Malaria remains an endemic tropical disease, and the emergence of Plasmodium falciparum parasites resistant to current front-line medicines means that new therapeutic targets are required. The Plasmodium glideosome is a multiprotein complex thought to be essential for efficient host red blood cell invasion. At its core is a myosin motor, Myosin A (MyoA), which provides most of the force required for parasite invasion. Here, we report the design and development of improved peptide-based probes for the anchor point of MyoA, the P. falciparum MyoA tail interacting protein (PfMTIP). These probes combine low nanomolar binding affinity with significantly enhanced cell penetration and demonstrable competitive target engagement with native PfMTIP through a combination of Western blot and chemical proteomics. These results provide new insights into the potential druggability of the MTIP/MyoA interaction and a basis for the future design of inhibitors.
Malaria remains an endemic tropical disease, and the emergence of Plasmodium falciparum parasites resistant to current front-line medicines means that new therapeutic targets are required. The Plasmodium glideosome is a multiprotein complex thought to be essential for efficient host red blood cell invasion. At its core is a myosin motor, Myosin A (MyoA), which provides most of the force required for parasite invasion. Here, we report the design and development of improved peptide-based probes for the anchor point of MyoA, the P. falciparum MyoA tail interacting protein (PfMTIP). These probes combine low nanomolar binding affinity with significantly enhanced cell penetration and demonstrable competitive target engagement with native PfMTIP through a combination of Western blot and chemical proteomics. These results provide new insights into the potential druggability of the MTIP/MyoA interaction and a basis for the future design of inhibitors.
Despite centuries of endeavor,
malaria remains an endemic tropical disease infecting hundreds of
millions of people each year and leading to hundreds of thousands
of deaths. Treatment using artemisinin-based combination therapies
(ACTs, the current gold standard therapeutic) alongside extensive
deployment of insecticide-treated bed nets has led to a marked reduction
in deaths and infections. However, the 2018 WHO malaria report indicated
that there had been an increase of 5 million reported infections,
to a total of approximately 219 million across the tropics.[1] Additionally, the rise of ACT-resistant parasites
has been recorded in multiple countries throughout South East Asia,
and more recently in Eastern India.[2,3] While this
resistance may not be the direct cause of the increase in infections,
it does highlight a need for new therapeutic targets. The Plasmodium glideosome complex houses several key protein–protein
interactions (PPIs) thought to be required for efficient host cell
invasion, an essential step in the parasite lifecycle. One such PPI
is the anchor point for Myosin A (MyoA), an actomyosin motor thought
to contribute to the force required during an invasion event (Figure a).[4] The anchor point for this invasion force is provided by
the buried clamp-like interaction between the tail of the parasite’s
myosin motor myosin A (MyoA) and its light chain, Myosin A tail interacting
protein (MTIP; Figure b). This interaction has previously been studied in vitro using a variety of binding assays, NMR, and an alanine mutation
scan, attributing tight binding to key amino acids on each face of
the helical MyoA tail.[5,6]
Figure 1
Binding of My1, F-My1, and F-My2 to PfMTIP.
(a) Linear model of P. falciparum glideosome and
motor complex, within the context
of erythrocyte host cell invasion. Adapted from Cowman et al.[7] (b) Annotated crystal structure of a truncated
Myosin-A peptide [799–816] (gray) clamped by recombinant PfMTIP,
highlighting the C- (red) and N-terminal regions (green).[5] (c) Peptide sequences and N-/C-terminal modifications
for synthesized peptides based on the truncated PfMyoA[799–816]
sequence, with an additional N-terminal glycine spacer. Green star
indicates addition of a 5(6)-carboxyfluorescein moiety. (d) Thermodynamic
parameters for ITC experiment of binding between My1 and F-My1 peptides
and PfMTIP (n = 2). (e) My1 peptide ITC binding isotherm
titrated into PfMTIP. (f) F-My1 peptide ITC binding isotherm titrated
into PfMTIP. (g) Direct binding of F-My1 (red) and F-My2 (blue) to
PfMTIP, measured by fluorescence anisotropy (n =
3).
Binding of My1, F-My1, and F-My2 to PfMTIP.
