A comparative study of CE-SDS,SDS-PAGE,and Simple Western: Influences of sample preparation on molecular weight determination of proteins

The development of capillary electrophoresis, especially CE-SDS devices, has led CE-SDS to become an established tool in a wide range of applications in the analysis of biopharmaceuticals and is increasingly replacing its method of origin, SDS-PAGE. The goal of this study was to evaluate the comparability of molecular weight (MW) determination especially by CE-SDS and SDS-PAGE. For ensuring comparability, model proteins that have little or no posttranslational modifications and an IgG antibody were used. Only a minor influence of sample preparation conditions, including sample buffer, temperature conditions, and different reducing agents on the MW determination were found. In contrast, the selection of the MW marker plays a decisive role in determining the accurate apparent MW of a protein. When using different MW markers, the deviation in MW determination can exceed 10%. Interestingly, CE-SDS and 10% SDS-PAGE hardly differ in their trueness of MW determination. The trueness in relation to the reference MW for each protein was calculated. Although the trueness values for the model proteins considered range between 1.00 and 1.11 using CE-SDS, they range between 0.93 and 1.03 on SDS-PAGE, depending on the experimental conditions chosen.     

Towards the analysis of high molecular weight proteins and protein complexes using TIMS-MS

In the present work, we demonstrate the potential and versatility of TIMS for the analysis of proteins, DNA-protein complexes and protein-protein complexes in their native and denatured states. In addition, we show that accurate CCS measurement are possible using internal and external mobility calibration and in good agreement with previously reported CCS values using other IMS analyzers (<5 % difference). The main challenges for the TIMS-MS analysis of high mass proteins and protein complexes in the mobility and m/z domain are described. That is, the analysis of high molecular weight systems in their native state may require the use of higher electric fields or a small compromise in the TIMS mobility resolution by reducing the bath gas velocity in order to effectively trap at lower electric fields. This is the first report of CCS measurements of high molecular weight biomolecules and biomolecular complexes (~150 kDa) using TIMS-MS.     

Photodissociation of high molecular weight peptides and proteins in a two-stage linear time-of-flight mass spectrometer

A two-stage linear time-of-flight mass spectrometer is used to investigate the requirements for performance of laser photodissociation of peptide and protein ions. Results are presented that demonstrate that desorption and dissociation laser pulses can be synchronized to irradiate ions that travel at high velocities down the drift tube of a time-of-flight mass spectrometer. For example, 193-nm photodissociation of bovine insulin and doubly charged lysozyme is demonstrated, and laser power studies suggest that dissociation is initiated by the absorption of a single 193-nm photon. These results are encouraging because they suggest that laser photodissociation of high molecular weight proteins can lead to fragmentation on time scales compatible with time-of-flight mass spectrometry.     

Direct molecular weight determination of resin-bound oligopeptides using 252Cf plasma-desorption mass spectrometry.

Plasma-desorption mass spectrometry is proved to be capable of the direct molecular weight determination of totally protected resin-bound oligopeptides. The molecular weight measured is the molecular weight of the fully protected oligopeptide including the molecular weight of the linker, which connects the oligopeptide and the polystyrene resin. This method makes it possible to check the success of (a step in) the synthesis of a peptide before its deprotection or cleaving from the resin. This can make it a strong tool in the analysis of resin-bound oligopeptides.     

Synthesis,doping, and processing of high molecular weight poly(o-methoxyaniline)

High molecular weight poly(o-methoxyaniline) was synthesized using a novel method in which the polymerization occurs in the presence of a neutral salt. The molecular weight of the polymer was greatly affected by the quenching procedure employed to conclude the polymerization. Conventional doping of the base form of poly(o-methoxyaniline) produced a yellow coloration of the doping solution and polymer degradation. It was found that the molecular weight of the polymer decreased significantly after washing or doping with certain aqueous acid media. The gelation conditions of N-methyl pyrrolidinone (NMP) solutions and film preparation were also investigated for polymers of various molecular weights. The gelation time in NMP decreased drastically with the increase in the polymer molecular weight (the same for solution concentration and temperature), until a critical point was reached after which its decrease was very slow. Flexible, free-standing, and stretchable films were readily obtained from the higher molecular weight polymers. Good quality doped gel films with conductivity of up to 1 S/cm were obtained under optimized doping conditions. © 1994 John Wiley & Sons, Inc.     

Preparation of high molecular weight poly(vinylaniline)

For the first time, we believe, a high molecular weight soluble poly(vinylaniline) has been prepared. This was done by a bead polymerization with exclusion of oxygen. The polymer has little or no color and good stability in solution.     

