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https://www.readbyqxmd.com/read/28820060/peptide-specificity-analysis-of-peptide-n-glycanases-using-synthetic-chitobiose-pentapeptides
#1
Taiki Kuribara, Toshihiro Ishihara, Takaya Kudo, Makoto Hirano, Kiichiro Totani
Peptide:N-glycanase is a deglycosylation enzyme releasing N-glycan from glycoproteins. Although glycan specificity analysis of this enzyme has been reported, recognition requirements for the peptide sequence have not been precisely elucidated. Therefore, in this study, we carried out peptide specificity analysis of several peptide:N-glycanases. Using synthetic chitobiose-pentapeptide substrates having a systematic series of amino acid sequences composed of hydrophobic leucine and hydrophilic serine, we examined the peptide specificities of peptide:N-glycanases comprising yeast cytoplasmic PNGase, bacterial PNGase F, and plant PNGase A by ultra-performance liquid chromatography combined with electrospray ionization mass spectrometry...
August 18, 2017: Protein and Peptide Letters
https://www.readbyqxmd.com/read/28812357/importance-of-terminal-amino-acid-residues-to-the-transport-of-oligopeptides-across-caco-2-cell-monolayer
#2
Long Ding, Liying Wang, Zhipeng Yu, Sitong Ma, Zhiyang Du, Ting Zhang, Jingbo Liu
The objective of this paper was to investigate the effects of terminal amino acids on the transport of oligopeptides across Caco-2 cell monolayer. Ala-based tetra- and penta-peptides were designed and the N-terminal or C-terminal amino acid residues were replaced by different amino acids. The results showed that the oligopeptides had a wide range of transport permeability across Caco-2 cell monolayer and could be divided into 4 categories: non/poor permeability, low permeability, intermediate permeability, and good permeability...
August 16, 2017: Journal of Agricultural and Food Chemistry
https://www.readbyqxmd.com/read/28797641/b2-kinin-receptors-in-the-dorsal-periaqueductal-gray-are-implicated-in-the-panicolytic-like-effect-of-opiorphin
#3
Caio César Sestile, Jhonatan Christian Maraschin, Marcel Pereira Rangel, Rosangela Getirana Santana, Hélio Zangrossi, Frederico Guilherme Graeff, Elisabeth Aparecida Audi
Reported results have shown that the pentapeptide opiorphin inhibits oligopeptidases that degrade brain neuropeptides, and has analgesic and antidepressant effects in experimental animals, without either tolerance or dependency after chronic administration. In a previous study we showed that opiorphin has a panicolytic-like effect in the dorsal periaqueductal gray (dPAG) electrical stimulation test (EST), mediated by the μ-opioid receptor (MOR). This study further analyzes the mechanism of opiorphin panicolytic action, using the EST and drug injection inside the dPAG...
August 7, 2017: Progress in Neuro-psychopharmacology & Biological Psychiatry
https://www.readbyqxmd.com/read/28774171/combining-experimental-and-simulation-techniques-to-understand-morphology-control-in-pentapeptide-nanostructures
#4
Narendra Kumar Mishra, Alok Jain, Christine Peter, Sandeep Verma
A controlled route toward biocompatible nanostructures has immense relevance for drug delivery and tissue engineering. We present an experimental-computational study identifying factors that govern the formation of well-defined aggregates by self-assembled pentapeptides, using single amino acid substitution. A subtle interplay between peptide rigidity/flexibility, hydrogen-bonding capacity, partitioning of aromatic side chains, and influence of dimerization determines the formation of ordered and disordered aggregate structures, and shifts the balance between the emergence of spherical or ill-defined morphologies...
August 18, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28749932/corrigendum-pentose-sugars-inhibit-metabolism-and-increase-expression-of-an-agrd-type-cyclic-pentapeptide-in-clostridium-thermocellum
#5
Tobin J Verbeke, Richard J Giannone, Dawn M Klingeman, Nancy L Engle, Thomas Rydzak, Adam M Guss, Timothy J Tschaplinski, Steven D Brown, Robert L Hettich, James G Elkins
This corrects the article DOI: 10.1038/srep43355.
