基于高维特征非线性筛选的HLA-A*0201限制性CTL表位预测

高活性细胞毒T细胞(CTL)表位鉴定是设计肿瘤疫苗的关键内容.采用天然氨基酸的531个物理化学性质参数表征HLA-A^*0201限制性表位9肽, 从531×9个初始描述子出发, 经二元矩阵重排过滤器粗筛和多轮末尾淘汰精细筛选, 获得18个物理化学意义明确的保留描述子. 18个保留描述子主要涉及除1位、5位外各位置残基的疏水性和空间结构特征, 3位残基疏水性对活性影响最大, 且2位、4位、9位残基共占10个保留描述子,支持2位和9位残基为锚点、3位为关键位点以及4位残基为标志链的现有认知. 对18个保留描述子以支持向量回归构建定量序效模型,其拟合、留一法交叉验证决定系数R²、Q_cv²分别为0.957、0.708; 独立预测决定系数及均方根误差Q_ext² 、RMSE_ext分别为0.818、0.366, 明显优于文献报道. 通过对全组合虚拟9肽的预测, 得到了多条预测活性高于已知表位肽的9肽, 可供实验验证. 较全面阐明了特定位置残基对多肽亲和性的影响规律, 为高活性多肽疫苗分子设计提供了切实指导.     

LfcinB-Derived Peptides: Specific and punctual change of an amino acid in monomeric and dimeric sequences increase selective cytotoxicity in colon cancer cell lines

We observed how a change of specific residues in LfcinB dimeric and palindromic sequences caused a notable increase in the cytotoxic activity against CaCo-2 cells while maintaining or even diminishing the level of the cytotoxic effect against normal fibroblast and HEK-293 cells. In both cases, the IC₅₀ of the peptides was reduced by more than half of the concentration, diminishing the IC₅₀ value from 150 µg/mL (101 µM) (LfcinB (21–25)_Pal: RWQWRWQWR) to 60 µg/mL (42.8 µM) for the modified palindromic peptide ⁵[A] LfcinB (21–25)_Pal: RWQWAWQWR and the IC₅₀ from 125 µg/mL (LfcinB (20–30)₂: (RRWQWRMKKLG)₂-K-Ahx to 58 µg/mL (18 µM) for the modified dimeric peptide ²⁶[F] LfcinB (20–30)₂: (RRWQWRFKKLG)₂-K-Ahx. The cytotoxic effect of ²⁶[F] LfcinB (20–30)₂ and LfcinB (21–25)_Pal peptides against colon cancer cell line HCT-116 was greater than the cytotoxic effect of these peptides against Caco-2 cells, suggesting that the cytotoxic effect of these peptides is selective for colon cancer cell lines. The cytotoxic effect of the peptides rapidly caused severe damage to the morphology of CaCo-2 cells, while the morphology of the normal fibroblast and HEK-293 cells was not affected. The dimeric modified peptide ²⁶[F] LfcinB (20–30)₂ mainly caused death through apoptotic events. As for the palindromic modified peptide ⁵[A] LfcinB (21–25)_Pal, the cell death was induced by both necrotic and apoptotic pathways. All this suggests that specific modification of a single residue in the peptide sequence can improve the anticancer activity of the original monomeric or dimeric peptides, giving place to new potential molecules for the future development of drugs for use against colorectal carcinoma. Our results show that changes to a residue of the anti-cancer peptide sequence may be considered a versatile, feasible, and invaluable strategy for obtaining promising sequences for developing peptide-based cancer treatments.     

The Radical Ion Chemistry of S-Nitrosylated Peptides

The radical ion chemistry of a suite of S-nitrosopeptides has been investigated. Doubly and triply-protonated ions of peptides NYCGLPGEYWLGNDK, NYCGLPGEYWLGNDR, NYCGLPGERWLGNDR, NACGAPGEKWAGNDK, NYCGLPGEKYLGNDK, NYGLPGCEKWYGNDK and NYGLPGEKWYGCNDK were subjected to electron capture dissociation (ECD), and collision-induced dissociation (CID). The peptide sequences were selected such that the effect of the site of S-nitrosylation, the nature and position of the basic amino acid residues, and the nature of the other amino acid side chains, could be interrogated. The ECD mass spectra were dominated by a peak corresponding to loss of ^?NO from the charge-reduced precursor, which can be explained by a modified Utah-Washington mechanism. Some backbone fragmentation in which the nitrosyl modification was preserved was also observed in the ECD of some peptides. Molecular dynamics simulations of peptide ion structure suggest that the ECD behavior was dependent on the surface accessibility of the protonated residue. CID of the S-nitrosylated peptides resulted in homolysis of the S?CN bond to form a long-lived radical with loss of ^?NO. The radical peptide ions were isolated and subjected to ECD and CID. ECD of the radical peptide ions provided an interesting comparison to ECD of the unmodified peptides. The dominant process was electron capture without further dissociation (ECnoD). CID of the radical peptide ions resulted in cysteine, leucine, and asparagine side chain losses, and radical-induced backbone fragmentation at tryptophan, tyrosine, and asparagine residues, in addition to charge-directed backbone fragmentation.     

