Metal ions as selective triggers for removing oligodeoxynucleotide phosphotriester protecting groups

The o-bromophenyl group was successfully tested as a phosphotriester protecting group for internucleotide bonds. This protecting group can be readily and selectively removed using various transition metal salts in aqueous pyridine.     

Metal binding ability of cysteine-rich peptide domain of ZIP13 Zn2+ ions transporter

The coordination modes and thermodynamic stabilities of the complexes of the cysteine-rich N-terminal domain fragment of the ZIP13 zinc transporter (MPGCPCPGCG-NH(2)) with Zn(2+), Cd(2+), Bi(3+), and Ni(2+) have been studied by potentiometric, mass spectrometric, NMR, CD, and UV-vis spectroscopic methods. All of the studied metals had similar binding modes, with the three thiol sulfurs of cysteine residues involved in metal ion coordination. The stability of the complexes formed in solution changes in the series Bi(3+) ? Cd(2+) > Zn(2+) > Ni(2+), the strongest being for bismuth and the weakest for nickel. The N-terminal fragment of the human metalothionein-3 (MDPETCPCP-NH(2)) and unique histidine- and cysteine-rich domain of the C-terminus of Helicobacter pyroli HspA protein (Ac-ACCHDHKKH-NH(2)) have been chosen for the comparison studies. It confirmed indirectly which groups were the anchoring ones of ZIP13 domain. Experimental data from all of the used techniques and comparisons allowed us to propose possible coordination modes for all of the studied ZIP13 complexes.     

Production of C-terminal amidated recombinant salmon calcitonin in Streptomyces lividans

Salmon calcitonin (sCT) is one of the many bioactive peptides that require C-terminal amidation for full biologic activity. To produce fully bioactive sCT in large scale, we constructed Streptomyces lividans [pMSA], an engineering Streptomyces strain. In the expression vector, glycine-extended sCT, the substrate for amidation, and rat α-amidating enzyme cDNA were cloned under the control of the strong constitutive promoter from the Streptomyces fradiae aph gene in pIJ680. Both were expressed in a secretory manner by the recombinant strain using the expression and secretion signals of melC1. Extracellularly expressed recombinant sCT was purified to near homogeneity and characterized by enzyme immunoassay, followed by direct amino-terminal sequencing. High-performance liquid chromatography, matrixassisted laser desorption ionization-time-of-flight mass spectrometry, and bioassay in vivo demonstrated purified product to be equivalent to synthetic standard. Thus, the engineered Streptomyces strain can produce bioactive, C-terminal amidated recombinant sCT in the culture supernatant directly. The ease of the recombinant process, as well as its potential for scale-up, makes it adaptable to production demands for sCT, and it may be applied to other bioactive peptides that need C-terminal amidation.     

Synthesis of salmon calcitonin, a high activity hypocalcemic hormone

A total synthesis of salmon calcitonin is described. The C-terminal nonapeptide amide 24–32 was coupled with the heptapeptide 17–23. The resulting hexadecapeptide amide 17–32 was reacted with the heptapeptide 10–16 to give the tricosapeptide 10–32. This was condensed with the N-terminal nonapeptide 1–9, yielding the protected dotriacontapeptide amide 1–32. After removal of the protective groups and purification by gel-filtration the free peptide obtained exhibited the physical, chemical and biological properties of the natural hormone. Its hypocalcaemic activity (ca. 3500 MRC U/mg) is 20–30 times higher than that of porcine or human calcitonin.     

