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Originally published In Press as doi:10.1074/jbc.R100008200 on June 29, 2001
J. Biol. Chem., Vol. 276, Issue 35, 32395-32398, August 31, 2001
MINIREVIEW
How Membranes Shape Protein Structure*
Stephen H.
White ,
Alexey S.
Ladokhin§,
Sajith
Jayasinghe, and
Kalina
Hristova
From the Department of Physiology and Biophysics and the Program in
Macromolecular Structure, University of California,
Irvine, California 92697-4560
 |
INTRODUCTION |
Constitutive -helical membrane proteins
(MPs)1 are assembled in
membranes by means of a translocation/insertion process that involves
the translocon complex (1). After release into the membrane's bilayer
fabric, a MP resides stably in a thermodynamic free energy minimum
(evidence reviewed in Refs. 2 and 3). This means that the prediction of
MP structure from the amino acid sequence is fundamentally a
problem of physical chemistry, albeit a complex one. Physical
influences that shape MP structure include interactions of the
polypeptide chains with water, each other, the bilayer hydrocarbon
core, the bilayer interfaces, and cofactors (Fig.
1). Two recent reviews (3, 4) provide
extensive discussions of the evolution, structure, and thermodynamic
stability of MPs. Here we provide a distilled (and updated) overview
that addresses four broad questions. What is the nature of the bilayer matrix that encloses MPs? How can the thermodynamic principles of MP
stability be discovered? How does the bilayer matrix induce structure?
How can the structure of MPs be predicted? We focus primarily on
-helical proteins, but the thermodynamic principles we present also
apply to -barrel MPs, which Lukas Tamm discusses elsewhere in this
series.

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Fig. 1.
Polypeptide interactions that determine the
structure and stability of MPs. The blue
lines represent schematically the total thickness of the
lipid bilayer, and the red lines the central
hydrocarbon core bounded by the interfacial regions (see Fig. 2). The
protein and lipids shown are from the 1.55-Å crystallographic
structure of bacteriorhodopsin obtained by Leucke et al.
(68) (PDB code 1C3W). Besides interactions of the polypeptide chain
with itself, water, neighboring lipids, and the membrane interface, the
thermodynamic and electrostatic properties of the lipid bilayer itself
are important (3). Interactions with cofactors, such as retinal in the
case of bacteriorhodopsin (purple atoms in the figure), are
also important. The lipid bilayer, like proteins, resides in a free
energy minimum resulting from numerous interactions. This equilibrium
can be disturbed by the introduction of proteins or other solutes,
resulting in so-called bilayer effects (69), which also include solvent
properties peculiar to bilayers that arise from motional anisotropy and
chemical heterogeneity.
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Two influences will emerge as paramount in shaping MP structure. First,
as implied in Fig. 1, the bilayer fabric of the membrane has two
chemically distinct regions: hydrocarbon core (HC) and interfaces
(IFs). Interfacial structure and chemistry must be important, because
the specificity of protein signaling and targeting by membrane-binding
domains could not otherwise exist (5). Second, the high energetic cost
of dehydrating the peptide bond, as when transferring it to a non-polar
phase, causes it to dominate in the formation of structure (6). The
only permissible transmembrane structural motifs of MPs are -helices
and -barrels, because internal H-bonding ameliorates this cost.
 |
The Shaping Bilayer Milieu |
Because membranes must be in a fluid state for normal cell
function, only the structure of fluid (L -phase) bilayers
is relevant to understanding how membranes mold proteins. However, atomic resolution images of fluid membranes are precluded because of
their high thermal disorder. Nevertheless, useful structural information can be obtained from multilamellar bilayers (liquid crystals) dispersed in water or deposited on surfaces. Their
one-dimensional crystallinity allows the distribution of matter along
the bilayer normal to be determined by combined x-ray and
neutron diffraction measurements (liquid crystallography; reviewed in
Refs. 7 and 8)). The resulting "structure" consists of a collection
of time-averaged probability distribution functions of water and lipid
component groups (carbonyls, phosphates, etc.), representing projections of three-dimensional motions onto the bilayer normal (9, 10). The liquid crystallographic structure of an
L -phase dioleoylphosphatidylcholine (DOPC) bilayer
is shown in Fig. 2A (11).

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Fig. 2.