July 27, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28742841/bacillus-sp-jr3-esterase-lipj-a-new-mesophilic-enzyme-showing-traces-of-a-thermophilic-past
#6
Judit Ribera, Mónica Estupiñán, Alba Fuentes, Amanda Fillat, Josefina Martínez, Pilar Diaz
A search for extremophile enzymes from ancient volcanic soils in El Hierro Island (Canary Islands, Spain) allowed isolation of a microbial sporulated strain collection from which several enzymatic activities were tested. Isolates were obtained after sample cultivation under several conditions of nutrient contents and temperature. Among the bacterial isolates, supernatants from the strain designated JR3 displayed high esterase activity at temperatures ranging from 30 to 100°C, suggesting the presence of at least a hyper-thermophilic extracellular lipase...
2017: PloS One
https://www.readbyqxmd.com/read/28741928/selection-of-effective-htra3-activators-using-combinatorial-chemistry
#7
Magdalena Wysocka, Kamila Sychowska, Natalia Gruba, Łukasz Winiarski, Marcin Skoreński, Mateusz Psurski, Joanna Makowska, Artur Gieldon, Tomasz Wenta, Mirosław Jarząb, Przemyslaw Glaza, Joanna Zdacewicz, Marcin Sieńczyk, Barbara Lipinska, Adam Lesner
Herein we report selection, synthesis and enzymatic evaluation of a peptidomimetic library able to increase proteolytic activity of HtrA3 (high temperature requirement A) protease. Iterative deconvolution in solution of synthesized modified pentapeptides yielded two potent HtrA3 activators acting in the micromolar range (HCOO-CH2O-C6H4-OCH2-CO-Tyr-Asn-Phe-His-Asn-OH and HCOO-CH2O-C6H4-OCH2-CO-Tyr-Asn-Phe-His-Glu-OH). Both compounds increased proteolysis of an artificial HtrA3 substrate over 40-fold in a selective manner...
July 25, 2017: ACS Combinatorial Science
https://www.readbyqxmd.com/read/28713983/malformin%C3%A2-a1-treatment-alters-invasive-and-oncogenic-phenotypes-of-human-colorectal-cancer-cells-through-stimulation-of-the-p38-signaling-pathway
#8
Sun-Young Park, Hyung-Hoon Oh, Young-Lan Park, Hyung-Min Yu, Dae-Seong Myung, Sung-Bum Cho, Wan-Sik Lee, Daeho Park, Young-Eun Joo
Malformin A1 (MA1), a cyclic pentapeptide isolated from Aspergillus niger, has been found to possess a range of bioactive properties including antibacterial activity. However, it is unclear whether MA1 exerts an anticancer effect or not. In this study, we conducted in vitro experiments to investigate its anticancer properties in human colorectal cancer cells. The effect of MA1 on human colorectal cancer cells, SW480 and DKO1, was examined by the WST-1 cell viability assay, inverted microscopy, 5-bromo-2-deoxyuridine (BrdU) incorporation, flow cytometry, DNA fragmentation, wound healing, Transwell assays, and western blotting...
July 10, 2017: International Journal of Oncology
https://www.readbyqxmd.com/read/28680804/functions-of-tryptophan-residues-in-ewgws-insert-of-plasmodium-falciparum-enolase
#9
Sneha Dutta, Anasuya Moitra, Debanjan Mukherjee, Gotam K Jarori
Plasmodium falciparum enolase (Pfeno) is a dimeric enzyme with multiple moonlighting functions. This enzyme is thus a potential target for anti-malarial treatments. A unique feature of Pfeno is the presence of a pentapeptide insert (104) EWGWS (108). The functional role of tryptophan residues in this insert was investigated using site-directed mutagenesis. Replacement of these two Trp residues with alanines (or lysines) resulted in a near complete loss of enolase activity and dissociation of the normal dimeric form into monomers...
