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1 f a beta sheet flanked with two antiparallel alpha helices.
2 row distance distributions along and between alpha helices.
3 proteins with curved beta sheets topped with alpha helices.
4 en antiparallel beta strands stacked between alpha helices.
5 iparallel beta-sandwich wrapped in two short alpha helices.
6 ng the membrane domain of the enzyme via two alpha-helices.
7 ygens and amide H(+)s four residues apart in alpha-helices.
8 beta-strands and random coil with two small alpha-helices.
9 llel homodimers formed by transmembrane (TM) alpha-helices.
10 nique beta-sandwich fold with short terminal alpha-helices.
11 ule scaffold that captures the topography of alpha-helices.
12 llel beta-strands along with two surrounding alpha-helices.
13 S domains, each comprising six transmembrane alpha-helices.
14 in (LBD), which consists predominantly of 11 alpha-helices.
15 residues stemming from the beta-strands and alpha-helices.
16 the binding domain entrance, flanked by two alpha-helices.
17 rrangements of four N-terminal transmembrane alpha-helices.
18 nded antiparallel beta sheet and a few short alpha-helices.
19 ng of three gatekeeping residues and several alpha-helices.
20 that porate cellular membranes by the use of alpha-helices.
21 the channel is closed by dense packing of 12 alpha-helices.
22 lel beta-sheet buttressed on one side by two alpha-helices.
23 r space and is likely to be composed of four alpha-helices.
24 y of inhibitory peptides to make amphipathic alpha-helices.
25 P) reveals a novel all-helix fold with seven alpha-helices.
26 proteolytically stable structural mimics of alpha-helices.
27 -sheets and a corresponding reduction of the alpha-helices.
28 cross-linkers to be the best at stabilizing alpha-helices.
29 nterdigitated knob-socket motifs between two alpha-helices.
30 tructure, formed of 12 beta-strands and nine alpha-helices.
31 ficient folding and perfect pairing of their alpha-helices.
32 n of hydrophobic and hydrophilic residues in alpha-helices.
33 t rather two closely associated antiparallel alpha-helices.
34 ed of 25 repeats capped by N- and C-terminal alpha-helices.
35 rbcS) or only the surface-exposed algal SSU alpha-helices.
36 actions of macrodipoles between neighbouring alpha-helices.
37 n, resulting in a total of six transmembrane alpha-helices.
38 e of HIV gp41 and represents a bundle of six alpha-helices.
39 ized side chains in the first turn of the M2 alpha-helices.
40 ers exhibit three highly conserved predicted alpha-helices.
41 etylcholine receptor formed by transmembrane alpha-helices.
42 s to a group of charged, E(R/K)-rich, single alpha-helices.
43 a central mixed beta-sandwich surrounded by alpha-helices.
44 transmembrane-spanning and five cytoplasmic alpha-helices.
45 of detergent molecules between transmembrane alpha-helices.
46 esis studies suggest that at least predicted alpha-helices 2 and 3 are required for Aar activity.
47 of the proximal Tyr-263, which also links TM alpha-helices 2 and 3 via a hydrogen bond, alter proton
49 ic intermediates is structure and packing of alpha-helices 3 and 7 and the degree of structure in bet
50 we propose a dimerization interface between alpha-helices 4 and 5 and the loop between beta2 and bet
51 ndicate structural flexibility is induced in alpha-helices 4 and 5, suggesting this region contribute
53 erine 145, tyrosine 178, and cysteine 189 on alpha-helices 6, 7, and 8, respectively, within zeta-iso
56 hange at the interface between the region of alpha-helices A/A' and the meander loop of the enzyme, w
57 tates involves movement of the even-numbered alpha-helices across the surfaces of the odd-numbered al
60 del is that activated Bak and Bax insert two alpha-helices, alpha5 and alpha6, as a hairpin across th
61 pectroscopy, that COR15A starts to fold into alpha-helices already under mild dehydration conditions
62 in fold containing three orthogonally packed alpha helices and a 310 helix, FF6 contains an additiona
67 amino-terminal domain (NTD) comprising seven alpha-helices and a beta-hairpin, a carboxy-terminal dom
68 onsisting of a central beta-sheet flanked by alpha-helices and a C-terminal beta-hairpin unique to TA
69 ure displays a novel fold comprised of seven alpha-helices and a highly curved three-stranded antipar
70 s a core scaffold composed of a layer of two alpha-helices and a layer of three-stranded antiparallel
71 s core region is composed almost entirely of alpha-helices and assembles into stable homodimers in so
72 helmingly a random coil, with the structured alpha-helices and beta-sheets being confined to the geno
74 25 nm, and the energy difference between the alpha-helices and beta-sheets is 4.9 kcal/mol per helica
75 act parallel and antiparallel arrangement of alpha-helices and beta-strands, enumerated all possible
76 rization interface, primarily contacting the alpha-helices and beta2-beta3 loops from each monomer.