Liquid crystallographic structure of a fluid
lipid bilayer and its computed polarity profile. The figure is
adapted from White and Wimley (3, 14, 70). A, structure of a
DOPC bilayer (5.4 waters/lipid) determined by joint refinement of x-ray
and neutron diffraction data (11); B, polarity profile
(yellow curve) of the DOPC bilayer computed from
the absolute values of atomic partial charges (14). The end-on view in
panel B of an -helix with a diameter of ~10 Å (typical
for MP helices (46)) shows the approximate location of the helical axes
of the amphipathic helix peptides Ac-18A-NH2 (71) and
melittin (16), as determined by a novel, absolute scale x-ray
diffraction method (reviewed in Ref. 72). The "structure" of the
bilayer shown in panel A is comprised of a collection of
transbilayer Gaussian probability distribution functions representing
the lipid components that account for the entire contents of the
bilayer unit cell. The areas under the curves
correspond to the number of constituent groups per lipid represented by
the distributions (1 phosphate, 2 carbonyls, 2 methyls, etc.). The
widths of the Gaussians measure the thermal motions of the lipid
components and are simply related to crystallographic
B-factors (9, 16, 71). The thermal motion of the bilayer is
extreme: lipid component B-factors are typically ~150
Å2, compared with ~30 Å2 for atoms in
protein crystals. In addition to this thermal motion, two other
features of the bilayer are important for shaping membrane protein
structure. First, the IFs have a combined thickness equal to that of
the hydrocarbon core (~30 Å). A 15-Å-thick IF can comfortably
accommodate an MP helix lying parallel to the membrane plane. Second,
the IFs are chemically heterogeneous. Panel A shows that
they are composed of water, choline, phosphate, glycerol, carbonyls,
and even some methylenes that spill into the IFs because of thermal
motion. Panel B reveals steep gradients of polarity in the
IFs that change over a distance approximately equal to the diameter of
an -helix.
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Three features of this structure are important. First, the widths of
the probability densities reveal the great thermal disorder of fluid
membranes. Second, the combined thermal thicknesses of the IFs (defined
by the distribution of the waters of hydration) is about equal to the
30-Å thickness of the HC. The thermal thickness of a single IF (~15
Å) can easily accommodate an -helix parallel to the membrane plane
(Fig. 2B). The common cartoons of bilayers that assign a
diminutive thickness to the bilayer IFs are thus misleading. Third, the
thermally disordered IFs are highly heterogeneous chemically. As the
regions of first contact, the IFs are especially important in the
folding and insertion of non-constitutive MPs, such as toxins (12), and
to the activity of surface-binding enzymes, such as phospholipase
A2 (13). But they are also important in shaping MP
structure (Fig. 1).
A molecule moving from water to the bilayer HC must experience a
dramatic variation in environmental polarity over a short distance
because of interfacial chemical heterogeneity, as illustrated by the
yellow curve of Fig. 2B (14). An
amphipathic helix such as melittin (15), represented schematically in
Fig. 2B, locates (16) at the midpoint of the steep descent
of the polarity gradient. Because the polarity changes over a
distance corresponding roughly to helix diameter, peptide-bilayer
interaction energies must be very sensitive to polarized helices, such
as amphipathic ones.
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Coming to Thermodynamic Terms with Insoluble Membrane Proteins |
Experimental exploration of the stability of intact MPs is
problematic because of their general insolubility. One approach to
stability is to "divide and conquer" by studying the membrane interactions of fragments of MPs, i.e. peptides. Because MPs
are equilibrium structures, folding and stability can be examined by
constructing thermodynamic pathways (3) such as those shown in Fig.
3. Although these pathways do not mirror
the actual biological assembly process of MPs, they are nevertheless
useful for guiding biological experiments, because they provide a
thermodynamic context within which biological processes must
proceed.

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Fig. 3.
Schematic representation of the shaping of
protein structure through polypeptide-bilayer interactions. The
figure is based upon the four-step thermodynamic cycle of White and
Wimley (3) for describing the partitioning, folding, insertion, and
association of -helical polypeptides. The aqueous insolubility of
membrane proteins, folded or unfolded, precludes direct determinations
of interaction free energies. The only possibility for understanding
the energetics of MP stability is through studies of small,
water-soluble peptides (20, 23, 24, 27). This approach, summarized in
the figure, uses the unfolded peptide in the IF as the thermodynamic
reference state. The free energy of unfolded partitioning in
phosphocholine IFs can now be estimated using the whole-residue
interfacial hydrophobicity scale of Wimley and White (20). Unfolded
peptides are driven toward the folded state in the IF because hydrogen
bond formation dramatically lowers the cost of peptide bond
partitioning, which is the dominant determinant of whole-residue
partitioning. The free energy reduction accompanying secondary
structure formation is typically ~0.4 kcal mol 1 per
residue (23, 24) but may be as low as 0.1 kcal mol 1 (74).