(a) Linear model of P. falciparum glideosome and
motor complex, within the context
of erythrocyte host cell invasion. Adapted from Cowman et al.[7] (b) Annotated crystal structure of a truncated
Myosin-A peptide [799-816] (gray) clamped by recombinant PfMTIP,
highlighting the C- (red) and N-terminal regions (green).[5] (c) Peptide sequences and N-/C-terminal modifications
for synthesized peptides based on the truncated PfMyoA[799-816]
sequence, with an additional N-terminal glycine spacer. Green star
indicates addition of a 5(6)-carboxyfluorescein moiety. (d) Thermodynamic
parameters for ITC experiment of binding between My1 and F-My1peptides
and PfMTIP (n = 2). (e) My1 peptide ITC binding isotherm
titrated into PfMTIP. (f) F-My1 peptide ITC binding isotherm titrated
into PfMTIP. (g) Direct binding of F-My1 (red) and F-My2 (blue) to
PfMTIP, measured by fluorescence anisotropy (n =
3).Recent work has demonstrated that
the MyoA motor is essential for
malaria parasite invasion of the human red blood cell in the most
virulent species affecting people, P. falciparum,
corroborated by studies in a related apicomplexan parasite, Toxoplasma gondii.[8,9]TgMyoA-KO
parasites showed a rate of invasion almost 20-fold slower compared
to WT parasites, meaning that although parasites
completed the invasion process, the invasion event lasted 10 min rather
than 30 s.[8] A truncated Plasmodium
yeolii MyoA[803-817] peptide was previously claimed
to inhibit the growth of a P. falciparum culture,
with IC50 = 84 μM.[10] However,
the targets engaged and localization/uptake of the peptide were undetermined,
and subsequent work has cast doubt on this conclusion.[6]While the MyoA:MTIP PPI offers a potentially exciting
therapeutic
target, it presents a number of challenges, particularly the localization
of the fully formed MyoA:MTIP complex in vivo behind
three unique membranes: the host erythrocyte plasma membrane, the
parasitophorous vacuole (PV) membrane, and the parasite plasma membrane.[4] Previous research has elucidated the binding
potential of a truncated MyoA peptide consisting of the C-terminal
residues 799–816 with recombinant PfMTIP.
Although MyoA[799-816] is positively charged at physiological
pH, suggesting some potential for uptake, the cell penetration properties
have not previously been determined.[5,6] Another important
consideration is the effect of parasite life stage on peptide uptake.
The Plasmodium asexual cycle transitions through
three developmental stages of growth over 48 h: rings, trophozoites,
and schizonts. The ring stage initiates immediately postinvasion (PI)
and is a relatively dormant phase; it is followed at ca. 12 h PI by
the trophozoite stage, a period of intense growth for the parasite.
An increased demand for nutrients during this rapid growth necessitates
the formation of membrane channels, termed new permeability pathways
(NPPs).[11] Peptides are known to be brought
in via these NPPs, potentially providing a mechanism
for delivery of a MyoA peptide.[12] Finally,
at ca. 36 h PI, the parasite transitions to a schizont and transforms
into many discrete merozoites, preparing for egress at 48 h PI and
subsequent invasion of new host erythrocytes. PfMTIP
expression begins around 36 h PI peaking at around 42–45 h
PI, with the MyoA:MTIP complex forming as early as 38 h PI.[13,14] We hypothesized that a high cellular concentration of truncated
MyoA peptide delivered during the initiation of MTIP expression could
potentially disrupt the MyoA:MTIP PPI in schizonts.MyoA[799-816],
termed My1, is the minimal truncated MyoA
peptide sequence necessary for tight binding with PfMTIP in vitro, with a Kd = 73.8 ± 10.7 nM by isothermal titration calorimetry (ITC, Figure d, n = 2).[5,6,10] The observed
binding affinity was concurrent with previously published values for
the F-My1 peptide, Kd = 85 nM, also measured
by ITC.[5] In order to enable detection and
localization of the peptide within the P. falciparum parasite, an N-terminal 5(6)-carboxyfluorescein (FAM) moiety was
added to the My1 peptide separated by a glycine spacer; this peptide
was termed F-My1. A weaker-binding control was synthesized with a
double mutation exchanging two residues from the hydrophilic and hydrophobic
faces of the buried MTIP:MyoA interaction: F-My1 (R806A/A809R), termed
F-My2 (sequences shown in Figure c).[6]This approach
was favored oversimple alanine mutation in order
to keep the overall charge of both peptides the same and enable pairwise
comparisons for parasite uptake. F-My1 and F-My2 were assayed by ITC
and fluorescence anisotropy (FA). ITC showed that incorporation of
N-terminal FAM was well tolerated in F-My1 (Figure d,f) with binding affinities remaining in
the low nanomolar range (Kd = 57 ±
13 nM), comparable to that of MyoA[799-816] peptide (Kd = 85 ± 6 nM).[5] Affinities determined by FA were somewhat lower (Figure g) with F-My1 (Kd = 8.7 ± 0.6 nM), while F-My2 showed a 40-fold reduction
in affinity for PfMTIP (Kd = 394 ± 16 nM). A competitive inhibition assay format (Figure S1) confirmed that the corresponding unlabeled
peptides My1 and My2 could outcompete F-My1 binding to PfMTIP with IC50 values of 67 nM and 6880 nM, respectively.With high-affinity and control (reduced-affinity) peptide probes
in hand, parasite cell permeability was first investigated quantitatively
using flow cytometry. Peptides (1 μM) were incubated with P. falciparum (3D7 strain) for 3 h during each of three Plasmodium life stages (ring, trophozoite, and schizont).
