Dynamic reorganization of the motor domain of myosin subfragment 1in different nucleotide states Em}oke Bo´dis1, Krisztina Szarka2, Miklo´s Nyitrai2and Be´la Somogyi1,2 1 Department of B
Trang 1Dynamic reorganization of the motor domain of myosin subfragment 1
in different nucleotide states
Em}oke Bo´dis1, Krisztina Szarka2, Miklo´s Nyitrai2and Be´la Somogyi1,2
1
Department of Biophysics, Faculty of Medicine, University of Pe´cs, Hungary;2Research Group for Fluorescence Spectroscopy, Office for Academy Research Groups Attached to Universities and Other Institutions, Department of Biophysics,
Faculty of Medicine, University of Pe´cs, Hungary
Atomic models of the myosin motor domain with different
bound nucleotides have revealed the open and closed
con-formations of the switch 2 element [Geeves, M.A & Holmes,
K.C (1999) Annu Rev Biochem 68, 687–728] The two
conformations are in dynamic equilibrium, which is
con-trolled by the bound nucleotide In the present work we
attempted to characterize the flexibility of the motor domain
in the open and closed conformations in rabbit skeletal
myosin subfragment 1 Three residues (Ser181, Lys553 and
Cys707) were labelled with fluorophores and the probes
identified three fluorescence resonance energy transfer pairs
The effect of ADP, ADP.BeFx, ADP.AlF– and ADP.Vi
on the conformation of the motor domain was shown by
applying temperature-dependent fluorescence resonance
energy transfer methods The 50 kDa lower domain was found to maintain substantial rigidity in both the open and closed conformations to provide the structural basis of the interaction of myosin with actin The flexibility of the
50 kDa upper domain was high in the open conformation and further increased in the closed conformation The con-verter region of subfragment 1 became more rigid during the open-to-closed transition, the conformational change of which can provide the mechanical basis of the energy transduction from the nucleotide-binding pocket to the light-chain-binding domain
Keywords: protein dynamics and conformation; myosin; muscle; nucleotides; fluorescence resonance energy transfer
The mechanisms underlying the contraction of muscle
involve the cyclic interaction of actin with myosin The
binding and hydrolysis of ATP by the myosin induces a
series of conformational changes within the motor domain
of myosin, which lead to the sliding of the thick and thin
filaments relative to each other Some of the intermediate
states of ATP hydrolysis are short-lived and thus stable
structural analogues are required to study these states [1–3]
Recently, the structures of the recombinant truncated
Dictyostelium discoideum myosin subfragment 1 (S1) in
the apo-state [4], or with ATP [4], ADP, ADP.BeFx [5],
ADP.AlF– [5] or ADP.Vi [6], were shown to provide an
excellent structural framework for using to understand
the mechanism of muscle contraction According to these
D discoideum structures, S1.ADP.BeFx resembles the
S1.ATP conformation, whereas S1.ADP.AlF– and S1
ADP.Vi resemble the S1.ADP.Pi conformation On the
other hand, the smooth muscle myosin S1 atomic structures with ADP.BeFxand ADP.AlF–were almost identical [7] Analysis of these atomic models revealed that a key structural part of the nucleotide induced conformational changes in the core of the motor domain is the switch 2 (SWII) element, which consists of the SWII helix (residues 475–509) and the SWII loop (residues 511–520) The SWII element can be in an open or closed conformation in the individual states of the ATPase cycle [8] The two confor-mations are in a dynamic equilibrium, which is controlled
by the bound nucleotide The open state is dominant in the pre- and postpower-stroke states, such as the apo-enzyme or S1 with bound ATP or ADP, or in the nucleotide states mimicked by b-c-imidoadenosine 5¢-triphosphate or ATPcS [8] The closed conformation was attributed to the transition state and was observed with bound ADP.Pi analogues, ADP.Vi or ADP.AlF– In the ADP.BeFx bound motor domain, both the open and closed conformation could be detected [5,7] During the open-to-closed transition, the SWII element moves towards the c-phosphate [8] This transition step can be followed by the hydrolysis of ATP and the closure of the active site through the relative rotation of the 50 kDa upper domain and the 50 kDa lower domain The helix consisting of residues 648–666 is in the fulcrum of this rotation In conjunction with this transition, the converter domain rotates by 60, which induces the movement of the C–terminal end of S1 by 12 nm [9] Tryptophan fluorescence has proved to be a powerful experimental tool when used to characterize the different aspects of myosin interaction with nucleotides [10–13] Rapid kinetic experiments using tryptophan fluorescence indicated
Correspondence to B Somogyi, Department of Biophysics,
University of Pe´cs, Faculty of Medicine, Pe´cs, Szigeti Str 12,
H-7624, Hungary Fax: + 36 72 536261, Tel.: + 36 72 536260,
E-mail: somogyi.publish@aok.pte.hu
Abbreviations: ANN, 9-anthroylnitrile; FHS,
6-(fluorescein-5-carb-oxamido)-hexanoic acid succinimidyl ester; FRET, fluorescence
resonance energy transfer; IAEDANS,
N-[[(iodoacetyl)amino]ethyl]-5-naphthylamine-1-sulfonate; IAF, 5-(iodoacetamido)-fluorescein;
S1, myosin subfragment 1.
