Purification and characterization of hamster hepatic microsomal N,O-acetyltransferase.

A microsomal N,O-acetyltransferase which activates carcinogenic arylacetohydroxamic acids was purified 75-fold from hamster liver sequentially by anion exchange column chromatography, chromatofocusing, gel filtration, and hydroxyapatite column chromatography. The purified enzyme, AT-2, was a glycoprotein with a molecular weight of 60000 and a pI value of 5.4. The N-terminal amino acid sequence of AT-2 was: 60000 and a pI value of 5.4. The N-terminal amino acid sequence of AT-2 was: Asp-Ser-Pro-Ser-Pro-Ile-Arg-Asn-Thr-His-Thr-Gly-Gln-Val-Arg-Gly-Leu-Val- His- Lys-. This sequence was highly homologous to that of the form 2 carboxylesterase of rabbit liver, but not to that of major hepatic microsomal carboxylesterases of hamster and other species. AT-2 catalyzed the hydrolysis of 4-nitrophenyl acetate and the N,O-acetyltransfer of N-hydroxy-2-acetylaminofluorene. Both enzyme activities were strongly inhibited by paraoxon, but not by iodoacetamide. These results demonstrate that this N,O-acetyltransferase is a member of carboxylesterase (EC 3.1.1.1).     

Sequence confirmation of chemically modified RNAs using exonuclease digestion and matrix‐assisted laser desorption/ionization time‐of‐flight mass spectrometry

A broadly applicable, robust, and rapid method for complete sequence confirmation of highly modified oligonucleotides containing a mixture of 2′‐deoxy, 2′‐fluoro, 2′‐o‐methyl, abasic and ribonucleotides is presented. The passenger (sense) and guide (antisense) strands from synthetic short interfering RNA duplexes (siRNA) were digested individually using both 5′‐ and 3′‐exonucleases and the resulting ladders were analyzed using matrix‐assisted laser desorption/ionization time‐of‐flight (MALDI‐TOF) mass spectrometry. Conditions for enzymatic digestion and MALDI‐TOF mass analysis were investigated and optimized, and the digestion pattern and sequence coverage of each strand was discussed. Complete sequence confirmation for the antisense strands of four synthetic RNA duplexes was obtained, whereas a three‐base sequence gap in the 5′‐end was observed for all four sense strands. A general strategy is proposed for routine sequence confirmation of highly modified oligonucleotides, and the potential for complete automation of the method is also discussed. Copyright © 2009 John Wiley & Sons, Ltd.     

Enhancing the Performance of Evolutionary Algorithm by Differential Evolution for Optimizing Distillation Sequence

Optimal synthesis of distillation sequence is a complex problem in chemical processes engineering, which involves process structure optimization and operation parameters optimization. The study of the synthesis of distillation sequence is a crucial step toward improving the efficiency of chemical processes and reducing greenhouse gas emissions. This work introduced the concept of binary tree to encode the distillation sequence. The performance of the six evolutionary algorithms was evaluated by solving a 14-component distillation sequence synthesis problem. The best algorithm was used to optimize the operation parameters of a triple-column distillation process. The total annual cost and CO₂ emissions were considered as the metrics to evaluate the performance of triple-column distillation processes. As a result, NSGA-II-DE was found to be the best one of the six tested evolutionary algorithms. Then, NSGA-II-DE was applied to the distillation sequence optimization to find the best operating parameters, which led to a significant reduction in CO₂ emission and total annual costs.     

纳升电喷雾串联质谱"序列对接法"确定多肽的加钠位点

用QuattroM icro三级四极串联质谱分析常见的20种氨基酸的加钠效果。结果表明,绝大多数氨基酸与钠离子的非共价键结合力很弱甚至没有,但脯氨酸和苯丙氨酸很容易形成加钠离子峰。采用“序列对接法”测出重组人酸性纤维细胞生长因子(rh-a FGF)C-端肽段的全序列,并确定钠离子的加成位点为该肽段的第6位脯氨酸(6Pro)。通过酸化样品溶液获得无加钠、无序列间隙的该肽全序列,与加钠肽段的序列一致。     

磷脂酶A2家族的功能性分类研究

采用“结合强度指纹图谱分析”方法, 通过对多重分子对接得到的作用强度数据进行聚类矩阵分析对蛋白质进行功能分类. 着重研究了磷脂酶A₂家族基于抑制剂作用强度的功能分类, 并且与基于序列的聚类结果进行比较, 成功地解决了序列比对方法不能处理的远源蛋白(cPLA₂)的分类问题.     

