Binding of Cu+ and Cu2+ with peptides: Peptides = oxytocin,Arg8‐vasopressin,bradykinin, angiotensin‐I,substance‐P,somatostatin, and neurotensin

The intrinsic binding ability of 7 natural peptides (oxytocin, arg⁸‐vasopressin, bradykinin, angiotensin‐I, substance‐P, somatostatin, and neurotensin) with copper in 2 different oxidation states (Cu^I/II) derived from different Cu^+/2+ precursor sources have been investigated for their charge‐dependent binding characteristics. The peptide‐Cu^I/II complexes, [M − (n‐1)H + nCu^I] and [M − (2n‐1)H + nCu^II], are prepared/generated by the reaction of peptides with CuI solution/Cu‐target and CuSO₄ solution and are analyzed by using matrix‐assisted laser desorption/ionization (MALDI) time‐of‐flight mass spectrometry. The MALDI mass spectra of both [M − (n‐1)H + nCu^I] and [M − (2n‐1)H + nCu^II] complexes show no mass shift due to the loss of ─H atoms in the main chain ─NH of these peptides by Cu⁺ and Cu²⁺ deprotonation. The measured m/z value indicates the reduction of Cu^I/II oxidation state into Cu⁰ during MALDI processes. The number and relative abundance of Cu⁺ bound to the peptides are greater compared with the Cu²⁺ bound peptides. Oxytocin, arg⁸‐vasopressin, bradykinin, substance‐P, and somatostatin show the binding of 5Cu⁺, and angiotensin‐I and neurotensin show the binding of 7Cu⁺ from both CuI and Cu targets, while bradykinin shows the binding of 2Cu²⁺, oxytocin, arg⁸‐vasopressin, angiotensin‐I, and substance‐P; somatostatin shows the binding of 3Cu²⁺; and neurotensin shows 4Cu²⁺ binding. The binding of more Cu⁺ with these small peptides signifies that the bonding characteristics of both Cu⁺ and Cu²⁺ are different. The amino acid residues responsible for the binding of both Cu⁺ and Cu²⁺ in these peptides have been identified based on the density functional theory computed binding energy values of Cu⁺ and the fragment transformation method predicted binding preference of Cu²⁺ for individual amino acids.     

Effects of acidic peptide size and sequence on trivalent praseodymium adduction and electron transfer dissociation mass spectrometry

Using the lanthanide ion praseodymium, Pr(III), metallated ion formation and electron transfer dissociation (ETD) were studied for 25 biological and model acidic peptides. For chain lengths of seven or more residues, even highly acidic peptides that can be difficult to protonate by electrospray ionization will metallate and undergo abundant ETD fragmentation. Peptides composed of predominantly acidic residues form only the deprotonated ion, [M + Pr ‐ H]²⁺; this ion yields near complete ETD sequence coverage for larger peptides. Peptides with a mixture of acidic and neutral residues generate [M + Pr]³⁺, which cleaves between every residue for many peptides. Acidic peptides that contain at least one residue with a basic side chain also produce the protonated ion, [M + Pr + H]⁴⁺; this ion undergoes the most extensive sequence coverage by ETD. Primarily metallated and non‐metallated c‐ and z‐ions form for all peptides investigated. Metal adducted product ions are only present when at least half of the peptide sequence can be incorporated into the ion; this suggests that the metal ion simultaneously attaches to more than one acidic site. The only site consistently lacking dissociation is at the N‐terminal side of a proline residue. Increasing peptide chain length generates more backbone cleavage for metal‐peptide complexes with the same charge state. For acidic peptides with the same length, increasing the precursor ion charge state from 2+ to 3+ also leads to more cleavage. The results of this study indicate that highly acidic peptides can be sequenced by ETD of complexes formed with Pr(III). Copyright © 2017 John Wiley & Sons, Ltd.     