Although small, such changes in aggregate can be large. For example,
the folding of 12 residues of 26-residue melittin into an -helical
conformation causes the folded state to be favored over the unfolded
state by ~5 kcal mol 1. To put this number in
perspective, the ratio of folded to unfolded peptide is ~4700. The
cost of partitioning the peptide bond also dominates transmembrane
helix insertion (Fig. 4). The association of TM helices is probably
driven by van der Waals interactions, giving rise to knob-into-hole
packing (43-45, 75). The GXXXG motif is especially
important in helix-helix interactions in membranes (49, 50).
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The four-step model (3) of Fig. 3 is a logical combination of an early
three-step model of Jacobs and White (17) and the two-stage model of
Popot and Engelman (18, 19) in which TM helices are first
"established" across the membrane and then assemble into functional
structures (helix association). The model summarizes the types of
experiments on MP folding now being pursued in several laboratories.
In Fig. 3, the free energy reference state is taken as the unfolded
protein in an IF. However, this state cannot actually be achieved with
MPs because of the solubility problems, nor can it be achieved with
small non-constitutive membrane-active peptides, such as melittin,
because binding usually induces secondary structure (partitioning-folding coupling). Thus, as is often the case in solution
thermodynamics, the reference state must be a virtual one. It can be
defined for phosphocholine IFs by means of an experimental interfacial
free energy (hydrophobicity) scale (20) derived from the partitioning
into POPC bilayers of tri- and pentapeptides (17, 20) that have no
secondary structure in the aqueous or interfacial phases. This scale,
which includes the peptide bonds as well as the side chains, allows
calculation of the virtual free energy of transfer of an unfolded chain
into an IF. For peptides that cannot form regular secondary structure,
such as the antimicrobial peptide indolicidin (21), the scale predicts
observed free energies of transfer with remarkable accuracy (22). This
validates it for the computation of virtual free energies for
partitioning into phosphocholine IFs. Similar scales are needed
for other lipids and lipid mixtures.
 |
How Membranes Induce Structure: The Importance of the Peptide
Bond |
The high cost of interfacial partitioning of the peptide bond
(20), 1.2 kcal mol 1, explains the origin of
partitioning-folding coupling and also why the interface is a potent
catalysis of secondary structure formation. Wimley et al.
(23) showed for interfacial -sheet formation that H-bond formation
reduces the cost of peptide partitioning by about 0.5 kcal
mol 1 per peptide bond. The folding of melittin into an
amphipathic -helix on POPC membranes involves a per residue
reduction of about 0.4 kcal mol 1 (24). The folding of the
antimicrobial peptide magainin on charged bilayers seems to
entail a smaller per residue value, about 0.1 kcal
mol 1 (25). The cumulative effect of these relatively
small per residue free energy reductions can be very large when tens or
hundreds of residues are involved, as in the assembly of the -barrel
transmembrane domain (26) of -hemolysin that buries ~100 residues
in the membrane.
Determination of the energetics of TM -helix insertion, which is
critically important for predicting structure, is difficult because
non-polar helices tend to aggregate in both the aqueous and interfacial
phases (27). Several efforts have been made, with mixed success
(27-31). Although precise values for the free energy of helix
insertion remain to be established, the broad energetic issues are
clear (32). Computational studies (33, 34) suggest that the transfer
free energy GCONH of a non-H-bonded peptide
bond from water to alkane is +6.4 kcal mol 1, compared
with only +2.1 kcal mol 1 for the transfer free energy
GHbond of an H-bonded peptide bond. The per
residue free energy cost of disrupting H-bonds in a membrane is
therefore about 4 kcal mol 1. A 20-amino acid TM helix
would cost 80 kcal mol 1 to unfold within a membrane,
which explains why unfolded polypeptide chains cannot exist in a
transmembrane configuration.