Thermodynamics and kinetics of aggregation for the GNNQQNY peptide

The energy landscape of the monomer and dimer are explored for the amyloidogenic heptapeptide GNNQQNY from the N-terminal prion-determining domain of the yeast protein Sup35. The peptide is modeled by a united-atom potential and an implicit solvent representation. Replica exchange molecular dynamics is used to explore the conformational space, and discrete path sampling is employed to investigate the pathways that interconvert the most populated minima on the free energy surfaces. For the monomer, we find a rapid fluctuation between four different conformations, where a geometry intermediate between compact and extended structures is the most thermodynamically favorable. The GNNQQNY dimer forms three stable sheet structures, namely in-register parallel, off-register parallel, and antiparallel. The antiparallel dimer is stabilized by strong electrostatic interactions resulting from interpeptide hydrogen bonds, which restrict its conformational flexibility. The in-register parallel dimer, which is close to the amyloid beta-sheet structure, has fewer interpeptide hydrogen bonds, making hydrophobic interactions more important and increasing the conformational entropy compared to the antiparallel sheet. The estimated two-state rate constants indicate that the formation of dimers from monomers is fast and that the dimers are kinetically stable against dissociation at room temperature. Interconversions between the different dimers are feasible processes and are more likely than dissociation.     

Fragmentation of amidinated peptide ions

The collision-induced dissociation characteristics of amidinated and unmodified tryptic peptides are compared using an ion trap mass spectrometer with both electrospray ionization and matrix-assisted laser/desorption ionization (MALDI). Several fragmentation pathways in a number of tryptic peptides of various precursor charge states are found to be enhanced. The additional information conveyed by the observed fragment ions should facilitate protein identifications.     

Dissociation kinetics of peptide ions

The dissociation of peptide ions has been found to have ultrafast components that in many ways are uniquely different from typical unimolecular kinetics. As such, some peptide reactions provide new channels, which do not conform to statistical models of reaction kinetics. When the dissociation rates are in the 100 fs range, they are in a time scale where statistical methods do not yet apply, although molecules that have not yet dissociated will later in time undergo statistical redistribution of their excess energy, which, however, may not lead to noticeable reactivity within the experimental time frames for large peptides and hence are simply dissipative. This work is meant to reconcile the long time statistical results of Lifshitz et al. (2003) with the work of Schlag et al. (1995/6) that suggests an alternate parallel and much faster time scale for dissociation. It is argued that the two sets of results and interpretations augment one another and in fact open up a most interesting new field of peptide kinetics in addition to the unimolecular behavior, which becomes de facto arrested by the shear size of the molecule being unable to find a transition state on any reasonable time scale.     

Spectroscopic investigations of metalloporphyrin-oligopeptide systems: evidence for peptide aggregation

Anionic pentapeptides consisting of a string of four glutamic acid residues terminated by either tyrosine (Glu4Tyr) or tryptophan (Glu4Trp) were synthesized, and their aggregation properties in buffered (pH = 7.0) aqueous solutions were investigated using two different approaches. In the first approach, the effects of the concentration of peptide used as its own probe (intrinsic probe) on its fluorescence emission, circular dichroism, surface tension, and solution pH yielded similar critical peptide concentrations of around 175 microM. This particular concentration was taken as evidence for peptide aggregation. In the second approach, peptide aggregation was investigated using cationic metalloporphyrins, tetrakis(N-methyl-4-pyridyl)porphyrin (Pd(II)TMPyP(4+) and Zn(II)TMPyP(4+)), as extrinsic probes. The effect of peptide concentration on porphyrin ground-state absorption confirmed peptide aggregation, but at a lower critical peptide concentration near 125 microM. This difference was attributed to the possible distortion introduced by the association of one (or more) large metalloporphyrin molecule with the peptide aggregates. Evidence for peptide aggregation was also demonstrated from the effect of peptide concentration on Pd(II)TMPyP(4+) triplet-state decay. The fast component (k(f), associated with electron transfer from the target Tyr and Trp residues to the porphyrin triplet state) was found to be independent of peptide concentration, implying no noticeable effect of peptide aggregation on the electron-transfer event. This was attributed to the fact that species formed by excitation of porphyrin associated with ion-pair complexes or bound to peptide aggregates and the diffusion together of the separate T(1) and peptide entities in the bulk phase are kinetically similar. On the other hand, the slower component (k(s)) of the decay, which is associated with the diffuse formation of an encounter complex between the free peptide and T(1) porphyrin (bulk phase), was peptide-dependent and displayed a critical peptide concentration near 125 microM, above which it became practically independent of peptide concentration. This invariance of k(s) was taken as an indication that the free peptide concentration in the bulk phase remains constant above 125 microM, the concentration at which peptide molecules prefer to associate as aggregates.     

