Proteomic analysis of the human colon carcinoma cell line (LIM 1215): development of a membrane protein database

The proteomic definition of plasma membrane proteins is an important initial step in searching for novel tumor marker proteins expressed during the different stages of cancer progression. However, due to the charge heterogeneity and poor solubility of membrane-associated proteins this subsection of the cell's proteome is often refractory to two-dimensional electrophoresis (2-DE), the current paradigm technology for studying protein expression profiles. Here, we describe a non-2-DE method for identifying membrane proteins. Proteins from an enriched membrane preparation of the human colorectal carcinoma cell line LIM1215 were initially fractionated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE, 4-20%). The unstained gel was cut into 16 x 3 mm slices, and peptide mixtures resulting from in-gel tryptic digestion of each slice were individually subjected to capillary-column reversed phase-high performance liquid chromatography (RP-HPLC) coupled with electrospray ionization-ion trap-mass spectrometry (ESI-IT-MS). Interrogation of genomic databases with the resulting collision-induced dissociation (CID) generated peptide ion fragment data was used to identify the proteins in each gel slice. Over 284 proteins (including 92 membrane proteins) were identified, including many integral membrane proteins not previously identified by 2-DE, many proteins seen at the genomic level only, as well as several proteins identified by expressed sequence tags (ESTs) only. Additionally, a number of peptides, identified by de novo MS sequence analysis, have not been described in the databases. Further, a "targeted" ion approach was used to unambiguously identify known low-abundance plasma membrane proteins, using the membrane-associated A33 antigen, a gastrointestinal-specific epithelial cell protein, as an example. Following localization of the A33 antigen in the gel by immunoblotting, ions corresponding to the theoretical A33 antigen tryptic peptide masses were selected using an "inclusion" mass list for automated sequence analysis. Six peptides corresponding to the A33 antigen, present at levels well below those accessible using the standard automated "nontargeted" approach, were identified. The membrane protein database may be accessed via the World Wide Web (WWW) at http://www.ludwig. edu.au/jpsl/jpslhome.html.     

Size‐selective purification of hepatitis B virus‐like particle in flow‐through chromatography: Types of ion exchange adsorbent and grafted polymer architecture

Hepatitis B virus‐like particles expressed in Escherichia coli were purified using anion exchange adsorbents grafted with polymer poly(oligo(ethylene glycol) methacrylate) in flow‐through chromatography mode. The virus‐like particles were selectively excluded, while the relatively smaller sized host cell proteins were absorbed. The exclusion of virus‐like particles was governed by the accessibility of binding sites (the size of adsorbents and the charge of grafted dextran chains) as well as the architecture (branch‐chain length) of the grafted polymer. The branch‐chain length of grafted polymer was altered by changing the type of monomers used. The larger adsorbent (90 μm) had an approximately twofold increase in the flow‐through recovery, as compared to the smaller adsorbent (30 μm). Generally, polymer‐grafted adsorbents improved the exclusion of the virus‐like particles. Overall, the middle branch‐chain length polymer grafted on larger adsorbent showed optimal performance at 92% flow‐through recovery with a purification factor of 1.53. A comparative study between the adsorbent with dextran grafts and the polymer‐grafted adsorbent showed that a better exclusion of virus‐like particles was achieved with the absorbent grafted with inert polymer. The grafted polymer was also shown to reduce strong interaction between binding sites and virus‐like particles, which preserved the particles’ structure.     

Photodynamic studies of metallo 5,10,15,20-tetrakis(4-methoxyphenyl) porphyrin: photochemical characterization and biological consequences in a human carcinoma cell line.

