- Analysis of vibrational spectra of l-alanylglycine based on density functional theory calculations
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FT Raman and IR spectra of the crystallized biologically active molecule, l-alanylglycine (l-Ala-Gly) have been recorded and analyzed. The equilibrium geometry, bonding features and harmonic vibrational frequencies of L-Ala-Gly have been investigated with
- Padmaja,Ravikumar,James,Jayakumar,Hubert Joe
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- Superactivity of MOF-808 toward Peptide Bond Hydrolysis
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MOF-808, a Zr(IV)-based metal-organic framework, has been proven to be a very effective heterogeneous catalyst for the hydrolysis of the peptide bond in a wide range of peptides and in hen egg white lysozyme protein. The kinetic experiments with a series of Gly-X dipeptides with varying nature of amino acid side chain have shown that MOF-808 exhibits selectivity depending on the size and chemical nature of the X side chain. Dipeptides with smaller or hydrophilic residues were hydrolyzed faster than those with bulky and hydrophobic residues that lack electron rich functionalities which could engage in favorable intermolecular interactions with the btc linkers. Detailed kinetic studies performed by 1H NMR spectroscopy revealed that the rate of glycylglycine (Gly-Gly) hydrolysis at pD 7.4 and 60 °C was 2.69 × 10-4 s-1 (t1/2 = 0.72 h), which is more than 4 orders of magnitude faster compared to the uncatalyzed reaction. Importantly, MOF-808 can be recycled several times without significantly compromising the catalytic activity. A detailed quantum-chemical study combined with experimental data allowed to unravel the role of the {Zr6O8} core of MOF-808 in accelerating Gly-Gly hydrolysis. A mechanism for the hydrolysis of Gly-Gly by MOF-808 is proposed in which Gly-Gly binds to two Zr(IV) centers of the {Zr6O8} core via the oxygen atom of the amide group and the N-terminus. The activity of MOF-808 was also demonstrated toward the hydrolysis of hen egg white lysozyme, a protein consisting of 129 amino acids. Selective fragmentation of the protein was observed with 55% yield after 25 h under physiological pH.
- Ly, Hong Giang T.,Fu, Guangxia,Kondinski, Aleksandar,Bueken, Bart,De Vos, Dirk,Parac-Vogt, Tatjana N.
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p. 6325 - 6335
(2018/05/14)
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- Coupling-Reagent-Free Synthesis of Dipeptides and Tripeptides Using Amino Acid Ionic Liquids
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A general method for the synthesis of dipeptides has been developed, which does not require any coupling reagents. This method is based on the reaction of readily available HCl salts of amino acid methyl esters with tetrabutylphosphonium amino acid ionic liquids. The isolation procedure of stepwise treatment with AcOH is easy to carry out. The method was extended to the synthesis of tripeptide, tyrosyl-glycyl-glycine, present in IMREG-1, also.
- Furukawa, Shinya,Fukuyama, Takahide,Matsui, Akihiro,Kuratsu, Mai,Nakaya, Ryotaro,Ineyama, Takashi,Ueda, Hiroshi,Ryu, Ilhyong
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supporting information
p. 11980 - 11983
(2015/08/18)
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- N -boc deprotection and isolation method for water-soluble zwitterionic compounds
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A highly efficient TMSI-mediated deprotection and direct isolation method to obtain zwitterionic compounds from the corresponding N-Boc derivatives has been developed. This method has been demonstrated in the final deprotection/isolation of the β-lactamase inhibitor MK-7655 as a part of its manufacturing process. Further application of this process toward other zwitterionic compounds, such as dipeptides and tripeptides, has been successfully developed. Furthermore, a catalytic version of this transformation has been demonstrated in the presence of BSA or BSTFA.
- Liu, Zhijian,Yasuda, Nobuyoshi,Simeone, Michael,Reamer, Robert A.
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p. 11792 - 11796
(2015/02/19)
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- Direct asymmetric intermolecular aldol reactions catalyzed by amino acids and small peptides
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In nature there are at least nineteen different acyclic amino acids that act as the building blocks of poly-peptides and proteins with different functions. Here we report that α-amino acids, β-amino acids, and chiral amines containing primary amine functions catalyze direct asymmetric intermolecular aldol reactions with high enantio-selectivities. Moreover, the amino acids can be combined into highly modular natural and unusual small peptides that also catalyze direct asymmetric intermolecular aldol reactions with high stereoselectivities, to furnish the corre sponding aldol products with up to > 99% ee. Simple amino acids and small peptides can thus catalyze asymmetric aldol reactions with stereoselectivities matching those of natural enzymes that have evolved over billions of years. A small amount of water accelerates the asymmetric aldol reactions catalyzed by amino acids and small peptides, and also increases their stereoselectivities. Notably, small peptides and amino acid tetrazoles were able to catalyze direct asymmetric aldol reactions with high enantioselectivities in water, while the parent amino acids, in stark contrast, furnished nearly racemic products. These results suggest that the prebiotic oligomerization of amino acids to peptides may plausibly have been a link in the evolution of the homochirality of sugars. The mechanism and stereochemistry of the reactions are also discussed.