Flow cytometry demonstrated that cell permeability of F-My1 and F-My2
was generally low and heavily dependent on the lifecycle stage (Figure a), peaking at 13
± 1% for F-My1 in schizonts. A possible explanation for the increased
uptake in late stage parasites is peptide entry through an NPP present
only at late stages of schizogony. Alternatively, it may be due to
increased leakiness of red blood cell and parasitophorous vacuole
(PV) membranes when the cytoskeleton is broken down as the parasite
prepares to egress.[15] Regardless, it was
necessary to optimize the peptide sequence to improve its cell permeability
properties to enable uptake in earlier life stages, before the formation
of the PfMyoA:MTIP complex.[13,14]
Figure 2
Cellular
uptake of MyoA-derived peptides into P. falciparum analyzed by flow cytometry. (a) Uptake of F-My1 and F-My2 peptides
over three stages of Pf3D7 lifecycle, percentage uptake calculated
as number of FAM and DAPI positive cells (probe containing parasites)
divided by all DAPI positive cells (total parasite population). Data
generated by flow cytometry experiments; representative plots and
gates plots are shown in Figure S6. Plasmodium
cultures were incubated with peptides (1 μM) for 3 h. (b) Uptake
of F-cell penetrating peptides (F-CPPs) into an early schizont culture
of Pf3D7. Significance t test compares F-My1 to other
peptides, at the same concentration. (c) Uptake of F-Argn sequences into an early schizont culture of Pf3D7, demonstrating
that chain length is important for peptide permeability. (d) Percentage
uptake of modified MyoA peptide sequences, incorporating lessons learned
from experiments with CPPs, into Pf3D7 early schizont cells. Significance t test compares F-My1 uptake with other peptides at the
same concentration. For all plots, data represent mean ± SEM
over six or more experimental replicates. P values
compared using unpaired t test, buffer control vs
peptide. ***p< 0.001, **p = 0.001–0.01, *p = 0.01–0.05,
ns = nonsignificant.
