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1.
DFT calculations at the B3LYP/6-31+G(d,p) level have been used to investigate how the replacement of the alpha hydrogen by a more sterically demanding group affects the conformational preferences of proline. Specifically, the N-acetyl-N'-methylamide derivatives of L-proline, L-alpha-methylproline, and L-alpha-phenylproline have been calculated, with both the cis/trans isomerism of the peptide bonds and the puckering of the pyrrolidine ring being considered. The effects of solvation have been evaluated by using a Self-Consistent Reaction Field model. As expected, tetrasubstitution at the alpha carbon destabilizes the conformers with one or more peptide bonds arranged in cis. The lowest energy minimum has been found to be identical for the three compounds investigated, but important differences are observed regarding other energetically accessible backbone conformations. The results obtained provide evidence that the distinct steric requirements of the substituent at C (alpha) may play a significant role in modulating the conformational preferences of proline.  相似文献   

2.
Among the proteinogenic amino acids, only proline is a secondary amine and only proline has a saturated ring. Electronegative substituents on C-4 (that is, C(gamma)) have a substantial effect on the trans/cis ratio of the prolyl peptide bond and the pucker of the pyrrolidine ring. 2-Azabicyclo[2.1.1]hexane is, in essence, a proline analogue with two C(gamma) atoms, one in each of the two prevalent ring puckers of proline. Here, 2-azabicyclo[2.1.1]hexane analogues of 2S-proline, (2S,4S)-4-hydroxyproline, and (2S,4S)-4-fluoroproline residues were synthesized, and their trans/cis ratios were shown to be invariant in a particular solvent. Thus, the substitution of a proline residue on C-4 affects the trans/cis ratio by altering the pucker of its pyrrolidine ring. This finding has implications for the conformation of collagen, which has an abundance of 2S-proline and (2S,4R)-4-hydroxyproline residues, and can be stabilized by (2S,4R)-4-fluoroproline and (2S,4S)-4-fluoroproline residues.  相似文献   

3.
The uncatalyzed alkylation reactions of ammonia by the parent spirocyclopropylcyclohexadienone (6), its 3-amino analogue (7), the cyclic derivative (8), its N-formyl derivative (9), and a closer model (10) of the CPI (1-4) drugs have been investigated in gas phase and in water solvent bulk, using density functional theory at the B3LYP level with several basis sets and the C-PCM solvation model. The effect of several structural key features such as the vinylogous amide conjugation, the acylation of the 2-amino substituent, the ring constraint of the heterocyclic nitrogen atom at C(2) carbon in a ring, and the presence of a condensed pyrrole ring on the reaction activation energy have been investigated. Substrate 7, which is a flexible conformational model of the cyclopropylpyrroloindole moiety (CPI) contained in the duocarmycins, has been used to model the shape-dependent reactivity of these drugs, in gas phase and water solutions. The calculations indicate that shape dependence of reactivity is strongly operative both in gas phase and in polar solvents, since conformational effects are capable of reducing the reaction activation energy by -8.4 and -4.3 kcal mol(-1) in gas phase and in water solution, respectively, that is required to promote "conformational catalysis".  相似文献   

4.
A lactam-based peptidomimetic for the Phe7-Phe8 region of substance P has been synthesized. The synthesis used an anodic amide oxidation to selectively functionalize the C5-position of a 3-phenylproline derivative. The resulting proline derivative was coupled to a Cbz-protected phenylalanine, and an intramolecular reductive amination strategy used to convert the coupled material into a bicyclic piperazinone ring skeleton. The net result was a dipeptide building block that imbedded one of two proposed receptor bound conformations for the Phe7-Phe8 region of substance P into a bicyclic ring skeleton. The building block was then converted into a constrained substance P analogue with the use of solid-phase peptide synthesis. A similar intramolecular reductive amination strategy was used to synthesize a substance P analogue having only Phe7 constrained, and the original 3-phenylproline was converted into a substance P analogue having only Phe8 constrained. All of the analogues were examined for their ability to displace substance P from its NK-1 receptor.  相似文献   