Rapid, multiplexed microfluidic phage display

The development of a method for high-throughput, automated proteomic screening could impact areas ranging from fundamental molecular interactions to the discovery of novel disease markers and therapeutic targets. Surface display techniques allow for efficient handling of large molecular libraries in small volumes. In particular, phage display has emerged as a powerful technology for selecting peptides and proteins with enhanced, target-specific binding affinities. Yet, the process becomes cumbersome and time-consuming when multiple targets are involved. Here we demonstrate for the first time a microfluidic chip capable of identifying high affinity phage-displayed peptides for multiple targets in just a single round and without the need for bacterial infection. The chip is shown to be able to yield well-established control consensus sequences while simultaneously identifying new sequences for clinically important targets. Indeed, the confined parameters of the device allow not only for highly controlled assay conditions but also introduce a significant time-reduction to the phage display process. We anticipate that this easily-fabricated, disposable device has the potential to impact areas ranging from fundamental studies of protein, peptide, and molecular interactions, to applications such as fully automated proteomic screening.     

Ternary eluent compositions in supercritical fluid chromatography improved fingerprinting of therapeutic peptides

Currently, little information has been published on the application of ternary eluent compositions in supercritical fluid chromatography for separating peptides. This work investigates the benefits of adding acetonitrile to methanol as the modifier. Three cyclic antibiotic peptides (bacitracin, colistin, and daptomycin) ranging between 1000 and 2000 Da were chosen as model substances. The ternary mixture of carbon dioxide, methanol, and acetonitrile is optimized to increase the resolution of the peptide's fingerprint. In addition, varying compositions of methanol and acetonitrile were found to change the elution order of the analytes, which is a valuable tool during method development. An individual gradient method using two Torus 2-PIC columns (each 100 × 3.0 mm, 1.7 μm), carbon dioxide, and a modifier consisting of acetonitrile/methanol/water/methanesulfonic acid (60:40:2:0.1, v:v:v:v) was optimized for each of the peptides. Subsequently, a generic method development protocol applicable to polypeptides is proposed.     

Characterization of AMPylation on Threonine,Serine, and Tyrosine Using Mass Spectrometry

Recent studies have suggested that adenosine 5'-monophosphate (AMP) post-translational modification of proteins could represent a novel molecular signaling pathway. Mass spectrometric fragmentation characteristics of this modification have not previously been described and studied systematically. In this work, we therefore examined the fragmentation pattern of chemically synthesized peptides containing AMPylated Thr, Ser, and Tyr. The formation of characteristic ions and the influence of collision energy (CE) on the detection of characteristic ions and their relative peak intensity are reported. When peptide with AMPylated Ser/Thr underwent collision induced dissociation (CID), peaks at m/z 348.1, 136.1, and 250.1, fragments with AMP group attached, and fragments consistent with neutral loss of 347 Da were major characteristic ions; fragments consistent with neutral loss of 135 Da or 249 Da were weaker and not always detectable. The observations for Tyr AMPylation followed the same general patterns as those for Ser/Thr modification, with the exception that the ions detected for Tyr AMPylation did not include either the peak at m/z 348.1, or fragments with a mass shift of –347 Da. The results described in this paper highlight a series of diagnostic ions, which can be used not only to confidently identify the AMPylation site based on MS and MS/MS data, but also to selectively scan AMPylated peptides in complex protein mixtures.     

Minimal deuterium isotope effects in quantitation of dimethyl-labeled complex proteomes analyzed with capillary zone electrophoresis/mass spectrometry

Stable heavy-isotope labeling is commonly used in quantitative proteomics. Several common techniques incorporate deuterium (²H) as the heavy isotopic label using reductive amination with formaldehyde. Compared with alternatives, dimethyl labeling reagents are inexpensive and the labeling chemistry is simple and rapid. However, the substitution of hydrogen by deuterium can introduce subtle changes in peptides’ polarities, leading to a shift in chromatographic retention times between deuterated and nondeuterated peptides that can lead to quantification deviations. Capillary zone electrophoresis has emerged as a complementary separation for ESI–MS-based proteomics, including targeted and quantitative approaches. The extent to which the deuterium isotope effect impacts CZE-based proteomics, which separates peptides based on their S/N ratios, has not been investigated. To address this issue, CZE was used to analyze dimethyl labeled E. coli tryptic digests in 100 min single-shot analyses. The median migration time shift was 0.1 s for light versus heavy labeled peptides, which is 2.5% of the peak width. For comparison, nUHPLC–ESI–MS/MS was used to analyze the same sample. In UPLC, deuterated peptides tended to elute earlier than nondeuterated peptides, with a retention shift of 3 s for light versus heavy labeled peptides, which is roughly half the peak width. This shift in separation time did not have a significant effect on quantitation for either method for equal mixing ratios of the light-intermediate-heavy isotope labeled samples.     