Fig. 4 illustrates the importance of
GHbond in setting the threshold for
transmembrane stability as well as the so-called decision level in
hydropathy plots (35). Using the single membrane-spanning helix of
glycophorin A (36) as an example, panel A shows that the
free energy of transfer of the side chains dramatically favors helix
insertion, whereas the transfer cost of the helical backbone dramatically disfavors insertion. Panel B shows that an
uncertainty of 0.5 kcal mol 1 in the per residue cost of
backbone insertion has a major effect on the interpretation of
hydropathy plots and on the establishment of the minimum value of side
chain hydrophobicity required for transmembrane helix stability. What
is the most likely estimate of GHbond? The
practical number, in the context of Fig. 4A, is the cost of
G
transferring a single glycyl unit of a polyglycine -helix into the
bilayer HC. Electrostatic calculations (34) and the octanol
partitioning study of Wimley et al. (37) suggest that
G = +1.25
kcal mol 1, which is the basis for
Gbb in Fig. 4A. Interestingly, the
cost of transferring a random-coil glycyl unit into
n-octanol (37) is +1.15 kcal mol 1. This
suggests that the n-octanol whole-residue hydrophobicity scale (3) derived from the partitioning data of Wimley et
al. (37) may be a good measure of
G and
therefore useful for identifying -helical TM segments in hydropathy
plots of MPs (3). This is borne out by work in progress2
using the recently developed MPtopo data
base of MPs of known topology (38), accessible via the World Wide Web
(blanco.biomol.uci.edu/mptopo).

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Fig. 4.
The energetics of transmembrane helix
insertion and the consequences for hydropathy plot analysis.
Panel A is based upon Wimley and White (27). A,
estimated relative free energy contributions of the side chains
( Gsc) and backbone
( Gbb) to the helix insertion energetics of
glycophorin A (36); B, hydropathy plots of the L subunit of
the photosynthetic reaction center of Rhodobacter
sphaeroides showing the importance of knowing the correct value of
Gbb (the green
horizontal lines identify the known transmembrane
helices (76)). In panel A, the net side chain contribution
(relative to glycine) was computed using the n-octanol
hydrophobicity scale of Wimley et al. (37). The per residue
cost ( Gbb) of partitioning a polyglycine
-helix can be estimated from the theoretical work of Honig and
colleagues (34, 77) to be +1.25 kcal mol 1. The cost of
partitioning an unfolded glycyl unit into n-octanol is +1.15
kcal mol 1, suggesting that the whole-residue
n-octanol scale (37) provides a reasonable estimate of the
free energy of inserting -helical amino acid residues into bilayers.
An exact value of  Gbb is essential for
placing hydropathy plots on an absolute thermodynamic scale, which is
necessary for distinguishing TM from non-TM peaks in hydropathy plots.
This is shown in panel B. The blue,
black, and red curves are plots made
using  Gbb = 0.75, 1.25, and 1.75 kcal
mol 1 per residue, respectively. If
 Gbb is too small, TM helices will be
overpredicted; if too large, they will be underpredicted.
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The hydrophobic effect is generally considered to be the major driving
force for compacting soluble proteins (39). However, it cannot be the
force driving compaction (association) of TM -helices. Because the
hydrophobic effect arises solely from dehydration of a non-polar
surface (40), it is expended after helices are established across the
membrane. Helix association is most likely driven primarily by van der
Waals forces, more specifically the London dispersion force (reviewed
in Refs. 3 and 4), but why would van der Waals forces be stronger
between helices than between helices and lipids?
Extensive work (41-45) on dimer formation of glycophorin A in
detergents reveals the answer: knob-into-hole packing that allows more
efficient packing between helices than between helices and lipids.
Tight, knob-into-hole packing has been found to be a general characteristic of helical bundle MPs as well (46, 47). For glycophorin A dimerization, knob-into-hole packing is facilitated by the GXXXG motif, in which the glycines permit close
approach of the helices. The substitution of larger residues for
glycine prevents the close approach and hence dimerization (41, 44, 45). The so-called TOX-CAT method (48) has made it possible to sample
the amino acid motifs preferred in helix-helix association in membranes
by using randomized sequence libraries (49). The GXXXG motif
is among a significant number of motifs that permit close packing. A
statistical survey of MP sequences disclosed that these motifs are very
common in membrane proteins (50).
Dimerization studies of glycophorin in detergent micelles (44) do not
permit the absolute free energy of association to be determined because
of the large free energy changes associated with micelle stability.