5.
DFT calculations at the B3LYP/6-311G(d,p) level have been used to investigate the intrinsic conformational preferences of 1-amino-2-phenylcyclopentane-1-carboxylic acid (c5Phe), a constrained analogue of phenylalanine in which the alpha and beta carbons are included in a cyclopentane ring. Specifically, the N-acetyl-N'-methylamide derivatives of the cis and trans stereoisomers, where cis and trans refer to the relative position between the amino group and the phenyl ring, have been calculated. Solvent effects have been examined using a self-consistent reaction field (SCRF) method. Results indicate that the conformational space of the cis stereoisomer is much more restricted than that of the trans derivative both in the gas phase and in solution.  相似文献   

6.
Described is an asymmetric synthesis of new Delta(3a,4)-unsaturated, fused bicyclic proline analogues from cyclic bis(allylsulfoximine)titanium complexes and N-tert-butylsulfonyl imino ethyl ester. Treatment of the enantiomerically pure five-, six-, seven-, and eight-membered cyclic bis(allylsulfoximine)titanium complexes with the imino ester gave mixtures of the corresponding (E,syn)- and (Z,syn)-configured, delta-sulfoximine substituted, cyclic gamma,delta-unsaturated alpha-amino acid esters with high regio- and diastereoselectivities in good yields. Activation of the N-methyl sulfoximine group of these amino acid derivatives through methylation with Me(3)OBF(4) afforded in nearly quantitative yields the corresponding (dimethylamino)sulfoxonium salts. A novel migratory cyclization of these salts with DBU gave via an isomerization to the corresponding allylic (dimethylamino)sulfoxonium salts and an intramolecular substitution of the (dimethylamino)sulfoxonium group the enantio- and diastereomerically pure, bicyclic, N-tert-butylsulfonyl protected proline analogues having a six- and eight-membered unsaturated carbocyclic ring. Cyclization of the alkenyl (dimethylamino)sulfoxonium salts was independent of the configuration of the double bond. N,N-Dimethylphenylsulfinamide of > or =99% ee was obtained in good yield as a further reaction product. Conversion of the sulfinamide to N,S-dimethyl-S-phenylsulfoximine of > or =99% ee, the starting material for the synthesis of the allylic sulfoximines, had been accomplished previously. Finally, cleavage of the tert-butylsulfonyl protecting group with anhydrous acid furnished the fused bicyclic proline analogue containing an unsaturated six-membered ring in high yield.  相似文献   

7.
Synthesis, spectral and structural characterization of a pyrroloindolizine derivative having structural similarity with calix[2]pyrrole is described. Here, two pyrrole rings are connected with two meso-carbon atoms having an N,α-linkage and an α,β-linkage to afford the smallest analogue in the calixpyrrole family. Detailed NMR spectroscopic studies along with single crystal X-ray analysis confirm the assigned structure of the molecule.  相似文献   

8.
Ishii H  Satoh K  Satoh Y  Koh H 《Talanta》1982,29(7):545-550
alpha,beta,gamma,delta-Tetrakis(1-methylpyridinium-3-yl)porphine [T(3-MPy)P] and alpha,beta,gamma,delta-tetrakis(1-methylpyridinium-4-yl)porphine [T(4-MPy)P] have been found to react rapidly with cadmium to give coloured complexes in weakly alkaline media at room temperature. Simple and practical methods for the determination of cadmium at ng/ml levels by conventional and analogue derivative spectrophotometry have been proposed. The analogue method gives higher sensitivity. T(3-MPy)P gives higher sensitivity than T(4-MPy)P. The interference of various foreign cations and anions has also been examined and in many cases eliminated or reduced. Adsorption of the porphyrins and their cadmium complexes onto the glassware, which is usually observed under the conditions of reaction and causes significant errors in the determination, can be suppressed almost completely by addition of fairly large amounts of a salt such as sodium chloride.  相似文献   