Collision-induced reporter fragmentations for identification of covalently modified peptides

Collision-induced reporter fragmentations of the currently most important covalent peptide modifications as detected by tandem mass spectrometry are summarized. These fragmentations comprise the formation of reporter ions, which are preferentially immonium ions, immonium ion-derived fragments or side chain fragments. In addition, the reporter neutral loss reactions for covalently modified amino acid residues are summarized. For each individual covalent modification which can be recognized by a reporter fragmentation, the accurate mass shift and the gross formula shift of the modified amino acid residue are given. The same set of data is provided for the reporter fragmentations. Finally, an extensive accurate mass and gross formula list is presented as supplementary material, describing mostly regular and modified y₁ and dipeptide a and b ions, which are helpful for identification of the peptide ends of covalently modified peptides. Figure When modified peptides are fragmented by collision-induced dissociation in a tandem mass spectrometer, the modification is either lost as part of a charged fragment, so that a reporter ion for the modification is generated or it is lost as part of a neutral fragment, so that a modification-specific reporter neutral loss is observed in the fragment ion spectrum. Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users. Chien-Wen Hung and Andreas Schlosser contributed equally to this work.     

Comparative Tryptic Peptide Analysis Of Rabbit Heavy Chain Allotypes By Hplc

Abstract

Reversed-phase, high pressure liquid chromatography (HPLC) in a modified TFA/H₂O-TFA/acetonitrile gradient has been successfully applied to the structural analysis of serologlcally defined rabbit immunoglobulln heavy chains. This mobile phase modification yields a relatively flat baseline at high UV sensitivity. Approximately 40 distinct tryptic pep-tides were resolved from each heavy chain, representing the V_Ha⁺ (a), a2, and a3) and V_Ha^? (y33,30 and y33,^?) immunoglobulin allotypes. About 30 peptides were shown to be derived from the Fc region (C_H2 and C_H3), and 8–10 peptides from the Fd region (V_H1 and C_H1). Seven Fd peptides were shared by all V_Ha⁺ and V_Ha^? heavy chains. The al and a2 digests each displayed one allotype-specific peptide, whereas no allotype-specific peptides were observed for the a3 heavy chain. No differences were detected between the y33,30 and y33,^? peptides; however, both expressed a common y-specific pep-tide. Amino acid analysis of purified al-specific and y-specific peptides Indicate that the two peptides are very similar in composition to the predicted first N-terminal tryptic peptides of V_Hal and V_Ha^? heavy chains, respectively.     

Voltammetric Sensing of Soybean Agglutinin Using an Electrode Modified with Electron-transfer,Carbohydrate-mimetic/Cross-linker-peptide-collagen Film

We constructed an electrochemical sensor based on an electrode modified with electron-transfer, carbohydrate-mimetic peptides on collagen film. The peptide consisted of Ac-Y₄C combined with soybean agglutinin (SBA). To evaluate the binding between SBA and the peptide, we prepared Ac-Y₄CA_n (3-6) containing oligoalanine as a cross-linker. When SBA and Y₄C on the electrode were incubated, the peak was decreased by the SBA uptake of the peptide. The change in the peak current using Ac-Y₄CA₆ was the greatest of the four peptides. The calibration curve was linear and ranged from 4.0×10⁻¹⁴ to 1.2×10⁻¹² M with a detection limit of 1.3×10⁻¹⁴ M.     

Liquid Adsorption Chromatography on Preparative Scale of Protected Synthetic Peptides

Abstract

This paper reports the purification of synthetic protected peptides on a preparative scale by means of adsorption chromatography on silica gel 60 columns.

