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1.
A new three‐residue turn in β peptides nucleated by a 12/10‐mixed helix is presented. In this design, β peptides were derived from the 1:1 alternation of C‐linked carbo‐β‐amino acid ester [BocNH‐(R)‐β‐Caa(r)‐OMe] (Boc=tert‐butyloxycarbonyl), which consisted of a D ‐ribo furanoside side chain, and β‐hGly residues. The hexapeptide with (R)‐β‐Caa(r) at the N terminus showed the ‘turn’ stabilized by a 14‐membered NH(4) ??? CO(6) hydrogen bond at the C terminus nucleated by a robust 12/10‐mixed helix, thus providing a ‘helix‐turn’ (HT) motif. The turn and the helix were additionally stabilized by intraresidue electrostatic interaction between the furan oxygen in the carbohydrate side chain and NH in the backbone. However, the hexapeptide with a β‐hGly residue at the N terminus demonstrated the presence of a 10/12 helix through its entire length, which again showed the intraresidue interaction between NH and furan oxygen. The intraresidue NH ??? O? Me electrostatic interactions observed in the monomer, however, were absent in the peptides.  相似文献   

2.
The NMR‐solution structure of an α‐heptapeptide with a central Aib residue was investigated in order to verify that, in contrast to β‐peptides, short α‐peptides do not form a helical structures in MeOH. Although the central Aib residue was found to induce a bend in the experimentally determined structure, no secondary structure typical for longer α‐peptides or proteins was found. A β2/β3‐nonapeptide with polar, positively charged side chains was subjected to NMR analysis in MeOH and H2O. Whereas, in MeOH, it folds into a 10/12‐helix very similar to the structure determined for a corresponding β2/β3‐nonapeptide with only aliphatic side chains, no dominant conformation could be determined in H2O. Finally, the NMR analysis of a β3‐icosapeptide containing the side chains of all 20 proteinogenic amino acids in MeOH is described. It revealed that this 20mer folds into a 314‐helix over its whole length forming six full turns, the longest 314‐helix found so far. Together, our findings confirm that, in contrast to α‐peptides, β‐peptides not only form helices with just six residues, but also form helices that are longer than helical sections usually observed in proteins or natural peptides. The higher helix‐forming propensity of long β‐peptides is attributed to the conformation‐stabilizing effect of the staggered ethane sections in β‐peptides which outweighs the detrimental effect of the increasing macrodipole.  相似文献   

3.
A careful CD analysis (Figs. 1 – 3 and 5; MeOH or H2O solutions) of β‐oligopeptides ( 1 – 6 , B , C ) containing four to seven β‐amino acids reveals that seemingly small structural changes cause a switch from the CD pattern (maxima of opposite sign near 215 and 200 nm) associated with a 314‐helical structure to the CD pattern (single Cotton effect at ca. 205 nm) considered characteristic of a so‐called 12/10‐helical structure, but also exhibited by a β‐peptide adopting a hair‐pin conformation with a ten‐membered H‐bonded ring as the turn motif. Comparison of these CD spectra with those of the trans‐2‐aminocyclohexanecarboxamide oligomers, which give rise to the long‐wavelength Cotton effect only, suggests that the H‐bonded 14‐, 12‐, and 10‐membered ring conformations of the β‐peptides, and not just the entire helix structures, might actually generate the Cotton effects. This interpretation would be compatible with our previous NMR structure determinations of β‐peptides and with previously reported temperature dependences of CD and NMR spectra of β‐peptides. To further substantiate this suggestion, we have performed a statistical analysis of the β‐peptidic conformations generated by molecular‐dynamics calculations (GROMOS96) for a β‐hexapeptide ( C ; the 12/10 helix) and a β‐heptapeptide ( 6 ; the 314 helix) in MeOH (Figs. 6 – 9). Up to 400,000 conformations at 0.5‐ps intervals were analyzed from up to 200‐ns simulations (at 298 to 360 K). The analysis reveals the co‐existence of the various H‐bonded rings. Remarkably, the central section of the β‐peptide 6 (containing a β2,3‐amino‐acid residue of like‐configuration!) adopts a ten‐membered‐ring conformation for ca. 5% of the simulation time, while the central section of the β‐peptide C adopts a 14‐membered‐ring conformation for ca. 3% of the time, according to this computational analysis. Further experimental and theoretical work will be necessary to find out to which extent the components (H‐bonded rings) and the entire helical secondary structures of β‐peptides contribute to the observed Cotton effects.  相似文献   