However, estimates (3) suggest 1-5 kcal mol 1 as the free
energy cost of separating a helix from a helix bundle within the
bilayer environment. The cost of breaking H-bonds within the bilayer HC
(above) implies that H-bonding between -helices could provide a
strong stabilizing force for helix association. This is borne out by
recent studies of synthetic TM peptides designed to hydrogen bond to
one another (51, 52). Interhelical H-bonds, however, are not common in
MPs (reviewed in Ref. 3). Indeed, lacking the specificity of
knobs-into-hole packing, they could be hazardous because of their
tendency to cause promiscuous aggregation (4). However, they are
probably important in the association of transmembrane signaling
proteins (53).
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Predicting the Structure of Helical Membrane Proteins |
As for soluble proteins, the ultimate solution to the problem of
predicting three-dimensional structure of MPs from sequence will come
from a deep quantitative understanding of the energetics of protein
folding. The experimental approaches described above lead in that
direction. At a simple level, the prediction of MP topology is fairly
easy and reliable because of the high hydrophobicity of TM helices.
Such sequence segments are generally apparent in hydropathy analysis
(Fig. 4B), which is now a standard prediction tool (reviewed
in Ref. 35). However, the reliability of the resulting topologies
depends strongly upon the hydrophobicity scale used, and there are many
(mostly side chain only scales). An analysis2 using the
MPtopo data base (38) reveals that side chain only scales significantly
overpredict TM segments because of the neglect of
Gbb for reasons illustrated by Fig.
4B. The experiment-based whole-residue hydrophobicity scale
of White and Wimley (3), which takes Gbb into
account, greatly reduces overprediction.2 Membrane Protein
Explorer (MPEx) is a Web-based hydropathy analysis tool using this
scale (blanco.biomol.uci.edu/mpex). The incorporation into prediction
algorithms of additional knowledge of MP structure and stability, such
as the so-called positive-inside rule (54, 55) or secondary structure
propensity (56), can improve the reliability of topology prediction
algorithms. Statistical algorithms that rely in part on alignment of MP
sequences with significant homology to a sequence of interest can also
improve accuracy (57-61).
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Perspectives |
Considerable progress has been made during the past 15 years in
understanding the physical principles underlying MP structure and
stability. Of great importance is the growing number of MPs whose
structures have been determined to high resolution (an up-to-date list
is maintained at blanco.biomol.uci.edu/Membrane_Proteins_xtal.html). About 40 structures have now been published, and all are either helical
bundles or -barrels. An important question is whether new motifs
will emerge. Whatever they may be, they would have to include H-bonded
peptide bonds in the transmembrane segments. One possibility is the
-helix motif (62). A significant feature of many big MPs, such as
sarcoplasmic reticulum calcium ATPase (63), is large extracellular
domains. This means that the prediction of MP structure will depend as
well upon success in predicting the structure of soluble proteins.
Another feature not included in any prediction algorithm is the
arrangement of subunits, which are common in large MPs.
More information about the assembly of MPs by the translocon apparatus
may result in new insights into structure determination. New insights
are also likely to result from our growing understanding of the role of
lipids in MP folding (reviewed in Refs. 64 and 65). Finally, a more
detailed understanding of specific molecular interactions, particularly
in mixed-lipid bilayers, will clarify how membrane interfaces shape
protein structure. Of particular importance are the interactions of
aromatic residues (66) and charged residues (67), and how hydrophobic
and electrostatic interactions combine to stabilize proteins at
interfaces (22).
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ACKNOWLEDGEMENTS |
We thank Michael Myers for editorial
assistance. We are especially pleased to recognize the influential
contributions of Dr. William Wimley to the work of our laboratory and
to many of the ideas expressed in this review.
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FOOTNOTES |
*
This minireview will be reprinted
in the 2001 Minireview Compendium, which
will be available in December, 2001. This is the first article of four in the "Membrane
Protein Structural Biology Minireview Series." This work was
supported in part by National Institutes of Health Grant GM46823.
To whom correspondence should be addressed: Dept. of Physiology
and Biophysics, University of California, Med. Sci. I D346, Irvine, CA
92697-4560. Tel.: 949-824-7122; Fax: 949-824-8540; E-mail:
blanco@helium.biomol.uci.edu.
§
Permanent address: Inst. of Molecular Biology and Genetics,
National Academy of Sciences of Ukraine, Kiev 252143, Ukraine.
Published, JBC Papers in Press, June 29, 2001, DOI 10.1074/jbc.R100008200
2
Jayasinghe, S., Hristova, K., and White, S. H.,
(2001) J. Mol. Biol., in press.
 |
ABBREVIATIONS |
The abbreviations used are:
MP, membrane
protein;
TM, transmembrane;
IF, interface;
HC, hydrocarbon core;
DOPC, dioleoylphosphatidylcholine;
POPC, palmitoyloleoylphosphatidylcholine.
 |
REFERENCES |
| 1.
|
Johnson, A. E.,
and van Waes, M. A.