- Cordova, Armando,Zou, Weibiao,Dziedzic, Pawel,Ibrahem, Ismail,Reyes, Efraim,Xu, Yongmei
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p. 5383 - 5397
(2008/02/13)
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- The peptide formation mediated by cyanate revisited. N-carboxyanhydrides as accessible intermediates in the decomposition of N-carbamoylamino acids
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Similar to many ureas, N-carbamoylamino acids were shown to be hydrolyzed in aqueous solution through elimination mechanisms at close to neutral pH, the nucleophilic attack of water being a minor process. Two competing elimination mechanisms can take place involving either cyanate or isocyanate transient intermediates. Peptide formation was observed and attributed to the latter pathway through the intermediacy of amino acid N-carboxyanhydride (NCA). Eventually, cyanate and its precursors (including urea) unexpectedly behave as amino acid activating agents because of their ability in amino acid carbamoylation. Owing to its ability to generate a background prebiotic production of NCAs on the primitive Earth, this reaction is suggested to have contributed to the origin of life process. Copyright
- Danger, Gregoire,Boiteau, Laurent,Cottet, Herve,Pascal, Robert
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p. 7412 - 7413
(2007/10/05)
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- Small peptides as modular catalysts for the direct asymmetric aldol reaction: Ancient peptides with aldolase enzyme activity
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Simple peptides and their analogues having a primary amino group as the catalytic residue mediate the direct asymmetric intermolecular aldol reaction with high stereoselectivity and furnish the corresponding aldol products with up to 99% ee; this intrinsic ability of highly modular peptides may explain the initial molecular evolution of aldolase enzymes. The Royal Society of Chemistry 2005.
- Zou, Weibiao,Ibrahem, Ismail,Dziedzic, Pawel,Sunden, Henrik,Cordova, Armando
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p. 4946 - 4948
(2007/10/03)
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- Chromatographic method for the determination of conditional equilibrium constants for the carbamate formation reaction from amino acids and peptides in aqueous solution
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A novel and sensitive method has been developed and evaluated for the study of carbamate formation equilibria of amino acids and peptides in aqueous solution. The method is based on reversed-phase liquid chromatography with cetyltrimethylammonium bromide. The reliability of the method was established by comparing the results determined from the present study with the few data in the literature. The relaxation rate of the carbamate reaction was shown to be faster than the chromatographic distribution relaxation rate (seconds). As a result, the retention time of amine solutes is increased in the presence of CO2. Carbamate formation constants and mole fractions of carbamates at physiological pH of eleven L-α-amino acids and peptides were determined. No correlation between the formation constant and the ammonium pKa was found. There is significant dependence of the amount of a particular amino acid or peptide that exists as carbamate at pH 7.4 on the pKa of the ammonium group, however. This is due to mass action rather than reflecting the influence of pKa on the propensity of the amine to react with CO2. It is suggested that amino acids and peptides with ammonium pKa greater than 9.5 do not form significant amounts of carbamates in aqueous solution near neutral pH.
- Chen, Jian-Ge,Sandberg, Mats,Weber, Stephen G.
