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Protein and Peptide Letters

Lei Chen, Baoman Wang, ShaoPeng Wang, Jing Yang, Jerry Hu, ZhiQun Xie, Yuwei Wang, Tao Huang, Yu-Dong Cai, ZhiQun Xie
Oncogenes are genes that have the potential to cause cancer. Oncogene research can provide insight into the occurrence and development of cancer, thereby helping to prevent cancer and to design effective treatments. This study proposes a network method called the oncogene prediction method based on shortest path algorithm (OPMSP) for the identification of novel oncogenes in a large protein network built using protein-protein interaction data. Novel putative genes were extracted from the shortest paths connecting any two known oncogenes...
October 21, 2016: Protein and Peptide Letters
Nurul Iman A Kameel, Adawiyah Suriza Shuib, Saad Tayyab
Acid denaturation of champedak galactose-binding (CGB) lectin was studied in the pH range, 7.0-1.0 using intrinsic fluorescence and ANS fluorescence measurements. The lectin remained stable up to pH 5.0 and showed local disordering in the vicinity of the protein fluorophores within the pH range, 5.0-3.5. Decrease in the pH from pH 3.5 to pH 2.5 led to structural transition, marked by the decrease in the intrinsic fluorescence and increase in the ANS fluorescence signals. This can be ascribed to the dissociation of the tetrameric lectin into monomeric forms...
October 19, 2016: Protein and Peptide Letters
Francesca Aredia, Anna Ivana Scovassi
Cancer cells are characterized by a peculiar pH condition, being the extracellular compartment acidic and the intracellular one neutral or basic, i.e. the opposite of what happens in normal cells. The reversal of the pH contributes to cancer cell proliferation and drug resistance. Among the different enzymes regulating pH gradient, proton transporters Na+/H+ exchangers (NHEs) are considered as suitable targets for drugs that ultimately counteract cancer cell survival. This review will describe the properties of NHEs, focusing on the prototype NHE1 and on the effect of its inhibition on cancer cell metabolism...
October 13, 2016: Protein and Peptide Letters
Gang Wu, Ah-Lim Tsai
Prostaglandin H synthase (PGHS) catalyzes the biosynthesis of PGG2 and PGH2, the precursor of all prostanoids, from arachidonic acid (AA). PGHS exhibits two enzymatic activities following a branched-chain radical mechanism: 1) a peroxidase activity (POX) which utilizes hydroperoxide through heme redox cycles to generate the critical Y385 tyrosyl radical for coupling both enzyme activities; 2) the cyclooxygenase (COX) activity which inserts two oxygen molecules into AA to generate endoperoxide/hydroperoxide PGG2 through a series of radical intermediates...
October 7, 2016: Protein and Peptide Letters
Giorgia Macedonio, Azzurra Stefanucci, Cristina Maccallini, Sako Mirzaie, Ettore Novellino, Adriano Mollica
The endocannabinoid system is activated by the binding of natural arachidonic acid derivatives (endogenous cannabinoids or endocannabinoids) as lipophilic messengers to cannabinoid receptors CB1 and CB2. The endocannabinoid system comprises also many hydrolytic enzymes responsible for the endocannabinoids cleavage, such as FAAH and MAGL. These two enzymes are possible therapeutic targets for the development of new drugs as indirect cannabinoid agonists. Recently a new family of endocannabinoid modulators was discovered; the lead of this family is the nonapeptide hemopressin produced from enzymatic cleavage of the α-chain of hemoglobin and acting as negative allosteric modulator of CB1...
October 7, 2016: Protein and Peptide Letters
Yung-Chie Tan, Cheng-Liang Ang, Mui-Yun Wong, Chai-Ling Ho
Plant defensins are plant defence peptides that have many different biological activities, including antifungal, antimicrobial, and insecticidal activities. A cDNA (EgDFS) encoding defensin was isolated from Elaies guineensis. The open reading frame of EgDFS contained 231 nucleotides encoding a 71-amino acid protein with a predicted molecular weight at 8.69 kDa, and a potential signal peptide. The eight highly conserved cysteine sites in plant defensins were also conserved in EgDFS. The EgDFS sequence lacking 30 amino acid residues at its N-terminus (EgDFSm) was cloned into Escherichia coli BL21 (DE3) pLysS and successfully expressed as a soluble recombinant protein...
