Structural Transformation of Bovine Serum Albumin Induced by Dimethyl Sulfoxide and Probed by Fluorescence Correlation Spectroscopy and Additional Methods

Determining the structure of a protein and its transformation under different conditions is key to understanding its activity. The structural stability and activity of proteins in aqueous–organic solvent mixtures, which is an intriguing topic of research in biochemistry, is dependent on the nature of the protein and the properties of the medium. Herein, the effect of a commonly used cosolvent, dimethyl sulfoxide (DMSO), on the structure and conformational dynamics of bovine serum albumin (BSA) protein is studied by fluorescence correlation spectroscopy (FCS) measurements on fluorescein isothiocyanate (FITC)‐labeled BSA. The FCS study reveals a change of the hydrodynamic radius of BSA from 3.7 nm in the native state to 7.0 nm in the presence of 40 % DMSO, which suggests complete unfolding of the protein under these conditions. Fluorescence self‐quenching of FITC has been exploited to understand the conformational dynamics of BSA. The time constant of the conformational dynamics of BSA is found to change from 35 μs in its native state to 50 μs as the protein unfolds with increasing DMSO concentration. The FCS results are corroborated by the near‐UV circular dichroism spectra of the protein, which suggest a loss of its tertiary structure with increasing concentration of DMSO. The intrinsic fluorescence of BSA and the fluorescence response of 1‐anilinonaphthalene‐8‐sulfonic acid, used as a probe molecule, provide information that is consistent with the FCS measurements, except that aggregation of BSA is observed in the presence of 40 % DMSO in the ensemble measurements.     

The influence of serum fatty acid binding proteins on arachidonic acid uptake by macrophages

The role of serum fatty acid binding proteins (FABPs) in arachidonic acid (AA) uptake by murine peritoneal macrophages has been studied. The kinetics of [³H]arachidonic acid uptake by the cells was investigated over a wide range of AA concentration (10⁻¹⁰–10⁻⁵ M). It was shown that these putative fatty acid transporters dramatically change the uptake processes. In the presence of FABPs, the time-course curves of AA uptake exhibited two distinct periods: one with a rapid AA uptake during the first hour with an equilibrium in 1–2.5 h and another with an equilibrium reached in 20 h, whereas in the absence of FABPs the uptake curves were smooth without kinks and with the equilibrium reached in 10 h. In addition, it was shown that the amount of incorporated AA was linearly dependent on the concentration of AA over the range of 10⁻¹⁰–10⁻⁶ M in the presence of serum FABPs and 10⁻¹⁰–10⁻⁷ M in their absence. We assume that the changes in the character of AA uptake by macrophages in the presence of FABP soccur due to the interaction of FABPs with the cell plasma membrane.     

The Active Site of a Prototypical “Rigid” Drug Target is Marked by Extensive Conformational Dynamics

Drug discovery, in particular optimization of candidates using medicinal chemistry, is generally guided by structural biology. However, for optimizing binding kinetics, relevant for efficacy and off-target effects, information on protein motion is important. Herein, we demonstrate for the prototypical textbook example of an allegedly “rigid protein” that substantial active-site dynamics have generally remained unrecognized, despite thousands of medicinal-chemistry studies on this model over decades. Comparing cryogenic X-ray structures, solid-state NMR on micro-crystalline protein at room temperature, and solution NMR structure and dynamics, supported by MD simulations, we show that under physiologically relevant conditions the pocket is in fact shaped by pronounced open/close conformational-exchange dynamics. The study, which is of general significance for pharmacological research, evinces a generic pitfall in drug discovery routines.     

快速检测心型脂肪酸结合蛋白的荧光免疫微流体测试卡

研制出一种以时间分辨荧光微球作为标记,自驱动快速检测H-FABP的荧光免疫微流体测试卡.利用激光切割法在双面胶上简便、快速地切割出所设计的微通道结构,并采用激光切割法制作出聚甲基丙烯酸甲酯(PMMA)测试卡底板及上盖.使用提拉涂膜的方法在PMMA底板表面修饰马来酸酐官能团,有效地解决了捕获抗体在PMMA表面的固定问题.使用等离子体处理测试卡上盖改善其亲水性,使液体能够在微通道内自行流动.使用此测试卡可以实现对心型脂肪酸结合蛋白(H-FABP)的快速检测,线性检测范围为0.5～ 100 ng/mL,检出限为0.1 ng/mL(S/N=3),检测时间少于10 min,批内相对标准偏差(RSD) ＜10％,批间RSD＜15％.本方法具有灵敏度高、检测时间短、结果准确等优点,可以满足临床检测的需求,具有良好的应用前景.     

Expression and Characterization of Human Heart Type Fatty Acid Binding Protein in Pichia Pastoris

Introduction Fattyacidbindingproteins(FABPs)werefirstly foundbyOckneretal.,in1972[1],anddescribedas beingatypeofhomologicalcytoplasmicproteinswith molecularmassesaround12—16kDa.FABPsdistrib utewidelyinintestinalmucosa,liver,myocardium,head,skeletalandoth…     

A method for conformational sampling of loops in proteins based on adiabatic decoupling and temperature or force scaling

A method for conformational Boltzmann sampling of loops in proteins in aqueous solution is presented that is based on adiabatic decoupling molecular dynamics (MD) simulation with temperature or force scaling. To illustrate the enhanced sampling, the loop from residues 33 to 43 in the bovine protein ribonuclease A is adiabatically decoupled from the rest of the protein and the solvent with a mass scaling factor s(m) =1000 and the sampling is enhanced with a scaling of the temperature using s(T) =2 or of the force using s(V) =0.667. Over 5 ns of simulation the secondary structure of the protein remains unaltered while a combined dihedral-angle conformational cluster analysis shows an increase of conformations outside the first most populated cluster of loop conformations for adiabatic decoupling MD with temperature scaling using s(T) =2 or force scaling using s(V) =0.667 compared to the standard MD simulation. The atom-positional root-mean-square fluctuations of the C(α) atoms of the loop show an increase in the movement of the loop as well, indicating that adiabatic decoupling MD with upscaling of the temperature or downscaling of the force is a promising method for conformational Boltzmann sampling.     

Extending the Scope of Singlet‐State Spectroscopy

Different decoupling sequences are tested—using various shaped radio‐frequency (RF) pulses—to achieve the longest possible lifetimes of singlet‐state populations over the widest possible bandwidths, that is, ranges of offsets and relative chemical shifts of the nuclei involved in the singlet states. The use of sinc or refocusing broadband universal rotation pulses (RE‐BURP) for decoupling during the intervals where singlet‐state populations are preserved allows one to extend the useful bandwidth with respect to prior state‐of‐the‐art methods based on composite‐pulse WALTZ decoupling. The improved sinc decoupling sequences afford a more reliable and sensitive measure of the lifetimes of singlet states in pairs of spins that have widely different chemical shifts, such as the two aromatic protons H⁵ and H⁶ in uracil. Similar advantages are expected for nucleotides in RNA and DNA. Alternative approaches, in particular frequency‐modulated decoupling sequences, also appear to be effective in preserving singlet‐state populations, even though the profiles of the apparent relaxation rate constants as a function of the offset are somewhat perturbed. The best decoupling sequences prove their utility in sustaining longer lifetimes of singlet states than previously achieved for the side‐chain tyrosine protons in bovine pancreatic trypsin inhibitor (BPTI) at 600 MHz (14.1 T), where the differences of chemical shifts between coupled protons are a challenge.