(Received 13 August 2003, revised 10 October 2003,
accepted 21 October 2003)
Trang 2that the delicately poised equilibrium between the closed and
open conformations was influenced by temperature changes
in a nucleotide dependent manner [14–16] The apo-form
and ADP bound form of either a single tryptophan
D discoideum myosin II motor domain construct [15] or
skeletal muscle myosin S1 [16] were predominantly in the
open conformation, while the ADP.AlF– bound forms
were predominantly in the closed conformation over the
4–30C temperature range The open/closed equilibrium
was shifted towards the closed conformation by increased
temperature when the motor domain bound ADP.BeFx
[15,16]
In the work presented here we attempted to characterize
the protein flexibility of the open and closed motor domain
conformations By applying temperature-dependent
fluor-escence resonance energy transfer (FRET) methods [17,18],
we investigated how the dynamic properties of the rabbit
skeletal S1 motor domain adapted to the biological function
in different nucleotide states We labelled three residues of
S1 with suitable fluorophores, as follows: in the first case
Ser181 was labelled with 9-anthroylnitrile (ANN) and
Lys553 was labelled with
6-(fluorescein-5-carboxamido)-hexanoic acid succinimidyl ester (FHS); in the second
case Cys707 (SH1) was labelled with
N-[[(iodoace-tyl)amino]ethyl]-5-naphthylamine-1-sulfonate (IAEDANS)
and Lys553 was labelled with FH S; and in the third case
Ser181 was labelled with ANN and Cys707 (SH1) was
labelled with 5-(iodoacetamido)-fluorescein (IAF) The
effects of ADP, ADP.BeFx, ADP.AlF– and ADP.Vi on
the flexibility of the motor domain were characterized The
results suggest that the 50 kDa lower domain of S1
maintains substantial rigidity in both open and closed
conformations, which may be important for the optimal
interaction with actin The upper 50 kDa domain was
flexible in all nucleotide states, which may be important for
providing the permeability of the back door of the myosin
for surrounding water or for the dissociating phosphate
product The binding of ADP or ADP.BeFx to apo-S1,
which is thought to be an open conformation, had little
effect on the overall flexibility of the motor domain The
flexibility of the motor domain was different in the
S1.ADP.AlF–state from either apo-S1 or S1.ADP.Vistates
The largest reorganization of the domains was observed in
S1.ADP.Vi The observed changes suggest that in the closed
conformation the flexibility of the 50 kDa upper domain is
further increased The relative internal fluctuation of the
50 kDa upper domain and actin binding domain was
suppressed, which reflected the stiffening of the converter
region between the nucleotide-binding site and the
light-chain-binding domain The transition to this rigid structure
may be part of the mechanism by which the energy from
ATP hydrolysis is transferred to the lever arm
Materials and methods
Reagents
Tes, Mops, Tris, Na2HPO4, MgCl2, CaCl2, NaCl, KCl,
NaOH, glycine-ethyl-esther, a-chymotrypsin, trypsin,
phenylmethanesulfonyl fluoride, EDTA, EGTA,
2-merca-ptoethanol, dimethylformamide, dithiothreitol, IAEDANS,
NaF, AlCl, NaVO, NADH, pyruvate kinase, lactate
dehydrogenase and phosphoenol pyruvic acid were obtained from Sigma Chemical Co.; ADP and ATP were obtained from Merck; ANN, FHS and IAF were purchased from Molecular Probes; BeSO4was purchased from Fluka; N,N,N¢,N¢-tetramethylethyliendiamine (TEMED) and the Coomassie Protein Micro-Assay were purchased from Bio-Rad; and SDS was from US Biochemical
Protein preparations and modifications Both myosin and actin were prepared from rabbit skeletal muscle according to the methods described by Margossian
& Lowey [19] and Spudich & Watt [20], respectively S1 was prepared by a-chymotrypic digestion of myosin [21] The labelling of S1 with ANN [22], IAEDANS [23], FHS [24] or IAF [23] was performed according to previously published procedures The concentrations of S1 and G-actin were determined from absorption data using the extinction coefficient of A1%1cm¼ 7.45 at 280 nm [25] and
A1%1cm¼ 6.30 at 290 nm [26], respectively The concentra-tions of ANN, IAEDANS, FHS and IAF were deter-mined at pH7.0 using the absorption coefficients of
8400M )1Æcm)1at 361 nm [22], 6100M )1Æcm)1 at 336 nm [23], 68 000M )1Æcm)1at 495 nm [24] and 55 000M )1Æcm)1
at 496 nm (determined for pH7.0 based upon the work of Takashi [27]), respectively The labelling ratio was calcula-ted as the ratio of the dye concentration to protein concentration When S1 was labelled with fluorophores, the absorbance measured for determining the protein concentration at 280 nm was corrected for the contribution
of the labels using A280¼ A361 for the bound ANN;
A280¼ 0.21A336for the bound IAEDANS; A280¼ 0.3A495 for the bound FHS; and A280¼ 0.3A496for the bound IAF Relying on the absorption data, the labelling ratios of different samples were found to be 0.4–1.0, 0.6–0.9, 0.8–1.0 and 0.7–1.0 mol probe per mol S1 for ANN, IAEDANS, FHS and IAF, respectively
The complexes of S1 and phosphate analogues, as AlF– and BeFx, were formed by incubating S1 with 0.2 mMADP,
5 mM NaF and either 0.2 mM AlCl3 or BeSO4 [28] The complex of S1, ADP and the VO4 anion was formed by incubating S1 with 0.2 mMADP and 0.2 mMVO4[29], and
is referred to hereafter as S1.ADP.Vi Previously, nucleotide analogues were used successfully to study S1 labelled on Ser181 [30], Lys553 [31] or Cys707 [23,32] In this work, in order to provide optimal conditions for the formation of S1–analogue complexes, the ADP and the analogues were not removed from the samples during the experiments Labelled S1 was routinely characterized by determining the
K+/EDTA- and Ca2+ATPase activities through measur-ing the release of phosphate [33] The assays were performed