Simultaneous electrophoretic analysis of proteins of very high and low molecular weights using low-percentage acrylamide gel and a gradient SDS-PAGE gel

To be able to separate and analyze giant proteins and small proteins in the same electrophoretic gel, we have used a continuous SDS-PAGE gel formed by the combination of a low-percentage acrylamide gel and a gradient SDS-PAGE gel that we have named LAG gel. To get a good resolution for proteins of more than 200 kDa, we used an acrylamide/bisacrylamide ratio of 80:1 in the low-percentage acrylamide gel. To successfully resolve proteins in the 5-200 kDa range, we used a conventional 6-15% SDS-PAGE gradient gel with the standard acrylamide/bisacrylamide ratio of 40:1. We show that the LAG system can be successfully used in general applications of SDS-PAGE electrophoresis such as proteomics and immunobloting techniques. Thus, using this continuous LAG gel, it is possible to simultaneously analyze giant proteins, such as HERC1 and dynein, big proteins like clathrin heavy chain and small proteins like ARF. The LAG system has a good resolution, low cost, and high reproducibility. Moreover, to simultaneously analyze all proteins saves time. All these characteristics, together with the use of a standard apparatus found in any biochemistry laboratory, make the LAG system an easy tool to use.     

Synthesis of high molecular weight and narrow molecular weight distribution poly(acrylonitrile) via RAFT polymerization

Well‐defined polyacrylonitrile (PAN) of high viscosity‐average molecular weight (M_η = 405,100 g/mol) was successfully synthesized using reversible addition‐fragmentation chain transfer polymerization. The polymerization exhibits controlled characters: molecular weights of the resultant PANs increasing approximately linearly with monomer conversion and keeping narrow molecular weight distributions. The addition of 0.01 equiv (relative to monomer acrylonitrile) of Lewis acid AlCl₃ in the polymerization system afforded the obtained PAN with an improved isotacticity (by 8%). In addition, the influence of molecular weights and molecular weight distributions of PANs on the morphology of the electrospun fibers was investigated. The results showed that, under the same conditions of electrospinning, average diameter (247–1094 nm) of fibers increased with molecular weights of PANs, and it was much easier to get “uniform” diameter fibers while using PANs with narrow molecular weight distributions as the precursor of electrospinning. © 2012 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2013     

Enrichment of low molecular weight serum proteins using acetonitrile precipitation for mass spectrometry based proteomic analysis

A rapid acetonitrile (ACN)-based extraction method has been developed that reproducibly depletes high abundance and high molecular weight proteins from serum prior to mass spectrometric analysis. A nanoflow liquid chromatography/tandem mass spectrometry (nano-LC/MS/MS) multiple reaction monitoring (MRM) method for 57 high to medium abundance serum proteins was used to characterise the ACN-depleted fraction after tryptic digestion. Of the 57 targeted proteins 29 were detected and albumin, the most abundant protein in serum and plasma, was identified as the 20th most abundant protein in the extract. The combination of ACN depletion and one-dimensional nano-LC/MS/MS enabled the detection of the low abundance serum protein, insulin-like growth factor-I (IGF-I), which has a serum concentration in the region of 100 ng/mL. One-dimensional sodium dodecyl sulfate/polyacrylamide gel electrophoresis (SDS-PAGE) analysis of the depleted serum showed no bands corresponding to proteins of molecular mass over 75 kDa after extraction, demonstrating the efficiency of the method for the depletion of high molecular weight proteins. Total protein analysis of the ACN extracts showed that approximately 99.6% of all protein is removed from the serum. The ACN-depletion strategy offers a viable alternative to the immunochemistry-based protein-depletion techniques commonly used for removing high abundance proteins from serum prior to MS-based proteomic analyses.     

The mass spectrometry of 2-methylthio(glyco)oxazoline derivatives of pentoses and hexoses

The fragmentation of 2-methylthio(glyco)oxazolines under electron impact has been investigated by low- and high-resolution mass spectrometry. Field desorption was used in those cases where the molecular ion was weak or missing. Fragmentation pathways were determined by monitoring metastable transitions and through the use of labeled compounds. The results support the anticipated structure for these compounds and show the sensitivity of the mass spectra toward ring size.     

电喷雾电离质谱测定细胞色素b5及其定点突变蛋白

本文利用电喷雾电离质谱技术对胰蛋白酶酶解的细胞色素b5蛋白Tb5及脂肪酶酶解的细胞色素b5蛋白Lb5及它们的定点突变蛋白共八个样品的分子量进行精确测定, 证实定点突变的试验是成功的。     

MALDI mass spectrometry analysis of high molecular weight proteins from whole bacterial cells: Pretreatment of samples with surfactants

The use of surfactants as additives in conjunction with on-probe whole cell bacterial protein analysis employing MALDI-TOF-MS is described. Nonionic and zwitterionic surfactants were used to enhance the detection of high molecular weight proteins. Three nonionic, N-octyl-B-D-glactopyranoside, N-decyl-B-D-maltopyranoside, and N-dodecyl-B-D-maltoside, and two zwitterionic surfactants, N,N-dimethyldodecylamine-N-oxide and zwittergent 3-12 were evaluated with five different MALDI matrix systems. New peaks in the mass range of 2 to 80 kDa were produced with all of the various combinations of matrix and surfactant from both whole cell gram-positive and gram-negative bacteria. Ferulic acid used in conjunction with a 1.0 mM solution of N-octyl-B-D-glactopyranoside produced the highest quality spectra with high signal to noise ratios and peaks up to 140 kDa.     