9.
The conformational propensities of the proline analogue bearing a phenyl substituent attached to the β carbon, in either a cis or a trans configuration relative to the carbonyl group, have been investigated. The behaviour of cis- and trans(βPh)Pro has been compared with that of proline in homochiral and heterochiral dipeptide sequences. NMR and IR studies as well as X-ray diffraction analysis provide evidence that the β-phenyl substituent does not disrupt the tendency of proline to occupy the i+1 position of a β-turn. The puckering of the pyrrolidine ring is significantly affected by the presence of the aromatic substituent, which tends to occupy positions that minimize steric repulsions. As a consequence, this substituent adopts specific well-defined orientations, which are more restricted for the cis derivative. Interactions between this aromatic group and that in the adjacent phenylalanine residue may be responsible for some of the conformational differences observed among the different peptides studied.  相似文献   

10.
W Cao  H Wang  X Wang  HK Lee  DK Ng  J Jiang 《Inorganic chemistry》2012,51(17):9265-9272
Reaction of the half-sandwich complexes M(III)(Pc)(acac) (M = La, Eu, Y, Lu; Pc = phthalocyaninate; acac = acetylacetonate) with the metal-free N-confused 5,10,15,20-tetrakis[(4-tert-butyl)phenyl]porphyrin (H(2)NTBPP) or its N2-position methylated analogue H(CH(3))NTBPP in refluxing 1,2,4-trichlorobenzene (TCB) led to the isolation of M(III)(Pc)(HNTBPP) (M = La, Eu, Y, Lu) or Y(III)(Pc)[(CH(3))NTBPP] in 8-15% yield. These represent the first examples of sandwich-type rare earth complexes with N-confused porphyrinato ligands. The complexes were characterized with various spectroscopic methods and elemental analysis. The molecular structures of four of these double-decker complexes were also determined by single-crystal X-ray diffraction analysis. In each of these complexes, the metal center is octa-coordinated by four isoindole nitrogen atoms of the Pc ligand, three pyrrole nitrogen atoms, and the inverted pyrrole carbon atom of the HNTBPP or (CH(3))NTBPP ligand, forming a distorted coordination square antiprism. For Eu(III)(Pc)(HNTBPP), the two macrocyclic rings are further bound to a CH(3)OH molecule through two hydrogen bonds formed between the hydroxyl group of CH(3)OH and an aza nitrogen atom of the Pc ring or the inverted pyrrole nitrogen atom of the HNTBPP ring, respectively. The location of the acidic proton at the inverted pyrrole nitrogen atom (N2) of the protonated double-deckers was revealed by (1)H NMR spectroscopy.  相似文献   

11.
New core-modified, meso-alkylidenyl porphyrinoids bearing multiple exocyclic double bonds were synthesized and characterized. The synthesis was accomplished using a typical "3 + 1"-type condensation approach. Stable exocyclic tautomers bearing double bonds at the meso positions, as well the corresponding endocyclic tautomers, were isolated in the case of both thiabenziporphyrin and thiapyriporphyrin products prepared in the course of this study. On the other hand, only the exocyclic tautomer was isolated in the case of the congeneric oxapyriporphyrin and oxabenziporphyrin. Expanded analogues of the exocyclic forms of oxabenziporphyrin and thiabenziporphyrin were also isolated as minor products. A single-crystal X-ray diffraction analysis of the expanded thiabenziporphyrin (20) revealed that all four pyrrole rings displayed an inverted geometry, presumably reflecting the strong hydrogen-bonding extant between the pyrrole N-H proton and the carbonyl group of the malonate moiety in the solid state. On the other hand, the expanded oxabenziporphyrin (14) was found to possess a severely distorted geometry with only one pyrrole ring being inverted. Careful analysis of the structure revealed that the solid-state geometry of the expanded macrocycles correlates well with the internal angle defined by the 2- and 5 substituents and the centers of the furan (14) or thiophene (20) subunits.  相似文献   