The protected peptides described were precursors of a free asymmetrical cystine peptide corresponding to the insulin sequence A^18–21-B^19–26 and were obtained in analytically pure form. Selection of solvent systems for isocratic or stepwise elution depended largely on R_F data obtained from thin-layer chromatograms which were used for monitoring and optimizing synthetic reactions.     

Design of Peptides with α,β-Dehydro-Residues: Syntheses and Crystal Structures of (i) N-Tertiarybutyloxycarbonyl-L-Ala-ΔPhe-L-Ala-OCH3 and (ii) N-Tertiarybutyloxycarbonyl-L-Leu-ΔPhe-L-Leu-OCH3

In order to contribute to design rules with α,β-dehydro amino acid residues, two peptides (i) Boc-Ala-ΔPhe-Ala-OCH₃ and (ii) Boc-Leu-ΔPhe-Leu-OCH₃ were synthesized and their crystal structures were determined. Peptide (i) with Ala residues on both sides of ΔPhe adopted a type II β-turn conformation with dihedral angles of two corner residues, φ₁ = ?62.6(4)^°, ψ₁ = 138.9(5)^°, φ₂ = 76.3(4)^° and ψ₂ = 13.1(3)^°, while the peptide (ii) with Leu residues formed an unfolded conformation with dihedral angles, φ₁ = ?81.9(5)^°, ψ₁ = ?28.3(4)^°, φ₂ = 56.7(5)^° and ψ₂ = 42.6(4)^°. The structure of peptide (i) was stabilized by an intramolecular 4→1 hydrogen bond between Ala³ NH and BOC carbonyl oxygen atom, whereas that of peptide (ii) was stabilized by van der Waals forces involving the side chains of two Leu residues.     

Liposome fusion with orthogonal coiled coil peptides as fusogens: the efficacy of roleplaying peptides

Biological membrane fusion is a highly specific and coordinated process as a multitude of vesicular fusion events proceed simultaneously in a complex environment with minimal off-target delivery. In this study, we develop a liposomal fusion model system with specific recognition using lipidated derivatives of a set of four de novo designed heterodimeric coiled coil (CC) peptide pairs. Content mixing was only obtained between liposomes functionalized with complementary peptides, demonstrating both fusogenic activity of CC peptides and the specificity of this model system. The diverse peptide fusogens revealed important relationships between the fusogenic efficacy and the peptide characteristics. The fusion efficiency increased from 20% to 70% as affinity between complementary peptides decreased, (from K_F ≈ 10⁸ to 10⁴ M⁻¹), and fusion efficiency also increased due to more pronounced asymmetric role-playing of membrane interacting ‘K’ peptides and homodimer-forming ‘E’ peptides. Furthermore, a new and highly fusogenic CC pair (E₃/P1_K) was discovered, providing an orthogonal peptide triad with the fusogenic CC pairs P2_E/P2_K and P3_E/P3_K. This E₃/P1_k pair was revealed, via molecular dynamics simulations, to have a shifted heptad repeat that can accommodate mismatched asparagine residues. These results will have broad implications not only for the fundamental understanding of CC design and how asparagine residues can be accommodated within the hydrophobic core, but also for drug delivery systems by revealing the necessary interplay of efficient peptide fusogens and enabling the targeted delivery of different carrier vesicles at various peptide-functionalized locations.

We developed a liposomal fusion model system with specific recognition using a set of heterodimeric coiled coil peptide pairs. This study unravels important structure–fusogenic efficacy relationships of peptide fusogens.     

Analysis of Group Retention Contributions for Peptides Separated by Reversed Phase High Performance Liquid Chromatography

Abstract

Within the framework provided by solvophobic theory, selectivities for unprotected peptides separated on fully porous, microparticulate, chemically bonded alkylsilicas can be ascribed to differences between the effective hydrophobic contact areas of the solutes. Furthermore, this theoretical treatment predicts that retention behaviour differences can be evaluated from topological parameters which accomodate the influence of amino acid side chain and end group contributions in the retention process. With data obtained for 57 peptides, including a variety of peptide hormones, eluted under the same conditions from a μBondapak C₁₈ column, these predictions have been rigorously tested using two methods of numerical analysis. The results provide further evidence that the hydrophobic group retention contributions of the amino acid residues in small peptides have an essentially additive effect on peptide retention with alkylsilicas. Divergences in retention behaviour are interpreted in terms of specific silanophilic and solvation interactions.     

