Sensitivity enhanced NMR spectroscopy by quenching scalar coupling mediated relaxation: Application to the direct observation of hydrogen bonds in 13C/15N-labeled proteins

In this paper, we demonstrate that the sensitivity of triple-resonance NMR experiments can be enhanced significantly through quenching scalar coupling mediated relaxation by using composite-pulse decoupling (CPD) or an adiabatic decoupling sequence on aliphatic, in particular alpha-carbons in ¹³C/¹⁵N-labeled proteins. The CPD-HNCO experiment renders 50% sensitivity enhancement over the conventional CT-HNCO experiment performed on a 12 kDa FK506 binding protein, when a total of 266 ms of amide nitrogen–carbonyl carbon defocusing and refocusing periods is employed. This is a typical time period for the direct detection of hydrogen bonds in proteins via trans-hydrogen bond ^3h J _NC couplings. The experimental data fit theoretical analysis well. The significant enhancement in sensitivity makes the experiment more applicable to larger-sized proteins without resorting to perdeuteration.     

Enhancement of chrysogenin production in cultures of Penicillium chrysogenum by uronic acid oligosaccharides

Additions of 50 to 100 g of acid-hydrolysed alginate oligosaccharides ml^–1 and enzyme-hydrolysed pectin oligosaccharides to 24- to 48-h cultures of Penicillium chrysogenum, ATCC 9480, led to enhanced production of chrysogenin by over 30 to 40% in shaken flasks and bioreactors. Some of the oligosaccharides also promoted biomass formation but were not used as a carbon source.     

Sequential resonance assignment of medium-sized15 N/13C-labeled proteins with projected 4D triple resonance NMR experiments

We recently introduced a new line of reduced-dimensionality experiments making constructive use of axial peak magnetization, which has so far been suppressed as an undesirable artifact in multidimensional NMR spectra [Szyperski, T., Braun, D., Banecki, B. and Wüthrich, K. (1996) J. Am. Chem. Soc., 118, 8146–8147]. The peaks arising from the axial magnetization are located at the center of the doublets resulting from projection. Here we describe the use of such projected four-dimensional (4D) triple resonance experiments for the efficient sequential resonance assignment of ¹⁵N/¹³C-labeled proteins. A 3D ^{/ /}(CO)NHN experiment is recorded either in conjunction with 3D HNN< > or with the newly presented 3D HNN scheme. The first combination yields sequential assignments based on the measurement of¹³ C chemical shifts and provides a complete ¹H, ¹³C and ¹⁵N resonance assignment of polypeptide backbone and CH_n moieties. When employing the second combination, ¹³C=O chemical shifts are not measured, but the sequential assignment relies on both ¹³C and¹ H chemical shifts. The assignment is performed in a semi-automatic fashion using the program XEASY in conjunction with the newly implemented program SPSCAN. This program package offers routines for the facile mutual interconversion of single-quantum and zero/double-quantum frequencies detected in conventional and reduced-dimensionality spectra, respectively. In particular, SPSCAN comprises a peak picking routine tailored to cope with the distinct peak patterns of projected NMR experiments performed with simultaneous acquisition of central peaks. Data were acquired at 13 °C for the N-terminal 63-residue polypeptide fragment of the 434 repressor. Analysis of these spectra, which are representative for proteins of about 15 kDa when working at commonly used temperatures around 30 °C , demonstrates the efficiency of our approach for the assignment of medium-sized¹⁵ N/¹³C doubly labeled proteins.     

Spectroscopic investigation of nickel cation binding with adenine mononucleotides: stability and structure of the 1:2 complex with adenosine 5′-monophosphate

 The interaction of Ni(II) ions with adenine mononucleotides (5′-AMP, 3′-AMP, 2′-AMP, 2′,3′-cAMP, 3′,5′-cAMP) was studied in aqueous solution using Raman spectroscopy and ¹³C and ³¹P NMR paramagnetic relaxation measurements. Macrochelate structures were observed to form for all non-cyclic AMPs, with increasing stability in the series: 3′-AMP < 2′-AMP < 5′-AMP. N7 of adenine was found to be the key site of the Ni(II)-adenine interaction for all non-cyclic AMPs. For 2′-AMP, an alternative binding to the pyrimidine ring may also exist. The dependence of Raman spectra on AMP and Ni(II) concentration confirmed the existence of a stable 1 : 2 Ni(II)-(5′-AMP) complex, besides the 1 : 1 complexes. In this complex, the adenine moieties of both 5′-AMP molecules are situated close to Ni(II), and their relative orientations with respect to the cation are very similar. The paramagnetic relaxation enhancements of the carbons indicate that the nickel ion is not located in the plane of the adenine units, but that the line connecting Ni(II) and N7 deviates strongly from the adenine planes. Phosphates are outer-sphere coordinated by the cation. Findings from both methods have led us to propose possible global architectures of the complex. Received: 26 June 1998 / Accepted: 22 July 1998     

Enhancement of bacterial efficiency for metal removal using mutation techniques

The objective of the present study was to obtain by mutation and selection techniques bacterial strains capable of removing heavy metals at high efficiency. Four of the bacteria most promising in metal uptake, Staphylococcus aureus, Bacillus Sphaericus, B. licheniformis and Arthrobacter sp. were selected after isolation from water heavily polluted with heavy metals. Two mutagenic agents were used: U.V. irradiation at 245nm (physical) and 1% ethidium bromide (chemical). Optimum conditions for metal removal by most of the tested bacteria were: pH 9, 50°C and 200rev/min agitation speed. Induction of mutation both physically or chemically resulted in mutants that were superior over their wild types in removing heavy metals under investigation. The highest removal efficiencies (REs) achieved were in the following order: Cd(89.9–100%); Cr(87.3–99.7%); Zn(47.7–100%); Cu(40.8–84.7%); Pb(40.2–51%); Fe(17.5–28.7%); Ni(13.8–23.9%) and finally Co(17.2–18.4%). Using mixed cultures of the wild and the selected mutants enhanced the RE(s) of some metals compared to those obtained by individual species, and the time required to achieve the highest RE was reduced.     