12.
An experimental and theoretical study of the electronic structure of copper phthalocyanine (CuPc) molecule is presented. We performed x-ray photoemission spectroscopy (XPS) and photoabsorption [x-ray absorption near-edge structure (XANES)] gas phase experiments and we compared the results with self-consistent field, density functional theory (DFT), and static-exchange theoretical calculations. In addition, ultraviolet photoelectron spectra (UPS) allowed disentangling several outer molecular orbitals. A detailed study of the two highest occupied orbitals (having a(1u) and b(1g) symmetries) is presented: the high energy resolution available for UPS measurements allowed resolving an extra feature assigned to vibrational stretching in the pyrrole rings. This observation, together with the computed DFT electron density distributions of the outer valence orbitals, suggests that the a(1u) orbital (the highest occupied molecular orbital) is mainly localized on the carbon atoms of pyrrole rings and it is doubly occupied, while the b(1g) orbital, singly occupied, is mainly localized on the Cu atom. Ab initio calculations of XPS and XANES spectra at carbon K edge of CuPc are also presented. The comparison between experiment and theory revealed that, in spite of being formally not equivalent, carbon atoms of the benzene rings experience a similar electronic environment. Carbon K-edge absorption spectra were interpreted in terms of different contributions coming from chemically shifted C 1s orbitals of the nonequivalent carbon atoms on the inner ring of the molecule formed by the sequence of CN bonds and on the benzene rings, respectively, and also in terms of different electronic distributions of the excited lowest unoccupied molecular orbital (LUMO) and LUMO+1. In particular, the degenerate LUMO appears to be mostly localized on the inner pyrrole ring.  相似文献   

13.
Pressure-composition isotherm measurements show that the ternary lanthanum palladium silicide phase La3Pd5Si absorbs reversibly up to 5 hydrogen atoms per formula unit at 550 K and 14 bar hydrogen pressure. In-situ synchrotron and neutron powder diffraction reveals three phases, an alpha-phase having the limiting composition La3Pd5SiD approximately 1.6 at low deuterium pressure (at up to 9.5 bar D2 and 550 K), a beta-phase La3Pd5SiD approximately 2.30-4 at intermediate deuterium pressure (<9.5 bar D2 and 550 K), and a relatively unstable gamma-phase La3Pd5SiD approximately 5 at high deuterium pressure (obtained at 75 bar D2 and 293 K). While the alpha and beta phases retain the symmetry of the H-free La3Pd5Si (space group Imma), the gamma-phase undergoes a symmetry lowering (a(gamma) approximately a(beta), b(gamma) approximately 3b(beta) and c(gamma) approximately c(beta), V(gamma) approximately 3V(beta), space group Pmnb). The structure of the alpha-phase contains isolated [Pd-D-Pd] fragments, which are joined into polymeric (-Pd-D-Pd-)n zig-zag chains in the beta-phase. In the gamma-phase some D sites depopulate, while new D sites are occupied, thus leading to a partial interruption of the zig-zag chains and the formation of isolated [D-Pd-D-Pd] and [D-Pd-D-Pd-D] fragments. This unexpected behavior can be attributed to the onset of repulsive Si-D and D-D interactions (Si-D > 3.0 A, D-D > 2.1 A) that divide the structure into Si-poor slabs that absorb hydrogen and Si-rich slabs that do not. The competition between silicon and deuterium which act as a transition metal ligand is further underlined by the fact that Pd atoms having one Si ligand are capable of forming Pd-D bonds, whereas Pd atoms having two Si ligands are not.  相似文献   