Visual scanometric detection of DNA through silver enhancement regulated by gold-nanoparticle aggregation with a molecular beacon as the trigger

A convenient and label-free scanometric approach for DNA assay was designed by integrating a metal-ion-mediated conformational molecular beacon (MB) and silver-signal amplification regulated by gold-nanoparticle (AuNP) aggregation. The strategy was based on displacing the interaction between the target DNA sequence and a competitor Hg(2+) ion with a link DNA sequence. In the absence of the target DNA sequence, a link DNA sequence interacted with the Hg(2+) ions, thus forming an inactive cyclic conformation of the MB. This result led to the poor aggregation of polyadenosine-functionalized AuNPs (A-AuNP). In the presence of a target DNA sequence with a stronger affinity than that of the competitor, hybridization between the link DNA and target DNA sequences turned on the trigger. The polythymidine end of the resulting linear duplex structure could react with A-AuNP, thus leading to a cross-linking aggregation. This aggregation weakened AuNP-catalyzed silver enhancement on a spot substrate. Further, by using scanometric detection, the concentration of the target DNA sequence could be conveniently read out within a linear range from 1.0 to 30 nM. Interestingly, in the same amount of Hg(2+) ions, one-base mismatched DNA showed only 22% of the relative gray-scale intensity for the target DNA sequence at the same concentration, thus indicating good specificity. The designed approach, with the help of the ion-mediated conformational MB, was simple, cost effective, adaptable, and convenient and provided significant potential applications in clinical analysis.     

Development of a database of amino acid sequences for human colon carcinoma proteins separated by two-dimensional polyacrylamide gel electrophoresis

The tandem use of preparative two-dimensional polyacrylamide gel electrophoresis (2-DE) and electroblotting onto polyvinylidene difluoride membranes has been employed to rapidly isolate a number of proteins from a crude cell extract of a human colon carcinoma cell line (LIM 1863). The immobilized proteins were located by staining with Coomassie Brilliant Blue R-250, and selected protein spots were excised and subjected to Edman degradation. Our results demonstrate that overall sequence yields in the 3-20 pmol range can be achieved on protein spots from four identical 2-DE gels; approximately 150-200 micrograms of total protein was applied to a single 2-DE gel. An approximate two-fold increase in sensitivity of phenylthiohydantoin-amino acid detection (subpicomole range) was achieved by fitting our commercial sequencers with a simple sample transfer device which permitted the analysis of the total phenylthiohydantoin-amino acid derivative. N-Terminal amino acid sequence data was obtained for thirteen electroblotted proteins. All of these sequences positively matched those of proteins of known structure listed in the available protein sequence databases. Approximately 40% of the electroblotted proteins did not yield N-terminal sequence information, presumably because they had blocked N-termini (either naturally or artifactually). Internal amino acid sequence information was obtained from three proteins isolated by preparative 2-DE. This was achieved by in situ digestion of the proteins in the gel matrix with Staphylococcus aureus V8 protease, electrophoresis of the generated peptides in a one-dimensional gel, electrotransfer of the peptides to a polyvinylidene difluoride membrane and microsequence analysis of the electroblotted peptides.     

分子内裂分G-四链体脱氧核糖核酸酶用于Hg2+的特异性定量检测

G-四链体DNA酶是由核酸G-四链体与氯化血红素(Hemin)结合后形成的一种具有过氧化物酶活性的人工酶,利用这种DNA酶,可进行多种化学及生物传感器的设计。为提高G-四链体DNA酶类Hg2+传感器的选择性,本研究在传感器的设计过程中引入了分子内裂分G-四链体,即将形成G-四链体的富G序列拆分成两部分,分别放置在Hg2+探测序列的两端。在无Hg2+存在时,部分富G序列被包埋在某一分子内二倍体结构中,无法形成G-四链体。而在Hg2+存在下,Hg2+对T-T碱基错配的稳定能力可以促使Hg2+探测序列形成分子内二倍体结构,并伴随着原有分子间二倍体结构的破坏及分子内裂分G-四链体的生成。利用生成的裂分G-四链体与Hemin作用后检测体系酶活性的提高,实现Hg2+传感器的设计。利用该传感器,可在50～500 nmol/L及2.0～7.5μmol/L两个浓度范围内实现Hg2+的定量检测,检出限为47 nmol/L。由于裂分G-四链体DNA酶的使用强化了传感器对Hg2+的依赖性,极大地提高了设计的Hg2+传感器的选择性。对实际水样的加标回收结果显示,回收率为97.5%～104.5%,证明此传感器可以满足实际水样中痕量Hg2+的分析要求。     