Cellular
uptake of MyoA-derived peptides into P. falciparum analyzed by flow cytometry. (a) Uptake of F-My1 and F-My2 peptides
over three stages of Pf3D7 lifecycle, percentage uptake calculated
as number of FAM and DAPI positive cells (probe containing parasites)
divided by all DAPI positive cells (total parasite population). Data
generated by flow cytometry experiments; representative plots and
gates plots are shown in Figure S6. Plasmodium
cultures were incubated with peptides (1 μM) for 3 h. (b) Uptake
of F-cell penetrating peptides (F-CPPs) into an early schizont culture
of Pf3D7. Significance t test compares F-My1 to other
peptides, at the same concentration. (c) Uptake of F-Argn sequences into an early schizont culture of Pf3D7, demonstrating
that chain length is important for peptide permeability. (d) Percentage
uptake of modified MyoA peptide sequences, incorporating lessons learned
from experiments with CPPs, into Pf3D7 early schizont cells. Significance t test compares F-My1 uptake with other peptides at the
same concentration. For all plots, data represent mean ± SEM
over six or more experimental replicates. P values
compared using unpaired t test, buffer control vs
peptide. ***p< 0.001, **p = 0.001–0.01, *p = 0.01–0.05,
ns = nonsignificant.Modification to increase
positive charge or by conjugation with
one of the varied cell penetrating peptide (CPP) sequences found in
nature is a widely explored approach to improve cellular permeability
of peptides.[16−18] Despite the ubiquity of CPPs in this context there
is a paucity of data regarding their uptake into P. falciparum cells, with the exception of polyarginines.[19] A panel of eight CPPs, TAT48–60, penetratin, arginine–penetratin,
and various polyarginines, were synthesized, all bearing an N-terminal
FAM moiety. A pentenyl alanine stapled version F-MyoA pAla[811,815],
termed F-My1[St.],[20,21] was also synthesized based on
previous evidence that stapling improved uptake of an unrelated peptide
into P. falciparum as early as the trophozoite stage.[22] The uptake properties of these peptides were
tested with P. falciparum early schizonts (ca. 35
h PI), which is the hypothesized window for target engagement prior
to PfMyoA:MTIP complex formation in vivo.[14] Uptake data (Figure b) showed no significant improvement with
the addition of the staple, F-My1[St.], and TAT48–60 displayed
similar uptake to F-My1. Three peptides showed significantly greater
permeability over F-My1; these were penetratin (F-Pen), arginine–penetratin
(F-ArgPen, a penetratin sequence where lysine residues were mutated
to arginine), and octo-arginine (F-Arg8).[23] Further investigation showed that uptake into P. falciparum early schizonts correlates positively with the length of polyarginine
peptide with F-Arg7 and F-Arg8 significantly greater than F-Arg6,
which in turn shows a significant improvement over F-Arg4 (Figure c).[24] Three peptides were synthesized building on these results:
two MyoA sequences with N-terminal octo/hexa-arginine (F-Arg8My1 and
F-Arg6My1) and a MyoA mutant carrying strategically placed lysine
to arginine mutations (F-ArgMy1), giving a total of five Arg residues
within the peptide while retaining the distribution of positive charge
across the helix. Encouragingly, F-ArgMy1 and F-Arg8My1 showed 2-fold
improvement in uptake compared to F-My1 (Figure d). These sequence modifications were also
well-tolerated, retaining low nanomolar binding affinities in the
FA binding assay (Figure a). For reasons of similarity in molecular weight and sequence
to F-My1, F-ArgMy1 was selected as the lead peptide probe for the
following experiments.
Figure 3
Cellular localization of peptide probe in P. falciparum measured by biochemical assays. (a) Fluorescence anisotropy binding
assay data for modified MyoA-based peptides with improved uptake in
Plasmodium3D7 cells, n = 3. (b) Schematic adapted
from Ruecker et al. showing selective lysis of the
three membranes (erythrocyte plasma, parasitophorous vacuole, and
Plasmodiumplasma) with separate detergents, to determine if peptide
probe penetrates the parasitized cell or adheres to the RBC membrane.[25] (c) IGF fluorescein signal, SDS-PAGE samples
of insoluble and soluble lanes of both treatment, run on a high percentage
gel (16%/6 M Urea TrisTricine).[26] (d) Western
blot controls demonstrating selective lysis of membranes, SERA-6 (135
kDa, PVM protein) and PfAldolase (40 kDa parasite protein) are only
released into soluble fraction after treatment with TX-100. Coomassie
shows hemoglobin released into soluble fraction after treatment with
SLO. (e) Fluorescence anisotropy binding assay data for diazirine
and biotin containing MyoA-based peptides.
Cellular localization of peptide probe in P. falciparum measured by biochemical assays. (a) Fluorescence anisotropy binding
assay data for modified MyoA-based peptides with improved uptake in
Plasmodium3D7 cells, n = 3. (b) Schematic adapted
from Ruecker et al. showing selective lysis of the
three membranes (erythrocyte plasma, parasitophorous vacuole, and
Plasmodiumplasma) with separate detergents, to determine if peptide
probe penetrates the parasitized cell or adheres to the RBC membrane.[25] (c) IGF fluorescein signal, SDS-PAGE samples
of insoluble and soluble lanes of both treatment, run on a high percentage
gel (16%/6 M UreaTrisTricine).[26] (d) Western
blot controls demonstrating selective lysis of membranes, SERA-6 (135
kDa, PVM protein) and PfAldolase (40 kDa parasite protein) are only
released into soluble fraction after treatment with TX-100. Coomassie
shows hemoglobin released into soluble fraction after treatment with
SLO. (e) Fluorescence anisotropy binding assay data for diazirine
and biotin containing MyoA-based peptides.We next explored distribution of F-ArgMy1 within the P.