October 6, 2016: Protein and Peptide Letters
Anna-Kristin Ludwig, Sabine Vértesy, Malwina Michalak, Joachim C Manning, Sabine André, Dieter Kübler, Jürgen Kopitz, Herbert Kaltner, Hans-Joachim Gabius
The potent multifunctionality of human galectins is based on their modular structure in a not yet fully understood manner. A strategy to dissect the contributions of individual sequence stretches to lectin activity is based on engineering variants of the natural proteins, which are composed of novel combinations of distinct parts. On proof-of-principle level, we here describe the design of a hybrid constituted by the N-terminal tail of chimera-type galectin-3 and the N-terminal carbohydrate recognition domain of tandem-repeat-type galectin-8, its production, and purification and its serine phosphorylation characteristic for galectin-3's tail...
September 30, 2016: Protein and Peptide Letters
Kanako Shima, Jun Okada, Satoshi Sano, Kazufumi Takano
It has been reported that pulse proteolysis may be used to investigate protein unfolding kinetics in cell lysate. However, the method has not become popular and we could not judge whether or not it is effective for protein folding study. In this work, we examined the folding and unfolding kinetics of a protein and its variants without purification by pulse proteolysis. The unfolding and refolding rates of the unpurified proteins were similar to those of the purified proteins determined by pulse proteolysis and circular dichroism...
September 21, 2016: Protein and Peptide Letters
Tsai-Chen Chen, Chih-Lun Hsiao, Shing-Jong Huang, Jie-Rong Huang
In NMR experiments, the chemical shift is typically the first parameter measured and is a source of structural information for biomolecules. Indeed, secondary chemical shifts, the difference between the measured chemical shifts and those expected for a randomly oriented sequence of peptides (the "random coil"), are correlated with the secondary structure of proteins; secondary shift analysis is thereby a standard approach in structural biology. For intrinsically disordered or denatured proteins furthermore, secondary chemical shifts reveal the propensity of particular segments to form different secondary structures...
September 20, 2016: Protein and Peptide Letters
Tsutomu Arakawa
As a graduate course student, I studied the aggregation behavior of the wheat protein gluten, induced by changes in pH and ionic strength, thus beginning my research career in the field of solvent effects. The following 5 years were spent as a post-doctoral reseracher in the U.S., focused on protein-solvent interactions, which, according to my advisor, Dr. Timasheff, was too basic to be supported by academic grants. This study, however, answered a number of questions about how different solvents affect behavior of proteins in solution, e...
September 19, 2016: Protein and Peptide Letters
Hong-Dou Luo, Mei-Ying Jin, Hui Wu, Hui Jiang
Many polyketides show biological activities and have thus been applied in clinics, as food additives, and in agriculture. Type II thioesterases (TEIIs) play an important role in polyketide biosynthesis. Most TEIIs belong to α/β-hydrolase family and usually contain a catalytic triad Ser-His-Asp. In polyketide biosynthesis, TEIIs can play an editing role by removal of aberrant non-extendable acyl units in elongation steps, a starter unit selection role by removal of unfavored starter acyl units in initiation steps, and a releasing role by removal of final product in termination steps...
September 19, 2016: Protein and Peptide Letters
Natalya V Pashintseva, Segey S Shishkin, Kseniya V Lisitskaya, Leonid I Kovalev, Marina A Kovaleva, Lidia S Eryomina, Inna A Kamenikhina, Lyudmila A Novikova, Elchin G Sadykhov
Splicing factor, - -rich protein (SFPQ), was identified in eight human cultivated cell lines by proteomic approaches. The cell proteins have been separated by means of two-dimensional gel electrophoresis in two modifications and identified by matrix-assisted laser desorption ionization-mass spectrometry with further tandem mass spectrometry. The analysis of proteins from three human sarcomas cell lines (RD, U-2 OS and SK-UT-1B), three human renal adenocarcinomas cell lines (A-498, 769-P and OKP-GS), and two prostate adenocarcinomas cell lines (DU-145 and PC-3) revealed several electrophoretic isoforms of SFPQ protein...
September 14, 2016: Protein and Peptide Letters
Noriyuki Shiraishi, Yoshiaki Hirano
Recent studies have indicated that PrP23-98, an N-terminal portion of PrP, polymerizes into amyloid-like and proteinase K (PK)-resistant aggregates in the presence of NADPH with copper ions [19], and then that CRT suppressed aggregation of PrP23-98 and also promoted solubilization of the aggregates [18]. As it is interesting to find out whether other chaperones can inhibit aggregation of PrP23-98 in vitro similar to CRT, this study was conducted to determine whether BiP, Grp94, PDI Grp58 and heat shock cognate protein70 (Hsc70) can inhibit aggregation of PrP23-98 in vitro...