Capillary electrophoresis study of systemin peptides spreading in tomato plant

Systemin (Sys) is an 18‐aa plant peptide hormone involved in the regulation of plant's defensive response. Sys is considered as a fast‐spreading systemic wound signal. We developed a simple and rapid CE method to monitor the spreading of Sys peptides through tomato plant. A 1,2,3‐triazole‐linked AZT‐systemin conjugate was designed as a model to study the possibility of translocating small cargo molecules 3'‐Azido‐2',3'‐dideoxythymidine by systemin. The Sys peptides (Sys, N‐propiolyl Sys, and AZT‐systemin conjugate) were injected into the stem and leaves of mature tomato plant. Its transportation throughout the plant tissue was traced by CE. The peptides were clearly visible in the crude tomato exudates and an optimum separation was achieved in 25 mM phosphate “buffer” at pH 2.5 and a voltage of 20 kV using uncoated fused silica capillary. CE analysis showed that Sys peptides are well separated from tomato plant exudates ingredients and are stable in tomato stem and leaf exudates for up to 24 h. CE study revealed that the Sys peptides are effectively spreading throughout tomato stem and leaves and the peptides could be directly detected in the crude plant matrixes. The translocation was strongly inhibited by sodium azide. The results showed that the established CE method can be used to characterize plant peptides spreading under plant physiological conditions.     

Evaluation of fritless solid‐phase extraction coupled on‐line with capillary electrophoresis‐mass spectrometry for the analysis of opioid peptides in cerebrospinal fluid

Fritless SPE on‐line coupled to CE with UV and MS detection (SPE‐CE‐UV and SPE‐CE‐MS) was evaluated for the analysis of opioid peptides. A microcartridge of 150 μm id was packed with a C₁₈ sorbent (particle size > 50 μm), which was retained between a short inlet capillary and a separation capillary (50 μm id). Several experimental parameters were optimized by SPE‐CE‐UV using solutions of dynorphin A (DynA), endomorphin 1 (End1), and methionine‐enkephaline (Met). A microcartridge length of 4 mm was selected, sample was loaded for 10 min at 930 mbar and the retained peptides were eluted with 67 nL of an acidic hydro‐organic solution. Using SPE‐CE‐MS, peak area and migration time repeatabilities for the three opioid peptides were 12–27% and 4–5%, respectively. SPE recovery was lower for the less hydrophobic DynA (22%) than for End1 (66%) and Met (78%) and linearity was satisfactory in all cases between 5 and 60 ng/mL. The LODs varied between 0.5 and 1.0 ng/mL which represent an enhancement of two orders of magnitude when compared with CE‐MS. Cerebrospinal fluid (CSF) samples spiked with the opioid peptides were analyzed to demonstrate the applicability to biological samples. Peak area and migration time repeatabilities were similar to the standard solutions and the opioid peptides could be detected down to 1.0 ng/mL.     

Effect of ionic strength on the self-assembly, morphology and gelation of pH responsive β-sheet tape-forming peptides

Molecular self-assembly is an intrinsic property of proteins central to their biological functionality. One important industrially interesting property is the ability to control and switch on and off self-assembly using a variety of external chemical and physical triggers. Model peptides have been developed with significantly reduced chemical and structural complexity compared to biological proteins. These are ideal systems for exposing the fundamental principles that drive protein-like self-assembly, as well as for establishing in a quantitative manner their structure-function relationship. We investigate simple, short model peptides that adopt a purely β-strand conformation, align in an antiparallel manner and self-assemble in one dimension in solution into long β-sheet nanotapes and higher order aggregates with no other conformation (i.e., helices, turns or random coils) present in the aggregates. These micrometre-long nanostructures gel in solutions at concentrations as low as 0.2% v/v. Their gel-fluid transition has been previously shown to be controlled by pH, temperature, or by mixing with complementary peptides. Here we show the dramatic effect of another chemical trigger, that of physiological-like salt concentration, on the self-assembly, morphology and gelation of a series of systematically designed charged self-assembling tape-forming peptides, each 11 amino acid residues in length, in the pH range of 2-14. This study provides a detailed understanding of the self-assembly of this class of peptides in aqueous solutions of biologically relevant pH and ionic strength. This insight has led to the development of injectable self-assembling peptide lubricants as potential therapeutics for the treatment of early stage knee joint osteoarthritis.     