80 he N-terminal domain of CdaS consists of two alpha-helices and is attached to the C-terminal catalyti
81 suggests that pATOM36 is composed largely of alpha-helices and its assembly into the outer membrane i
85 was found in a subset of buried positions in alpha-helices and pervasively in the underlying beta-str
88 eavages were consistently observed for three alpha-helices and the adenosine binding regions for AK c
89 -defined secondary structures, in most cases alpha-helices and their orientation is given by a tilt a
90 common evolution from disordered monomers to alpha-helices and then to beta-sheets when the proteins
91 is formed by regular (i.e. beta-strands and alpha-helices) and non-periodic structural units such as
92 arboxy-terminal domain (CTD) comprising four alpha-helices, and a flexible linker with a 310-helix co
93 ts structure, comprising eight transmembrane alpha-helices, and catalytic site are distinct from thos
95 omains share a six-stranded beta-sheet, five alpha-helices, and conserved motifs similar to those req
96 d by layered arrangements of beta-sheets and alpha-helices, and how these arrangements became globula
97 which are intermittently surrounded by four alpha-helices, and the C terminus, including the alpha5-
98 the ISRs reside in a cluster of five surface alpha-helices, and the carboxyl-terminal region (CTR), a
99 a model for the packing of these N-terminal alpha-helices, and this packing is different from severa
100 core structure composed of six antiparallel alpha-helices, and this structure is considered instrume
101 ructure with an alpha/beta topology in which alpha-helices are at the N- and C-terminal ends of the m
103 e of a beta-sheet topped by two semiparallel alpha-helices are discussed in this review, highlighting
104 rns of biological significance, right-handed alpha-helices are perhaps the most abundant structural m
105 minal alpha-helices; when ATP is scarce, the alpha-helices are proposed to inhibit ATP hydrolysis by
106 of the binding cavities is restored if these alpha-helices are repositioned extrinsically, suggesting
111 nds report on the hydration of transmembrane alpha-helices as concluded from vibrational coupling exp
112 have evolved to efficiently utilize protein alpha-helices as molecular electrets, the synthetic coun
113 ubulin secondary structure at the H8 and H10 alpha-helices as well as at the S9 beta-sheet, where alp
114 peptides incorporate into lipid bilayers as alpha-helices, as reflected in their circular dichroism
116 sordered in water, but fold into amphipathic alpha-helices at high osmolyte concentrations in the pre
118 the nuclear receptor PPARalpha (increase of alpha-helices at the expense of decreasing beta-sheets),
120 --may be regarded as non-peptide mimetics of alpha-helices because they are of comparable size and ha
121 hanges in skin protein secondary structures (alpha-helices, beta-sheet, random coils and turns), as e
123 ing peak areas associated with turns, bends, alpha-helices, beta-structures, and random coils for ina
124 affect T cell alloreactivity, whereas in the alpha helices, both compatible and noncompatible amino a
126 , each consisting of 42 aa arranged in three alpha-helices, build an elongated superhelical structure
127 rable non-ideal features--for example kinked alpha-helices, bulged beta-strands, strained loops and b
128 are significantly more extended than linear alpha-helices but less extended than straight chains.
132 This work demonstrates that all packing in alpha-helices can be simplified to repetitive patterns o
133 e that interfacial tertiary contacts between alpha-helices can regulate siRNA cytoplasmic delivery an
135 dues at the C-terminus form a bundle of five alpha-helices co-linear with the five-fold axis of symme
136 Subunit D (ScD) consists of a long pair of alpha-helices connected by a short helix ((79)IGYQVQE(85
139 C-terminal domain of ORF57, which is rich in alpha-helices, contributes to homodimerization of ORF57
140 ble beta-sheet structure with tightly packed alpha-helices decorating the exterior of the fibrils.