at room temperature in 50 mM Tris/HCl, pH 8.0, 0.6M KCl, 2.5 mM ATP and either 10 mM EDTA or 9 mM CaCl2 The ATPase activities measured simultaneously for unlabelled S1 served as a reference Labelling S1 with either ANN or IAEDANS, at a ratio of 0.4 (ANN–S1) or 0.6 (IAEDANS–S1), modified the Ca2+ ATPase activity to 47% or to 190%, compared with that of the unlabelled protein, and decreased the K+/EDTA ATPase activity to 53% and 44%, respectively These observations are in agreement with previous results [22,23] Subsequent label-ling of ANN–S1 with FHS or IAF modified the Ca2+
Trang 3ATPase activity to 64% and 20%, respectively, while the
K+/EDTA ATPase activity of these samples decreased to
14% or 15% of that of the unlabelled protein, respectively
The modification of IAEDANS–S1 with FHS increased
the Ca2+ ATPase activity to 119% and decreased the
K+/EDTA ATPase activity to 19% compared with that of
the unlabelled protein, respectively To characterize the
biological activity of the labelled S1 samples, the Mg2+
ATPase activities were also measured in the presence or
absence of actin (17 lM or 30 lM) by using the coupled
enzyme assay [34] The experiments were carried out in
20 mMMops, pH7.0, 100 mMKCl, 1 mMMgCl2, 0.5 mM
ATP, 1 mM PEP, 0.5 mM EGTA, 0.15 mM NADH,
200 UÆmL)1 pyruvate kinase and 400 UÆmL)1 lactate
dehydrogenase The conversion of NADHto NAD+
(molar equivalent to the hydrolysis of ATP) was monitored
by measuring the absorbance at 340 nm in a Shimadzu
UV-2100 spectrophotometer The S1 concentration was
0.5 lM in the assays The Mg2+ ATPase results are
presented in Table 1 and discussed below, in the Results
In order to test whether the dyes bound specifically to the
desired residues, limited tryptic cleavage of donor and
donor–acceptor labelled S1 was performed Labelled S1 in
20 mM Tris (pH8.0), 50 mM NaCl, was incubated with
0.02 mgÆmL)1trypsin for 10 min at 25C [22] The sample
was added to solubilizing solution and 20 mgÆmL)1
dithio-threitol in boiling water for 1 min to prepare for gel
electrophoresis The tryptic digested samples were analysed
by SDS/PAGE [35] using 12% acrylamide gels To detect
the fluorescent bands, gels were washed with methanol and
acetic acid and photographed After photographs had been
taken, the gels were stained with Coomassie Blue to allow
sizing of the digested fragments by comparison with the
molecular mass marker Analysis of SDS/PAGE gels for the
products of tryptic digestion of donor or donor–acceptor
labelled S1 samples showed that ANN fluorescence
appeared only in the 23 kDa peptide, IAEDANS and
IAF fluorescence appeared only in the 20 kDa peptide, and
FHS fluorescence only in the 50 kDa peptide of S1,
confirming that the labelling sites were, as designed, in
either the single- or double labelled S1 samples
Fluorescence measurements
Fluorescence was measured using a Perkin Elmer LS50B
luminescence spectrometer The measurements were carried
out in buffer comprising 25 mMTes, pH7.0, 80 mMKCl,
5 mMMgCl2, 2 mMEGTA and 4 mM2-mercaptoethanol,
and the protein concentration was 2 mgÆmL)1 To calculate the FRET efficiency, the fluorescence intensities of the donor (ANN or IAEDANS) were recorded in the presence and absence of acceptors (FHS or IAF) The excitation monochromator was set to 350 nm, and both the excitation and emission slits were set to 5 nm The corrected fluores-cence intensity of ANN and IAEDANS were monitored at 400–470 nm with the optical slits adjusted to 5 nm The contributions of fluorescence by either of the applied acceptor molecules to the measured fluorescence intensity can be excluded over this wavelength range The fluores-cence intensities were corrected for inner filter effect The FRET efficiency (Eobs) was calculated as:
where FDAand FDare the fluorescence integrated intensities (between 400 and 470 nm) of the donor molecule in the presence and in the absence of the acceptors, respectively
As the acceptor labelling ratio was less than 1, the calculated FRET efficiency (Eobs) was corrected as:
where E and Eobsare the corrected and observed FRET efficiencies, respectively, and b is the actual acceptor/protein molar ratio The distance between the donor and the acceptor (R) was calculated from:
E¼ R6
o=ðR6
where Rois Fo¨rster’s critical distance, defined as the donor– acceptor distance at which the FRET efficiency is 0.5 The value of Ro, and the overlap integral required to calculate the donor–acceptor distances, were determined as described previously [36] The normalized FRET efficiency, f¢, was defined as [18]:
f0¼ E=FDAffi hkti=kf 6j2i ð4Þ where ktand kfare the rate constants for the energy transfer and donor emission, j2 is the orientation factor, and Æ æ denotes the average of the given parameter This method [17,18], assumes that the equilibrium distance (ÆRæ) between the donor and the acceptor does not change with the temperature, while the R distribution becomes wider with the increase in temperature It comes from the nature of the method [18], that the term flexibility (owing to normaliza-tion of the f¢) is not directly related to the width of the donor–acceptor distance distribution Instead, this term
is related to how easily the donor–acceptor distance
Table 1 The Mg2+ATPase activity of unlabelled and labelled rabbit skeletal muscle myosin subfragment 1 (S1) in the presence and absence of actin filaments (as given in the left column) The activities were measured using the coupled enzyme assay [34] The labelling ratios of the fluorophores in these samples were as follows: ANN, 0.96; IAEDANS, 0.86; IAF, double labelled IAF–ANN–S1, 1.00; double labelled FHS–ANN–S1, 0.95; and double labelled FHS–IAEDANS–S1, 1.00 All the ATPase data are given in s)1.