(1999)
Annu. Rev. Cell Dev. Biol.
15,
799-842
|
| 2.
|
Lemmon, M. A.,
and Engelman, D. M.
(1994)
Q. Rev. Biophys.
27,
157-218
|
| 3.
|
White, S. H.,
and Wimley, W. C.
(1999)
Annu. Rev. Biophys. Biomol. Struct.
28,
319-365
|
| 4.
|
Popot, J.-L.,
and Engelman, D. M.
(2000)
Annu. Rev. Biochem.
69,
881-922
|
| 5.
|
Hurley, J. H.,
and Misra, S.
(2000)
Annu. Rev. Biophys. Biomol. Struct.
29,
49-79
|
| 6.
|
Liu, Y.,
and Bolen, D. W.
(1995)
Biochemistry
34,
12884-12891
|
| 7.
|
White, S. H.,
and Wiener, M. C.
(1995)
in
Permeability and Stability of Lipid Bilayers
(Disalvo, E. A.
, and Simon, S. A., eds)
, pp. 1-19, CRC Press, Boca Raton, FL
|
| 8.
|
White, S. H.,
and Wiener, M. C.
(1996)
in
Membrane Structure and Dynamics
(Merz, K. M.
, and Roux, B., eds)
, pp. 127-144, Birkhäuser, Boston
|
| 9.
|
Wiener, M. C.,
and White, S. H.
(1991)
Biophys. J.
59,
162-173
|
| 10.
|
Wiener, M. C.,
and White, S. H.
(1991)
Biophys. J.
59,
174-185
|
| 11.
|
Wiener, M. C.,
and White, S. H.
(1992)
Biophys. J.
61,
434-447
|
| 12.
|
Lindeberg, M.,
Zakharov, S. D.,
and Cramer, W. A.
(2000)
J. Mol. Biol.
295,
679-692
|
| 13.
|
Ghomashchi, F.,
Lin, Y.,
Hixon, M. S., Yu, B.-Z.,
Annand, R.,
Jain, M. K.,
and Gelb, M. H.
(1998)
Biochemistry
37,
6697-6710
|
| 14.
|
White, S. H.,
and Wimley, W. C.
(1998)
Biochim. Biophys. Acta
1376,
339-352
|
| 15.
|
Dempsey, C. E.
(1990)
Biochim. Biophys. Acta
1031,
143-161
|
| 16.
|
Hristova, K.,
Dempsey, C. E.,
and White, S. H.
(2001)
Biophys. J.
80,
801-811
|
| 17.
|
Jacobs, R. E.,
and White, S. H.
(1989)
Biochemistry
28,
3421-3437
|
| 18.
|
Popot, J.-L.,
Gerchman, S.-E.,
and Engelman, D. M.
(1987)
J. Mol. Biol.
198,
655-676
|
| 19.
|
Popot, J.-L.,
and Engelman, D. M.
(1990)
Biochemistry
29,
4031-4037
|
| 20.
|
Wimley, W. C.,
and White, S. H.
(1996)
Nat. Struct. Biol.
3,
842-848
|
| 21.
|
Ladokhin, A. S.,
Selsted, M. E.,
and White, S. H.
(1999)
Biochemistry
38,
12313-12319
|
| 22.
|
Ladokhin, A. S.,
and White, S. H.
(2001)
J. Mol. Biol.
309,
543-552
|
| 23.
|
Wimley, W. C.,
Hristova, K.,
Ladokhin, A. S.,
Silvestro, L.,
Axelsen, P. H.,
and White, S. H.
(1998)
J. Mol. Biol.
277,
1091-1110
|
| 24.
|
Ladokhin, A. S.,
and White, S. H.
(1999)
J. Mol. Biol.
285,
1363-1369
|
| 25.
|
Wieprecht, T.,
Beyermann, M.,
and Seelig, J.
(1999)
Biochemistry
38,
10377-10387
|
| 26.
|
Song, L.,
Hobaugh, M. R.,
Shustak, C.,
Cheley, S.,
Bayley, H.,
and Gouaux, J. E.
(1996)
Science
274,
1859-1866
|
| 27.
|
Wimley, W. C.,
and White, S. H.