142 rolysis by assuming an "up" state, where the alpha-helices, devoid of ATP, enter the alpha3beta3-cata
143 o the stable beta-sheet core, the peripheral alpha-helices display significant local fluctuations lea
144 n, peptides corresponding to two out of four alpha helices dominated the response in both vaccinees a
145 The folding of polypeptide side chains into alpha-helices dramatically enhances the polymerization r
146 Cappings play a central role stabilizing alpha-helices due to lack of intrahelical hydrogen bonds
147 ld symmetrical structure that comprises four alpha-helices enwrapping a pair of antiparallel beta-str
148 ures, we are able to show that whereas short alpha-helices exhibit two-state cooperativity, the type
149 eveal that the variance in structure maps to alpha-helices flanking the central beta-sheet and not to
150 erminal half to be comprised of two extended alpha-helices followed by a C-terminal region that is in
152 N-terminal domain of yeast Scc1 contains two alpha helices, forming a four-helix bundle with the coil
153 chimeric Arabidopsis SSUs containing the SSU alpha-helices from Chlamydomonas reinhardtii can form hy
154 short intracellular loop connecting membrane alpha-helices H and I (H-I loop), the AD, CBS1, and CBS2
160 lity is highly restricted for amides in core alpha-helices (i.e., helices A-C and F), and a comparabl
161 insertion/deletions in loop regions between alpha-helices, (ii) extensions to the N and C termini, (
162 ligands through aspartates on transmembrane alpha-helices III (canonical Asp(3.32)) or V (non-canoni
163 a unique binding domain consisting of three alpha helices in addition to a typical GT-A-type glycosy
164 dly, we find that at low ionic strength, the alpha helices in H2A-H2B are frequently sampling partial
167 or bind lipid surfaces via their amphipathic alpha-helices in a manner typical of apolipoproteins.
168 re packed against one another and flanked by alpha-helices in an alphabetabetaalpha arrangement remin
169 f the beta2AR, the S1P1, or the kappaOR form alpha-helices in crystal structures but lack significant
172 The isolated protein folds into amphipathic alpha-helices in response to increased crowding conditio
173 els are probably located in a bundle of four alpha-helices in the a-subunit that are tilted at approx
175 hod is guided by correspondences between the alpha-helices in the density map and model, and does not
176 l of orientation in the cross-beta core, and alpha-helices in the disordered portions of the fibrils.
178 al helix-capping motifs (N-Cap) of different alpha-helices in the F-BAR domain, important for F-BAR h
179 the molecular arrangement of the N-terminal alpha-helices in the filament core, including a melted c
180 a are consistent with transient formation of alpha-helices in the first 100 N-terminal residues of th
182 ive crystal structure reveals that loops and alpha-helices in the native state must undergo conformat
184 t a proline kink in M1 that separates pi and alpha helices, in both alpha (N217, V218 and P221) and n
185 polar residues provided by a bundle of four alpha-helices inclined at approximately 30 degrees to th
186 hat serves as a scaffold for the hydrophobic alpha-helices involved in pH-dependent pore formation.
189 chains at the first turn of the pore-lining alpha-helices is a key determinant of the rate of ion pe
190 re also differs: A significant population of alpha-helices is found in chemically denatured configura
192 r of polyglutamine is very stable, dimers of alpha-helices lack the kinetic stability necessary to su
193 onclude that the structural integrity of the alpha-helices lining the central hole and this loop are
194 22Y substitution alters the positions of the alpha-helices lining the central hole of the PCNA ring,
195 ha-helix, M4, and the adjacent transmembrane alpha-helices, M1 and M3, retains the ability to flux ca
197 ormation of a monomeric state, where its two alpha-helices, N-terminal heptad repeat (NHR) and C-term
200 the development and validation of stabilized alpha helices of son of sevenless 1 (SAH-SOS1) as protot
201 se VirB homologs, and the transmembrane (TM) alpha helices of VirB10-like TraF form a 55-A-diameter r
202 experimental dimeric structures formed by TM alpha-helices of 21 single-pass membrane proteins (inclu
204 the mutation disrupts the N-terminus of the alpha-helices of dimeric beta-tropomyosin, a change pred
205 the high dimerization capacity of the third alpha-helices of endophilin A and leucine 215 substituti
206 d Gs involve the amino- and carboxy-terminal alpha-helices of Gs, with conformational changes propaga
207 dicating that the connector, which links the alpha-helices of HAMP domains, plays an important struct
208 Gd(DTPA-BMA)) indicated that the amphipathic alpha-helices of Hsp12 in SDS micelles lie on the membra
210 udy with yeast two-hybrid suggests that most alpha-helices of R16/17, except for the R17 alpha1 helix
212 l elements within the Linker2 region dock to alpha-helices of the coiled-coil domain, likely establis
215 r pore-forming mechanism of action involving alpha-helices of the N-terminal domain, whereas structur
216 models of PrP(Sc) retain most of the native alpha-helices of the normal, noninfectious prion protein
218 mino acid composition of two surface-exposed alpha-helices of the SSU: higher plant-like helices knoc
219 ylalanine (Phe) residue within the S2 and S3 alpha-helices of the voltage sensor domain (VSD) of Kv c
220 pha6' extending over the 2(nd) and the 3(rd) alpha-helices of Vta1NTD microtubule interacting and tra
223 stranded, antiparallel beta-sheet flanked by alpha-helices on each side, representing a unique oligom
226 The stalk extends via two parallel long alpha-helices, one in each of the related b and b' subun
230 ein complexes in the Protein Data Bank where alpha-helices or beta-strands form critical contacts.