Actin
Probe(s) and labelled residue(s)
Unlabelled ANN–Ser181
ANN–Ser181/
IAF–Cys707
FHS–Lys553/
ANN–Ser181 IAEDANS–Cys707
IAEDANS–Cys707/ FHS–Lys553
Trang 4distribution widens as a response to the additional energy
represented by the increase in temperature Therefore, the
temperature profile of f¢ is characteristic of the flexibility of
the protein matrix between the fluorophores, provided that
the average orientation of the fluorophores (j2) remains
unchanged with the variation of the temperature Note that
owing to the )6 power dependence of f¢ on R, the
temperature profile of f¢ is dominated by the change of
the R distribution, even in the case of a slight variation of
Æj2æ [18] Comparison of the temperature induced changes
in different forms of the protein therefore provides
infor-mation regarding the differences of protein flexibility
between the forms
Steady-state anisotropy measurements
Steady-state anisotropy measurements were carried out in a
Perkin Elmer LS50B spectrofluorimeter to characterize the
volume within which the fluorophores could wobble The
temperature dependence (6–26C) of the steady-state
anisotropy in the absence of nucleotides was measured
The results were analysed using the Perrin equation:
where r is the steady-state anisotropy, r0 is the limiting
anisotropy, k is the Boltzman constant, T is the absolute
temperature, V is the volume of the rotating unit, g is the
viscosity and s is the lifetime of the fluorophore The
apparent limiting anisotropy (r0app) was determined from
the y-intercept of linear fits to the 1/r vs T/g plots [36], while
the value of V was determined from the slopes
Fluorescence lifetime experiments
Fluorescence lifetime experiments were carried out using an
ISS K2 multifrequency phase fluorimeter, as described
previously [37] The excitation wavelength was 350 nm for
ANN and IAEDANS, and 495 nm for FHS and IAF The fluorescence emission was monitored through a WG335 (ANN and IAEDANS) or 550FL07-25 (FHS and IAF) optical filter The average fluorescence lifetime was calcu-lated as:
sav¼X
s2nan=X
where snis the nthcomponent of the lifetime and anis the amplitude of the nthlifetime
Results
The aim of this study was to characterize the change of protein flexibility during the nucleotide-induced reorgani-zation of the motor domain of rabbit skeletal S1 Three amino acids in the motor domain were labelled with fluorescent dyes (Fig 1), as follows (a) Ser181, a conserva-tive amino acid of the nucleotide-binding pocket [38,39], was labelled with ANN [22,40,41]; (b) Lys553, in the actin-binding region, was labelled with FHS [24]; and (c) Cys707 (SH1), the cysteine of S1 with the highest reactivity, was labelled with either IAEDANS or IAF [23] The labelled residues determined three FRET donor–acceptor pairs (ANN–FHS, ANN–IAF, and IAEDANS–FHS) along the sides of a triangle, which lay over the protein matrix
of the motor domain (Fig 1) By using temperature dependent FRET experiments, we investigated how the flexibility of the protein matrix between these labels depended on the binding of nucleotides and nucleotide analogues such as ADP, ADP.BeFx, ADP.AlF– and ADP.Vi
We attempted to test the biological activity of the labelled S1 samples by measuring the Mg2+ATPase activities in the absence of actin and in the presence of 17 lMor 30 lMactin filaments The results are summarized in Table 1 The
Mg2+ATPase activity of the unlabelled S1 was 0.05 s)1,
Fig 1 Schematic representation of the motor domain of Dictyostelium discoideum myosin in apo-form The 50 kDa upper domain is labelled in dark blue, the 50 kDa lower domain is labelled in green, and the 25 kDa domain and the truncated 20 kDa domain are labelled in grey The SWII element (residues 466–500) is labelled in red, and the converter domain (residues 693–759) is labelled in light blue In this work, the Ser181, Lys553 and Cys707 residues of rabbit skeletal myosin subfragment 1 (S1) were labelled with fluorophores The corresponding residues (Ser181, Lys546 and Thr688 [1]) are shown in the D discoideum motor domain with yellow surfaces The yellow dashed lines highlight the applied FRET pairs Atomic coordinates were obtained from the Protein Data Bank (accession number 1FMV).
Trang 5similar to that observed previously [42] For the labelled S1
samples, the basal Mg2+ATPase activities were similar to
or greater, and the actin activation lower, than for the
unlabelled S1 The results obtained after the binding of
IAEDANS to Cys707, or of FHS to Lys553, were in
agreement with previously published observations
[24,43,44] The data show that although the binding of
fluorescence labels modified the physiological Mg2+
ATPase activity of S1, the fundamental behavior of S1
was preserved The ATPase cycle was similar in the labelled
samples to that operating in the unlabelled S1 In view of the
fact that, in this study, we stabilized different states of the
ATPase cycle in the absence of nucleotides, or by adding
ADP or nucleotide analogues, we concluded that the
fluorescence experiments reported on the proper
character-istics of the individual ATPase cycle states
Fluorescence lifetime and anisotropy
The temperature dependence of the steady-state anisotropy
of the fluorophores in the absence of nucleotides was
measured between 6 and 26C, and analysed using the
Perrin equation (Eqn 5) For the analyses, the fluorescence
lifetimes were also measured The average fluorescence
lifetime (Eqn 6) of ANN (Ser181), FHS (Lys553),
IAE-DANS (Cys707) and IAF (Cys707) were 12.0 ns (varied
1.0 ns between 6C and 26 C), 3.9 ns (varied 0.1 ns
between 6C and 26 C), 17.8 ns (varied 0.3 ns between
6C and 26 C) and 3.6 ns (varied < 0.1 ns between 6 C
and 26C), respectively The temperature dependent
anisotropy data were fitted to Eqn (5) by using the above average lifetimes and r0¼ 0.4 (data not shown) to obtain estimates for the apparent limiting anisotropy r0app (the intercept of the straight line with the 1/r axis) and the volume of the rotating unit (V) The values obtained for rapp0 were 0.36, 0.37, 0.30 and 0.28 for ANN, FHS, IAEDANS and IAF, respectively The V-values were 2.9· 104A˚3, 1.08· 104A˚3, 5.8· 104A˚3 and 6.4· 104A˚3 for ANN, FHS, IAEDANS and IAF, respectively
The donor–acceptor distances The shape of the emission spectra of donors (IAEDANS and ANN) was nucleotide and temperature independent except in the case of the S1.ADP.Vi complex, where the ANN spectrum was blue shifted compared with those measured in other nucleotide states The transfer efficiency (E), the quantum yield of the donors, the overlap integrals for each fluorophore pairs and the Fo¨rster critical distances (R0) were determined from the experimental data in different nucleotide states at each temperature The calcu-lated R0values and the measured FRET efficiencies (E) are shown in Table 2 The donor–acceptor distances (R) were determined using Eqn (3), and the results obtained at 6C and 22C are shown in Table 3 The distances did not show sharp temperature induced changes, and the data obtained
at these two temperatures provided appropriate information regarding the overall effect of temperature The FRET distances were 32–36 A˚, 44–47 A˚ and 30–39 A˚ for the ANN–FHS, IAEDANS–FHS and ANN–IAF pairs,
Table 2 The nucleotide dependence of the Fo¨rster critical distance (R 0 ) and the measured FRET efficiencies (E) for the three fluorophore pairs used in this study The data presented here were measured at 22 C The standard deviations were 0.3–1.1 A˚ for the R 0 and 0.8–1.5% for the FRET efficiency data, as determined from the results of experiments on at least three independent preparations.