falciparum cell. In order to confirm that F-ArgMy1 was not
simply adhering to the RBC membrane, an established procedure was
adapted to selectively lyse the red blood cell (RBC) membrane, parasitophorous
vacuole membrane (PVM), and Plasmodium plasma membrane.[25] A functional MyoA peptide probe would need to
penetrate all three of these membranes to reach its PPI target. Aliquots
of P. falciparum late schizonts were incubated with
F-ArgMy1 (10 μM) and a buffer control for 3 h. Cells were then
treated with either streptolysin-O (SLO) or 1% TX-100, in order to
lyse either the RBC or all three membranes, respectively (Figure b).The results
were analyzed by SDS-PAGE gel electrophoresis, using
16%/6 M ureaTris-tricine gels suitable for resolution and retention
of low molecular weight peptides, and by Western blot.[26] In-gel fluorescence was used to observe peptide
localization in vivo; after SLO treatment (to lyse
the RBC membrane) the vast majority of fluorescence signal was observed
in the insoluble fraction (Figure c). However, upon treatment with TX-100 (to lyse the
PV and parasite membranes), the peptide signal was observed in the
soluble fraction, indicating that the peptide penetrates the parasitized
erythrocyte rather than simply adhering to the RBC membrane. Interestingly,
the peptide displays an increase in apparent molecular weight in parasite
samples treated with TX-100. While this could be the result of in vivo modifications to the peptide, samples of F-ArgMy1
(500 nM) treated with a serial dilution of TX-100 also displayed an
increase in apparent molecular weight, making it likely that this
is an effect of the detergent on migration in the highly cross-linked
gel (Figure S7). The specificity of lysis
was confirmed by Coomassie and Western blot (Figure d). Coomassie shows the release of hemoglobin
from the erythrocyte cytoplasm upon treatment with SLO, while parasite
proteins PfSERA6 and PfAldolase
(found in the PV and parasite cytoplasm respectively) remain in the
insoluble fraction, indicating that the PV and parasite membranes
remained intact. As expected, both proteins were released into the
soluble fraction after treatment with TX-100.An estimation
of in vivo F-ArgMy1 concentration
was made by densitometric analysis of IGF image (Figure c), performed using ImageQuant
FL software. Calculations (eq S1 and Table S1) indicate that the concentration of
F-ArgMy1 released into the soluble fraction by SLO and TX-100 treatments
was 2.5 ± 0.5 and 5.1 ± 2.1 μM, respectively; this
indicated that ca. 2.6 μM F-ArgMy1 was attained within the PV.
While quantitative analyses from densitometric data should not be
overinterpreted, they provide a useful indication of the likely order
of magnitude of peptide uptake, and suggest that F-ArgMy1 released
into the soluble fractions by SLO and TX-100 is in the low micromolar
range. While this estimated concentration is above the Kd value for F-ArgMy1 binding with PfMTIPΔ60,
this experiment gave no indication of the in vivo state of the peptide, and whether it was still in a form which could
bind with endogenous PfMTIP or had been degraded.