14.
Quantum mechanical calculations have been used to investigate how the incorporation of an amino group to the Cbeta- or Cgamma-positions of the pyrrolidine ring affects the intrinsic conformational properties of the proline. Specifically, a conformational study of the N-acetyl-N'-methylamide derivatives of four isomers of aminoproline, which differ not only in the beta- or gamma-position of the substituent but also in its cis or trans relative disposition, has been performed. To further understand the role of the intramolecular hydrogen bonds between the backbone carbonyl groups and the amino side group, a conformational study was also performed on the corresponding four analogues of (dimethylamino)proline. In addition, the effects of solvation on aminoproline and (dimethylamino)proline dipeptides have been evaluated using a self-consistent reaction field model, and considering four different solvents (carbon tetrachloride, chloroform, methanol and water). Results indicate that the incorporation of the amino substituent into the pyrrolidine ring affects the conformational properties, with backbone...side chain intramolecular hydrogen bonds detected when it is incorporated in a cis relative disposition. In general, the incorporation of the amino side group tends to stabilize those structures where the peptide bond involving the pyrrolidine nitrogen is arranged in cis. The aminoproline isomer with the substituent attached to the Cgamma-position with a cis relative disposition is the most stable in the gas phase and in chloroform, methanol and water solutions. Replacement of the amino side group by the dimethylamino substituent produces significant changes in the potential energy surfaces of the four investigated (dimethylamino)proline-containing dipeptides. Thus, these changes affect not only the number of minima, which increases considerably, but also the backbone and pseudorotational preferences. In spite of these effects, comparison of the conformational preferences, i.e., the more favored conformers, calculated for different isomers of aminoproline and (dimethylamino)proline dipeptides showed a high degree of consistency for the two families of compounds.  相似文献   

15.
Crystal structure analysis of the title compound, C13H12ClNO, reveals three crystallographically independent mol­ecules in the asymmetric unit. The main conformational difference between these mol­ecules is the orientation of the phenyl rings with respect to the pyrrole rings. The coplanar arrangement of the aldehyde groups attached to the pyrrole rings influences the pyrrole‐ring geometry. The C2—C3 and N1—C5 bonds are noticeably longer than the C4—C5 and N1—C2 bonds. Two independent mol­ecules of the title compound form dimers via intermolecular C—H⃛O hydrogen bonds [DA = 3.400 (3) Å and D—H⃛A = 157°]. The perpendicular orientation of the phenyl and pyrrole rings of one independent mol­ecule and its symmetry‐related mol­ecule allows C—H⃛π interactions, with an H⃛centroid distance of 2.85 Å and a C—H⃛π angle of 155°. The distances between the H atom and the pyrrole‐ring atoms indicate that the C—H bond points towards one of the bonds in the pyrrole ring.  相似文献   

16.
A large series of pharmacological agents, distinct from the typical competitive antagonists, block in a noncompetitive manner the permeability response of the nicotinic acetylcholine receptor (nAChR) to the neurotransmitter acetylcholine. Taking the neuroleptic chlorpromazine (CPZ) as an example of such agents, the blocking mechanism of noncompetitive inhibitors to the ion channel pore of the nAChR has been explored at the atomic level using both conventional and steered molecular dynamics (MD) simulations. Repeated steered MD simulations have permitted calculation of the free energy (approximately 36 kJ/mol) of CPZ binding and identification of the optimal site in the region of the serine and leucine rings, at approximately 4 A from the pore entrance. Coulomb and the Lennard-Jones interactions between CPZ and the ion channel as well as the conformational fluctuations of CPZ were examined to assess the contribution of each to the binding of CPZ to the nAChR. The MD simulations disclose a dynamic interaction of CPZ binding to the nAChR ionic channel. The cationic ammonium head of CPZ forms strong hydrogen bonds with Glu262 (alpha), Asp268 (beta), Glu272 (beta), Ser276 (beta), Glu280 (delta), Gln271 (gamma), Glu275 (gamma), and Asn279 (gamma) nAChR residues. Finally, the conventional MD simulation of CPZ at its identified binding site demonstrates that the binding of CPZ not only blocks ion transport through the channel but also markedly inhibits the conformational transitions of the channel, necessary for nAChR to carry out its biological function.  相似文献   