Nucleotide state
ANN–Ser181/
FHS–Lys553
IAEDANS–Cys707/
FHS–Lys553
ANN–Ser181/
IAF–Cys707
R 0 (A˚) E (%) R 0 (A˚) E (%) R 0 (A˚) E (%)
Table 3 The nucleotide dependence of the apparent donor–acceptor distances measured at 6 °C and 22 °C in rabbit skeletal myosin subfragment 1 (S1) The standard errors calculated from at least three independent experiments were smaller than 1 A˚, in all cases Note that these errors provided the lower limit for the physically veritable errors For comparison, the distances from the chicken S1 structure [39], corresponding to the apo state, were determined: Ser181–Lys553, 33.8 A˚; Cys707–Lys553, 40.5 A˚; and Ser181–Cys707, 28.3 A˚ The distances calculated from the Dictyoste-lium discoideum atomic models [4–6], between the corresponding residues (Ser181, Lys546 and Thr688) [8], are presented in columns labelled D.d All distances are given in A˚.
Nucleotide state
Ser181–Lys553
D.d.
Cys707–Lys553
D.d.
Ser181–Cys707
D.d.
6 C 22 C 6 C 22 C 6 C 22 C Apo 35.9 34.2 36.5 44.9 44.6 44.6 38.9 36.3 29.8 ADP.BeF x 33.9 31.8 36.1 45.2 44.5 43.4 33.1 31.1 29.7 ADP.AlF – 37.2 35.7 32.6 46.5 45.3 46.3 37.0 35.3 28.3 ADP.V i 34.2 33.7 33.9 46.6 47.1 45.8 31.7 28.8 28.7 ADP 33.9 32.3 36.2 45.2 44.8 43.2 32.9 30.5 29.4
Trang 6respectively The data indicated that the effect of nucleotides
on these distances was small, with the greatest variation
being 3–4 A˚ (Table 3), in agreement with the observation
that the position of the lever arm can be modulated with
only minor changes in the motor domain conformation [45]
The FRET distances were close to the distances obtained
from the atomic model of chicken S1 [39] or the
D discoideum myosin II motor domain [4–6] (Table 3),
which will be discussed further below, in the Discussion One
possible way to improve the reliability of FRET distances is
to perform the experiments with different fluorophores In
our experiments, the labelling of Ser181 and Lys553 has only
been shown for the fluorophores used here and therefore
these control experiments were not feasible
Protein flexibility
The temperature dependence of the f¢ (Figs 2 and 3) was
smooth and showed a monotonic increase with increasing
temperature Major temperature induced conformational
changes were not detected, except in the case of the ANN–
IAF pair in the ADP.AlF–state This exceptional case will
be discussed in more detail below, in the Discussion The
absence of any major change in donor–acceptor distances
(Table 3) indicates that there is no major conformational
change over the temperature range studied Accordingly,
the temperature dependence of the normalized transfer
efficiency (f¢; Eqn 4) could be attributed solely to the
flexibility of the protein matrix In general, the larger change
of the f¢ results from greater flexibility of the protein matrix
[17,18]
Figure 2 shows the results obtained in the absence of nucleotides or in the presence of ADP In the nucleotide-free S1, the temperature induced change in f¢ was substantially smaller for IAEDANS–FHS–S1 than for either the ANN– IAF–S1 or the ANN–FHS–S1 ADP binding had only minor effects on the temperature dependence of f¢ in the case
of ANN–IAF or ANN–FHS pairs In the case of the IAEDANS–FHS pair, ADP increased the change of f¢ from less than 5%, measured in the apo-form, to 15%
The f¢ data measured in ADP.BeFx, ADP.Vi and ADP.AlF– states are presented, for the individual donor– acceptor pairs, in Fig 3A (ANN–FHS), Fig 3B (IAE-DANS–FHS) and Fig 3C (ANN–IAF) For comparison, the results obtained from ADP experiments (Fig 2) are shown in the figures as dotted lines In the ADP.BeFxstate, the change of f¢ was only slightly smaller than that of the ADP states for all three fluorophore pairs Formation of the ADP.AlF––S1 complex did not change the temperature dependence of f¢ between ANN and FHS (Fig 3A) For the other two fluorophore pairs (ANN–IAF and IAEDANS– FHS), the change in f¢ was smaller in ADP.AlF–than in ADP (Fig 3B,C) The largest effect of ADP.AlF– was observed between the residues labelled with ANN and IAF (Fig 3C) In this case, the overall change of f¢ was only
The temperature profile of f¢ showed a saturation tendency, reaching a maximum value between 14 and 18C The binding of ADP.Vito the S1 provided the greatest effects amongst the nucleotide analogues on the protein flexibility of the motor domain The temperature induced change of f¢ was less than in any other nucleotide states (Fig 3), for either the IAEDANS–FHS (< 5%) or the ANN–FHS (
dues labelled by ANN and IAF in ADP.Vi, the overall change of f
(Fig 3C)
Discussion
In this study, the distances determined by the three donor– acceptor pairs highlighted three structural aspects of the motor domain of skeletal muscle myosin (Fig 1) The protein matrix between Cys707 (IAEDANS) and Lys553 (FHS) is located in the 50 kDa lower domain and is built up