(2000)
Biochemistry
39,
4432-4442
|
| 28.
|
Moll, T. S.,
and Thompson, T. E.
(1994)
Biochemistry
33,
15469-15482
|
| 29.
|
Soekarjo, M.,
Eisenhawer, M.,
Kuhn, A.,
and Vogel, H.
(1996)
Biochemistry
35,
1232-1241
|
| 30.
|
Bechinger, B.
(1996)
J. Mol. Biol.
263,
768-775
|
| 31.
|
Hunt, J. F.,
Rath, P.,
Rothschild, K. J.,
and Engelman, D. M.
(1997)
Biochemistry
36,
15177-15192
|
| 32.
|
Roseman, M. A.
(1988)
J. Mol. Biol.
201,
621-625
|
| 33.
|
Ben-Tal, N.,
Sitkoff, D.,
Topol, I. A.,
Yang, A.-S.,
Burt, S. K.,
and Honig, B.
(1997)
J. Phys. Chem. B
101,
450-457
|
| 34.
|
Ben-Tal, N.,
Ben-Shaul, A.,
Nicholls, A.,
and Honig, B.
(1996)
Biophys. J.
70,
1803-1812
|
| 35.
|
White, S. H.
(1994)
in
Membrane Protein Structure: Experimental Approaches
(White, S. H., ed)
, pp. 97-124, Oxford University Press, New York
|
| 36.
|
Segrest, J. P.,
Jackson, R. L.,
Marchesi, V. T.,
Guyer, R. B.,
and Terry, W.
(1972)
Biochem. Biophys. Res. Commun.
49,
964-969
|
| 37.
|
Wimley, W. C.,
Creamer, T. P.,
and White, S. H.
(1996)
Biochemistry
35,
5109-5124
|
| 38.
|
Jayasinghe, S.,
Hristova, K.,
and White, S. H.
(2001)
Protein Sci.
10,
455-458
|
| 39.
|
Dill, K. A.
(1990)
Biochemistry
29,
7133-7155
|
| 40.
|
Tanford, C.
(1973)
The Hydrophobic Effect: Formation of Micelles and Biological Membranes
, John Wiley & Sons, New York
|
| 41.
|
Lemmon, M. A.,
Flanagan, J. M.,
Hunt, J. F.,
Adair, B. D.,
Bormann, B. J.,
Dempsey, C. E.,
and Engelman, D. M.
(1992)
J. Biol. Chem.
267,
7683-7689
|
| 42.
|
Lemmon, M. A.,
Treutlein, H. R.,
Adams, P. D.,
Brünger, A. T.,
and Engelman, D. M.
(1994)
Nat. Struct. Biol.
1,
157-163
|
| 43.
|
MacKenzie, K. R.,
Prestegard, J. H.,
and Engelman, D. M.
(1997)
Science
276,
131-133
|
| 44.
|
Fleming, K. G.,
Ackerman, A. L.,
and Engelman, D. M.
(1997)
J. Mol. Biol.
272,
266-275
|
| 45.
|
MacKenzie, K. R.,
and Engelman, D. M.
(1998)
Proc. Natl. Acad. Sci. U. S. A.
95,
3583-3590
|
| 46.
|
Bowie, J. U.
(1997)
J. Mol. Biol.
272,
780-789
|
| 47.
|
Langosch, D.,
and Heringa, J.
(1998)
Proteins
31,
150-159
|
| 48.
|
Russ, W. P.,
and Engelman, D. M.
(1999)
Proc. Natl. Acad. Sci. U. S. A.
96,
863-868
|
| 49.
|
Russ, W. P.,
and Engelman, D. M.
(2000)
J. Mol. Biol.
296,
911-919
|
| 50.
|
Senes, A.,
Gerstein, M.,
and Engelman, D. M.
(2000)
J. Mol. Biol.
296,
921-936
|
| 51.
|
Zhou, F. X.,
Cocco, M. J.,
Russ, W. P.,
Brunger, A. T.,
and Engelman, D. M.
(2000)
Nat. Struct. Biol.
7,
154-160
|
| 52.
|
Choma, C.,
Gratkowski, H.,
Lear, J. D.,
and DeGrado, W. F.
(2000)
Nat. Struct. Biol.
7,
161-166
|
| 53.
|
Smith, S. O.,
Smith, C. S.,
and Bormann, B. J.
(1996)
Nat. Struct. Biol.
3,
252-258
|
| 54.
|
von Heijne, G.