Synthesis of core-shell material rich in carboxyl groups and its application in the selective adsorption of cationic peptides

The ability to extract peptides and proteins from biological samples with excellent reusability, high adsorption capacity, and great selectivity is essential in scientific research and medical applications. Inspired by the advantages of core-shell materials, we fabricated a core-shell material using amino-functionalized silica as the core. Benzene-1,3,5-tricarbaldehyde and 3,5-diaminobenzoic acid were used as model organic ligands to construct a shell coating by alternately reacting the two monomers on the surface of silica microspheres. The resultant material featured an outstanding capability for the adsorption of cationic peptides, most likely owing to its porous structure, a large number of carboxylic functional groups, and low mass-transfer resistance. The maximum saturated adsorption capacity reached 833.3 mg/g and the adsorption process took only 20 min. Under optimized adsorption conditions, the core-shell material was used to selectively adsorb cationic peptides from the tryptic digestive solution of lysozyme and bovine serum albumin, Specifically, the analysis results showed seven cationic peptides in the eluate and twenty anionic peptides in the supernatant, which indicates the efficient trap of most cationic peptides in the digestive solution.     

An Unusual Family of Glycosylated Peptides Isolated from <Emphasis Type="BoldItalic">Dendroaspis angusticeps</Emphasis> Venom and Characterized by Combination of Collision Induced and Electron Transfer Dissociation

This study describes the structural characterization of a totally new family of peptides from the venom of the snake green mamba (Dendroaspis angusticeps). Interestingly, these peptides differ in several points from other already known mamba toxins. First of all, they exhibit very small molecular masses, ranging from 1.3 to 2.4 kDa. The molecular mass of classical mamba toxins is in the range of 7 to 25 kDa. Second, the new peptides do not contain disulfide bonds, a post-translational modification commonly encountered in animal toxins. The third difference is the very high proportion of proline residues in the sequence accounting for about one-third of the sequence. Finally, these new peptides reveal a carbohydrate moiety, indicating a glycosylation in the sequence. The last two features have made the structural characterization of the new peptides by mass spectrometry a real analytical challenge. Peptides were characterized by a combined use of MALDI- TOF/TOF and nanoESI-IT-ETD experiments to determine not only the peptide sequence but also the composition and the position of the carbohydrate moiety. Anyway, such small glycosylated and proline-rich toxins are totally different from any other known snake peptide and form, as a consequence, a new family of peptides.     

Improved spectra for MALDI MSI of peptides using ammonium phosphate monobasic in MALDI matrix

MALDI mass spectrometry imaging (MSI) enables analysis of peptides along with histology. However, there are several critical steps in MALDI MSI of peptides, 1 of which is spectral quality. Suppression of MALDI matrix clusters by the aid of ammonium salts in MALDI experiments is well known. It is asserted that addition of ammonium salts dissociates potential matrix adducts and thereafter decreases matrix cluster formation. Consequently, MALDI MS sensitivity and mass accuracy increase. Up to our knowledge, a limited number of MALDI MSI studies used ammonium salts as matrix additives to suppress matrix clusters and enhance peptide signals. In this work, we investigated the effect of ammonium phosphate monobasic (AmP) as alpha‐cyano‐4‐hydroxycinnamic acid (α‐CHCA) matrix additive in MALDI MSI of peptides. Prior to MALDI MSI, the effect of varying concentrations of AmP in α‐CHCA was assessed in bovine serum albumin tryptic digests and compared with the control (α‐CHCA without AmP). Based on our data, the addition of AmP as matrix additive decreased matrix cluster formation regardless of its concentration, and specifically, 8 mM AmP and 10 mM AmP increased bovine serum albumin peptide signal intensities. In MALDI MSI of peptides, both 8 and 10 mM AmP in α‐CHCA improved peptide signals especially in the mass range of m/z 2000 to 3000. In particular, 9 peptide signals were found to have differential intensities within the tissues deposited with AmP in α‐CHCA (AUC > 0.60). To the best of our knowledge, this is the first MALDI MSI of peptides work investigating different concentrations of AmP as α‐CHCA matrix additive to enhance peptide signals in formalin‐fixed paraffin‐embedded (FFPE) tissues. Further, AmP as part of α‐CHCA matrix could enhance protein identifications and support MALDI MSI‐based proteomic approaches.     