Study on the electrochemiluminescence behavior of ABEI and its application in DNA hybridization analysis

The electrogenerated chemiluminescence (ECL) behavior of N-(4-aminobutyl)-N-ethylisoluminol (ABEI) was studied and it was found that ABEI could produce emission light when oxidized at a +1.0 V (vs. Ag/AgCl) potential in alkaline solution. The addition of H2O2 markedly improved the ECL sensitivity. The pH value of the solution as well as the H2O2 concentration and working potential all have influences on the ECL response. Under optimal conditions, ABEI can be detected in the range 1.3 x 10(-6)-6.5 x 10(-12) mol L(-1). A detection limit of 2.2 x 10(-12) mol L(-1) for ABEI was obtained at a signal-to-noise ratio of 3. ABEI was then used as a marker to label a known sequence oligonucleotide, which was used as a DNA probe for identifying a target ssDNA immobilized on a PPy modified electrode based on a specific hybridization reaction. The hybridization events were evaluated by the ECL measurements. The results showed that only a complementary sequence could form a double-stranded DNA with the DNA probe and give a strong ECL response. A three-base mismatch sequence and non-complementary sequence have no response. The intensity of the ECL was linearly related to the concentration of the complementary sequence in the range 9.6 x 10(-11)-9.6 x 10(-8) mol L(-1), the detection limit was 3.0 x 10(-11) mol L(-1).     

Probing the solvent accessibility and electron density of adenine: oxidation of 7-deazaadenine in bent DNA and purine doublets

The effect of DNA bending on nucleobase electron transfer was investigated by studying the oxidation of double-stranded sequences containing seven repeats of the known bent sequence d(GGCA(1)A(2)A(3)A(4)A(5)A(6)C) where 7-deazaadenine (zA) was substituted at the A(3) position. Native gel electrophoresis was used to show that the sequence remained bent upon substitution of zA, which provides for oxidation of the sequence by Ru(bpy)(3)(3+) (bpy = 2,2'-bipyridine). The Ru(III) oxidant was generated by photolysis of Ru(bpy)(3)(2+) in the presence of ferricyanide, and the oxidation was visualized by high-resolution gel electrophoresis of the radiolabeled DNA sequence following base treatment. Cleavage of the DNA strand at the guanine residues and at the zA residues was observed. Comparison of the oxidation of zA in bent DNA versus the normal B form showed that hybridization of the B form sequence to its Watson-Crick complement produced a reduction in cleavage by a factor of 5.19 +/- 0.46 while hybridization of the bent sequence only reduced cleavage by a factor of 1.58 +/- 0.23. This result implies that the zA in the double-stranded, bent sequence is much more solvent-exposed than in normal B-form DNA. When the zA occurred in a B-form 5'-zA-G doublet, the reactivity was 6.63 +/- 0.10 times higher for the zA compared to the G. This implies an even greater effect of a 3'-guanine on the oxidation potential of zA than in the well-known 5'-GG doublet.     

Synthesis of new fused and substituted benzo and pyrido carbazoles via C-2 (het)arylindoles

In the course of a program aimed at designing new antitumor agents, we were interested in the synthesis of new substituted benzo and pyrido carbazoles. The synthesis was performed through an efficient four-step sequence from a 2-trimethylstannylindole derivative and via C-2 (het)arylindoles. The synthetic sequence was developed using two palladium mediated reactions including, at the end of the synthesis, a direct (het)arylannulation, which led to the desired heterocycles.     

