Advances in chemical proteomic evaluation of lipid kinases—DAG kinases as a case study

Advancements in chemical proteomics and mass spectrometry lipidomics are providing new opportunities to understand lipid kinase activity, specificity, and regulation on a global cellular scale. Here, we describe recent developments in chemical biology of lipid kinases with a focus on those members that phosphorylate diacylglycerols. We further discuss future implications of how these mass spectrometry–based approaches can be adapted for studies of additional lipid kinase members with the aim of bridging the gap between protein and lipid kinase–focused investigations.     

Thermal and guanidine hydrochloride-induced denaturation of human cystatin C

Wild-type human cystatin C is directly involved in pathological fibrils formation, leading to hemorrhage, dementia and eventually death of people suffering from cerebral amyloid angiopathy. Some studies on cystatin C oligomerization have been already done but some points are still unclear. In order to learn more about this important process, we have investigated thermal and chemical (guanidine hydrochloride-induced) denaturation of human cystatin C. Studies performed using tryptophan fluorescence, calorimetry, circular dichroism and Fourier transform infrared spectroscopy demonstrate that neither chemical nor thermal denaturation of hCC are simple two-state events. One recognized intermediate form was dimeric cystatin C, whose appearance was preceded mainly by changes in the L2 binding loop. The other form occurred only in the chemical denaturation process and was characterized by partially recovered interactions maintaining the protein tertiary structure. Our studies also strongly indicate that the -structural motif of cystatin C is directly implicated in formation of temperature-induced aggregates.Abbreviations Gdn.HCl guanidine hydrochloride - hCC human cystatin C     

白兰花被片发育过程中香精油化学成分的GC-MS分析

用固相微萃取法萃取白兰(Michelia alba Dc.)花被片不同发育阶段的香精油,并用GC-MS对其化学成分进行鉴定,峰面积归一化法测定各成分的相对含量.结果表明,白兰花被片5个发育时期的香精油的化学成分不同,分别鉴定出30、29、28、30和27种化学成分.含量较多的是萜类化合物、烷烃类物质、酯类化合物、酸类化合物和醇类化合物.有16种化学成分在3个以上时期能检测到,其中14种萜类化合物,1种胺类化合物和1种芳香化合物.有7种成分是第Ⅳ期独有的.由此推测,白兰花发育的第Ⅳ时期是窨制花茶或提取香精油的最佳时期,但在不能及时窨制花茶或提取香精油或远距离运输的情况下,选择第Ⅲ时期采摘更为合适.     

Compounds from the fruits of Nicandra physaloides and their potential anti-inflammatory activities

Twenty-one compounds were isolated and identified from the ethanol extract of the fruits of Nicandra physaloides, including four new (1–4) and 17 known compounds (5–21). All the compounds were isolated from the genus Physalis for the first time. In this study, NMR spectroscopy was used to study the compound structures by comparing their data with those reported in the literature. Moreover, the potential anti-inflammatory activity of RAW264.7 cells induced by lipopolysaccharide (LPS) was evaluated. Among the monoterpenoids, compounds (5–7, 9) exhibited weak anti-inflammatory activities, with IC₅₀ values ranging from 29.10 to 68.30 μM.     

Median estimation of chemical constituents for sampling on two occasions under a log‐normal model

Sampling from a finite population on multiple occasions introduces dependencies between the successive samples when overlap is designed. Such sampling designs lead to efficient statistical estimates, while they allow estimating changes over time for the targeted outcomes. This makes them very popular in real‐world statistical practice. Sampling with partial replacement can also be very efficient in biological and environmental studies where estimation of toxicants and its trends over time is the main interest. Sampling with partial replacement is designed here on two occasions in order to estimate the median concentration of chemical constituents quantified by means of liquid chromatography coupled with tandem mass spectrometry. Such data represent relative peak areas resulting from the chromatographic analysis. They are therefore positive‐valued and skewed data, and are commonly fitted very well by the log‐normal model. A log‐normal model is assumed here for chemical constituents quantified in mainstream cigarette smoke in a real case study. Combining design‐based and model‐based approaches for statistical inference, we seek for the median estimation of chemical constituents by sampling with partial replacement on two time occasions. We also discuss the limitations of extending the proposed approach to other skewed population models. The latter is investigated by means of a Monte Carlo simulation study.     

