, recognize type-1 (basic) and
type-2 (bulky hydrophobic) N-terminal residues as part of N-degrons. We have
recently reported an E3 family (termed UBR1 through UBR7) characterized by the
70-residue UBR box, among which UBR1, UBR2, UBR4, and UBR5 were captured
during affinity-based proteomics with synthetic degrons. Here we characterized
substrate binding specificity and recognition domains of UBR proteins.
Pull-down assays with recombinant UBR proteins suggest that 570-kDa UBR4 and
300-kDa UBR5 bind N-degron, whereas UBR3, UBR6, and UBR7 do not. Binding
assays with 24 UBR1 deletion mutants and 31 site-directed UBR1 mutations
narrow down the degron-binding activity to a 72-residue UBR box-only fragment
that recognizes type-1 but not type-2 residues. A surface plasmon resonance
assay shows that the UBR box binds to the type-1 substrate Arg-peptide with
Kd of ∼3.4 μm. Downstream from the UBR
box, we identify a second substrate recognition domain, termed the N-domain,
required for type-2 substrate recognition. The ∼80-residue N-domain shows
structural and functional similarity to 106-residue Escherichia coli
ClpS, a bacterial N-recognin. We propose a model where the 70-residue UBR box
functions as a common structural element essential for binding to all known
destabilizing N-terminal residues, whereas specific residues localized in the
UBR box (for type 1) or the N-domain (for type 2) provide substrate
selectivity through interaction with the side group of an N-terminal amino
acid. Our work provides new insights into substrate recognition in the N-end
rule pathway.The N-end rule pathway is a ubiquitin
(Ub)2-dependent
proteolytic system in which N-terminal residues of short-lived proteins
function as an essential component of degradation signals (degrons) called
N-degrons (Fig. 1A)
(1-15).
An N-degron can be created from a pre-N-degron through specific N-terminal
modifications (12).
Specifically, in mammals, N-terminal Asn and Gln are tertiary destabilizing
residues that function through their deamidation by N-terminal amidohydrolases
into the secondary destabilizing N-terminal residues Asp and Glu, respectively
(6,
16)
(Fig. 1A). N-terminal
Asp and Glu are secondary destabilizing residues that function through their
arginylation by ATE1 R-transferase, which creates the primary
destabilizing residue Arg at the N terminus
(4,
8)
(Fig. 1A). N-terminal
Cys can also function as a tertiary destabilizing residue through its
oxidation in a manner depending on nitric oxide and oxygen (O2);
the oxidized Cys residue is subsequently arginylated by ATE1
(8,
13,
17).Open in a separate windowFIGURE 1.A, the mammalian N-end rule pathway. N-terminal residues are
indicated by single-letter abbreviations for amino acids. Yellow
ovals denote the rest of a protein substrate. C*
denotes oxidized N-terminal Cys, either Cys-sulfinic acid
[CysO2(H)] or Cys-sulfonic acid [CysO3(H)]. The Cys
oxidation requires nitric oxide and oxygen (O2) or its derivatives.
The oxidized Cys is arginylated by ATE1 Arg-tRNA-protein transferase
(R-transferase). N-recognins also recognize internal (non-N-terminal)
degrons in other substrates of the N-end rule pathway. B, the
X-peptide pull-down assay. Left, a 12-mer peptide bearing N-terminal
Arg (type 1), Phe (type 2), Trp (type 2), or Gly (stabilizing control) residue
was cross-linked through its C-terminal Cys residue to Ultralink Iodoacetyl
beads. Right, the otherwise identical 12-mer peptide, bearing
C-terminal biotinylated Lys instead of Cys, was conjugated, via biotin, to the
streptavidin-Sepharose beads. C, the X-peptide pull-down assay of
endogenous UBR proteins using testes extracts. Extracts from mouse testes were
mixed with bead-conjugated X-peptides bearing N-terminal Phe (F), Gly
(G), or Arg (R). After centrifugation, captured proteins
were separated and subjected to anti-UBR immunoblotting. Mo, a
pull-down reaction with mock beads. D, the X-peptide pull-down assays
using rat testis extracts were performed in the presence of varying
concentrations of NaCl. After incubation and washing, bound proteins were
eluted by 10 mm Tyr-Ala for Phe-peptide, 10 mm Arg-Ala
for Arg-peptide, and 5 mm Tyr-Ala and 5 mm Arg-Ala for
Val-peptide. Eluted proteins were subjected to immunoblotting for UBR1 and
UBR5. E, cytoplasmic fractions of wild-type (+/+),
Ubr1-/-, Ubr2-/-,
Ubr1-/-Ubr2-/-, and
Ubr1-/-Ubr2-/-Ubr4RNAi
MEFs were subjected to X-peptide pull-down assay. Precipitated proteins were
separated and analyzed by immunoblotting for UBR1 and UBR4.N-terminal Arg together with other primary destabilizing N-terminal
residues are directly bound by specific E3 Ub ligases called N-recognins
(3,
7,
9). Destabilizing N-terminal
residues can be created through the removal of N-terminal Met or the
endoproteolytic cleavage of a protein, which exposes a new amino acid at the N
terminus (12,
13). N-terminal degradation
signals can be divided into type-1 (basic; Arg, Lys, and His) and type-2
(bulky hydrophobic; Phe, Leu, Trp, Tyr, and Ile) destabilizing residues
(2,
12). In addition to a
destabilizing N-terminal residue, a functional N-degron requires at least one
internal Lys residue (the site of a poly-Ub chain formation) and a
conformational feature required for optimal ubiquitylation
(1,
2,
18). UBR1 and UBR2 are
functionally overlapping N-recognins
(3,
7,
9). Our proteomic approach
using synthetic peptides bearing destabilizing N-terminal residues captured a
set of proteins (200-kDa UBR1, 200-kDa UBR2, 570-kDa UBR4, and 300-kDa
UBR5/EDD) characterized by a 70-residue zinc finger-like domain termed the UBR
box
(10-12).
