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  • Analytical Chemistry and Spectroscopy  (3)
  • proline helices  (2)
  • substituted proline residues  (2)
  • β-sandwich  (2)
  • Rhithropanopeus harrisii  (1)
Document type
Keywords
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  • 1
    ISSN: 1573-1561
    Keywords: Rhithropanopeus harrisii ; crab ; Crustacea ; larval release pheromone ; peptide pheromone ; trypsin
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Chemistry and Pharmacology
    Notes: Abstract Studies of crab egg hatching and larval release behavior in the crab,Rhithropanopeus harrisii, generated a model describing the process. In the model, carboxyl terminal arginine peptides serve as pheromones that synchronize larval release. In response to the peptides, the female performs Stereotypic larval release behavior and casts larvae into the water column. The peptides originate from trypsin-like enzymatic activity as part of the egghatching process. Hatching can be simulated experimentally by incubating ovigerous crabs in either bovine or porcine trypsin. The female performs the larval release behavior. Eggs detach from the female, and immobile larvae hatch prematurely. Preincubation of trypsin with trypsin inhibitors eliminates these effects. Approximately nanomolar concentrations of five different polypeptide trypsin inhibitors evoke the female's larval release behavior. Because both peptides and trypsin inhibitors evoke larval release behavior and because trypsin inhibitors bind to both the peptide receptor and the enzyme with high affinity, the receptor binding site and trypsin catalytic site must be very similar. A relationship between the binding site of a peptide receptor and the catalytic site of trypsin is postulated. The difference may be substitution by a basic amino acid for the catalytic site serine. Molecular graphics modeling indicates that all necessary conditions for receptor binding can be met by substitution with lysine for the active site serine in the trypsin catalytic site. This substitution eliminates catalytic activity, maintains the binding affinity for trypsin inhibitors, and increases binding strength for peptides.
    Type of Medium: Electronic Resource
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  • 2
    ISSN: 1573-3904
    Keywords: β-sandwich ; de novo design ; protein engineering ; protein fibrils
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Notes: Abstract The inverse protein-folding problem has been explored by designing de novo the betabellin target structure (a 64-residue β-sandwich protein), synthesizing a 32-residue peptide chain (HSLTAKIpkLTFSIAphTYTCAVpkYTAKVSH, where p = DPro, k = DLys, and h = DHis) that might fold into this structure, and studying how its disulfide-bridged form (betabellin 15D) folds in 10 mM ammonium acetate with and without Cu2+. Circular dichroic spectropolarimetry indicated that at pH 5.8, 6.4, or 6.7 betabellin 15D exhibited β-sheet structure in the presence of Cu2+ but not in its absence. Electrospray mass spectrometry demonstrated that at pH 6.3 each molecule of betabellin 15D bound one or two Cu(II) ions. Electron microscopy showed that at pH 6.7 betabellin 15D formed short broad fibrils in the presence of Cu2+ but not in its absence. The observed width of the fibrils (7 ± 2 nm) was consistent with the width (6.8 nm) of a structural model of a fibril that contained two adjacent rows of betabellin 15D β-sandwiches joined lengthwise by multiple intersheet hydrogen bonds and widthwise by multiple Cu(II)-imidazole bonds. Electron paramagnetic resonance spectrometry revealed that some pairs of Cu(II) ions in a Cu(II)/betabellin 15D complex were magnetically coupled, which is consistent with the structural model of the Cu(II)/betabellin 15D fibril.
    Type of Medium: Electronic Resource
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  • 3
    ISSN: 1573-3904
    Keywords: biexponential kinetics ; proline helices ; substituted proline residues
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Notes: Abstract The kinetics of isomerization of the helical forms of three oligoprolines was determined by far-ultraviolet CD spectropolarimetry and kinetic analysis by singular value decomposition. ZRA (Pro3-X-Pro2-Y-Pro2-Z-Pro3) and ZRA2 (Pro7-X-Pro2-Y-Pro2-Z-Pro7) bear large redox-active substituents on proline residues X, Y, and Z, but P9 (Pro9) does not. All three peptides formed a stable proline-II helix in water. In acetonitrile, both ZRA2 and P9 were converted into a proline-I helical form but ZRA remained predominantly in the proline-II helical form. Evidently, in order to undergo substantial proline II→I isomerization, an oligoproline chain containing large substituents needs to have a segment of consecutive unsubstituted proline residues that is sufficiently long to form a stable proline helix. Biexponential kinetics (A→B, k1 = ∼3.3 × 10-4 s-1; B→C, k2 = ∼0.8 × 10-4 s-1) were observed for the proline II→I isomerization of ZRA2 and P9 in acetonitrile and for the proline I→II isomerization of ZRA2 in water, which provides evidence for the growth and decay of a major kinetic intermediate.
    Type of Medium: Electronic Resource
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  • 4
    ISSN: 1573-3904
    Keywords: β-sandwich ; de novo design ; protein engineering ; protein fibrils
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Notes: Summary The inverse protein-folding problem has been explored by designing de novo the betabellin target structure (a 64-residue β-sandwich protein), synthesizing a 32-residue peptide chain (HSLTAKIpkLTFSIAphTYTCAVpkYTAKVSH, wherep=DPro,k=DLys, andh=DHis) that might fold into this structure, and studying how its disulfide-bridged form (betabellin 15D) folds in 10 mM ammonium acetate with and without Cu2+. Circular dichroic spectropolarimetry indicated that at pH 5.8, 6.4, or 6.7 betabellin 15D exhibited β-sheet structure in the presence of Cu2+ but not in its absence. Electrospray mass spectrometry demonstrated that at pH 6.3 each molecule of betabellin 15D bound one or two Cu(II) ions. Electron microscopy showed that at pH 6.7 betabellin 15D formed short broad fibrils in the presence of Cu2+ but not in its absence. The observed width of the fibrils (7±2 nm) was consistent with the width (6.8nm) of a structural model of a fibril that contained two adjacent rows of betabellin 15D β-sandwiches joined lengthwise by multiple intersheet hydrogen bonds and widthwise by multiple Cu(II)-imidazole bonds. Electron paramagnetic resonance spectrometry revealed that some pairs of Cu(II) ions in a Cu(II)/betabellin 15D complex were magnetically coupled, which is consistent with the structural model of the Cu(II)/betabellin 15D fibril.