Taken together, data from cytometry and biochemical analysis support
the conclusion that F-ArgMy1 is cell permeable, enters intact P. falciparum cells within infected RBCs, and may reach
the correct cellular compartment at a concentration sufficient to
engage its target.To further validate the peptide as a potential
probe in
vivo, we sought to demonstrate engagement with endogenously
expressed PfMTIP, known to carry a number of PTMs
which may affect the binding affinity with the ArgMy1 probe compared
to recombinant PfMTIPΔ60.[5] To facilitate target engagement experiments, a diazirine
moiety was added to the N-terminus of F-My1 and F-ArgMy1 sequences
in the form of a diazirine-bearing photomethionine residue (F/D-My1
and F/D-ArgMy1), alongside analogues bearing a C-terminal biotin for
use in pull down and proteomics experiments.[27] These modifications were tolerated, with F/D-ArgMy1-biotin displaying
low nanomolar binding affinity with PfMTIP, Kd = 5.3 nM ± 0.3 nM (Figure e). A nonbinding control, termed F/D-ArgMy2-Biotin,
was also synthesized bearing the same modifications at the N- and
C-termini (Table S2). The binding affinity
was reduced by the exchange of two pairs of amino acids from the hydrophobic
and hydrophilic faces of the peptide Kd > 2 μM (Figure e). As a proof of concept for photo-cross-linking, recombinant PfMTIPΔ60 (19 kDa, 1 μM) was incubated with
F/D-My1 or F/D-ArgMy1 and 2-Biotin (5 μM) for 30 min and then
irradiated with UV light (365 nm, 3 min). Successful cross-linking
was demonstrated by in-gel fluorescence, with a fluorescein signal
observable in bands with the expected product mass (21 kDa) in probe
containing lanes (Figure a). α-MTIP WB validated that bands at 19 and 21 kDa
were PfMTIP, with and without cross-linking to a
probe. Additionally, WB against neutravidin-HRP confirmed that the
C-terminal biotin is accessible when F/D-ArgMy1 is cross-linked to
the target protein. F/D-ArgMy1-biotin was next taken forward to experiments
with P. falciparum lysate to test engagement with
endogenously expressed PfMTIP.
Figure 4
Selective engagement
of modified F-ArgMy1 peptides with native
target protein PfMTIP. (a) IGF, α-neutravidin-HRP,
and Rb α-MTIP Western blots showing MyoA based diazirine peptides
(5 μM) can label PfMTIP (1 μM). (b) α-MTIP
WB showing successful pulldown of PfMTIP from Pf3D7 schizont lysate. NB- D, 0 min incubation, run on separate
SDS-PAGE, full gels shown in Supporting Information Figure 3. (c) α-MTIP WB, 90 μg of Pf3D7 late schizont lysate used in all conditions, incubated with F/D-ArgMy1-Bio
(5 μM) and with increasing concentrations of F-ArgMy1 as an
inhibitor; blot shows successful inhibition of PfMTIP pulldown. (d) Proteomics data, statistical analysis by t test, FDR = 0.15, s0 = 0.4. Inhibition of enrichment of PfMTIP (red) using F-ArgMy1 (20 μM). Nine significant
hits that are significant both in blank vs F/D-ArgMy1-Bio experiment
and in inhibition experiment are highlighted: PfMTIP
(red), peptidases (green), Arg-NMT transferase (blue), and high abundance
proteins HSP70 and ERC (black). 60S ribosomal protein (gray) was observed
as significant in the inhibition experiment only and so was discounted.
Proteins with positive significant difference in inhibited triplicate
(purple) were disregarded. (e) Resolved mass spectrum, showing modified PfMTIP residue is Asn-154 (red), also shown. (f) Modified
crystal structure (PDB 4AOM) of PfMTIP (green) with MyoA[799–816],
adapted to include N-terminal Gly-methionine to model site of modification
with photomethionine (purple).
Selective engagement
of modified F-ArgMy1 peptides with native
target protein PfMTIP. (a) IGF, α-neutravidin-HRP,
and Rb α-MTIP Western blots showing MyoA based diazirinepeptides
(5 μM) can label PfMTIP (1 μM). (b) α-MTIP
WB showing successful pulldown of PfMTIP from Pf3D7 schizont lysate. NB- D, 0 min incubation, run on separate
SDS-PAGE, full gels shown in Supporting Information Figure 3. (c) α-MTIP WB, 90 μg of Pf3D7 late schizont lysate used in all conditions, incubated with F/D-ArgMy1-Bio
(5 μM) and with increasing concentrations of F-ArgMy1 as an
inhibitor; blot shows successful inhibition of PfMTIP pulldown. (d) Proteomics data, statistical analysis by t test, FDR = 0.15, s0 = 0.4. Inhibition of enrichment of PfMTIP (red) using F-ArgMy1 (20 μM). Nine significant
hits that are significant both in blank vs F/D-ArgMy1-Bio experiment
and in inhibition experiment are highlighted: PfMTIP
(red), peptidases (green), Arg-NMT transferase (blue), and high abundance
proteins HSP70 and ERC (black). 60S ribosomal protein (gray) was observed
as significant in the inhibition experiment only and so was discounted.