Metal ions and complexes as modulators of protein-interfacial electron transport at graphite electrodes

An extensive investigation of the direct (unmediated) electrochemical activity of various redox proteins at pyrolytic graphite electrodes has been undertaken. With the exception of the “blue” copper protein azurin, a profound preference for the hydrophilic “edge” over the hydrophobic “basal” plane orientation of the graphite surface is observed. This may be identified with the presence of various oxidised (CO) functionalities at the polished “edge” surface which, most probably in a random manner, constitute reversible and productive binding domains for the proteins. Conditions under which the rates and reversibility of heterogenous electron transport may be optimised depend upon the protein under examination. Well-behaved electrochemistry, indicate of diffusion-dominated heterogeneous electron transport, is modulated by electrode surface protonation (pK = 5.6) and levels of redox-inert multivalent cations, including Mg²⁺ and Cr(NH₃)³⁺₆. The electrochemistry of several proteins which have negatively charged interaction domains, including plastocyanin, and chloroplast and bacterial ferrodoxins, is promoted and stabilised by electrode surface protonation, and interfacial binding of multivalent cations which is attenuated at high ionic strength. Coversely, the electrochemistry of horse-heart cytochrome c, for which the region around the exposed heme edge carries a net positive charge, is inhibited by electrode surface protonation and destablished by the presence of multivalent cations. These patterns of behaviour may be rationalised in terms of a heterogeneous electrode surface which comprises regions of hydrophilic polar groups at which proteins may associate reversibly if resultant coulombic interactions are favourable, and regions of extensive hydrophobicity at which less reversible and (probably) degradative adsorption occurs. Within this basic model, there is considerable scope for domain selectivity which may arise from variations in medium and short range order and distribution of CO functionalities. Implications for the control of in vivo electron-transport processes are discussed.     

Cyclization of peptide b9 ions

The product ion mass spectra obtained by CID of the b₉ ions derived by loss of neutral alanine from the MH⁺ ion of the peptides Tyr(Ala)₉, (Ala)₄Tyr(Ala)₅, and (Ala)₈TyrAla are essentially identical, indicative of full cyclization reaction to a common intermediate before fragmentation. This leads to abundant nondirect sequence ions in the product ion mass spectra of the b₉ ions. The product ion mass spectra of the b₈ ions from the first two peptides also are essentially identical. The fragmentation of the MH⁺ ions also leads to low intensity nondirect sequence ions in the product ion mass spectra. N-terminal acetylation blocks the cyclization and eliminates nondirect sequence fragment ions in the product ion mass spectra.     

Synthesis and study of the biological activity of fragments of salmon calcitonin II

A number of fragments of salmon calcitonin II possessing analgesic activity of the nonopioid type have been synthesized.Institute of High-Molecular-Mass Compounds, Russian Academy of Sciences. Institute of Experimental Medicine, Russian Academy of Medical Sciences, St. Petersburg. Translated from Khimiya Prirodnykh Soedinenii, No. 1, pp. 126–132, January–February, 1993.     

A dansylated peptide for the selective detection of copper ions

A new peptidyl fluorescent chemosensor for the selective detection of copper ions was studied.     