July 2017: FEBS Open Bio
https://www.readbyqxmd.com/read/28662902/the-use-of-electronic-neutral-penetrating-peptides-cyclosporin-a-to-deliver-pro-apoptotic-peptide-a-possibly-better-choice-than-positively-charged-tat
#10
Wei Gao, Xiucong Yang, Zhiqiang Lin, Bing He, Dong Mei, Dan Wang, Haoran Zhang, Hua Zhang, Wenbing Dai, Xueqing Wang, Qiang Zhang
Cell-penetrating peptides (CPPs) are increasingly important in transporting macromolecules across cell membranes, but their use remains confined to narrow clinical applications due to the systemic toxicity induced by their positive charges. Several newly discovered electronic neutral penetrating peptides are not attracting much attention because their penetrating capacity is normally far less powerful than cationic or amphiphilic CPPs. In this study, we found the electronic neutral cyclic peptide cyclosporin A (CsA) exhibited 5...
September 10, 2017: Journal of Controlled Release: Official Journal of the Controlled Release Society
https://www.readbyqxmd.com/read/28653980/ligand-shaping-in-induced-fit-docking-of-mray-inhibitors-polynomial-discriminant-and-laplacian-operator-as-biological-activity-descriptors
#11
Claudiu N Lungu, Mircea V Diudea, Mihai V Putz
Docking-i.e., interaction of a small molecule (ligand) with a proteic structure (receptor)-represents the ground of drug action mechanism of the vast majority of bioactive chemicals. Ligand and receptor accommodate their geometry and energy, within this interaction, in the benefit of receptor-ligand complex. In an induced fit docking, the structure of ligand is most susceptible to changes in topology and energy, comparative to the receptor. These changes can be described by manifold hypersurfaces, in terms of polynomial discriminant and Laplacian operator...
June 27, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28641563/pentapeptide-prosequence-enhances-expression-and-structure-folding-of-recombinant-thermomyces-lanuginosus-lipase-in-pichia-pastoris
#12
Haiying Cai, Minjie Zhao, Yang Li, Jianwei Mao, Chenggang Cai, Fengqin Feng
Propeptides have been demonstrated to influence many properties of their mature proteins as intramolecular chaperones. In our study, the role of pentapeptide prosequence of Thermomyces lanuginosus lipase (TLL) was determined through its effect on the recombinant expression of TLL in P. pastoris. The result showed that the average lipase activity of recombinant strains GS-pTL reached 434.32 U/mL, higher than that of GS-TL 377.71 U/mL, indicating that the propeptide "SPIRR-" sequence is beneficial for enhancing TLL expression...
June 21, 2017: Protein and Peptide Letters
https://www.readbyqxmd.com/read/28636317/downsizing-proto-oncogene-cfos-to-short-helix-constrained-peptides-that-bind-jun
#13
Daniel Baxter, Samuel R Perry, Timothy A Hill, W Mei Kok, Nathan R Zaccai, R Leo Brady, David P Fairlie, Jody M Mason
The oncogenic transcription factor activator protein-1 (AP-1) is a DNA-binding protein that assembles through dimerization of Fos and Jun protein subunits, their leucine-rich helical sequences entwining into a coiled-coil structure. This study reports on downsizing the proto-oncogene cFos protein (380 residues) to shorter peptides (37-25 residues) modified with helix-inducing constraints to enhance binding to Jun. A crystal structure is reported for a 37-residue Fos-derived peptide (FosW) bound to Jun. This guided iterative downsizing of FosW to shorter peptide sequences that were constrained into stable water-soluble α-helices by connecting amino acid side chains to form cyclic pentapeptide components...