4.
Two spiroheterocyclic 2H‐azirin‐3‐amines, 1f and 1g , were shown to be useful synthons for the dipeptides N‐(4‐aminotetrahydro‐2H‐pyran‐4‐yl)prolinate (Thp‐Pro) and the corresponding thiopyran derivative, Tht‐Pro, respectively. By coupling of 4‐bromobenzoic acid with 1f or 1g and saponification, followed by repeating the coupling and saponification steps, oligopeptides of type 4‐BrBz‐(Thp‐Pro)n‐OMe and 4‐BrBz‐(Tht‐Pro)n‐OMe were prepared, and their conformations were evaluated in solution by NMR techniques and in the crystalline state by X‐ray crystallography. All of these sterically highly congested oligopeptides adopt fairly rigid helical conformations. It is interesting to note that the hexapeptide with Thp forms a 310‐helix, whereas the Tht analog has a β‐bend ribbon spiral confirmation.  相似文献   

5.
6.
The interaction of β‐peptides with the DNA duplexes of dA20dT20 and a GCN4‐binding CRE sequence was examined. To gauge the factors that govern these interactions, two β‐pentadecapeptides, 1 and 2 , a β‐dodecapeptide, 3 , three β‐decapeptides, 4 – 6 , three β‐heptapeptides, 7 – 9 , and β‐octaarginine 10 were designed and synthesized. The β‐peptides were conceived to adopt a β‐peptide 314 helix, in which the side chains at position i and i + 3 are aligned vertically along one side of the helix. The side chains of Lys, Asn, and Arg were positioned such that potential H‐bonding sites were created for a helical conformation to interact with the base pairs of DNA. CD Analysis showed that β‐peptides 1, 2 , and 10 interacted with dA20dT20. In addition, β‐peptides 1 and 2 showed significant interaction with a DNA‐duplex 20mer containing the ATF/CREB recognition sequence for the regulatory protein GCN4. It is impossible, at this stage of the investigation, to make a safe proposal about the actual nature of the interaction of the structures(s) of the complexes, the formation of which is suggested by the CD spectra reported herein.  相似文献   

7.
The correlation between β2‐, β3‐, and β2,3‐amino acid‐residue configuration and stability of helix and hairpin‐turn secondary structures of peptides consisting of homologated proteinogenic amino acids is analyzed (Figs. 1–3). To test the power of Zn2+ ions in fortifying and/or enforcing secondary structures of β‐peptides, a β‐decapeptide, 1 , four β‐octapeptides, 2 – 5 , and a β‐hexadecapeptide, 10 , have been devised and synthesized. The design was such that the peptides would a) fold to a 14‐helix ( 1 and 3 ) or a hairpin turn ( 2 and 4 ), or form neither of these two secondary structures (i.e., 5 ), and b) carry the side chains of cysteine and histidine in positions, which will allow Zn2+ ions to use their extraordinary affinity for RS? and the imidazole N‐atoms for stabilizing or destabilizing the intrinsic secondary structures of the peptides. The β‐hexadecapeptide 10 was designed to a) fold to a turn, to which a 14‐helical structure is attached through a β‐dipeptide spacer, and b) contain two cysteine and two histidine side chains for Zn complexation, in order to possibly mimic a Zn‐finger motif. While CD spectra (Figs. 6–8 and 17) and ESI mass spectra (Figs. 9 and 18) are compatible with the expected effects of Zn2+ ions in all cases, it was shown by detailed NMR analyses of three of the peptides, i.e., 2, 3, 5 , in the absence and presence of ZnCl2, that i) β‐peptide 2 forms a hairpin turn in H2O, even without Zn complexation to the terminal β3hHis and β3hCys side chains (Fig. 11), ii) β‐peptide 3 , which is present as a 14‐helix in MeOH, is forced to a hairpin‐turn structure by Zn complexation in H2O (Fig. 12), and iii) β‐peptide 5 is poorly ordered in CD3OH (Fig. 13) and in H2O (Fig. 14), with far‐remote β3hCys and β3hHis residues, and has a distorted turn structure in the presence of Zn2+ ions in H2O, with proximate terminal Cys and His side chains (Fig. 15).  相似文献   