(1992)
J. Mol. Biol.
225,
487-494
|
| 55.
|
Claros, M. G.,
and von Heijne, G.
(1994)
Comput. Appl. Biosci.
10,
685-686
|
| 56.
|
Deber, C. M.,
Wang, C.,
Liu, L.-P.,
Prior, A. S.,
Agrawal, S.,
Muskat, B. L.,
and Cuticchia, A. J.
(2001)
Protein Sci.
10,
212-219
|
| 57.
|
Milpetz, F.,
Argos, P.,
and Persson, B.
(1995)
Trends Biochem. Sci.
20,
204-205
|
| 58.
|
Rost, B.,
Casadio, R.,
Fariselli, P.,
and Sander, C.
(1995)
Protein Sci.
4,
521-533
|
| 59.
|
Lolkema, J. S.,
and Slotboom, D.-J.
(1998)
FEMS Microbiol. Rev.
22,
305-322
|
| 60.
|
Tusnády, G. E.,
and Simon, I.
(1998)
J. Mol. Biol.
283,
489-506
|
| 61.
|
Sonnhammer, E. L. L.,
von Heijne, G.,
and Krolick, K. A.
(1998)
in
Proceedings of the Sixth International Conference on Intelligent Systems for Molecular Biology
(Glasgow, J.
, Littlejohn, T.
, Major, F.
, Lathrop, R.
, Sankoff, D.
, and Sensen, C., eds)
, pp. 175-182, AAAI Press, Menlo Park, CA
|
| 62.
|
Yoder, M. D.,
Keen, N. T.,
and Jurnak, F.
(1993)
Science
260,
1503-1507
|
| 63.
|
Toyoshima, C.,
Nakasako, M.,
Nomura, H.,
and Ogawa, H.
(2000)
Nature
405,
647-655
|
| 64.
|
Bogdanov, M.,
and Dowhan, W.
(1999)
J. Biol. Chem.
274,
36827-36830
|
| 65.
|
van Voorst, F.,
and de Kruijff, B.
(2000)
Biochem. J.
347,
601-612
|
| 66.
|
Killian, J. A.,
and von Heijne, G.
(2000)
Trends Biochem. Sci.
25,
429-434
|
| 67.
|
Murray, D.,
Arbuzova, A.,
Honig, B.,
and McLaughlin, S.
(2001)
in
Current Topics in Membranes: Peptide-Lipid Interactions
(Simon, S. A.
, and McIntosh, T. J., eds)
, Academic Press, New York, in press
|
| 68.
|
Luecke, H.,
Schobert, B.,
Richter, H.-T.,
Cartailler, J.-P.,
and Lanyi, J. K.
(1999)
J. Mol. Biol.
291,
899-911
|
| 69.
|
Wimley, W. C.,
and White, S. H.
(1993)
Biochemistry
32,
6307-6312
|
| 70.
|
White, S. H.,
and Wimley, W. C.
(1994)
Curr. Opin. Struct. Biol.
4,
79-86
|
| 71.
|
Hristova, K.,
Wimley, W. C.,
Mishra, V. K.,
Anantharamaiah, G. M.,
Segrest, J. P.,
and White, S. H.
(1999)
J. Mol. Biol.
290,
99-117
|
| 72.
|
White, S. H.,
and Hristova, K.
(2000)
in
Lipid Bilayers. Structure and Interactions
(Katsaras, J.
, and Gutberlet, T., eds)
, pp. 189-206, Springer-Verlag, Berlin
|
| 73.
| Deleted in proof
|
| 74.
|
Wieprecht, T.,
Apostolov, O.,
Beyermann, M.,
and Seelig, J.
(1999)
J. Mol. Biol.
294,
785-794
|
| 75.
|
Arkin, I. T.,
MacKenzie, K. R.,
Fisher, L.,
Aimoto, S.,
Engelman, D. M.,
and Smith, S. O.
(1996)
Nat. Struct. Biol.
3,
240-243
|
| 76.
|
Allen, J. P.,
Feher, G.,
Yeates, T. O.,
Komiya, H.,
and Rees, D. C.
(1987)
Proc. Natl. Acad. Sci. U. S. A.
84,
6162-6166
|
| 77.
|
Ben-Shaul, A.,
Ben-Tal, N.,
and Honig, B.
(1996)
Biophys. J.
71,
130-137
|
Copyright © 2001 by The American Society for Biochemistry and Molecular Biology, Inc.

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