Parkinsonism-associated Protein DJ-1/Park7 Is a Major Protein Deglycase That Repairs Methylglyoxal- and Glyoxal-glycated Cysteine,Arginine, and Lysine Residues

Glycation is an inevitable nonenzymatic covalent reaction between proteins and endogenous reducing sugars or dicarbonyls (methylglyoxal, glyoxal) that results in protein inactivation. DJ-1 was reported to be a multifunctional oxidative stress response protein with poorly defined function. Here, we show that human DJ-1 is a protein deglycase that repairs methylglyoxal- and glyoxal-glycated amino acids and proteins by acting on early glycation intermediates and releases repaired proteins and lactate or glycolate, respectively. DJ-1 deglycates cysteines, arginines, and lysines (the three major glycated amino acids) of serum albumin, glyceraldehyde-3-phosphate dehydrogenase, aldolase, and aspartate aminotransferase and thus reactivates these proteins. DJ-1 prevented protein glycation in an Escherichia coli mutant deficient in the DJ-1 homolog YajL and restored cell viability in glucose-containing media. These results suggest that DJ-1-associated Parkinsonism results from excessive protein glycation and establishes DJ-1 as a major anti-glycation and anti-aging protein.     

Structure-activity relationships study of neolamellarin A and its analogues as hypoxia inducible factor-1 (HIF-1) inhibitors

The novel marine pyrrole alkaloid neolamellarin A derived from sponge has been shown to inhibit hypoxia-induced HIF-1 activity. In this work, we designed and synthesized neolamellarin A and its series of derivatives by a convergent synthetic strategy. The HIF-1 inhibitory activity and cytotoxicity of these compounds were evaluated in Hela cells by dual-luciferase reporter gene assay and MTT assay, respectively. The results showed that neolamellarin A 1 (IC₅₀ = 10.8 ± 1.0 μM) and derivative 2b (IC₅₀ = 11.9 ± 3.6 μM) had the best HIF-1 inhibitory activity and low cytotoxicity. Our SAR research focused on the effects of key regions aliphatic carbon chain length, aromatic ring substituents and C-7 substituent on biological activity, providing a basis for the subsequent research on the development of novel pyrrole alkaloids as HIF-1 inhibitors and design of small molecule probes for target protein identification.     

Chemical analysis of mucus from certain land snails under Egyptian conditions

Abstract

The present investigation was carried out to study the chemical analysis of the mucus of three common land snails, Eobania vermiculata, Theba pisana and Monacha obstructa, and identification of the chemical compositions by using GC-MS. Results revealed that several variations in composition were observed between all species. Oxime, methoxy-phenyl and cyclotrisiloxane, hexamethyl were major components found that in three species, the total areas detected were 86.23, 76.83 and 70.83, respectively. This different composition of mucus may be due to differences from one species to another; different mechanical properties (function) are influenced by external factors such as temperature, humidity, light intensity, soil conditions and food supply.     

Effect of local sugar and base geometry on <Superscript>13</Superscript>C and <Superscript>15</Superscript>N magnetic shielding anisotropy in DNA nucleosides

Density functional theory was employed to study the dependence of 13C and 15N magnetic shielding tensors on the glycosidic torsion angle (chi) and conformation of the sugar ring in 2'-deoxyadenosine, 2'-deoxyguanosine, 2'-deoxycytidine, and 2'-deoxythymidine. In general, the magnetic shielding of the glycosidic nitrogens and the sugar carbons was found to depend on both the conformation of the sugar ring and chi. Our calculations indicate that the magnetic shielding anisotropy of the C6 atom in pyrimidine and the C8 atom in purine bases depends strongly on chi. The remaining base carbons were found to be insensitive to both sugar pucker and chi re-orientation. These results call into question the underlying assumptions of currently established methods for interpreting residual chemical shift anisotropies and 13C and 15N auto- and cross-correlated relaxation rates and highlight possible limitations of DNA applications of these methods.     

我国雪莲植物的种类、生境分布及化学成分的研究进展

本文对雪莲花的原植物种类、生境分布、生长习性做了分析整理,并对新疆雪莲、水母雪莲、雪兔子等六种雪莲植物化学成分研究进展进行了综述。从比较已有的实验结果中发现不同种雪莲在其特定生境下的化学成分既有属的同一性又存在种的特征性差异。这不仅为植物化学分类提供了证据,也为细胞大量培养选用品质优秀的原植物材料提供了资料