Chemical synthesis of ComX pheromone and related peptides containing isoprenoidal tryptophan residues

The ComX pheromone is a post-translationally modified oligopeptide that stimulates natural genetic competence controlled by quorum sensing in Bacillus subtilis. Recently, the structure of the ComX_RO-E-2 pheromone produced by strain RO-E-2 was determined. Based on the NMR analysis, a geranyl group is bound to the tryptophan residue, which results in the formation of a tricyclic ring structure. It was proposed that one of the four possible stereochemical isomers was based on a conformational search for model compounds and the assumption that amino acid residues in the natural pheromone have the l-configuration. All possible modified tryptophan residues and the corresponding ComX_RO-E-2 peptides were synthesized to confirm the precise stereochemistry. Here, the synthesis of the modified tryptophan derivatives was reported in detail. It was succeeded in synthesizing four optically active modified tryptophan methyl esters from which the four diastereomeric ComX_RO-E-2 peptides were prepared. Since only one of the four diastereomers was spectroscopically identical to the natural pheromone and exhibited biological activity, the absolute structure of the ComX_RO-E-2 pheromone was able to be established unambiguously. Furthermore, it was noticed that two other bioactive pheromones were present in the culture broth that were co-purified with ComX_RO-E-2 pheromone. These pheromones were presumed to be the N-terminal truncated peptides of ComX_RO-E-2 pheromone, i.e., [2-6]ComX_RO-E-2 and [3-6]ComX_RO-E-2, by LC-MS and NMR analyses. Using Fmoc solid-phase peptide synthesis, ComX_RO-E-2 pheromone and the [2-6]ComX_RO-E-2 and [3-6]ComX_RO-E-2 peptides were prepared. The synthetic peptides were identical to the natural pheromones and also showed significant biological activity.     

Electron-Capture and -Transfer Dissociation of Peptides Tagged with Tunable Fixed-Charge Groups: Structures and Dissociation Energetics

Pyridiniummethylcarbonyl moieties that were previously designed on the basis of electronic structure analysis are now utilized as fixed-charge tags with tunable electronic properties to be used for N-terminal peptide derivatization and sequencing by electron-transfer dissociation. Dipeptides AK and KA were derivatized at the peptide N-terminus with 4-dimethylaminopyridinium-N-acetyl (DMAP-ac) and pyridinium-N-acetyl (pyrid-ac) tags of increasing intrinsic recombination energies. Upon the capture of a free electron or electron transfer from fluoranthene anions, (DMAP-ac-AK+H)²⁺, (DMAP-ac-KA+H)²⁺, (pyrid-ac-AK+H)²⁺ and (pyrid-ac-KA+H)²⁺ ions, as well as underivatized (AK+2H)²⁺, completely dissociated. The fixed-charge tags steered the dissociation upon electron transfer to form abundant backbone N–C_α bond cleavages, whereas the underivatized peptide mainly underwent H-atom and side-chain losses. Precursor ion structures for the tagged peptides were analyzed by an exhaustive conformational search combined with B3LYP/6-31+G(d,p) geometry optimization and single-point energy calculations in order to select the global energy minima. Structures, relative energies, transition states, ion–molecule complexes, and dissociation products were identified for several charge-reduced species from the tagged peptides. The electronic properties of the charge tags and their interactions with the peptide moieties are discussed. Electrospray ionization and electron-transfer dissociation of larger peptides are illustrated with a DMAP-tagged pentapeptide.     

A comparison of positive and negative ion collision‐induced dissociation for model heptapeptides with one basic residue