September 9, 2016: Protein and Peptide Letters
Selvinaz Dalaklioglu, Nuray Erin
Recent studies document the importance of endothelial dysfunction (ED) in cancer development and metastasis. We previously reported that vascular oxidative stress and inflammation result in ED in animals bearing brain murine metastatic breast carcinoma (BCa). Substance P (SP), a neuropeptide found in sensory nerve terminals, was reported to enhance anti-tumoral effects of conventional treatments. SP was also reported to have anti-oxidative effects. We therefore examined the effects of continuous exposure to low dose SP on vascular ED observed in metastatic BCa...
September 2, 2016: Protein and Peptide Letters
Yin How Wong, Habsah Abdul Kadir, Saad Tayyab
Urea and thermal denaturations of bovine serum albumin (BSA) were studied in the absence and the presence of honey or simulated honey sugar cocktail (SHSC) using far-UV CD and ANS fluorescence spectroscopy. Presence of 20% (w/v) honey or SHSC in the incubation mixture shifted the urea transition curve towards higher urea concentrations, being higher in the presence of honey and transformed the two-step, three-state transition into a single-step, two-state transition. A comparison of far-UV CD and ANS fluorescence spectra of 4...
September 1, 2016: Protein and Peptide Letters
G M Anantharamaiah, David W Garber, C Roger White
Apolipoprotein (apo)A-I and apoE are the two protein components that have been extensively investigated for their anti-atherogenic properties. Both the apolipoproteins possess amphipathic helical structure, responsible for the solubilization of lipids. While apoA-I possesses class A amphipathic helical structure, apoE possesses a 59 residue long amphipathic helical domain linked to a four helix bundle containing the Arg-rich 10 residue receptor binding domain. An 18 residue model peptide (18A) was designed to mimic the amphipathic helical domains of apoA-I...
September 1, 2016: Protein and Peptide Letters
Mohammed Taha, Eric Nezerwa, Hyun-Joo Nam
Ewing's Sarcoma transcript-2 (EAT2) also known as SH2D1B is involved in regulation of signaling lymphocytic activation molecule (SLAM) family receptor functions. Cytoplasmic tails of SLAM family receptors contain tyrosine residues which mediate its downstream signal transduction through their phosphorylation. EAT2, composed of a single SH2 domain and a short C-terminal tail, binds to the phosphotyrosine residues and regulates SLAM family receptor signalling. We have determined the crystal structure of the human EAT2 protein in an unliganded form...
August 31, 2016: Protein and Peptide Letters
Mohd Shahnawaz Khan, Nayyar Rabbani, Shams Tabrez, Badar Islam, Ajmaluddin Malik, Anwar Ahmed, Mohammad A Alsenaidy, Abdulrahman M Al-Senaidy
The non-enzymatic reaction (glycation) of reducing sugars with proteins has received increased interest in dietary and therapeutic research lately. In the present work, the impact of glycation on structural alterations of camel serum albumin (CSA) by different glucose metabolites was studied. Glycation of CSA was evaluated by specific fluorescence of advanced glycation end-products (AGEs) and determination of available amino groups. Further, conformational changes in CSA during glycation were also studied using 8-analino 1-nephthlene sulfonic acid (ANS) binding assay, circular dichroism (CD) and thermal analysis...
August 31, 2016: Protein and Peptide Letters
Mohammad Furkan, Asim Rizvi, Mohammad Afsar, Mohammad Rehan Ajmal, Rizwan Hasan Khan, Aabgeena Naeem
Acetonitrile is a mild solvent, which induces b-sheet conformation in proteins. The global conformational changes in Hb in presence of ACN were studied using intrinsic fluorescence experiments, acrylamide quenching, ANS fluorescence measurements, soret absorbance spectroscopy, fourier transform infrared spectroscopy, circular dichroism, thioflavin T and congo red assay. Molecular docking showed the binding of hydrophobic residues of Hb to ACN. Hb exists as a partially unfolded intermediate state at 30% v/v ACN...
August 31, 2016: Protein and Peptide Letters
Baojian Zhu, Hao Yu, Sen Tian, Li-Shang Dai, Yu Sun, Chao-Liang Liu
The receptor for activated C kinase (RACK) is an important scaffold protein with regulatory functions in cells. However, its role in the immune response of Antheraea pernyi to pathogen challenge remains unclear. To investigate the biological functions of RACK in the wild silkworm A. pernyi, cloning was performed and the expression patterns of the RACK gene were analyzed. Sequence analysis revealed that the RACK gene was 1120 bp containing a 960-bp open reading frame. The deduced RACK protein sequence reveals the higher identity with its homologs from other insects...
August 31, 2016: Protein and Peptide Letters
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