MS Analysis and Molecular Characterization of Botrytis cinerea Protease Prot-2. Use in Bioactive Peptides Production

Prot-2 protease previously purified to homogeneity from Botrytis cinerea showed potentiality to be used in detergency and for production of bioactive peptides. To extend the characterization of Prot-2 protease, antifungal and antibacterial assays were performed in vitro using protein hydrolysates prepared from muscle of mackerel (Scomber scomborus) treated with this enzyme. The most active hydrolysate (degree of hydrolysis of 8 %) exhibited inhibition effect towards bacteria and phytopathogenic fungi, demonstrating that Prot-2 proteolysis generated bioactive peptides. Biochemical and molecular characterization of the purified Prot-2, by SDS-PAGE/Tryptic in gel-digestion and LC-MS/MS analysis, was investigated. The peptide amino acid sequence alignment search in database revealed a moderate homology between the determined amino acid sequence of Prot-2 protease and the known fungal trypsin/chymotrypsin in particular from Glomerella, Metarhizium and Streptomyces. From peptide sequence data obtained by mass spectrometry and sequences homologies, primers were defined and a cDNA fragment of 786 bp was amplified by RT-PCR. The cDNA nucleotide sequence analysis revealed an open reading frame coding for 262 amino acid residues. The deduced amino acid sequence of Prot-2 showed moderate identity with trypsin of Glomerella graminicola (74 %) and with chymotrypsin from Metarhizium anisopliae (71 %). Prot-2 exhibited a Ser protease homology and showed in addition the specific His motif of trypsin/chymotrypsin family.     

Synthesis of oxa-bridged analogues of farnesyltransferase inhibitor RPR 115135

Two synthetic routes to new oxygen-bridged analogues of farnesyltransferase inhibitors are described that follow either a [3 + 2]/[4 + 2] or a [4 + 2]/[3 + 2] sequence of reactions. The first approach has been achieved by reacting the in situ generated phenylisobenzofuran (PIBF) 4 with pyrroline 5a and has led stereoselectively to racemic 18, which was transformed in a few steps into the target molecule 2. The second pathway relies on a key intermediate 6, obtained either by condensation of PIBF with methyl acrylate, followed by a deprotonation/selenation and an oxidation/elimination sequence, or by cycloaddition between PIBF and alpha-phenylselenoacrylate 11, followed by the same oxidation/elimination sequence. The reaction of 6 with amino dipole 7 gives diastereoselective access to pyrrolidine 25, a precursor of the second target 3, an epimer of 2.     

Monomer sequence distribution in α-methylstyrene–methacrylonitrile copolymer

The sequence distributions of α-methylstyrene-methacrylonitrile copolymers have been determined quantitatively as a function of monomer feed composition and conversion at 60°C by use of the run-number concept. The azeotropic copolymer was found to be highly alternating. For this copolymer the data showed that 83% of the diad placements took the form of an AMS unit followed by a MAN unit, or vice versa. The triad sequence in which an AMS unit is centered between two MAN units was 92%. It was found that the AMS-AMS diad sequence is only 2%, and there were no AMS-AMS-AMS triad sequences in the copolymer. The sequence distributions were correlated with Izod impact strength and heat-deflection temperature properties.     

Coding in 2D: Using Intentional Dispersity to Enhance the Information Capacity of Sequence‐Coded Polymer Barcodes

A 2D approach was studied for the design of polymer‐based molecular barcodes. Uniform oligo(alkoxyamine amide)s, containing a monomer‐coded binary message, were synthesized by orthogonal solid‐phase chemistry. Sets of oligomers with different chain‐lengths were prepared. The physical mixture of these uniform oligomers leads to an intentional dispersity (1st dimension fingerprint), which is measured by electrospray mass spectrometry. Furthermore, the monomer sequence of each component of the mass distribution can be analyzed by tandem mass spectrometry (2nd dimension sequencing). By summing the sequence information of all components, a binary message can be read. A 4‐bytes extended ASCII‐coded message was written on a set of six uniform oligomers. Alternatively, a 3‐bytes sequence was written on a set of five oligomers. In both cases, the coded binary information was recovered.     

Proteomics of gluten: mapping of subunit 1 Ax2* in Cheyenne cultivar by matrix-assisted laser desorption/ionization.