of a-helixes, which are quasi parallel to the direction of this side of the imaginary triangle (Fig 1) The data obtained by measuring the energy transfer between Ser181 (ANN) and Cys707 (IAF) characterize the part of the 50 kDa upper domain that is located more closely to the light-chain binding domain The third side of the triangle, Ser181 (ANN) and Lys553 (FHS), cross over the nucleotide-binding pocket The FRET experiments between ANN and FHS reported on the relative motion of the 50 kDa upper and 50 kDa lower domains Based upon the FRET results, the effects of nucleotides and nucleotide analogues follow each other in the order of apo-, ADP, ADP.BeFx, ADP.AlF– and ADP.Vi, in agreement with previous observations [46]
Although the FRET distances were in good agreement with those obtained from either chicken or D discoideum atomic coordinates (Table 3), the results of analysis of the temperature dependence of steady-state anisotropy data
Fig 2 Temperature dependence of the normalized FRET efficiency in
the absence of nucleotides (black symbols) and in the presence of ADP
(white symbols) Data are presented for ANN–Ser181 and FHS–
Lys553 (circles), ANN–Ser181 and IAF–Cys707 (triangles), and
IAEDANS–Cys707 and FHS–Lys553 (squares) fluorophore pairs.
The donors ANN or IAEDANS were excited at 350 nm and the
emission was monitored between 400 and 470 nm in buffer comprising
25 m M Tes (pH7.0), 80 m M KCl, 5 m M MgCl 2 , 2 m M EGTA and
4 m 2-mercaptoethanol.
Trang 7suggested that the agreement was coincidental The distan-ces from FRET experiments were calculated using j2¼ 2/3, which assumes free rapid probe motion on a nanosecond timescale The high values (‡ 0.28) obtained for the r0app indicated that the dyes were rigidly attached to the protein segments, thus preventing the free rotation of the probes Therefore, the j2¼ 2/3 assumption is probably not valid and the calculated donor–acceptor distances can be taken as apparent distances The calculated values for the rotating volumes are approximately two orders of magnitude greater than the volumes of the spheres with a radius of the length
of the fluorophores (< 103A˚3), indicating that the motion
of the labels reflects the motion of the protein segment to which they are attached The results suggested that the temperature profile of the f¢ is not sensitive to local probe motions, similarly to the case of actin monomers, where the IAEDANS on the Cys374 was sensitive to the cation exchange [37], but the temperature dependent FRET experiments between IAEDANS and FITC on Lys61 showed no changes in the dynamics of the smaller domain
of actin [47] The apparent donor–acceptor distances showed no major change with the temperature (Table 3), i.e the equilibrium distances between the donor–acceptor pairs do not change with the variation of the temperature in this range, in accordance with the basic assumption of the method [18] [The fact that the apparent donor–acceptor distances do not change with the temperature let us conclude that the actual distances also remain unchanged Otherwise, one would have to use the very unlikely assumption that any change in the equilibrium donor– acceptor distance is compensated for by the appropriate change of j2to leave the apparent distance unchanged.] We concluded that the changes in the f¢ were related to the increased width of donor–acceptor distance distribution, and the greater slope of the temperature dependence of f¢ indicated the more flexible protein matrix between the labels
The FRET data will be interpreted based upon the structural model, which assumes that the motor domain can exist in two conformations – open and closed – defined by the conformation of the SWII element [8] The equilibrium between these conformations is controlled by the bound nucleotide and was characterized previously for unlabelled myosins by using temperature and pressure jump experi-ments [15,16] In the present study we applied external labels, which probably modified the open–closed equilib-rium The tryptophan fluorescence measured for these labelled S1 samples would be informative regarding these undesired effects [15,16] However, the absorption and emission spectra of tryptophan overlap with those of the fluorophores used, which did not allow us to carry out these control experiments The results will be discussed therefore using the equilibrium constants determined previously for unlabelled myosins
Comparison of the 50 kDa upper domain with the 50 kDa lower domain
The temperature induced increase of f¢, along the Cys707– Lys553 direction, was much smaller than along the other two sides (Ser181–Lys553 and Ser181–Cys707) (Figs 2 and 3), which raises the possibility that the motor domain
Fig 3 The temperature dependence of the normalized FRET efficiency
in S1.ADP.BeF x (h), S1.ADP.AlF–(d) and S1.ADP.V i (m) Data are
presented for the ANN–Ser181 and FHS–Lys553 pair (A), the
IAE-DANS–Cys707 and FHS–Lys553 pair (B), and the ANN–Ser181 and
IAF–Cys707 pair (C) For comparison, the data obtained in the
presence of ADP (Fig 2) are also presented in the figures as dotted
lines The experimental conditions were as described for Fig 2.