The effects of the identity and position of basic residues on peptide dissociation were explored in the positive and negative modes. Low‐energy collision‐induced dissociation (CID) was performed on singly protonated and deprotonated heptapeptides of the type: XAAAAAA, AAAXAAA, AAAAAXA and AAAAAAX, where X is arginine (R), lysine (K) or histidine (H) residues and A is alanine. For [M + H]⁺, the CID spectra are dominated by cleavages adjacent to the basic residues and the majority of the product ions contain the basic residues. The order of a basic residue's influence on fragmentation of [M + H]⁺ is arginine > histidine ≈ lysine, which is also the order of decreasing gas‐phase basicity for these amino acids. These results are consistent with the side chains of basic residues being positive ion charge sites and with the more basic arginine residues having a higher retention (i.e. sequestering) of the positive charge. In contrast, for [M ? H]^? the identity and position of basic residues has almost no effect on backbone fragmentation. This is consistent with basic residues not being negative mode charge sites. For these peptides, more complete series of backbone fragments, which are important in the sequencing of unknowns, can be found in the negative mode. Spectra at both polarities contain C‐terminal y‐ions, but y_n″⁺ has two more hydrogens than the corresponding y_n^?. Another major difference is the production of the N‐terminal backbone series b_n⁺ in the positive mode and c_n^? in the negative mode. Thus, comparison of positive and negative ion spectra with an emphasis on searching for pairs of ions that differ by 2 Da (y_n″⁺ vs y_n^?) and by 15 Da (b_n⁺ vs c_n^?) may be a useful method for determining whether a product ion is generated from the C‐terminal or the N‐terminal end of a peptide. In addition, a characteristic elimination of NH?C?NH from arginine residues is observed for deprotonated peptides. Copyright © 2010 John Wiley & Sons, Ltd.     

Design of an electroactive peptide probe for sensing of a protein

We designed a new electroactive peptide probe that has a molecular recognition function for the sensing of a protein. Ovalbumin (OVA) was the model protein, and when RNRCKGTDVQAW interacted with OVA, it conjugated with a tyrosine-rich peptide (Y₄C). This peptide is electroactive, has a high degree of biocompatibility, and offers the possibility of gene expression. To measure the effect of a number of the tyrosine residues, voltammetric measurements were conducted using a series of tyrosine-rich peptides (Y_nC, n = 3–7) with sensitivities that ranged from 10⁻⁹ to 10⁻⁸ M. The electrode response of Y₅C was the maximum value in the series. However, the peak current did not increase when the number of tyrosine residues was increased in a linear fashion. This may have been due to the micelles that are formed by a tyrosine-rich surfactant peptide. Thus, Y₄C was suitable as an electroactive label for the construction of the peptide probe. The electrode response of Y₄CRNRCKGTDVQAW obtained by a glassy carbon electrode was 100-fold that of tyrosine alone. The measurement of OVA via the peptide probe resulted in a detection on the order of 10⁻¹² M. In contrast, the sensitivity of OVA using RCKGTDVQAWY₄C probe was at the 10⁻¹¹ M level, because the hydrophobic moiety gave it a molecular recognition function. The recoveries of the OVA using Y₄CRNRCKGTDVQAW in a solution containing fetal bovine serum ranged between 98 and 101%. Consequently, the combination of a specific peptide and an electroactive element could be a powerful probe for the sensing of proteins.     

One‐Pot Synthesis and Hydroxylaminolysis of Asymmetrical Acyclic Nitrones

Abstract

Aromatic aldehydes 1 were reductively aminated to the corresponding secondary amines 2 using NaBH₄ in methanol in good yields. Amines 2 were oxidized with H₂O₂‐WO₄ ^2? regioselectively to nitrones 3, the structures of which were easily determined by reacting them with hydroxylamine hydrochloride as well as by spectral means. The products of hydroxylaminolysis in ether proved to be the corresponding benzaldehyde oximes 4 and benzyl or methyl hydroxylamine hydrochlorides 5.     

Effect of N-terminal glutamic acid and glutamine on fragmentation of peptide ions

A prominent dissociation path for electrospray generated tryptic peptide ions is the dissociation of the peptide bond linking the second and third residues from the ammo-terminus. The formation of the resulting b₂ and y _n−2 fragments has been rationalized by specific facile mechanisms. An examination of spectral libraries shows that this path predominates in diprotonated peptides composed of 12 or fewer residues, with the notable exception of peptides containing glutamine or glutamic acid at the N-terminus. To elucidate the mechanism by which these amino acids affect peptide fragmentation, we synthesized peptides of varying size and composition and examined their MS/MS spectra as a function of collision voltage in a triple quadrupole mass spectrometer. Loss of water from N-terminal glutamic acid and glutamine is observed at a lower voltage than any other fragmentation, leading to cyclization of the terminal residue. This cyclization results in the conversion of the terminal amine group to an imide, which has a lower proton affinity. As a result, the second proton is not localized at the N-terminus but is readily transferred to other sites, leading to fragmentation near the center of the peptide. Further confirmation was obtained by examining peptides with N-terminal pyroglutamic acid and N-acetyl peptides. Peptides with N-terminal proline maintain the trend of forming b₂ and y _n−2 because their ring contains an imine rather than imide and has sufficient proton affinity to retain the proton at the N-terminus.     