    Type of Medium: Electronic Resource
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  • 5
    ISSN: 1573-3904
    Keywords: biexponential kinetics ; proline helices ; substituted proline residues
    Source: Springer Online Journal Archives 1860-2000
    Topics: Chemistry and Pharmacology
    Notes: Summary The kinetics of isomerization of the helical forms of three oligoprolines was determined by far-ultraviolet CD spectropolarimetry and kinetic analysis by singular value decomposition. ZRA (Pro3-X-Pro2-Y-Pro2-Z-Pro3) and ZRA2 (Pro7-X-Pro2-Y-Pro2-Z-Pro7) bear large redox-active substituents on proline residues X, Y, and Z, but P9 (Pro9) does not. All three peptides formed a stable proline-II helix in water. In acetonitrile, both ZRA2 and P9 were converted into a proline-I helical form but ZRA remained predominantly in the proline-II helical form. Evidently, in order to undergo substantial proline II→I isomerization, an oligoproline chain containing large substituents needs to have a segment of consecutive unsubstituted proline residues that is sufficiently long to form a stable proline helix. Biexponential kinetics (A→B, k1=∼3.3×10−4s−1; B→C, k2=∼0.8×10−4s−1) were observed for the proline II→I isomerization of ZRA2 and P9 in acetonitrile and for the proline I→II isomerization of ZRA2 in water, which provides evidence for the growth and decay of a major kinetic intermediate.
    Type of Medium: Electronic Resource
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  • 6
    ISSN: 0951-4198
    Keywords: Chemistry ; Analytical Chemistry and Spectroscopy
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Physics
    Notes: Low-energy collisionally activated decomposition (CAD) and unimolecular decomposition of the [M + H]+ ions for X-L-Pro-L-Phe, where X is L-Ala, D-Ala, L-Asp, or D-Asp, allow easy differentiation between the LLL and DLL diastereomers. Tandem mass spectrometric (MS/MS) studies of the [M + H]+ ions formed by fast-atom bombardment (FAB) at various ion kinetic energies (Elab values) on a hybrid tandem instrument produced ions of different intensities for the diastereomers. The ratio of NH3 to H2O loss is 0.3 for the L-Ala peptide but 1.7 for the D-Ala isomer at 5 eV. In some L-Ala spectra, the [M + H - NH3]+ ion does not appear at all. The y2 ion is up to twice as abundant in the L-Ala spectra as in the D-Ala, while the b2 ion is somewhat more abundant for CAD of the D-Ala peptide for most collision energies investigated. The D-Asp peptide produces a b2 ion that is more than half-again as abundant as in the case of the L-Asp isomer, and an [M + H - H2O]+ ion that is up to twice as abundant in the D-Asp CAD spectra as in those of the L-Asp. The y1, a2, and phenylalanine immonium ions are each up to twice as abundant in the L-Asp spectra as in those of the D-Asp isomer. The major differences are correlated with force-field calculations on hydrogen-bonded tautomers.
    Additional Material: 1 Ill.
    Type of Medium: Electronic Resource
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  • 7
    ISSN: 0030-493X
    Keywords: Chemistry ; Analytical Chemistry and Spectroscopy
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The types and intensities of tandem mass spectrometric products of side-chain interactions were investigated with a hybrid tandem instrument. Positive-ion unimolecular decomposition and collisionally activated decomposition studies were conducted on the [M + H]+ ions of two N-benzyloxycarbonyl (Cbz or Z)-protected tripeptides, Cbz-Gly-Leu-Arg-NH2 and Cbz-Gly-Pro-Arg-NH2. The loss of benzyl alcohol (108 u) and the formation of other significant product ions and their dependence on collision energy and gas pressure suggest reaction between both ends of the molecule. Replacement of leucine with proline at the second position in the tripeptide produces a very intense [M + H - 108]+ ion and fewer lower mass fragment ions in the tandem mass spectra for Cbz-Gly-Pro-Arg-NH2 than in those for Cbz-Gly-Leu-Arg-NH2.
    Additional Material: 3 Ill.
    Type of Medium: Electronic Resource
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  • 8
    ISSN: 0030-493X
    Keywords: Chemistry ; Analytical Chemistry and Spectroscopy
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: The effect of the basicity and chain length of the C-terminal amino acid on the fragmentation of N-protected tripeptides was investigated with a hybrid tandem instrument. Positive-ion unimolecular decomposition and colisionally activated decomposition studies on the [M + H]+ ions of a series of N-benzyloxycarbonyl (Cbz or Z)-protected tripeptides, Cbz-Gly-Leu-Xxx-OMe and Cbz-Gly-Pro-Xxx-OMe, where Xxx = Arg, Lys, Orn, Gln and Glu, indicate that substitution of leucine with proline at the second position in the tripeptides facilitates the loss of benzyl alcohol (108 u) from the precursor. Additionally, higher gas-phase basicity and longer chain length of the C-terminal side-chain group promote the formation of the [M + H - 108]+ ion.
    Additional Material: 3 Ill.
    Type of Medium: Electronic Resource
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