Trang 8is heterogeneous from the dynamic point of view The
sensitivity of the normalized energy transfer (f¢) depends on
the r/R ratio (where r is the amplitude of the donor–
acceptor fluctuation and R is the equilibrium distance),
which is characteristic for the studied protein The
tem-perature dependence of f¢ can also depend on the value of
the Fo¨rster critical distance, which describes the sensitivity
of the fluorophore system applied In our study, the spectral
properties of the individual donor–acceptor pairs were
similar, giving R0data in a relatively narrow range between
36 A˚ and 48 A˚ (Table 2) The measured distances were
between
geometric parameters cannot account for the large
devia-tions of f¢ found between the three sides of the triangle
Accordingly, the direct juxtaposition of the flexibility data
obtained along the three directions within the motor
domain is reliable
The smaller temperature induced change of f¢ along the
Cys707–Lys553 direction (as compared to the other two
directions) can only be attributed to the smaller relative
amplitude of the donor–acceptor fluctuations The structure
of the 50 kDa lower domain in the apo-enzyme is more rigid
than that of the 50 kDa upper domain The rigidity of the
50 kDa lower domain could be provided by the set of
a-helixes that run quasi parallel to the Cys707–Lys553
direction The binding of either ADP or ADP.Pior ATP
analogues had little effect on the flexibility of the protein
matrix between Cys707 and Lys553, which implies that the
50 kDa lower domain behaves as a rigid body during the
nucleotide induced reorganizations of the S1 The rigidity of
this protein region can provide the structural stability for the
proper interactions with actin This conclusion agrees with
the observation that the protein matrix between Cys707 in
S1 and the actin (labelled on Cys374) is rigid [48], and the
width of the positional distribution of Cys707 is narrow in
the absence of nucleotides [49], which suggests that the
rigidity of the actin binding region is maintained during the
interaction of S1 with actin
In the apo-enzyme, the flexibility of the protein matrix
along the Ser181–Cys707 direction was the greatest of the
three directions This large flexibility was maintained in the
ADP and ADP.BeFxstates, although to differing extents,
and further increased in ADP.Vi In ADP.AlF–, the
temperature dependence of the f¢ is more complex and will
be discussed below The large flexibility along Ser181–
Cys707, i.e in the 50 kDa upper domain, may be important
in providing the structural frame for the motion and
reorientation of the phosphate group and for its interaction
with surrounding water molecules Oxygen exchange studies
have shown that the cleavage of the myosin bound ATP is
reversible, the equilibrium between myosin bound ATP and
myosin-products complexes is rapid and the bound
nucleo-tide is able to undergo a fast and reversible reaction with
water to exchange all three oxygens [50,51] Such
inter-actions require the rapid rotation and reorientation of the
phosphate group Based on crystal structures it is assumed
that the phosphate is coordinated by three strong bonds, in
addition to the covalent bond in the strong conformation,
with no indication of how would it rotate rapidly after
hydrolysis [8] We assume that the amplitude and frequency
of local protein fluctuations in this region should be
sufficiently large to provide the motional freedom for the
phosphate The flexibility of the 50 kDa upper domain is important in permitting such large-scale fluctuations In the back door enzyme model [52], it is believed that the dissociation of the phosphate product occurs through the back door of the motor domain on the opposite side
of the head to the one where the ATP enters The atomic structures suggest that access to the back door, however, is partially blocked in either the open or closed conformations [4–6] In the absence of actin, the phosphate product is trapped in the nucleotide binding pocket and its dissociation from the motor domain is slow ( )1) The binding of actin to myosin can accelerate the phosphate release With the lack of data in the presence of actin we can only speculate that the large-scale breathing motion of the flexible upper 50 kDa domain may become important in the actin–myosin complex for the dissociation of the phosphate product
The effect of nucleotides on the flexibility
of the motor domain The binding of ADP to the apo-S1 influenced the protein dynamics only marginally The flexibility slightly increased between the Cys707 and Lys553 The atomic structures [4,5], and the results of rapid kinetic experiments [15,16], indicated that the motor domain is predominantly in the open conformation in either the apo-S1 or when ADP is bound, which suggests that the small ADP-induced change
in the flexibility between Cys707 and Lys553 may not be directly related to the open-to-close transition It has been shown previously, by EPR [53,54], FRET [23,55,56] and covalent cross-linking [57] assays, that the binding of nucleotides loosens the structure of the essential SH/hinge region (involving Cys707) where the donor IAEDANS was located It is probable that melting of the SHhelix was reflected by the slightly more flexible structure detected in our FRET experiments along the Cys707–Lys553 direction Accordingly, the small effect of ADP on the flexibility of the motor domain is attributed to local conformational changes around the Cys707 residue, and the binding of ADP did not change the overall structure and dynamics of the motor domain Recent results from electron microscopy experi-ments showed that the release of ADP from the acto–S1 complex is accompanied with a 35 A˚ swing of the lever arm
in the case of smooth muscle myosin [58] In accordance with these results, it was shown recently, by pressure-jump experiments, that the increase in molar volume for skeletal muscle S1 binding to ADP was half of that observed for smooth muscle S1 [59] ADP-induced movement of the light-chain binding domain was also found in brush border myosin-I [60], but was not detected in myosins from skeletal muscle The lack of ADP-induced swinging of the lever arm
in skeletal muscle S1 agrees with our observation that the binding of ADP did not alter the dynamic properties of the motor domain
The binding of BeFxto ADP–S1 slightly decreased the change in the normalized transfer efficiency measured for the three the donor–acceptor pairs between 6C and 26 C The interpretation of the temperature dependent FRET data, however, is complex in the case of ADP.BeFx The small decrease of the change in the normalized energy transfer efficiency could be a local conformational effect
Trang 9induced by the binding of BeFx, or could reflect the
temperature-induced shift of the open/closed equilibrium
In skeletal S1 [16], or in the D discoideum myosin II motor
domain [15], an increase in temperature shifted the
equilib-rium towards the closed conformation in the ADP.BeFx
state The FRET data indicate that the motor domain