Comparison of planar SDS-PAGE,CGE-on-a-chip,and MALDI-TOF mass spectrometry for analysis of the enzymatic de-<Emphasis Type="Italic">N</Emphasis>-glycosylation of antithrombin III and coagulation factor IX with PNGase F

Three different analytical techniques (planar SDS-PAGE, CGE-on-a-chip and MALDI-TOF-MS) applied for determination of the molecular weight of intact and partly and completely de-N-glycosylated human serum glycoproteins (antithrombin III and coagulation factor IX) have been compared. N-Glycans were removed from the protein backbone of both complex glycoproteins using PNGase F, which cleaves all types of asparagine-attached N-glycan provided the oligosaccharide has at least the length of a chitobiose core unit. Two of the applied techniques were based on gel electrophoretic separation in the liquid phase while the third technique was the gas-phase technique mass spectrometry. It was demonstrated that the enzymatic de-N-glycosylation generally worked well (completely or partially) with both glycoproteins (one containing only N-glycans and the second N- and O-glycans). All three methods were suitable for monitoring the de-N-glycosylation progress. While the molecular weights determined with MALDI-TOF-MS were most accurate, both gel electrophoretic methods provided molecular weights that were too high because of the attached glycan structures. Figure CGE-on-a-chip, SDS-PAGE and MALDI mass spectrometric pattern obtained from therapeutic glycoprotein     

Multicomponent analysis of poly(propylene) using fractionation,tacticity and molecular weight data

Heterogeneous Ziegler-Natta catalysts are known to contain multiple catalytic sites and produce polymers that contain multiple components. An approach is described in this work that combines fractionation, ¹³C NMR and molecular weight distribution data to determine the number and the characteristics of the different components found in the polymer. The methodology is applied to published data on poly(propylene). The analyses indicate that poly(propylene) made with heterogeneous Ziegler-Natta catalysts consists of at least four components. Three of these components obey enantiomorphic-site models, and the fourth component obeys Bernoullian model.     

Synthesis and characterization of linear high molecular weight poly(amino-s-triazine)s

A two-phase polycondensation reaction was used to prepare high molecular weight linear poly-(amino-s-triazine)s from aminodichloro-s-triazines and diamines. These polymers contain a high concentration of melamine-type units in the polymer backbone. Molded specimens exhibited good mechanical properties and resistance to organic solvents. Dimethyl substitution at the exocyclic amino group led to a significant reduction in indentation resistance, strength, and modulus.     

ESIprot: a universal tool for charge state determination and molecular weight calculation of proteins from electrospray ionization mass spectrometry data

Electrospray ionization (ESI) ion trap mass spectrometers with relatively low resolution are frequently used for the analysis of natural products and peptides. Although ESI spectra of multiply charged protein molecules also can be measured on this type of devices, only average spectra are produced for the majority of naturally occurring proteins. Evaluating such ESI protein spectra would provide valuable information about the native state of investigated proteins. However, no suitable and freely available software could be found which allows the charge state determination and molecular weight calculation of single proteins from average ESI‐MS data. Therefore, an algorithm based on standard deviation optimization (scatter minimization) was implemented for the analysis of protein ESI‐MS data. The resulting software ESIprot was tested with ESI‐MS data of six intact reference proteins between 12.4 and 66.7 kDa. In all cases, the correct charge states could be determined. The obtained absolute mass errors were in a range between ?0.2 and 1.2 Da, the relative errors below 30 ppm. The possible mass accuracy allows for valid conclusions about the actual condition of proteins. Moreover, the ESIprot algorithm demonstrates an extraordinary robustness and allows spectral interpretation from as little as two peaks, given sufficient quality of the provided m/z data, without the necessity for peak intensity data. ESIprot is independent from the raw data format and the computer platform, making it a versatile tool for mass spectrometrists. The program code was released under the open‐source GPLv3 license to support future developments of mass spectrometry software. Copyright © 2010 John Wiley & Sons, Ltd.     

Synthesis of high molecular weight polystyrene using AGET ATRP under high pressure

High molecular weight polystyrene (PS) was synthesized by ATRP. Under atmospheric pressure (1 bar), PS with M_n up to 200,000 was prepared using either ARGET or ICAR ATRP. Under high pressure (6 kbar), higher molecular weight PS could be obtained due to accelerated radical propagation and diminished radical termination in polymerization of styrene. Therefore, it was possible to synthesize PS with M_n > 1,000,000 and M_w/M_n < 1.25 using AGET ATRP under a pressure of 6 kbar at room temperature. This is the highest molecular weight linear PS prepared by a controlled radical polymerization.