表面展示肽在无机纳米材料的合成与组装中的应用

本文综述了表面展示肽在无机纳米材料合成与组装中的应用.表面展示肽是利用噬菌体、细胞等表面展示技术筛选出来的一类多肽,可以特异性地识别不同的无机物表面.一方面它们能够诱导不同种类无机纳米材料的合成,有助于我们进一步认识生物矿化的过程和基本原理;同时表面展示肽也可以用于无机纳米材料的组装,构建具有特定功能的纳米结构,从而为纳米器件的构造提供新的途径.     

Nucleation and Growth of Amino Acid and Peptide Supramolecular Polymers through Liquid–Liquid Phase Separation

The transition of peptides and proteins from the solution phase into fibrillar structures is a general phenomenon encountered in functional and aberrant biology and is increasingly exploited in soft materials science. However, the fundamental molecular events underpinning the early stages of their assembly and subsequent growth have remained challenging to elucidate. Here, we show that liquid–liquid phase separation into solute‐rich and solute‐poor phases is a fundamental step leading to the nucleation of supramolecular nanofibrils from molecular building blocks, including peptides and even amphiphilic amino acids. The solute‐rich liquid droplets act as nucleation sites, allowing the formation of thermodynamically favorable nanofibrils following Ostwald's step rule. The transition from solution to liquid droplets is entropy driven while the transition from liquid droplets to nanofibrils is mediated by enthalpic interactions and characterized by structural reorganization. These findings shed light on how the nucleation barrier toward the formation of solid phases can be lowered through a kinetic mechanism which proceeds through a metastable liquid phase.     

High-pressure phase equilibrium data for systems involving carbon dioxide,globalide, ε-caprolactone,poly(globalide-co-ε-caprolactone) and dichloromethane

The growing interest in producing biocompatible polymers, free of any kind of toxic residues, increasingly encourages the development of researches on clean processes. The use of supercritical carbon dioxide, replacing organic solvents, has shown to be a green alternative to traditional polymerization processes. Aiming at providing fundamental information to conduct polymerization reactions in supercritical carbon dioxide, this work reports experimental phase equilibrium data for the quinary system involving carbon dioxide, globalide, ε-caprolactone, poly(globalide-co-ε-caprolactone) and dichloromethane. The experiments were performed using a variable-volume view cell over the temperature range from 313.15 to 343.15 K, and different mass fractions of carbon dioxide in relation to monomers and copolymer (globalide + ε-caprolactone + poly(globalide-co-ε-caprolactone)) and a fixed mass ratio of dichloromethane to globalide + ε-caprolactone + poly(globalide-co-ε-caprolactone), of 1:1, were studied. To simulate a polymerization reaction of ε-caprolactone + globalide to poly(globalide-co-ε-caprolactone) different monomers to copolymer conversions (1.25, 2.50, 3.75 and 5.00%) were analyzed. Phase transition of vapor-liquid bubble point (VLE-BP), in a pressure range from 6.31 to 12.58 MPa, and liquid-liquid (LLE), in a pressure range from 10.49 to 26.50 MPa, are reported, together with the lower critical solution temperature (LCST) behavior observed for the systems investigated. The pressure of the systems varied from 6.31 MPa to 26.50 MPa.     