8.
The design and synthesis of β‐peptides from new C‐linked carbo‐β‐amino acids (β‐Caa) presented here, provides an opportunity to understand the impact of carbohydrate side chains on the formation and stability of helical structures. The β‐amino acids, Boc‐(S)‐β‐Caa(g)‐OMe 1 and Boc‐(R)‐β‐Caa(g)‐OMe 2 , having a D ‐galactopyranoside side chain were prepared from D ‐galactose. Similarly, the homo C‐linked carbo‐β‐amino acids (β‐hCaa); Boc‐(S)‐β‐hCaa(x)‐OMe 3 and Boc‐(R)‐β‐hCaa(x)‐OMe 4 , were prepared from D ‐glucose. The peptides derived from the above monomers were investigated by NMR, CD, and MD studies. The β‐peptides, especially the shorter ones obtained from the epimeric (at the amine stereocenter Cβ) 1 and 2 by the concept of alternating chirality, showed a much smaller propensity to form 10/12‐helices. This substantial destabilization of the helix could be attributed to the bulkier D ‐galactopyranoside side chain. Our efforts to prepare peptides with alternating 3 and 4 were unsuccessful. However, the β‐peptides derived from alternating geometrically heterochiral (at Cβ) 4 and Boc‐(R)‐β‐Caa(x)‐OMe 5 (D ‐xylose side chain) display robust right‐handed 10/12‐helices, while the mixed peptides with alternating 4 and Boc‐β‐hGly‐OMe 6 (β‐homoglycine), resulted in left‐handed β‐helices. These observations show a distinct influence of the side chains on helix formation as well as their stability.  相似文献   

9.
In the nearly planar title compound, C15H10IN3, the three pyridine rings exhibit transoid conformations about the interannular C—C bonds. Very weak C—H...N and C—H...I interactions link the molecules into ribbons. Significant π–π stacking between molecules from different ribbons completes a three‐dimensional framework of intermolecular interactions. Four different packing motifs are observed among the known structures of simple 4′‐substituted terpyridines.  相似文献   

10.
The basic building unit in the structure of the title compound, C14H14FNO3, is pairs of molecules arranged in an antiparallel fashion, enabling weak C—H...O interactions. Each molecule is additionally involved in π–π interactions with neighbouring molecules. The pairs of molecules formed by the C—H...O hydrogen bonds and π–π interactions form ribbon‐like chains running along the c axis. Theoretical calculations based on these pairs showed that, although the main intermolecular interaction is electrostatic, it is almost completely compensated by an exchange–repulsion contribution to the total energy. As a consequence, the dominating force is a dispersion interaction. The F atoms form weak C—F...H—C interactions with the H atoms of the neighbouring ethyl groups, with H...F separations in the range 2.59–2.80 Å.  相似文献   