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p. 7343 - 7350
(2007/10/02)
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- Direct Cleavage versus Transpeptidation in the Autodecomposition of Peptides Containing 2,4-Diaminobutanoic Acid (DABA) and 2,3-Diaminopropanoic Acid (DAPA) Residues. Specific Cleavage of DAPA-Containing Peptides
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Peptides containing 2,4-diaminobutanoic acid and 2,3-diaminopropanoic acid residues undergo transpeptidation by attack of their side-chain amino groups on the N-carbonyl (eq. 2).Little or no direct cleavage by attack on the C-carbonyl (eq. 1) is observed.The transpeptidation reactions of peptides containing 2,4-diaminobutanoic acid (DABA) or 2,3-diaminopropanoic acid (DAPA) residues reach an equilibrium in which the various peptides studied are about 70-80percent transpeptidized; this extent of transpeptidation is in aggreement with the equilibrium constants for othertransamination reactions.The transpeptidation reaction is strongly catalyzed by phosphate and bicarbonate buffers, and the pH dependence of the reaction suggests that an unprotonated side-chain amino group is required for significant reactivity.The rate of the transpeptidation reaction is retarded by bulky substituents at the α-carbon of the residue at the amino-terminal side of the DAPA or DABA residue.The preference for transpeptidationdirect cleavage in the case of DABA residues can be explained by one or more of the following factors: (1) a preference for (Z)-amide (transpeptidation)(E)-amide (direct cleavage); (2) greater ring strain in the tetrahedral intermediate for direct cleavage; (3) a steric effect resulting from unfavorable interactions in the possible transition states for direct cleavage (Scheme III).A stereoelectronic explanation is considered and rejected.Peptides containing transpeptidized DABA and DAPA residues (isoDABA and isoDAPA residues, respectively) undergo cleavage at the carboxy-terminal side of these residues on treatment with the Edman reagent followed by treatment with trifluoroaceticacid.Peptides can be induced to undergo direct cleavage at the carboxy-terminal side of untranspeptidized DAPA residues by treatment with the Edman reagent followed by heptafluorobutyric acid.The chemical and biological significance of these observations is discussed.
- Blodgett, James K.,Loudon, G. Marc
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p. 6813 - 6821
(2007/10/02)
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- First-Order Rate Constans for the Racemization of Each Component in a Mixture of Isomeric Dipeptides and their Diketopiperazines
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L-Alanylglycine (L-Ala-Gly), glycyl-L-alanine (Gly-L-Ala), and c-L-Ala-Gly were racemized at 120 deg C in aqueous phosphate-buffered solutions at pH 8.0, a pH value near maximum racemization.The kinetics were followed by regression analysis.The racemization of Ala-Gly and Gly-Ala closelly followed reversible first-order kinetics.The initial rate of racemisation of DKP was fast but soon slowed, likely because of hydrolysis to the dipeptides.The resulting rate was similar to that of the dipeptides.The observed racemization rate constans of the dipeptides and DKP were shown to be independent of the concentration of the peptides and the concetration of buffer.Component isolation studies using preparative TLC and chiral-phase GC analysis, coupled with computer analysis, showed an equilibrium existing between Ala-Gly, Gly-Ala, and DKP and the individual rates of racemization.At equilibrium, the mole fractions are as follows: Ala-Gly, 0.57; DKP, 0.22; Gly-Ala, 0.21.The rate constant for racemization of DKP was only 2 times that of Gly-Ala and 7 times the rate of Ala-Gly.Ala-Gly racemized 20 times and Gly-Ala 66 times faster than free alanine.The results support the influence of neighboring groups in the racemization of dipeptides.Factors that contribute to the rapid racemization (epimerization) are discussed.
- Smith, Grant Gill,Baum, Rocky
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p. 2248 - 2255
(2007/10/02)
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- The Steric Hindrance of the Stepwise Reaction of N-Carboxy α-Amino Acid Anhydride with the α-Amino Acid Ester
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The mechanisms of the reactions of 4-alkyloxazolidinediones (1) (N-carboxy α-amino acid anhydrides(NCAs)) with α-amino acid benzyl ester p-toluenesulfonates (2) were investigated in acetonitrile containing triethylamine at low and room temperatures.Two types of reactions were observed: (1) the polymerization of NCAs was initiated with a small amount of 2 to produce polypeptides (6), and (2) the dipeptide benzyl esters (4) were produced by the stepwise reaction of NCAs with the esters.Both the polymerization and the dipeptide formation (1+2) seemed to be initiated by the nucleophilic attack of the amino group of the ester on the C-5 carbon of NCAs.The polymerization proceeded when the side chains of the amino acid esters (R2) were more bulky than those of the NCAs (R1).On the contrary, dipeptide esters were produced when the side chains of the NCAs (R1) were more bulky than those of the esters (R2).
- Oya, Masanao,Takahashi, Tomoko
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p. 2705 - 2707
(2007/10/02)
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- PREPARATIVE ISOLATION AND PROPERTIES OF DIASTEREOMERIC COPPER(II) CHELATES OF SCHIFF BASES OF DIPEPTIDES WITH (α-(N,N-DIMETHYLAMINO)ALKYL)FORMYLCYMANTRENES
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The effect of the planar and central chirality of 1,2-(α-(N,N-dimethylamino)alkyl)formylcymantrene on the chromatographic properties of diastereomeric chelates of Cu2+ with Schiff bases from dipeptides and the aminoalkylformylcymantrenes, 1-(N,
- Tsiryapkin, V. A.,Loim, N. M.,Nedospasova, L. V.,Parnes, Z. N.,Belikov, V. M.,Kursanov, D. N.
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