Peptide structural analysis using continuous Ar cluster and C60 ion beams

A novel application of time-of-flight secondary ion mass spectrometry (ToF-SIMS) with continuous Ar cluster beams to peptide analysis was investigated. In order to evaluate peptide structures, it is necessary to detect fragment ions related to multiple neighbouring amino acid residues. It is, however, difficult to detect these using conventional ToF-SIMS primary ion beams such as Bi cluster beams. Recently, C₆₀ and Ar cluster ion beams have been introduced to ToF-SIMS as primary ion beams and are expected to generate larger secondary ions than conventional ones. In this study, two sets of model peptides have been studied: (des-Tyr)-Leu-enkephalin and (des-Tyr)-Met-enkephalin (molecular weights are approximately 400 Da), and [Asn¹ Val⁵]-angiotensin II and [Val⁵]-angiotensin I (molecular weights are approximately 1,000 Da) in order to evaluate the usefulness of the large cluster ion beams for peptide structural analysis. As a result, by using the Ar cluster beams, peptide molecular ions and large fragment ions, which are not easily detected using conventional ToF-SIMS primary ion beams such as Bi₃ ⁺, are clearly detected. Since the large fragment ions indicating amino acid sequences of the peptides are detected by the large cluster beams, it is suggested that the Ar cluster and C₆₀ ion beams are useful for peptide structural analysis.     

Characterization of alkali induced formation of lanthionine, trisulfides, and tetrasulfides from peptide disulfides using negative ion mass spectrometry

Peptide disulfides are unstable under alkaline conditions, resulting in the formation of products containing lanthionine and polysulfide linkages. Electrospray ionization mass spectrometry has been used to characterize major species obtained when cyclic and acyclic peptide disulfides are exposed to alkaline media. Studies on a model cyclic peptide disulfide () and an acyclic peptide, oxidized glutathione, bis (^γGlu - Cys - Gly - COOH), are described. Disulfide cleavage reactions are initiated by the abstraction of C^αH or C^βH protons of Cys residues, with subsequent elimination of H₂S or H₂S₂. The buildup of reactive thiol species which act on intermediates containing dehydroalanine residues, rationalizes the formation of lanthionine and polysulfide products. In the case of the cyclic peptide disulfide, the formation of cyclic products is facilitated by the intramolecular nature of the Michael addition reaction of thiols to the dehydroalanine residue. Mass spectral evidence for the intermediate species is presented by using alkylation of thiol groups as a trapping method. Mass spectral fragmentation in the negative ion mode of the peptides derived from trisulfides and tetrasulfides results in elimination of S₂.     

Natural structural motifs that suppress peptide ion fragmentation after electron capture

Series of doubly and triply protonated diarginated peptide molecules with different number of glutamic acid (E) and asparagine (N) residues were analyzed under ECD conditions. ECD spectra of doubly-protonated peptides show a strong dependence on the number of E and N residues. Both the backbone cleavages and hydrogen radical (H^•) loss from the charge-reduced precursor ions ([M+2H]^+•) were suppressed as the number of E and N residues increases. A strong inhibition of the backbone cleavages and H^• loss from [M+2H]^+• was found for peptides with 6E residues (or 4E + 2N residues). The results obtained using these model peptides were re-confirmed by analyzing N-arginated Fibrinopeptide-B (i.e., REGVNDNEEGFFSAR). In contrast to the N-arginated peptide, ECD of the doubly-protonated Fibrinopeptide-B and its analogues show extensive backbone cleavages leading to series of c- and z-ions (∼80% sequence coverage). Based on these results, it is believed that peptide ions with all surplus protons sequestered in arginine-residues would show enhanced stability under ECD conditions as the number of acid-residue increases. The suppression of backbone cleavages and H^• loss from [M+2H]^+• are presumably attributed to the low reactivity of the charge-reduced precursor ions. One of the possible hypothesis is that diarginated E-rich peptides may contain hydrogen bonds between carbonyl oxygen of E side chains and backbone amide hydrogen. These hydrogen bonds would provide extra stabilization for [M+2H]^+•. This is the first demonstration of natural structural motifs in peptides that would inhibit the backbone fragmentation of the charge-reduced peptide ions under ECD conditions.