232 t a structure consisting of two antiparallel alpha-helices, packed in an exceptionally tight hairpin
233 lly generated three-dimensional models of TM alpha-helices positioned in membranes; (iv) amino acid s
235 is that the stabilization of the individual alpha-helices provides an optimum stability and allows f
236 amolecular (native) beta-sheets (55.08%) and alpha-helices/random coils (30.51%), but upon heating fr
237 ) beta-sheets (60-80%) in gamma-livetin, and alpha-helices/random coils (60.59%) in alpha-livetin.
239 Coiled-coil interactions, between or among alpha-helices, represent the most common tertiary and qu
243 ere it interacts with the juxtaposed ends of alpha-helices shaping the narrow membrane-spanning pore.
244 re and it consists of three partially folded alpha-helices spanning residues 7-38, 41-46, and 58-73.
246 loid-like architecture, in which amphipathic alpha helices stacked perpendicular to the fibril axis i
247 sensing and curvature-generating amphipathic alpha-helices, supports a hypothesis that connects helix
248 s reveal 12, mostly irregular, transmembrane alpha-helices surrounding a cavity with sugar- and H(+)-
249 flytrap (VFT) perception domains followed by alpha helices that extend into the cytoplasmic membrane.
250 tified a novel Pincer domain composed of two alpha helices that physically tethers the C-terminal dom
251 erminal domain formed from a cluster of four alpha-helices that appears to distinguish this protein f
253 ces cerevisiae allowed identification of the alpha-helices that belong to the a subunit and revealed
254 ter sakazakii PriC forms a compact bundle of alpha-helices that brings together residues involved in
256 lia revealed a structure comprising the five alpha-helices that form the phospholipase catalytic modu
257 unique E2-binding domain that includes three alpha-helices that interact extensively with the "backsi
258 onally beneficial dynamic motion between the alpha-helices that is critical for the transmission of s
261 sin (PR), a protein with seven transmembrane alpha-helices that was found to assemble to hexamers in
262 The quality of the map allowed us to assign alpha-helices, the predominant secondary structure eleme
264 e to reduce the kink in the pore-lining (S6) alpha-helices, thereby forming the helix bundle crossing
265 ed hydrophobicity to the hydrophobic half of alphaS helices, thereby stabilizing alphaS-membrane inte
266 nvolves allosteric realignment of C-terminal alpha-helices thus generating a binding surface for coac
271 nalysis revealed the hydrophobic face of two alpha-helices to be critical for membranous localization
273 es and undergo a dynamic transition from the alpha-helices to the beta-sheets, which marks the onset
274 ore pronounced tilt of the closed-channel M2 alpha-helices toward the pore's long axis narrows the pe
275 In the plastic regime, the three-stranded alpha-helices undergo a noncooperative phase transition
276 on liposome-reconstituted MscL transmembrane alpha-helices, using a 'virtual sorting' single-molecule
277 gement of basic residues and the amphipathic alpha-helices was substantially different between serogr
278 TOXCAT assay for interactions of isolated TM alpha-helices, we found that TM1, a Cx26 pore domain, ha
280 an ATP molecule bound to its two C-terminal alpha-helices; when ATP is scarce, the alpha-helices are
281 ll fusion requires a parallel orientation of alpha-helices, whereas antiparallel oriented coiled-coil
282 encapsulated ferritin (EncFtn) has two main alpha helices, which assemble in a metal dependent manne
283 rophobic interactions among their N-terminal alpha-helices, which also anchor the pilin subunits in t
284 ups of an arginine-rich region spanning both alpha-helices, which lowers the configurational entropy;
285 bound InsP3 rotates 55 degrees closer to the alpha-helices, which provide most of the protein's inter
286 o a site at the opening of two transmembrane alpha-helices, which results in the scissile bond being
287 binding domains are composed of two extended alpha helices with no apparent surfaces for small-molecu
288 elices 6, 7, and 10 are separate amphipathic alpha-helices with a calculated periodicity of T = 3.34
289 sient increase in hydration of transmembrane alpha-helices with a t(1/2) = 60 mus, which tallies with
290 V POD is formed by one pair of long parallel alpha-helices with another pair in opposite orientation.
291 al barrels, that is, preassembled bundles of alpha-helices with central channels, can be used as buil
292 lical bundle systems consisting of synthetic alpha-helices with either the sequence Ac-(LSLLLSL)3-NH2
294 -stranded parallel beta-sheet flanked by six alpha-helices with the putative catalytic triad, Asp-366
299 interpretation of the packing of individual alpha-helices within the fibers, and the construction of
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