The photodynamic activities of the free-base 5,10,15,20-tetrakis(4-methoxyphenyl)porphyrin (TMP) and their metal complexes with zinc(II) (ZnTMP), copper(II) (CuTMP) and cadmium(II) (CdTMP) have been compared in two systems: reverse micelle of n-heptane/sodium bis(2-ethylhexyl)sulfosuccinate/water bearing photooxidizable substrates and Hep-2 human larynx carcinoma cell line. The quantum yields of singlet molecular oxygen, O2(1 delta g), production (phi delta) of TMP, ZnTMP and CdTMP in tetrahydrofuran, were determined yielding values of 0.65, 0.73 and 0.73, respectively, while O2(1 delta g) formation was not detected for CuTMP. In the reverse micellar system, the amino acid L-tryptophan (Trp) was used as biological substrate to analyze the O2(1 delta g)-mediated photooxidation. The observed rate constants for Trp photooxidation (kobsTrp) were proportional to the sensitizer quantum yield of O2(1 delta g). A value of approximately 2 x 10(7) s-1 M-1 was found for the second-order rate constant of Trp (krTry) in this system. The response of Hep-2 cells to cytotoxicity photoinduced by these agents in a biological medium was studied. The Hep-2 cultures were treated with 1 microM of porphyrin for 24 h at 37 degrees C and the cells exposed to visible light. The cell survival at different light exposure levels was dependent on phi delta. Under these conditions, the cytotoxic effect increases in the order: Cu-TMP < TMP < ZnTMP approximately CdTMP, correlating with the production of O2(1 delta g). A similar behavior was observed in both the chemical and biological media indicating that the O2(1 delta g) mediation appears to be mainly responsible for the cell inactivation.     

Purification on poly(U)-sepharose 4B of human breast cancer cell line T-47D DNA polymerases

The purification of DNA polymerases (RNA-directed DNA polymerases and DNA-directed DNA polymerases) on poly(U)-Sepharose 4B from a breast tumour cell line (T-47D) is reported. The elution of these enzymes was followed in each fraction by activity measurements with the four primer-templates poly(rA)-oligo(dT)12-18, poly(dA) oligo(dT)12-18, poly(rC)-oligo(dG)12-18 and poly(rCm)-oligo (dG)12-18. The control of the polymerase purification by chromatography was performed by sodium dodecyl sulphate-polyacrylamide gel electrophoresis of the pooled active enzymatic fractions.     

Diazenyl schiff bases: Synthesis,spectral analysis,antimicrobial studies and cytotoxic activity on human colorectal carcinoma cell line (HCT-116)

A series of diazenyl schiff bases have been synthesized by reaction of salicylaldehyde containing azo dyes with various substituted aniline derivatives in the presence of acetic acid as catalyst. The structures of diazenyl derivatives were determined by FTIR, UV–vis, ¹H NMR, ¹³C NMR, CHN analysis, fluorimetric and mass spectroscopic studies. The synthesized derivatives were screened for their in vitro antimicrobial activity against various Gram-positive (S. aureus, B. subtilis, B. cereus), Gram-negative (S. typhi, S. enterica, E. coli, P. aeruginosa) bacterial and fungal (C. albicans, A. niger and A. fumigatus) strains, using cefadroxil (antibacterial) and fluconazole (antifungal) as standard drugs. The diazenyl schiff bases were also screened for their cytotoxicity against human colorectal carcinoma cell line (HCT-116) using 5-fluorouracil as standard drug by Sulforhodamine-B Stain (SRB) assay. The schiff bases exhibited significant activity toward both Gram-positive, Gram-negative bacterial and fungal strains. Most of the synthesized derivatives showed high activity against S. enterica. 4-((2,5-Dichlorophenyl)diazenyl)-2-((3-bromophenylimino)methyl)phenol (SBN-40) was found to be very active against S. aureus, B. cereus and E. coli, with MIC = 0.69 (µM/ml × 10²). The compound 4-((2-bromophenyl)diazenyl)-2-((4-nitrophenylimino)methyl)phenol (SBN-13) possessed comparable activity (IC₅₀ = 7.5 µg/ml) to the standard drug 5-fluorouracil (IC₅₀ = 3.0 µg/ml) against human colorectal carcinoma cell line (HCT-116).     