UBR5 is a HECT E3 ligase known as EDD (E3 identified by
differential display)
(19) and a homolog of
Drosophila hyperplastic discs
(20). The mammalian genome
encodes at least seven UBR box-containing proteins, termed UBR1 through UBR7
(10). UBR box proteins are
generally heterogeneous in size and sequence but contain, with the exception
of UBR4, specific signatures unique to E3s or a substrate recognition subunit
of the E3 complex: the RING domain in UBR1, UBR2, and UBR3; the HECT domain in
UBR5; the F-box in UBR6 and the plant homeodomain domain in UBR7
(Fig. 2B). The
biochemical properties of more recently identified UBR box proteins, such as
UBR3 through UBR7, are largely unknown.Open in a separate windowFIGURE 2.The binding properties of the UBR box family members to type-1 and
type-2 destabilizing N-terminal residues. A, the X-peptide
pull-down assay with overexpressed, full-length UBR proteins: UBR2, UBR3 (in
S. cerevisiae cells), UBR4, UBR5 (in COS7 cells), and UBR6 and UBR7
(in the wheat germ lysates). Precipitates were analyzed by immunoblotting (for
UBR2, UBR3, UBR4, and UBR5) with tag-specific antibodies as indicated in
B or autoradiography (for UBR6 and UBR7). B, the structures
of UBR box proteins. Shown are locations of the UBR box, the N-domain, and
other E3-related domains. UBR, UBR box; RING, RING finger;
UAIN, UBR-specific autoinhibitory domain; CRD, cysteine-rich
domain; PHD, plant homeodomain; HECT, HECT domain.Studies using knock-out mice implicated the N-end rule pathway in cardiac
development and signaling, angiogenesis
(8,
15), meiosis
(9), DNA repair
(21), neurogenesis
(15), pancreatic functions
(22), learning and memory
(23,
24), female development
(9), muscle atrophy
(25), and olfaction
(11). Mutations in human
UBR1 is a cause of Johanson-Blizzard syndrome
(22), an autosomal recessive
disorder with multiple developmental abnormalities
(26). Other functions of the
pathway include: (i) a nitric oxide and oxygen (O2) sensor
controlling the proteolysis of RGS4, RGS5, and RGS16
(8,
13,
17), (ii) a heme sensor
through hemin-dependent inhibition of ATE1 function
(27), (iii) the regulation of
short peptide import through the peptide-modulated degradation of the
repressor of the import (28,
29), (iv) the control of
chromosome segregation through the degradation of a separate produced cohesin
fragment (30), (v) the
regulation of apoptosis through the degradation of a caspase-processed
inhibitor of apoptosis (31,
32), (vi) the control of the
human immunodeficiency virus replication cycle through the degradation of
human immunodeficiency virus integrase
(10,
33), and (vii) the regulation
of leaf senescence in plants
(34).In the present study we characterized substrate binding specificities and
recognition domains of UBR proteins. In our binding assays, UBR1, UBR2, UBR4,
and UBR5 were captured by N-terminal degradation determinants, whereas UBR3,
UBR6, and UBR7 were not. We also report that in contrast to other E3 systems
that usually recognize substrates through protein-protein interface, UBR1 and
UBR2 have a general substrate recognition domain termed the UBR box.
Remarkably, a 72-residue UBR box-only fragment fully retains its structural
integrity and thereby the ability to recognize type-1 N-end rule substrates.
We also report that the N-domain, structurally and functionally related with
bacterial N-recognins, is required for recognizing type-2 N-end rule
substrates. We discuss the evolutionary relationship between eukaryotic and
prokaryotic N-recognins. 相似文献
19.
20.