adapts a more rigid conformation in the closed
conforma-tion than in the open state However, the observed changes
of the FRET parameters were small and the overall
structure of the motor domain was similar in the
S1.ADP.BeFxto that observed in apo-S1 or S1.ADP As,
in these latter two states, the open conformation is
dominant, the FRET results suggest that the open–closed
equilibrium was shifted towards the open conformation in
S1.ADP.BeFx
ADP.AlF–is thought to mimic the ADP.Pistate of S1 In
S1.ADP.AlF–, the temperature profile of f¢ showed a
saturation curve between Ser181 and Cys707 (Fig 3C)
The intramolecular events behind this observation can
involve either temperature-induced changes in the protein
structure, which alters the distance or average orientation
between the donor and the acceptor, or steric constraints
which limit the fluctuations of the protein segments where
the donor or acceptor is located The presence of such an
effect in S1.ADP.AlF–, and the lack of it in the other
nucleotide states (Fig 3), implies that the conformation of
the motor domain is different in ADP.AlF–than in the apo-,
ADP or ADP.BeFxconformations Accordingly, after the
binding of AlF–, the open conformation of S1 no longer
dominated On the other hand, the binding of AlF4could
only partially reproduce the Vieffects (Fig 3)
In the atomic models, the SWII element was in the closed
conformation in both S1.ADP.Viand S1.ADP.AlF– [5,6]
However, according to the FRET results, the
conforma-tions observed for S1 with bound ADP.Viand ADP.AlF–
were different The interpretation of the FRET data,
measured between Ser181 and Cys707 in S1.ADP.AlF–, is
not clear In the other two directions (Ser181–Lys553 and
Cys707–Lys553), the results for the ADP.AlF–state were
intermediate between the ADP.Vi and apo states, which
suggests that in S1.ADP.AlF–, the contribution of the open
conformation of the motor domain was substantial This
conclusion is in conflict with the temperature and pressure
jump results showing that in S1.ADP.AlF–, the closed
conformation dominated between 4 and 30C [15,16] It is
possible that the tryptophan fluorescence, which was
monitored in the cited studies and the FRET pairs, applied
here, reported on different structural aspects of the S1
motor domain, which could account for the different
conclusions reached regarding the ADP.AlF–state
Alter-natively, the shift towards the open conformation may have
appeared in the present work owing to the application of
external labels Our conclusion, that the S1 population
is different with bound ADP.Vi from that with
bound ADP.AlF–, agrees with the observation that the
nucleotide-binding cleft is only half closed in the ADP.AlF–
X-ray structure [5,9] as compared to the ADP.Vistructure
In this work, ADP.Viwas used to mimic the transition
state as an alternative ADP.Pi analogue The atomic
models suggested that S1 was predominantly in the closed
conformation when ADP.Vi-bound [6] The effect of
binding of ADP.V on the dynamic properties of S1 was
the largest amongst the nucleotides investigated, and we interpret these observations as characteristic for the closed conformation The steady-state fluorescence experiments showed that the binding of Vishifted the emission spectra
of ANN to the blue by 5 nm, indicating that the solvent accessibility of the ANN on Ser181 was reduced These observations suggest that the 50 kDa domain became more compact in the closed conformation of the motor domain The FRET results suggest that in the closed conformation the protein matrix between Ser181 and Cys707 became more flexible than in the open conformation, which could further accommodate the breathing motion of the 50 kDa upper domain In contrast, in the Ser181–Lys553 direction, the temperature induced increase of f¢ was substantially smaller in the closed conformation than in the open one, which suggests that the amplitude of the relative fluctu-ation of the 50 kDa upper and 50 kDa lower domains was suppressed The 50 kDa upper and 50 kDa lower domains are connected by the end of the nucleotide-binding cleft through the protein matrix that links the 50 kDa fragment
to the light-chain binding domain Our results suggest that this protein region becomes more rigid in the closed conformation The conformational transition underlying the change in the dynamic properties could reflect the relocation of the converter domain and probably plays a role in transferring the energy from the catalytic site to the lever arm
Conclusions
The structural basis for the interaction of skeletal S1 with actin is provided, at least partly, by the 50 kDa lower domain, which was found to maintain substantial rigidity in the different nucleotide states (Figs 2 and 3) The confor-mation of the S1 in the apo-enzyme and in S1.ADP.Viset the two extremes amongst the nucleotide states studied here Considering the atomic structures and the results of rapid kinetic experiments, we assume that S1 was predominantly
in the open conformation in the apo-form and in the closed conformation in S1.ADP.Vi The changes in the flexibility
of the S1 during the open-to-closed transition are complex;
we observed contrasting tendencies on comparison of different protein regions This complexity is probably attributed to the different roles played by the protein regions in the function of S1 In the open conformation, the flexibility of the 50 kDa upper domain was the greatest of the three directions studied here and this large flexibility further increased during the open-to-closed transition The flexible nature of this protein region can be essential in providing the structural conditions for the rapid motion and reorientation of the phosphate group and for its interaction with surrounding water molecules, and may become important in the actin–myosin complex for the dissociation
of the phosphate product The solvent accessibility of the Ser181 was reduced, and the amplitude of the relative fluctuations of the upper 50 kDa and lower 50 kDa domains was suppressed in the closed conformation as compared to that of the open one The suppressed amplitude suggests that the protein region near the bottom
of the nucleotide-binding cleft, which links the two domains together, becomes more rigid The more rigid conformation adapted in the closed conformation can provide the
Trang 10mechanical basis of the transfer of the information or energy
from the catalytic site to the light-chain binding domain
Acknowledgements
The authors gratefully acknowledge Dr Michael A Geeves’s
continu-ous support and suggestions during the preparation of the manuscript,
and the insightful comments from Andra´s Luka´cs and from Dr Jo´zsef
Bela´gyi during the course of this work This work was supported by
grants from the National Research Foundation (OTKA grants:
T32700, T34442, T43103), from the Ministry of Education (0252/
2000), and from the Hungarian Academy of Sciences NKFP 1/026/
2001 M Nyitrai is an EMBO/HHMI Scientist.
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