PLGA-based implants for sustained delivery of peptides/proteins: Current status,challenge and perspectives

Peptide and protein drugs with therapeutic effects suffer from their short half-life and low stability, albeit their high efficiency and specificity. To overcome these demerits, long-acting drug delivery systems have been developed, wherein poly(lactic-co-glycolic acid) (PLGA) implants are most preferred owing to their excellent biodegradability and biocompatibility. Dozens of PLGA based products have been approved since 1986, when the first product, named Decapeptyl^Ⓡ, successfully marched into market. To meet the increasing demand for delivering various peptides and proteins, different kinds of technologies have been developed for lab-scale fabrication or industrial manufacture. This review aims to introduce recent advances of PLGA implants, and give a brief summary of fundamental properties of PLGA, fabrication technologies of peptides/proteins-loaded PLGA implants as well as factors influencing the drug release processes. Moreover, challenges and future perspectives are also highlighted.     

Epsin Mimetic UPI Peptide Delivery Strategies to Improve Endothelization of Vascular Grafts

Endothelialization of engineered vascular grafts for replacement of small-diameter coronary arteries remains a critical challenge. The ability for an acellular vascular graft to promote endothelial cell (EC) recruitment in the body would be very beneficial. This study investigated epsins as a target since they are involved in internalization of vascular endothelial growth factor receptor 2. Specifically, epsin-mimetic UPI peptides are delivered locally from vascular grafts to block epsin activity and promote endothelialization. The peptide delivery from fibrin coatings allowed for controlled loading and provided a significant improvement in EC attachment, migration, and growth in vitro. The peptides have even more important impacts after grafting into rat abdominal aortae. The peptides prevented graft thrombosis and failure that is observed with a fibrin coating alone. They also modulated the in vivo remodeling. The grafts are able to remodel without the formation of a thick fibrous capsule on the adventitia with the 100 µg mL⁻¹ peptide-loaded condition, and this condition enabled the formation of a functional EC monolayer in the graft lumen after only 1 week. Overall, this study demonstrated that the local delivery of UPI peptides is a promising strategy to improve the performance of vascular grafts.     

Exploring the evaluation of net charge, hydrodynamic size and shape of peptides through experimental electrophoretic mobilities obtained from CZE

This work explores the validity of simple CZE models to analyze the electrophoretic mobilities of 102 peptides reported in literature. These models are based mainly on fundamental physicochemical theories providing analytical expressions amenable to relatively simple numerical analysis. Thus, the Linderstr?m-Lang capillary electrophoresis model (LLCEM) and its perturbed version (PLLCEM), proposed and applied previously to the CZE of globular proteins, are adapted and used here for peptides. Also the effects of pK-shifts on net charge, hydration and hydrodynamic size and shape of peptides are analyzed and discussed. Emphasis is placed on the fact that these parameters are physically coupled, and thus a variation in the net charge may produce an appreciable change in the hydrodynamic size of peptides. Within the framework of CZE, peptides may be assumed as having a hydrodynamic volume associated with either spherical or spheroidal particles. The effects on peptide net charge and hydrodynamic size, of electrostatic interaction between a pair of charged groups in the chain and electrical permitivitty around the peptide domain are studied. The predictions of the PLLCEM and LLCEM are in good agreement with results reported previously in the literature. Several limitations concerning these models and some needs for further research are also described.     

Comparison of interactions between beta-hairpin decapeptides and SDS/DPC micelles from experimental and simulation data

Background  

We applied a combined experimental and computational approach to ascertain how peptides interact with host and microbial membrane surrogates, in order to validate simulation methodology we hope will enable the development of insights applicable to the design of novel antimicrobial peptides. We studied the interactions of two truncated versions of the potent, but cytotoxic, antimicrobial octadecapeptide protegrin-1, PC-72 [LCYCRRRFCVC] and PC-73 [CYCRRRFCVC].     

Spectroscopy of laser-excited indium,gallium and indium–gallium systems

The spectroscopy of dense Ga, In and In–Ga vapours is studied via resonant pulsed laser excitation at 403.4 nm (Ga) and 410.3 nm (In). Besides some known atomic Rydberg levels emission, satellite wings on the blue side of the fundamental transitions show up both in the homonuclear and heteronuclear vapours. They are due to the presence of excited homonuclear dimers that form in the collision between excited and ground-state atoms. The formation of heteronuclear dimers is inferred by the time-resolved analysis of some atomic fluorescences.