11.
Cyclic pentapeptides (e.g. Ac‐(cyclo‐1,5)‐[KAXAD]‐NH2; X=Ala, 1 ; Arg, 2 ) in water adopt one α‐helical turn defined by three hydrogen bonds. NMR structure analysis reveals a slight distortion from α‐helicity at the C‐terminal aspartate caused by torsional restraints imposed by the K(i)–D(i+4) lactam bridge. To investigate this effect on helix nucleation, the more water‐soluble 2 was appended to N‐, C‐, or both termini of a palindromic peptide ARAARAARA (≤5 % helicity), resulting in 67, 92, or 100 % relative α‐helicity, as calculated from CD spectra. From the C‐terminus of peptides, 2 can nucleate at least six α‐helical turns. From the N‐terminus, imperfect alignment of the Asp5 backbone amide in 2 reduces helix nucleation, but is corrected by a second unit of 2 separated by 0–9 residues from the first. These cyclic peptides are extremely versatile helix nucleators that can be placed anywhere in 5–25 residue peptides, which correspond to most helix lengths in protein–protein interactions.  相似文献   

12.
In catena‐poly­[[(di‐2‐pyridyl­amine‐κ2N,N′)silver(I)]‐μ‐nico­tinato‐κ2N:O], [Ag(C6H4NO2)(C10H9N3)]n, the AgI atom is tetracoordinated by two N atoms from the di‐2‐pyridyl­amine (BPA) ligand [Ag—N = 2.3785 (18) and 2.3298 (18) Å] and by one N atom and one carboxyl­ate O atom from nicotinate ligands [Ag—N = 2.2827 (15) Å and Ag—O = 2.3636 (14) Å]. Bridging by nicotinate N and O atoms generates a polymeric chain structure, which extends along [100]. The carboxyl O atom not bonded to the Ag atom takes part in an intrachain C—H⋯O hydrogen bond, further stabilizing the chain. Pairs of chains are linked by N—H⋯O hydrogen bonds to generate ribbons. There are no π–π interactions in this complex. In catena‐poly­[[(di‐2‐pyridyl­amine‐κ2N,N′)silver(I)]‐μ‐2,6‐di­hydroxy­benzoato‐κ2O1:O2], [Ag(C7H5O4)(C10H9N3)]n, the AgI atom has a distorted tetrahedral coordination, with three strong bonds to two pyridine N atoms from the BPA ligand [Ag—N = 2.286 (5) and 2.320 (5) Å] and to one carboxyl­ate O atom from the 2,6‐di­hydroxy­benzoate ligand [Ag—O = 2.222 (4) Å]; the fourth, weaker, Ag‐atom coordination is to one of the phenol O atoms [Ag⋯O = 2.703 (4) Å] of an adjacent moiety, and this interaction generates a polymeric chain along [100]. Pairs of chains are linked about inversion centers by N—H⋯O hydrogen bonds to form ribbons, within which there are π–π interactions. The ribbons are linked about inversion centers by pairs of C—H⋯O hydrogen bonds and additional π–π interactions between inversion‐related pairs of 2,6‐di­hydroxy­benzoate ligands to generate a three‐dimensional network.  相似文献   

13.
The structural properties of an all‐β3‐dodecapeptide with the sequence H‐β‐HLys(Nε‐CO(CH2)3‐S Acm)‐β‐HPhe‐β‐HTyr‐β‐HLeu‐β‐HLys‐β‐HSer‐β‐HLys‐β‐HPhe‐β‐HSer‐β‐HVal‐β‐HLys‐β‐HAla‐OH ( 1 ) have been studied by two‐dimensional homonuclear 1H‐NMR and by CD spectroscopy. In MeOH solution, high‐resolution NMR spectroscopy showed that the β‐dodecapeptide forms an (M)‐314‐helix, and the CD spectrum corresponds to the pattern expected for an (M)‐314‐helical secondary structure. In aqueous solution, however, the peptide adopts a predominantly extended conformation without regular secondary‐structure elements, which is in agreement with the absence of the characteristic trough near 215 nm in the CD spectrum. The NMR and CD measurements with solutions of 1 in MeOH containing 3M urea further indicated that the peptide retains the regular secondary structural elements under these conditions, whereas, after addition of 40% (v/v) H2O to the MeOH solution, the large 1H‐chemical‐shift dispersion indicative of a defined spatial peptide fold was lost. The β3‐dodecapeptide is – so far – the longest β‐peptide shown to adopt a regular (M)‐314‐helix conformation in an organic solvent. The observation that the structure of this long β3‐peptide is not maintained in aqueous solution indicates that the (M)‐314‐fold is primarily stabilized by short‐range interactions.  相似文献   