This paper reports results on the verification of the 1Ax2* high molecular weight glutenin subunit sequence in Cheyenne cultivar. The gene sequence of the protein is known but recently some text changes have been made, and furthermore until now no characterization of post-translational modifications has been reported. The two published sequences, named I and II, differ in four residues at positions 23, 208, 475, and 611. The first sequence contains 20 Arg and 6 Lys residues, producing 26 tryptic fragments, since the Arg(109)-Pro(110) bond is generally not cleaved by trypsin. The second sequence contains 19 Arg and 6 Lys residues, producing 25 tryptic peptides, again because of the Arg(109)-Pro(110) bond. Both sequences generate two cyanogen bromide fragments. Matrix-assisted laser desorption/ionization analysis of the tryptic digest of the high-MW glutenin subunit 1Ax2* resulted in the identification of 24 out of the 26 expected peptides for sequence I, a sequence coverage of 99.5%. These results were sufficient to rule out sequence II and any protein glycosylation and any other post-translational modifications to within the detection limits of the method. It was found that the choice of matrix considerably influenced the sequence coverage in peptide mapping.     

1:2‐sequence‐regulated radical copolymerization of naturally occurring terpenes with maleimide derivatives in fluorinated alcohol

Naturally occurring bulky terpenes, such as (+)‐ and (–)‐limonene and (–)‐β‐pinene, were quantitatively copolymerized with maleimide (MI) derivatives (i.e., phenyl‐, cyclohexyl‐, ethyl‐, and unsubstituted‐MI) in PhC(CF₃)₂OH solvent via selective 1:2‐alternating propagation governed by the penultimate effect, which resulted in 1:2‐sequence regulated polymers with relatively high glass transition temperatures and optical activities. Similar petroleum‐derived bulky olefins possessing cyclohexenyl, cyclohexyl, or additional α‐methyl substituents were copolymerized with phenylmaleimide via preferential 1:2‐alternating propagation with a slightly lower selectivity. A further decrease in the bulkiness of nonpolar olefins increased the 1:1‐alternating sequence. The copolymerization of limonene and acrylonitrile also proceeded approximately via 1:1‐alternating propagation, in which the penultimate effect was less observable. Furthermore, when methylene chloride was used instead of fluorinated alcohol for the copolymerization of limonene and phenylmaleimide, the length of the sequence of MI units increased. Thus, in addition to the characteristic MI skeleton, the bulky and rather specific structure of either limonene or β‐pinene induces 1:2‐selective propagation via the penultimate effect, whereas the fluoroalcohol diminishes the homopropagation of MI via a hydrogen bonding interaction with the MI unit. RAFT copolymerization of limonene and various MI derivatives in PhC(CF₃)₂OH successfully proceeded to give the end‐to‐end 1:2‐sequence‐regulated copolymer with a selective initiating sequence and predominant capping sequence using an appropriate RAFT agent. © 2013 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2013     

纳米Ag2O2-PbO2化学修饰电极对大肠杆菌细胞膜壁和DNA损伤的研究

制备了一种新型纳米AgO2-PbO2修饰电极,在选定的正电位下,电极表面产生羟基自由基(.OH).通过测定产生的脂质过氧化物和漏出蛋白质的量来研究羟基自由基对大肠杆菌细胞膜壁损伤的情况,并运用电泳和DNA测序的方法对大肠杆菌质粒DNA的损伤及其对序列变化进行了研究.     

稀土催化丁二烯-异戊二烯共聚物的序列分布

用~(13)C-NMR方法研究了不同稀土元素聚合丁二烯-异戊二烯共聚物的序列分布。定量地求得丁-戊共聚物二元组分布及数均序列长度数据。证明以Nd、Pr及Ce为催化剂的共聚物分布较好地服从Bernoullian模型,以Y、Sm、Dy及Gd为催化剂的共聚物与Bernoullian分布有些偏离。     

Sequence distribution of poly(ether)urethane elastomer

Poly(ether)urethane elastomers (PEUE) having different sequence distributions can be synthesized by the reaction of p-phenylene diisocyanate, poly(oxytetramethylene glycol), and hydrazine by four different routes. The degree of the sequence distribution of PEUE was determined by high-resolution NMR spectroscopy. The sequence distribution of PEUE synthesized by the prepolymer method in solvent (method 1) was found to coincide with the sequence distribution calculated from the reactivity ratio of two isocyanate groups in p-phenylene diisocyanate. On the other hand, the sequence distribution of PEUE obtained by the prepolymer method without solvent (method 2) was found to deviate from that expected from the reactivity ratio. The degree of the distribution of monomers in PEUE having the same composition ratio corresponded to the infrared absorbance ratio at 1720 and 1700 cm^?1.