Influence of the mobile phase on salmon calcitonin analysis by reversed-phase liquid chromatography

The retention properties of calcitonins on a reversed-phase column are examined using salmon calcitonin as the model compound. The effect of the concentration of organic modifier, buffer strength, pH of the mobile phase, and ion-pair reagent are studied. In the absence of an ionic modifier in the eluent the calcitonin peak shapes are not symmetrical. The addition of 0.1% trifluoroacetic acid (TFA), however, results in good peak characteristics without the need to add nonvolatile salts. The retention of the calcitonins was found to be very sensitive to the concentration of the organic modifier (acetonitrile) present in the mobile phase. A change of pH between 2 and 5 has only a slight effect of the k' of salmon calcitonin, but the k' increases significantly at higher pH values. The addition of a phosphate buffer to the mobile phase and an increase in the buffer concentration (0-0.2 M) causes a decrease in the retention of salmon calcitonin. Evidence shows that reproducible, quantitatively measurable data can be obtained using reversed-phase chromatography if the ion-pairing reagent and organic modifier concentrations are carefully controlled. The system also shows a good selectivity for the calcitonin series. Therefore, both highly selective methods (qualitative) as well as quantitative methods for analytical, pharmaceutical, and manufacturing use can be developed by adjusting the high-performance liquid chromatography (HPLC) conditions as discussed.     

Covalent modification of gaseous peptide ions with N-hydroxysuccinimide ester reagent ions

Covalent modification of primary amine groups in multiply protonated or deprotonated polypeptides in the gas phase via ion/ion reactions is demonstrated using N-hydroxysuccinimide (NHS) esters as the modifying reagents. During the ion/ion reaction, the peptide analyte ions and the NHS or sulfo-NHS based reagent form a long-lived complex, which is a prerequisite for the covalent modification chemistry to occur. Ion activation of the peptide-reagent complex results in a neutral NHS or sulfo-NHS molecule loss, which is a characteristic signature of covalent modification. As the NHS or sulfo-NHS group leaves, an amide bond is formed between a free, unprotonated, primary amine group of a lysine side chain in the peptide and the carboxyl group in the reagent. Subsequent activation of the NHS or sulfo-NHS loss product ions results in sequence informative fragment ions containing the modification. The N-terminus primary amine group does not make a significant contribution to the modification process; this behavior has also been observed in solution phase reactions. The ability to covalently modify primary amine groups in the gas phase with N-hydroxysuccinimide reagents opens up the possibility of attaching a wide range of chemical groups to gaseous peptides and proteins and also for selectively modifying other analytes containing free primary amine groups.     

Metal clusters as ligands. Substitution of fe ions in Fe/Mo/S clusters by thiophilic CuI ions

The reactivity of Fe/S and Fe/Mo/S clusters, similar or analogous to those occurring in biological systems, with thiophilic metal ions has not been explored. In this Communication, we demonstrate that synthesis of heteropolynuclear clusters with different coordination geometries for different metals at different sites is possible by metal substitution or by metal addition reactions. The two clusters we report herein ([(Cl4-cat)2Mo2Cu5Fe4S9(PnPr3)7(SPnPr3)2]PF6 and [(Cl4-cat)2Mo2Cu6Fe4S10(PnPr3)8]) contain Fe, Mo, and Cu, which display pseudotetrahedral, pseudooctahedral, and pseudotrigonal geometries, respectively. The synthesis of these clusters is achieved by the addition of appropriate amounts of [Cu(CH3CN)4]+ to [(Cl4-cat)2Mo2Fe8(PnPr3)6]. The formation of the different products is temperature- and solvent-dependent. The Cu(I) units incorporated into the metal cluster framework, either bind to available lone pairs of the already bridging S ligands or displace the less thiophilic Fe atoms. Among the essential features of these new molecules are recognizable Fe/S fragments including an Fe6S9 core in the first cluster and the pentlandite Fe4Cu4S6 core in the second cluster.     

Gas-phase conformation-specific photofragmentation of proline-containing peptide ions

Singly-protonated proline-containing peptides with N-terminal arginine are photodissociated with vacuum ultraviolet (VUV) light in an ESI linear ion trap/orthogonal-TOF (LIT/o-TOF). When proline is the n^th residue from the N-terminus, unusual b _n + 2 and a _n + 2 ions are observed. Their formation is explained by homolytic cleavage of the C_α− C bond in conjunction with a rearrangement of electrons and an amide hydrogen. The latter is facilitated by a proline-stabilized gas-phase peptide conformation.