14.
In both title compounds, C10H13BO3S, (I), and C13H17BO3, (II), the molecules adopt nearly planar conformations. The crystal packing of (I) consists of a supramolecular two‐dimensional network with a herringbone‐like topology formed by self assembly of centrosymmetric pairs of molecules linked via dipole–dipole interactions. The crystal structure of (II) consists of a supramolecular two‐dimensional network built up from centrosymmetric pairs of molecules viaπ–π interactions. These pairs of molecules are self‐organized in an offset fashion related by a symmetry centre, generating supramolecular ribbons running along the [101] direction. Neighbouring ribbons are stacked via complementary van der Waals and hydrophobic methyl–methyl interactions.  相似文献   

15.
Fmoc‐protected β‐aminoethane sulfonylchlorides can be employed for efficient automated solid phase synthesis of β‐peptidosulfonamides and β‐peptidosulfonamide/β‐peptide hybrids containing one or more β‐peptidosulfonamide residues. Thus, Fmoc‐protected β‐aminoethane sulfonylchlorides 5a – c led to the hexa‐β‐peptidosulfonamide 9 and the nona‐β‐peptidosulfonamide 10 . In addition, the β‐peptidosulfonamide/β‐peptide hybrids 13 and 16 , consisting of six and nine β‐residues, respectively, and containing a single β‐peptidosulfonamide unit in the middle, as well as the peptidosulfonamide/β‐peptide hybrid 15 with nine β‐residues, including an N‐terminal β‐peptidosulfonamide residue, were synthesized by automated solid‐phase synthesis. Both CD and NMR spectroscopic measurements did not indicate any helical secondary structure for 9 and 10 . As was shown by CD‐measurements, the β‐peptidosulfonamide residue in the hybrids 13, 15 , and 16 acts as a ‘helix breaker', especially when located in the middle of the hybrid chain ( 13 and 16 ), but, although to a lesser extent, also at the N‐terminus.  相似文献   

16.
In the title compound, C10H7NO3·H2O, the zwitterionic organic molecules and the water molecules are connected by N—H...O and O—H...O hydrogen bonds to form ribbons, and π–π stacking interactions expand these ribbons into a three‐dimensional net. The energies of these hydrogen bonds adopt values typical for mildly weak interactions (3.33–7.75 kcal mol−1; 1 kcal mol−1 = 4.184 kJ mol−1). The total π–π stacking interactions between aromatic molecules can be classified as mildly strong (energies of 15.3 and 33.9 kcal mol−1), and they are made up of multiple constituent π–π interactions between six‐membered rings. The short intermolecular C—H...O contact between two zwitterionic molecules is nonbonding in character.  相似文献   

17.
The β‐heptapeptides H‐βhVal‐βhAla‐βhLeu‐βhAla(Xn)‐βhVal‐βhAla‐βhLeu‐OH 3 – 7 with central 3‐amino‐2‐fluoro‐, 3‐amino‐2,2‐difluoro‐, or 3‐amino‐2‐hydroxybutanoic acid residues (βhAla(Xn)) of like and unlike configuration were subjected to a detailed NMR analysis in MeOH solution. For the geminal difluoro and for the F‐ and OH‐substituted derivatives of u‐configuration (see 5, 4 , and 7 , resp.), 14‐helices were found, i.e., with axial disposition of the hetero atoms on the helix. The two compounds containing the central l‐configured β‐amino acid moieties (see 3 and 6 ) are not helical over the full lengths of the chains; they have ‘quasi‐helical’ termini and a central turn consisting of a ten‐membered H‐bonded ring (Fig. 2, d and e). Quantum‐mechanical calculations with l‐ and u‐AcNH‐CHMe‐CHF‐CONH2 confirm the observed preference for a conformation with antiperiplanar arrangement of the F? C and the C?O bond. The calculated energy difference between the observed ‘non‐helical’ geometry of this moiety and a hypothetical helical one is 6.4 kcal/mol (Fig. 3).  相似文献   