Proteins with positive significant difference in inhibited triplicate
(purple) were disregarded. (e) Resolved mass spectrum, showing modified PfMTIP residue is Asn-154 (red), also shown. (f) Modified
crystal structure (PDB 4AOM) of PfMTIP (green) with MyoA[799-816],
adapted to include N-terminal Gly-methionine to model site of modification
with photomethionine (purple).Endogenous PfMTIP cross-linking experiments were
performed by incubating F/D-ArgMy1-biotin with P. falciparum late schizont lysate, when PfMTIP is expected to
be maximally expressed.[13,14] Cross-linked lysate
was precipitated and resolubilized, to remove excess probe, before
being incubated with streptavidin-coated Dynabeads (C1) to enrich
labeled proteins. Antibodies against PfMTIP confirmed
the presence of cross-linked-PfMTIP bands (21 kDa)
in a probe- and UV-dependent manner by immunoblot (Figure b). Competition experiments
against a dilution series of F-ArgMy1 further demonstrated the specificity
of cross-linking between F/D-ArgMy1-biotin and native PfMTIP in schizont lysate (Figure c). Further validation of the interaction between F/D-ArgMy1-biotin
and endogenous PfMTIP was conducted by quantitative
proteomic analysis using nanoLC-MS/MS. Triplicate samples of P. falciparum schizont lysate were treated with F/D-ArgMy1-Bio
(1 μM), F/D-ArgMy1-Bio (1 μM) + F-ArgMy1 (20 μM)
probe, and a DMSO control. The cells were lysed (1% TX-100 buffer)
and processed using a pull-down and quantitative proteomics workflow
detailed in the Methods section, and analyzed by mass spectrometry.
Of 563 proteins identified, it was shown that 430, including PfMTIP, were significantly enriched in a probe over DMSO
conditions (Figure S4). Of these 430 proteins,
only nine were both significant in the blank vs probe experiment and
significantly outcompeted by F-ArgMy1 (20 μM; Figure d), with PfMTIP (red) among these hits (Table S3).
The remaining eight proteins are unrelated to the Plasmodium glideosome and are likely off-target hits driven by electrostatic
interactions of an arginine rich peptide probe. The mean isoelectric
points of peptides identified for each protein were all below seven
(Table S4). These included five peptidases,
an arginine N-methyltransferase, and two high-abundance
proteins (endoplasmic reticulum calcium-binding protein and chaperone
protein HSP70).Finally, in order to observe if the modified
peptide was binding
in a plausible manner to PfMTIP, cross-linked PfMTIP tryptic peptides were searched by de novo sequencing, using PEAKS software.[28] In
experiments with F/D-ArgMy1-Bio, no such fragments were observable,
hypothesized to be due to the larger sized modification due to fluorescein
and photomethionine flying poorly in the mass spectrometer. Therefore,
the experiment was repeated using recombinant PfMTIP
and D-My1-Bio resulting in a smaller modification after trypsin digestion,
and peptide fragment spectra that clearly show cross-linking to a
specific PfMTIP amino acid residue Asn154, bearing
a photoMet-Gly modification (Figure e). All peptides bearing this addition were seen to
originate from the C-terminal domain of PfMTIP, indicating
that the modified peptide was binding in the expected manner with PfMTIP. A model of F/D-ArgMy1[799-816] bound to PfMTIP (PDB 4AOM) highlights the diazirine modified regions in red
(Figure f).[5] Despite multiple attempts, in vivo cross-linking experiments did not show any cross-linking between
probe and parasite proteins. While there are a number of reasons this
experiment could have failed, we hypothesize that the absorption of
UV light by hemoglobin could stop the diazirine moiety from being
activated properly.Despite a dramatic improvement in the uptake
properties of the
MyoA-based peptide probe, efforts to replicate the cell viability
phenotype claimed by Bosch et al. were unsuccessful (Figure S5a) with an observed EC50 ≈ 160
μM for each of F-My1, F-ArgMy1, and F-ArgMy3. These peptides
have drastically different binding affinities with PfMTIP as well as differing uptake properties into Plasmodium cells, and this result suggests that the observed toxicity is not
the result of a specific interaction with endogenous PfMTIP.Here, we have presented the development of a novel truncated
MyoA-based
peptide as a probe for a key PPI found in the invasion machinery of
the malaria parasite P. falciparum. While initial
flow cytometry experiments revealed the poor permeability of the MyoA[799-816]
peptide, valuable insights were gained through permeability experiments
using CPPs, some of which were tested for the first time here in P. falciparum. Targeted sequence modifications replacing
three lysine residues with arginine resulted in probe F-ArgMy1, which
showed significantly improved permeability in midstage schizonts,
up to 50% of all parasitized cells. Furthermore, this peptide was
shown to permeate the parasitized cell by biochemical experiments
based on selective membrane lysis, reaching at least as far as the
PV space at concentrations sufficient to detect directly by gel-based
analysis, estimated to be 2.5 μM. Improved uptake was not to
the detriment of affinity, as the peptide retained low nanomolar binding
affinity. A photoaffinity probe, F/D-ArgMy1-Biotin, successfully demonstrated
target engagement and enrichment of endogenously expressed PfMTIP from schizont lysate, and pull-down competition experiments
demonstrate selectivity of PfMTIP enrichment by quantitative
proteomics, along with the identification of several off-targets.