A poly (4‐vinylpridine‐co‐ethylene glycol dimethacrylate) monolithic concentrator for in‐line concentration‐capillary electrophoresis analysis of phenols in water samples

A poly(4‐vinylpridine‐co‐ethylene glycol dimethacrylate) monolith was synthesized in a capillary and constructed as a concentrator for the in‐line polymeric monolith microextraction coupling with capillary electrophoresis. The integrated system was then used for the simultaneous determination of five trace phenols (2‐nitrophenol, 3‐nitrophenol, 4‐nitrophenol, 2‐chlorophenol, and 2,4‐dichlorophenol) in water samples. The experimental parameters for in‐line solid‐phase extraction, such as composition and volume of the elution plug, pH of sample solution, and the time for sample loading were optimized. The sensitivity for the mixture of phenols (2‐nitrophenol, 3‐nitrophenol, 4‐nitrophenol, 2‐chlorophenol, and 2,4‐dichlorophenol) enhanced to 615–2222 folds at the optimum condition was compared to the sensitivity for a normal hydrodynamic injection in capillary electrophoresis. Linearity ranged from concentration of 10–500 ng mL^?1(R² > 0.999) for all five phenols with the detection limits of 1.3–3.3 ng mL^?1. In tap, snow and Yangtze River water spiked with 20 ng mL^?1 and 200 ng mL^?1, respectively, the recoveries of 84–105% were obtained. It has been demonstrated that this work has great potential for the analysis of phenols in genuine water samples.     

ChemInform Abstract: Td B(BO)4‐: A Tetrahedral Boron Oxide Cluster Analogous to Boron Hydride Td BH4‐

ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 200 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.     

Structural investigation of 5,10‐A2B2‐type porphyrins: palladium(II) and zinc(II) complexes of 5,10‐dibromo‐15,20‐bis(4‐methylphenyl)porphyrin

The analysis of [5,10‐dibromo‐15,20‐bis(4‐methylphenyl)porphyrinato]palladium(II), [Pd(C₃₄H₂₂Br₂N₄)], and [5,10‐dibromo‐15,20‐bis(4‐methylphenyl)porphyrinato](methanol)zinc(II), [Zn(C₃₄H₂₂Br₂N₄)(CH₄O)], reveals a small but localized influence of the bromine residues on the conformation of the macrocycle. A comparison of the 5,10‐dibromo substituent pattern with literature data for 5,15‐dibromoporphyrins shows similar in‐plane distortions in both but a different mix of out‐of‐plane distortion modes for the different regiochemical arrangements.     

A thermodynamic analysis of specific interactions in homoblends of poly(styrene‐co‐4‐vinylpyridine) and poly(styrene‐co‐methacrylic acid)

Miscibility and strong specific interactions that occurred within homoblends of poly(styrene‐co‐4‐vinylpyridine) containing 15 mol % of 4‐vinylpyridine (PS4VP15) and poly(styrene‐co‐methacrylic acid) containing 15 mol % of methacrylic acid (PSMA15) have been examined by Fourier Transform infrared spectroscopy and DSC. The observed positive deviation of the glass transition temperature of the blends from the linear average line, was analyzed by the frequently used theoretical conventional approaches including the one very recently proposed by Brostow. A better fit was obtained when this latter is used. A reasonable agreement with experimental values was also obtained when the theoretical fitting parameter free method developed by Coleman, is applied to predict the composition dependence of the T_g of this system. A thermodynamic analysis of hydrogen bonding in this system was carried using the Painter‐Coleman association model and the variation of the Gibbs function of mixing and its different contributions and corresponding phase diagrams as a function of temperature and composition were estimated. This analysis predicted PSMA15 to be miscible with PS4VP15 in the whole composition range up to 150 °C. Above this temperature, a partial miscibility is predicted when the PS4VP15 is in excess. The DSC results are in agreement with these predictions. © 2009 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys 47: 923–931, 2009     

Tieftemperaturuntersuchung von Wasserstoffbrückenbindungen in Lithiumtetrahydroxoborat mit Raman‐Spektroskopie,Röntgen‐ und Neutronenbeugung (Li11B(OD)4)