18.
The combination of a non‐functionalized constrained bicyclo[2.2.2]octane motif along with urea linkages allowed the formation of a highly rigid 2.512/14 helical system both in solution and the solid state. In this work, we aimed at developing stable and functionalized systems as promising materials for biological applications in investigating the impact of this constrained motif and its configuration on homo and heterochiral mixed‐oligourea helix formation. Di‐, tetra‐, hexa‐, and octa‐oligoureas alternating the highly constrained bicyclic motif of (R) or (S) configuration with acyclic (S)‐β3‐amino acid derivatives were constructed. Circular dichroism (CD), NMR experiments, and the X‐ray crystal structure of the octamer unequivocally proved that the alternating heterochiral R/S sequences form a stable left‐handed 2.5‐helix in contrast to the mixed (S/S)‐oligoureas, which did not adopt any defined secondary structure. We observed that the (?)‐synclinal conformation around the Cα? Cβ bond of the acyclic residues, although sterically less favorable than the (+)‐synclinal conformation, was imposed by the (R)‐bicyclic amino carbamoyl (BAC) residue. This highlighted the strong ability of the BAC residue to drive helical folding in heterochiral compounds. The role of the stereochemistry of the BAC unit was assessed and a model was proposed to explain the misfolding of the S/S sequences.  相似文献   

19.
Backbone alkylation has been shown to result in a dramatic reduction in the conformational space that is sterically accessible to α‐amino acid residues in peptides. By extension, the presence of geminal dialkyl substituents at backbone atoms also restricts available conformational space for β and γ residues. Five peptides containing the achiral β2,2‐disubstituted β‐amino acid residue, 1‐(aminomethyl)cyclohexanecarboxylic acid (β2,2Ac6c), have been structurally characterized in crystals by X‐ray diffraction. The tripeptide Boc‐Aib‐β2,2Ac6c‐Aib‐OMe ( 1 ) adopts a novel fold stabilized by two intramolecular H‐bonds (C11 and C9) of opposite directionality. The tetrapeptide Boc‐[Aib‐β2,2Ac6c]2‐OMe ( 2 ) and pentapeptide Boc‐[Aib‐β2,2Ac6c]2‐Aib‐OMe ( 3 ) form short stretches of a hybrid αβ C11 helix stabilized by two and three intramolecular H‐bonds, respectively. The structure of the dipeptide Boc‐Aib‐β2,2Ac6c‐OMe ( 5 ) does not reveal any intramolecular H‐bond. The aggregation pattern in the crystal provides an example of an extended conformation of the β2,2Ac6c residue, forming a ‘polar sheet’ like H‐bond. The protected derivative Ac‐β2,2Ac6c‐NHMe ( 4 ) adopts a locally folded gauche conformation about the Cβ? Cα bonds (θ=?55.7°). Of the seven examples of β2,2Ac6c residues reported here, six adopt gauche conformations, a feature which promotes local folding when incorporated into peptides. A comparison between the conformational properties of β2,2Ac6c and β3,3Ac6c residues, in peptides, is presented. Backbone torsional parameters of H‐bonded αβ/βα turns are derived from the structures presented in this study and earlier reports.  相似文献   

20.
In the title compound, {[UO2(C7H6NO2)(OH)]}n, the U atom is in a seven‐coordinated pentagonal–bipyramidal environment. Each uranyl ion is bound to the N and one of the O atoms of a 2‐pyridylacetate ligand, to one O atom from a second ligand and to two bridging hydroxide groups, all located in the equatorial plane. Hydroxide bridging gives uranyl dimers, which are assembled into planar and rectilinear ribbons by carboxylate bridges. 12‐Membered rings are defined by proximal dimers in the ribbons, with two intra‐ring hydrogen bonds involving the hydroxide groups and two carboxylate O atoms.  相似文献   

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