Exopolysaccharide production by the cyanobacterium Anabaena sp. ATCC 33047 in batch and continuous culture

The halotolerant, filamentous, heterocystous cyanobacterium Anabaena sp. ATCC 33047 released, during the stationary growth phase in batch culture and, at low dilution rate, in continuous culture, large amounts of an exopolysaccharide (EPS) to the culture medium. Different environmental, nutritional and physical parameters affected production and accumulation of the EPS. The presence of either a combined nitrogen source or NaCl at high concentration led to decreased EPS production, without affecting cell growth. In contrast, generation of the EPS was markedly enhanced in response to an increase in either air flow rate, temperature or irradiance. In continuous culture, accumulation of EPS in the medium increased in response to a decrease in the dilution rate, with maximal EPS productivity being reached at a dilution rate of 0.03 h⁻¹.     

混合喂养法建立成年营养性肥胖大鼠模型

目的:尝试用混合喂养法建立一种与临床相仿的成年营养性肥胖大鼠模型。方法:55只8周龄SD大鼠随机分为对照组10只(普通饲料喂养)和实验组45只(混合喂养),喂养2周后实验组剔除肥胖抵抗大鼠。每周记录大鼠体重,喂养9周后观察两组大鼠体重、体长、Lee's指数、空腹血糖(FBG)、血脂、葡萄糖耐量水平和肝脏组织病理改变。结果:喂养第9周末,实验组大鼠和对照组大鼠体重分别为(645.6±34.8)g和(483.3±31.5)g,Lee's指数分别为(326.3±24.2)和(302.7±19.8),组间比较有显著差异(P0.05)。实验组血清甘油三酯(TG)、总胆固醇(TC)及低密度脂蛋白胆固醇(LDL-C)、FPG、糖负荷后30、60、120分钟血糖均明显高于对照组,差异有统计学意义。HE染色病理结果显示实验组大鼠肝脏均出现脂肪样变,而对照组未见明显变性。结论:本研究所应用的混合喂养法可以稳定成功地建立伴有葡萄糖耐量减低和高脂血症的成年营养性肥胖大鼠模型。     

某坦克部队外训期间的膳食营养调查

目的:了解坦克部队官兵在野外驻训期间的膳食营养状况,为指导合理膳食提供参考依据。方法:膳食调查采用称重法,能量消耗采用生活观察法,体格检查指标包括体重和皮褶厚度。结果:每日人均禽肉、鱼虾、蔬菜等摄入水平未达到"军人食物定量"标准,而植物油摄入量则超过军标要求;VB1、VC、铁、锌、硒、碘等摄入量未达到"军人营养素供给量"标准要求;三大产能营养素供能比例不合理,脂肪摄入偏高,碳水化合物偏低;多数官兵野外驻训7 d后体重和皮褶厚度降低。结论:该部队在野外驻训期间膳食结构不够合理,部分营养素摄入量未达到军标要求,应调整膳食结构,改善官兵的营养状况。     

Enhancing single-molecule fluorescence with nanophotonics

Single-molecule fluorescence spectroscopy has become an important research tool in the life sciences but a number of limitations hinder the widespread use as a standard technique. The limited dynamic concentration range is one of the major hurdles. Recent developments in the nanophotonic field promise to alleviate these restrictions to an extent that even low affinity biomolecular interactions can be studied. After motivating the need for nanophotonics we introduce the basic concepts of nanophotonic devices such as zero mode waveguides and nanoantennas. We highlight current applications and the future potential of nanophotonic approaches when combined with biological systems and single-molecule spectroscopy.     

Global fold and backbone dynamics of the hepatitis C virus E2 glycoprotein transmembrane domain determined by NMR

E1 and E2 are two hepatitis C viral envelope glycoproteins that assemble into a heterodimer that is essential for membrane fusion and penetration into the target cell. Both extracellular and transmembrane (TM) glycoprotein domains contribute to this interaction, but study of TM–TM interactions has been limited because synthesis and structural characterization of these highly hydrophobic segments present significant challenges. In this NMR study, by successful expression and purification of the E2 transmembrane domain as a fusion construct we have determined the global fold and characterized backbone motions for this peptide incorporated in phospholipid micelles. Backbone resonance frequencies, relaxation rates and solvent exposure measurements concur in showing this domain to adopt a helical conformation, with two helical segments spanning residues 717–726 and 732–746 connected by an unstructured linker containing the charged residues D728 and R730 involved in E1 binding. Although this linker exhibits increased local motions on the ps timescale, the dominating contribution to its relaxation is the global tumbling motion with an estimated correlation time of 12.3 ns. The positioning of the helix–linker–helix architecture within the mixed micelle was established by paramagnetic NMR spectroscopy and phospholipid-peptide cross relaxation measurements. These indicate that while the helices traverse the hydrophobic interior of the micelle, the linker lies closer to the micelle perimeter to accommodate its charged residues. These results lay the groundwork for structure determination of the E1/E2 complex and a molecular understanding of glycoprotein heterodimerization.