Low Temperature Investigation of Hydrogen Bridge Bonds in Lithium Tetrahydroxoborate by Raman Spectroscopy, X‐Ray and Neutron Diffraction (Li¹¹B(OD)₄) Low temperature Raman spectroscopic measurements on isotopically diluted Li¹¹B(OH)₄ with 8 % D and Li¹¹B(OD)₄ with 8 % H reveal four crystallographically different hydrogen bridge bonds. With decreasing temperatures beginning at ～50 K measured down to ～10 K the stretching modes of the hydroxide ions shift to higher wave numbers. For the strongest bond O–D···O the frequency shift is 16 cm^?1and for the weakest 7 cm^?1. For O–H···O the maximum in the frequency shift is 22 cm^?1. X‐ray single crystal (LiB(OH)₄) and neutron powder diffraction (Li¹¹B(OD)₄) data result in bond lengths for the four hydroxide ions in the range of 0.943 (3) Å ≤ d(O–D) ≤ 0.974 (3) Å. The value of the effect of inversion of the stretching mode frequencies seems to correlate with the strength of the hydrogen bridge bonds and is found to be different for the two isotopes H and D in this compound.     

Computational Interpretation of Vibrational Optical Activity: The ROA Spectra of (4S)‐4‐Methylisochromane and the (4S)‐Isomers of Galaxolide®

The reliable computation of Raman‐optical‐activity (ROA) spectra of molecules of the size of the title compounds has, until now, not been possible. We show that our rarefied basis sets yield results in good agreement with the experimental data for (4S)‐4‐methylisochromane (=(4S)‐3,4‐dihydro‐4‐methyl‐1H‐2‐benzopyran; 1 ), provided the equilibrium between the pseudo‐equatorial and the pseudo‐axial conformers is taken into account. Comparison between the measured and the computed ROA back‐scattering spectra allows the unequivocal assignment of the absolute configuration of the molecule. Comparison with more‐approximate calculations for the larger (4S)‐isomers of Galaxolide^® ( 2 ), which contain the (4S)‐4‐methylisochromane moiety, shows large‐scale group frequencies on the same chiral fragments of the two molecules. The data confirm that ROA can be generated by interactions extending over several bonds, i.e., over larger distances than can be probed by NMR spectroscopy. Thus, the absolute configuration at C(7) of Galaxolide^® is assignable independently of that at C(4). The computation of ROA for forward‐scattering, which will soon be measurable for Galaxolide^®, suggests that this scattering geometry provides additional stereochemical information that will be valuable in situations where absolute configurations at several stereogenic centers have to be assigned.     

Adducts of 1,1,1‐tris(4‐hydroxy­phenyl)­ethane with 1,2‐bis(4‐pyridyl)­ethane and 1,2‐bis(4‐pyridyl)­ethene: continuously interwoven structures in three dimensions

In the adduct 1,2‐bis(4‐pyridyl)­ethane–1,1,1‐tris(4‐hydroxy­phenyl)­ethane (1/2), C₁₂H₁₂N₂·2C₂₀H₁₈O₃, the bipyridyl component lies across an inversion centre in P. The tris‐phenol mol­ecules [systematic name: 4,4′,4′′‐(ethane‐1,1,1‐triyl)­triphenol] are linked by O—H?O hydrogen bonds to form sheets built from R(38) rings, and symmetry‐related pairs of sheets are linked by the bipyridyl mol­ecules via O—H?N hydrogen bonds to form open bilayers. Each bilayer is interwoven with two adjacent bilayers, forming a continuous three‐dimensional structure. In the adduct 1,2‐bis(4‐pyridyl)­ethene–1,1,1‐tris(4‐hydroxy­phenyl)­ethane–methanol (1/1/1), C₁₂H₁₀N₂·C₂₀H₁₈O₃·CH₄O, the mol­ecules are linked by O—H?O and O—H?N hydrogen bonds into three interwoven three‐dimensional frameworks, generated by single spiral chains along [010] and [001] and a triple‐helical spiral along [100].     