Tushar K. Beuria Srinivas Mullapudi Eugenia Mileykovskaya Mahalakshmi Sadasivam William Dowhan William Margolin 《The Journal of biological chemistry》2009,284(21):14079-14086
Cytokinesis in bacteria depends upon the contractile Z ring, which is
composed of dynamic polymers of the tubulin homolog FtsZ as well as other
membrane-associated proteins such as FtsA, a homolog of actin that is required
for membrane attachment of the Z ring and its subsequent constriction. Here we
show that a previously characterized hypermorphic mutant FtsA (FtsA*)
partially disassembled FtsZ polymers in vitro. This effect was
strictly dependent on ATP or ADP binding to FtsA* and occurred at
substoichiometric levels relative to FtsZ, similar to cellular levels.
Nucleotide-bound FtsA* did not affect FtsZ GTPase activity or the critical
concentration for FtsZ assembly but was able to disassemble preformed FtsZ
polymers, suggesting that FtsA* acts on FtsZ polymers. Microscopic examination
of the inhibited FtsZ polymers revealed a transition from long, straight
polymers and polymer bundles to mainly short, curved protofilaments. These
results indicate that a bacterial actin, when activated by adenine
nucleotides, can modify the length distribution of bacterial tubulin polymers,
analogous to the effects of actin-depolymerizing factor/cofilin on
F-actin.Bacterial cell division requires a large number of proteins that colocalize
to form a putative protein machine at the cell membrane
(1). This machine, sometimes
called the divisome, recruits enzymes to synthesize the septum cell wall and
to initiate and coordinate the invagination of the cytoplasmic membrane (and
in Gram-negative bacteria, the outer membrane). The most widely conserved and
key protein for this process is FtsZ, a homolog of tubulin that forms a ring
structure called the Z ring, which marks the site of septum formation
(2,
3). Like tubulin, FtsZ
assembles into filaments with GTP but does not form microtubules
(4). The precise assembly state
and conformation of these FtsZ filaments at the division ring is not clear,
although recent electron tomography work suggests that the FtsZ ring consists
of multiple short filaments tethered to the membrane at discrete junctures
(5), which may represent points
along the filaments bridged by membrane anchor proteins.In Escherichia coli, two of these anchor proteins are known. One
of these, ZipA, is not well conserved but is an essential protein in E.
coli. ZipA binds to the C-terminal tail of FtsZ
(6–8),
and purified ZipA promotes bundling of FtsZ filaments in vitro
(9,
10). The other, FtsA, is also
essential in E. coli and is more widely conserved among bacterial
species. FtsA is a member of the HSP70/actin superfamily
(11,
12), and like ZipA, it
interacts with the C-terminal tail of FtsZ
(7,
13–15).
FtsA can self-associate (16,
17) and bind ATP
(12,
18), but reports of ATPase
activity vary, with Bacillus subtilis FtsA having high activity
(19) and Streptococcus
pneumoniae FtsA exhibiting no detectable activity
(20). There are no reports of
any other in vitro activities of FtsA, including effects on FtsZ
assembly.Understanding how FtsA affects FtsZ assembly is important because FtsA has
a number of key activities in the cell. It is required for recruitment of a
number of divisome proteins
(21,
22) and helps to tether the Z
ring to the membrane via a C-terminal membrane-targeting sequence
(23). FtsA, like ZipA and
other divisome proteins, is necessary to activate the contraction of the Z
ring (24,
25). In E. coli, the
FtsA:FtsZ ratio is crucial for proper cell division, with either too high or
too low a ratio inhibiting septum formation
(26,
27). This ratio is roughly
1:5, with ∼700 molecules of FtsA and 3200 molecules of FtsZ per cell
(28), which works out to
concentrations of 1–2 and 5–10 μm, respectively.Another interesting property of FtsA is that single residue alterations in
the protein can result in significant enhancement of divisome activity. For
example, the R286W mutation of FtsA, also called FtsA*, can substitute for the
native FtsA and divide the cell. However, this mutant FtsA causes E.
coli cells to divide at less than 80% of their normal length
(29) and allows efficient
division of E. coli cells in the absence of ZipA
(30), indicating that it has
gain-of-function activity. FtsA* and other hypermorphic mutations such as
E124A and I143L can also increase division activity in cells lacking other
essential divisome components
(31–33).
The R286W and E124A mutants of FtsA also bypass the FtsA:FtsZ ratio rule,
allowing cell division to occur at higher ratios than with
WT2 FtsA. This may be
because the altered FtsA proteins self-associate more readily than WT FtsA,
which may cause different changes in FtsZ assembly state as compared with WT
FtsA (17,
34).In this study, we use an in vitro system with purified FtsZ and a
purified tagged version of FtsA* to elucidate the role of FtsA in activating
constriction of the Z ring in vivo. We show that FtsA*, at
physiological concentrations in the presence of ATP or ADP, has significant
effects on the assembly of FtsZ filaments. 相似文献