The site of modification with this probe was also consistent with
structural prediction of the peptide-MTIP complex, based on a cocrystal
structure of MyoA[799-816] and MTIP.These results demonstrate
a step forward in the development of
a truncated MyoA peptide as a tool to investigate the potential druggability
of the MyoA:MTIP PPI, achieving delivery of intact peptide to live
intracellular parasites as judged by biochemical and fluorescence
analyses. However, to date, direct evidence for target engagement
in intact parasites has not been achieved, and despite enhanced uptake
and high affinity binding, optimized probes do not block parasite
invasion in a manner consistent with inhibition of MyoA:MTIP complex
formation. These results may imply that the peptide probe does not
access the correct compartment (the inner membrane complex, IMC, Figure a) at a sufficient
concentration or that MyoA:MTIP is formed very rapidly following biosynthesis
and is then resistant to inhibition. Indeed, there is evidence that
MyoA:MTIP is formed as an intact complex prior to transport to the
IMC, which may complicate targeting of this interaction; MTIP is also
modified by phosphorylation, which has been hypothesized to regulate
its interaction with MyoA.[5,29,30] The MyoA:MTIP complex is part of a much larger assembly at the IMC,
and it is also plausible that these interactions add to its stability.
Future studies may consider whether peptides can disrupt the preformed
complex; however, biochemical reconstitution of a full glideosome
complex is challenging and has not been reported to date, making further in vitro assessment of this target interaction problematic.
Finally, it may be the case that effective inhibition of MyoA:MTIP
does not substantially impact invasion, which would invalidate this
complex as an antimalarial target.In conclusion, the work presented
here provides new insights into
the design of parasite-penetrant peptide probes, and the potential
druggability of the MyoA:MTIP interaction. Our data suggest that this
PPI is a highly challenging target, and that future work should focus
on establishing evidence for engagement in vivo to
provide evidence to validate or invalidation MyoA:MTIP inhibitors
as potential antimalarial agents.
Authors: Beata Kolesinska; Dominika J Podwysocka; Magnus A Rueping; Dieter Seebach; Faustin Kamena; Peter Walde; Markus Sauer; Barbara Windschiegl; Mira Meyer-Ács; Marc Vor der Brüggen; Sebastian Giehring Journal: Chem Biodivers Date: 2013-01 Impact factor: 2.408
Authors: Christopher H Douse; Judith L Green; Paula S Salgado; Peter J Simpson; Jemima C Thomas; Gordon Langsley; Anthony A Holder; Edward W Tate; Ernesto Cota Journal: J Biol Chem Date: 2012-08-29 Impact factor: 5.157
Authors: Saskia Egarter; Nicole Andenmatten; Allison J Jackson; Jamie A Whitelaw; Gurman Pall; Jennifer Ann Black; David J P Ferguson; Isabelle Tardieux; Alex Mogilner; Markus Meissner Journal: PLoS One Date: 2014-03-14 Impact factor: 3.240
Authors: Andrea Ruecker; Michael Shea; Fiona Hackett; Catherine Suarez; Elizabeth M A Hirst; Katarina Milutinovic; Chrislaine Withers-Martinez; Michael J Blackman Journal: J Biol Chem Date: 2012-09-14 Impact factor: 5.157