Investigation of commercial sorbents for the analysis of opioid peptides in human plasma by on‐line SPE‐CE

In this study, we investigated the performance of several commercial sorbents (Sep‐pack^® C18, ^tC18, C8 and ^tC2, Oasis^® HLB, Isolute^® ENV+, Strata^?‐X and Oasis^® MCX) for the determination of opioid peptides by solid‐phase extraction coupled on‐line to capillary electrophoresis (SPE‐CE). First, standard solutions were analyzed in order to achieve the lowest LOD and the best electrophoretic separations using UV detection. The best results were obtained using C18, C8 and ^tC2 sorbents, which were examined for the analysis of spiked human plasma samples. A double‐step sample clean‐up pretreatment, which consisted of precipitation with acetonitrile and filtration, was needed to prevent saturation of the on‐line SPE microcartridge. The filtration step was critical to obtain optimum analyte recovery and to clean up the sample matrix. A range of centrifugal filters and filtration conditions were tested and the recoveries of the sample pretreatment were evaluated by CE‐ESI‐MS. The LODs attained through SPE‐CE‐UV were approximately ten‐fold better with C18 than with C8 and ^tC2. The 0.1 μg/mL LODs achieved by C18‐SPE‐CE‐UV were further improved until we could detect 1 ng/mL concentrations of opioid peptides in plasma samples by C18‐SPE‐CE‐ESI‐MS, due to the outstanding selectivity of the MS detection.     

Secondary doping in poly(3,4‐ethylenedioxythiophene):Poly(4‐styrenesulfonate) thin films

The electrical and structural properties of poly(3,4‐ethylenedioxythiophene):poly(4‐styrenesulfonate) (PEDOT:PSS) thin films deposited from aqueous dispersion using different concentrations of selected secondary dopants are studied in detail. An improvement of the electrical conductivity by three orders of magnitude is achieved for dimethyl sulfoxide, sorbitol, ethylene glycol, and N,N‐dimethylformamide, and the secondary dopant concentration dependence of the conductivity exhibits almost identical behavior for all investigated secondary dopants. Detailed analysis of the surface morphology and Raman spectra reveals no presence of the secondary dopant in fabricated films, and thus the dopants are truly causing the secondary doping effect. Although the ratio of benzenoid and quinoid vibrations in Raman spectra is unaffected by doping, the phase transition in PEDOT:PSS films owing to doping is confirmed. Further analysis of temperature‐dependent conductivity reveals 1D variable range hopping (VRH) charge transport for undoped PEDOT:PSS, whereas highly conductive doped PEDOT:PSS films exhibit 3D VRH charge transport. We demonstrate that the charge ‐ hopping dimensionality change should be a fundamental reason for the conductivity enhancement. © 2015 Wiley Periodicals, Inc. J. Polym. Sci., Part B: Polym. Phys. 2015 , 53, 1139–1146     

Cytotoxic activity of two polyaspartamide‐ based monoamineplatinum(II) conjugates against the HeLa cancer cell line

In this screening study in vitro, two polymer‐conjugated, square‐planar platinum(II) complexes bound to the carrier via a single primary amine ligand were tested for antineoplastic activity against the HeLa human cervical epithelioid carcinoma cell line. In the first of these conjugates, 1‐Pt , the spacer connecting the metal complex with the carrier backbone is a short oligo(ethylene oxide) segment, whereas a long poly(ethylene oxide) chain represents the spacer unit in the second conjugate, 2‐Pt . IC₅₀ data, expressed as conjugate concentration at 50% cell growth inhibition, are 48 µg Pt ml⁻¹ for 1‐Pt and 120 µg Pt ml⁻¹ (estimated) for 2‐Pt , the long tether in the latter conjugate presumably causing retarded enzymic release and lysosomal membrane crossing of the monomeric complex. The IC₅₀ value of 1‐Pt is close to that (44 µg Pt ml⁻¹) of a similar conjugate of an earlier investigation, 3‐Pt , in which the metal is chelated by two carrier‐attached, cis‐oriented amino groups in conformance with the ligand arrangement in cisplatin. It thus appears that, in the carrier‐bound state, both monoamine‐ and cis‐diamine‐coordinated platinum(II) complexes of suitable structures may well show similar biological performance patterns. Copyright­© 1999 John Wiley & Sons, Ltd.