Abstract:
:Identification and elimination of noise peaks in mass spectra from large proteomics data streams simultaneously improves the accuracy of peptide identification and significantly decreases the size of the data. There are a number of peak filtering strategies that can achieve this goal. Here we present a simple algorithm wherein the number of highest intensity peaks retained for further analysis is proportional to the mass of the precursor ion. We show that this technique provides an improvement over other intensity based strategies, especially for low mass precursors.
journal_name
Protein Pept Lettjournal_title
Protein and peptide lettersauthors
Reiz B,Myers MP,Pongor S,Kertesz-Farkas Adoi
10.2174/09298665113209990065subject
Has Abstractpub_date
2014-01-01 00:00:00pages
858-63issue
8eissn
0929-8665issn
1875-5305pii
PPL-EPUB-53880journal_volume
21pub_type
杂志文章abstract::Hepatitis C virus and related viruses in the Flaviviridae family (such as dengue virus, yellow fever virus or West Nile virus) are amongst the most important human pathogens, causing substantial morbidity and mortality world-wide. The production of viral progeny in Flaviviridae is orchestrated by the small, multifunct...
journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
doi:10.2174/092986610791498911
更新日期:2010-08-01 00:00:00
abstract:BACKGROUND:Paraoxonase (PON; arilesterase, [EC 3.1.8.1]) is an enzyme from the group arilesterases (ARE). This enzyme is capable of hydrolyzing paraoxone which is the active metabolite of parathion, an organic phosphorus insecticide. PON activity was found to be low in individuals prone to development of atherosclerosi...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866526666190124144622
更新日期:2019-01-01 00:00:00
abstract::We have studied the effect of guanidinium chloride (Gdn.Cl) and different osmolytes such as betaine, trimethylamine-N-oxide (TMAO) and urea on the rate of chymotrypsin catalyzed reaction. The rates were measured using three synthetic chromogenic substrates, succinyl-ala-ala-pro-arg-pNA (AAPR), succinyl-ala-ala-pro-leu...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866523666160223122415
更新日期:2016-01-01 00:00:00
abstract::Loxosceles intermedia spider venom was subjected to proteomic analysis through a MudPIT shot-gun approach to identify the protein composition. Were identified 39 proteins which seem to responsible by the lesion of different types of tissues, to some physiopathological actions and by the prevention of structural damage...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986609788923383
更新日期:2009-01-01 00:00:00
abstract::Zwitterionic dipeptides have recently been shown to exist in water mainly as nine conformational forms with specific combinations of backbone Psi, omega and Phi torsions, which allows conformer-specific molecular recognition of peptide ligands by proteins. Here, we show that pairs of virtual backbone torsions can also...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866023408904
更新日期:2002-04-01 00:00:00
abstract::There is a growing body of evidence that the formation and accumulation of advanced glycation end products (AGE) have been known to progress under diabetic conditions, thereby being involved in diabetic vascular complications. Further, we, along with others, have recently found AGE could disturb insulin actions in cul...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986610791760423
更新日期:2010-09-01 00:00:00
abstract::DrTI was effective against trypsin-like enzymes from A. kuehniella and C. cephalonica, however an artificial diet was insufficient to affect the survival and body weight of either insect. The inhibitor stimulated chymotrypsin-like enzymes and probably induced the synthesis of enzymes insensitive to TLCK in neonate lar...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986609789839395
更新日期:2009-01-01 00:00:00
abstract::A new galactose-specific lectin, named BBL, was purified from seeds of Bauhinia bauhinioides by precipitation with ammonium sulfate, followed by two steps of ion exchange chromatography. BBL haemagglutinated rabbit erythrocytes (native and treated with proteolytic enzymes) showing stability even after exposure to 60 °...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986611794653987
更新日期:2011-04-01 00:00:00
abstract::The development of a stable L-BDH chimera was attempted by exchanging whole domains between two native structural analogs, L-BDH and meso-BDH, because the S-configuration specificity of L-BDH is valuable from the standpoint of its application but its activity is unstable, whereas meso-BDH is stable. The domain chimera...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986611795713970
更新日期:2011-08-01 00:00:00
abstract::Free radicals induce protein modifications, often associated to many biological phenomena. This mini-review overviews the approaches we have used to elucidate the radical-induced damages on sulfur-containing enzymes, such as ribonuclease and lysozyme, and the possible post-translational mechanism of the damage to anot...
journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
doi:10.2174/092986607781483840
更新日期:2007-01-01 00:00:00
abstract:BACKGROUND:Microbe-Binding Peptides (MBPs) are currently being investigated to address the problem of antimicrobial resistance. Strategies enhancing their antimicrobial activity have been developed, including peptide dimerization. Here, we present an alternative approach based on peptide polymerization, yielding hapten...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866527666200427212940
更新日期:2020-01-01 00:00:00
abstract::We report that the plant oncoprotein RolA from Agrobacterium rhizogenes acts to stabilize beta-glucoronidase (Gus) when the two proteins are expressed as a fusion protein in transformed tobacco. The observed 50-fold increase of Gus activity was shown to be related to protein accumulation, with no significant changes i...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866033478951
更新日期:2003-06-01 00:00:00
abstract::For biophysical studies using heteronuclear NMR analysis of amyloid beta peptide, construction of an efficient and high yield expression system of uniformly isotopic labeled amyloid beta peptide is desirable. Here we succeeded in obtaining (15)N-labeled amyloid beta 1-40 expressed by attachment to hen egg white lysozy...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986607781483741
更新日期:2007-01-01 00:00:00
abstract::Classification of newly determined protein structures is important in understanding their function and mechanism of action. Currently available methods employ a global structure alignment strategy and are computationally expensive. We propose a two-step methodology with a quick screen to significantly reduce the numbe...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986607781483877
更新日期:2007-01-01 00:00:00
abstract::Application of complementary B and T cell epitopes in inducing anti-idiotypic and anti-clonotypic antibodies capable of regulating or suppressing the autoimmune responses in experimental autoimmune myasthenia gravis (EAMG), allergic neuritis (EAN) and allergic encephalomyelitis (EAE) has been the stimulus of many rese...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866043407020
更新日期:2004-08-01 00:00:00
abstract::Sexual maturation and olfactory bulb defects found in prokineticin 2 (Pk2) and prokineticin receptor 2 (Pkr2) mutant mice resembling the phenotypic characteristics of Kallmann syndrome (KS), gave rise to the question of whether these genes would have a role in KS pathogenesis. Later, mutations in both genes were ident...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866523666160517123331
更新日期:2016-01-01 00:00:00
abstract::Nucleobindin-2 is a 420 amino acid EF-hand Ca²⁺ binding protein that can be further processed to generate an 82 amino terminal peptide termed Nesfatin-1. To examine the function of secreted Nucleobindin-2 in adipocyte differentiation, cultured 3T3-L1 cells were incubated with either 0 or 100 nM of GST, GST-Nucleobindi...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986612802084546
更新日期:2012-09-01 00:00:00
abstract::Phoenixin (PNX), a newly identified peptide cleaved from the C-terminus of protein C4orf52, mainly exists in two active isoforms, phoenixin-14 (PNX-14) amide and phoenixin-20 (PNX-20) amide that were first isolated from the rat hypothalamus and bovine heart, respectively. Initial studies demonstrated that PNX is a rep...
journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
doi:10.2174/0929866524666170207154417
更新日期:2017-01-01 00:00:00
abstract::The aerotolerance of the lactic - fermentative bacterium Streptococcus thermophilus is mainly based on the key antioxidant function of superoxide dismutase (StSOD). In this work, the comparison of recombinant StSOD (rStSOD) forms obtained from two different initiation triplets indicated that the enzyme from S. thermop...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986612799363127
更新日期:2012-03-01 00:00:00
abstract::Bucain, a potent neurotoxin isolated from the venom of the Malayan krait (Bungarus candidus), induces paralysis and death. Its crystal structure has been determined at 2.10 A resolution and based on the molecular topology and hydrophobicity profile is structurally classified as a three-fingered alpha-neurotoxin posses...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986609789839304
更新日期:2009-01-01 00:00:00
abstract::Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) is known to interact with different biomolecules and was implicated in many novel cellular activities including programmed cell death, nuclear RNA transport unrelated to the commonly known carbohydrate metabolism. We reported here the purification of GAPDH from Chironom...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866511320090002
更新日期:2013-09-01 00:00:00
abstract::α-Synuclein forms amyloid deposits in the dopaminergic neurons; a process that is believed to contribute to the Parkinson's disease. An emerging theme in amyloid research is the hypothesis that the toxic species produced during amyloid formation share common physic-chemical features and exert their effects by common m...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866522666150209142649
更新日期:2015-01-01 00:00:00
abstract::The interaction of nickel tetra sulfunated phthalocyanine( NiTSPc) with human serum albumin (HSA), in 20 mM phosphate buffer pH 7.4 was investigated using advanced techniques including fluorescence, synchronous fluorescence, Fourier transform infrared (FT-IR), circular dichroism (CD) spectroscopy and molecular docking...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/0929866523666160719101707
更新日期:2016-01-01 00:00:00
abstract::We have synthesised nine analogues of the antibacterial peptide anoplin with a peptoid residue at position 5 (H-GLLKXIKTLL-NH(2)). The most active compounds showed MIC-values of 12.5 and 25 microM against E.coli and S.aureus. These MIC-values are comparable with anoplin which showed 23 microM and 11 microM against E. ...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986609789055421
更新日期:2009-01-01 00:00:00
abstract::A halophilic nucleoside diphosphate kinase from a moderate halophile, Halomonas sp. 593 (593NDK), was found to be resistant to heat treatment, as indicated by the high level of activity recovery after heating at high temperatures. This is due to reversibility of thermal unfolding, not the high melting temperature, of ...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986606776819628
更新日期:2006-01-01 00:00:00
abstract::An efficient preparation of Periplaneta americana nymphae allergen, Cr PI (54 kDa) is described. It was expressed as a GST-tag fusion protein in Escherichia coli, strain BL21 (DE3). Expression of recombinant Cr PI (rCr PI), denaturation/renaturation of the inclusion bodies and the effects of protein and L-arginine con...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986607782110266
更新日期:2007-01-01 00:00:00
abstract::In mammals the M1 aminopeptidase family consists of nine different proteins, five of which are integral membrane proteins. The aminopeptidases are defined by two motifs in the catalytic domain; a zinc binding motif HEXXH-(X18)-E and an exopeptidase motif GXMEN. Aminopeptidases of this family are able to cleave a broad...
journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
doi:10.2174/0929866043406643
更新日期:2004-10-01 00:00:00
abstract::During spermiogenesis, the elongating rat spermatid chromatin undergoes a gradual process of condensation which is initiated in the round spermatids at "step 7" of cytodifferentation in stage VII and extending to elongated spermatids at "step 19" of cytodifferentiation in stage VIII. The mechanism of chromatin condens...
journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
doi:10.2174/092986611795714005
更新日期:2011-08-01 00:00:00
abstract:BACKGROUND:Radical Probe Mass Spectrometry (RP-MS) describes a pioneering methodology in structural biology that enables the study of protein structures, their interactions, and dynamics on fast timescales (down to sub-milliseconds). Hydroxyl radicals (•OH) generated directly from water within aqueous solutions induce ...
journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
doi:10.2174/0929866526666181128124241
更新日期:2019-01-01 00:00:00
abstract::Galanin is a neuropeptide that is widely distributed in the central and peripheral nervous systems. Some small cell lung carcinoma (SCLC) cell lines such as SBC-3A release only the high-molecular-mass form, with lower molecular mass forms being undetectable. To investigate the mechanism of processing of progalanin to ...
journal_title:Protein and peptide letters
pub_type: 杂志文章
doi:10.2174/092986611796378693
更新日期:2011-10-01 00:00:00