17.
The intrinsic conformational preferences of C (alpha,alpha)-dibenzylglycine, a symmetric alpha,alpha-dialkylated amino acid bearing two benzyl substituents on the alpha-carbon atom, have been determined using quantum chemical calculations at the B3LYP/6-31+G(d,p) level. A total of 46 minimum energy conformations were found for the N-acetyl- N'-methylamide derivative, even though only nine of them showed a relative energy lower than 5.0 kcal/mol. The latter involves C 7, C 5, and alpha' backbone conformations stabilized by intramolecular hydrogen bonds and/or N-H...pi interactions. Calculation of the conformational free energies in different environments (gas-phase, carbon tetrachloride, chloroform, methanol, and water solutions) indicates that four different minima (two C 5 and two C 7) are energetically accessible at room temperature in the gas phase, while in methanol and aqueous solutions one such minimum (C 5) becomes the only significant conformation. Comparison with results recently reported for C (alpha,alpha)-diphenylglycine indicates that substitution of phenyl side groups by benzyl enhances the conformational flexibility leading to (i) a reduction of the strain of the peptide backbone and (ii) alleviating the repulsive interactions between the pi electron density of the phenyl groups and the lone pairs of the carbonyl oxygen atoms.  相似文献   

18.
We have observed simultaneously temporal fluctuation of surface-enhanced resonance Raman scattering (SERRS) and its background-light emission from single Ag nanoaggregates that were adsorbed with metal-free tetraphenylporphine (H(2)TPP) molecules. We found that temporally stable SERRS spectra showed clearly a SERRS band that is attributed to a stretching mode of a chemical bond between a carbon atom and a non-hydrogenated nitrogen atom (C(alpha)-N). This stretching mode was not observed in regular resonance Raman spectra which are free from surface enhancement. On the other hand, we also found that temporally unstable SERRS spectra did not clearly show a C(alpha)-N stretching mode in SERRS bands. Furthermore, temporally stable SERRS spectra were accompanied by temporally stable background-light emission. Kobayashi et al. [J. Phys. Chem. 1985, 89, 5174] reported that formation of an Ag-N bond between surface Ag atoms and non-hydrogenated N atoms in a pyrrole ring enhances the intensity of a C(alpha)-N stretching mode. Thus, the observed relationship between clear appearance of a C(alpha)-N stretching mode and temporal stability of SERRS plus background-light emission strongly suggests that formation of a stable Ag-N bond suppresses fluctuation of both SERRS and background-light emission. Furthermore, the observed relationship implies that chemical contribution to SERRS is stabilization of H(2)TPP molecules that are adsorbed on SERRS-active sites by formation of Ag-N bonds. Additionally, we attributed background-light emission to luminescence of complexes between H(2)TPP molecules and surface Ag atoms considering possible formation of Ag-N bonds, synchronized SERRS intensity with background-light emission intensity, blue-shifted background-light emission maxima from normal fluorescence maxima, and previous reports related to electronic structures of H(2)TPP molecules on Ag surfaces.  相似文献   

19.
The positive ion electrospray mass spectra of [M+H](+) and the negative ion electrospray mass spectra of [M-H](-) ions of selected pyroglutamate containing peptides both provide sequencing data. The negative ion spectra show the normal alpha and beta backbone cleavages in addition to delta and gamma backbone cleavages initiated by the side chains of Glu and Phe residues. For example, the [M-H](-) ion of pGlu Pro Gln Val Phe Val-NH(2) shows delta and gamma peaks at m/z 224 (delta, Gln3), 244 (gamma, Phe4), 451 (delta, Phe4), 471 (gamma, Gln3). Some of the negative ion spectra show unusual grandaughter peaks that originate by alpha and beta, or delta and gamma backbone cleavages of a beta(1) cleavage ion.  相似文献   

20.
The intramolecular thermal cycloaddition of N-phthalimidoaziridines at multiple bonds of substituents with the intermediate formation of azomethine ylides leads to condensed pyrrole derivatives, in which the five-membered ring is adjacent to a five-, six-, or seven-membered ring. Rearrangements, which sometimes become the predominant reactions, compete with cycloaddition. Thus, aziridines with aryl substituents readily isomerize to give imines with a 1,2-shift of the phthalimide group to one of the carbon atoms. Aziridines with one electron-withdrawing substituent probably do not open to give 1,3-dipoles but rather undergo a Cope-type rearrangement involving the three-membered ring and C = O bond of the second substituent. Even in intramolecular reactions, very low activity is found for the cyano group triple bond and aromatic ring bonds as dipolarophiles.  相似文献   

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