June 21, 2017: ACS Chemical Biology
https://www.readbyqxmd.com/read/28605901/graphite-templated-amyloid-nanostructures-formed-by-a-potential-pentapeptide-inhibitor-for-alzheimer-s-disease-a-combined-study-of-real-time-atomic-force-microscopy-and-molecular-dynamics-simulations
#14
Na Li, Hyunbum Jang, Ming Yuan, Wanrong Li, Xiaolin Yun, Joon Lee, Qiqige Du, Ruth Nussinov, Jiahua Hou, Ratnesh Lal, Feng Zhang
Self-assembly of peptides is closely related to many diseases, including Alzheimer's, Parkinson's, and prion diseases. Understanding the basic mechanism of this assembly is essential for designing ultimate cure and preventive measures. Template-assisted self-assembly (TASA) of peptides on inorganic substrates can provide fundamental understanding of substrate-dependent peptides assemble, including the role of hydrophobic interface on the peptide fibrillization. Here, we have studied the self-assembly process of a potential pentapeptide inhibitor on the surface of highly oriented pyrolytic graphite (HOPG) using real time atomic force microscopy (RT-AFM) as well as molecular dynamics (MD) simulation...
June 27, 2017: Langmuir: the ACS Journal of Surfaces and Colloids
https://www.readbyqxmd.com/read/28595067/pentapeptides-for-the-treatment-of-small-cell-lung-cancer-optimisation-by-n-ind-alkyl-modification-of-the-tryptophan-side-chain
#15
Osama Haitham Abusara, Sally Freeman, Harmesh Singh Aojula
The pentapeptide, tert-Prenyl(4th)-NH2 (DMePhe-DTrp-Phe-DTrp(N-tert-prenyl)-Leu-NH2), has recently been reported by our group to exhibit properties of substance P (SP) antagonist G against small cell lung cancer (SCLC). In this study, we undertook a systematic structure activity investigation to optimise this lead compound to improve its in vitro anti-tumour activity and biocompatibility. A series of d-tryptophan (D-Trp) derivatives were synthesised, with a range of aliphatic N-alkyl chains (methyl to pentyl) on the indole nitrogen (N(ind))...
September 8, 2017: European Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/28594555/effect-of-aging-on-the-absorption-of-small-peptides-in-spontaneously-hypertensive-rats
#16
Vu Thi Hanh, Weilin Shen, Mitsuru Tanaka, Aino Siltari, Riita Korpela, Toshiro Matsui
In the present study, we aimed to evaluate the effect of aging on the absorption of small peptides in spontaneously hypertensive rats (SHRs). Three kinds of dipeptides, glycyl-sarcosine (Gly-Sar), Trp-His, and captopril (a dipeptidomimetic drug), a Gly-Sar-Sar tripeptide, a Gly-Sar-Sar-Sar tetrapeptide, and a Gly-Sar-Sar-Sar-Sar pentapeptide were administered at doses of 10 mg/kg each to 8- and 40-week-old SHRs. The peptides were all detected in their intact forms in the blood. There was a significantly promoted absorption of di/tripeptides in aged SHRs compared with young SHRs...
July 26, 2017: Journal of Agricultural and Food Chemistry
https://www.readbyqxmd.com/read/28587787/importance-of-n-and-c-terminal-residues-of-substance-p-1-7-for-alleviating-allodynia-in-mice-after-peripheral-administration
#17
Anna Skogh, Anna Lesniak, Fabienne Z Gaugaz, Richard Svensson, Gunnar Lindeberg, Rebecca Fransson, Fred Nyberg, Mathias Hallberg, Anja Sandström
The heptapeptide SP1-7 (1, Arg(1)-Pro(2)-Lys(3)-Pro(4)-Gln(5)-Gln(6)-Phe(7)) is the major bioactive metabolite formed after proteolytic processing of the neuropeptide substance P (SP, Arg(1)-Pro(2)-Lys(3)-Pro(4)-Gln(5)-Gln(6)-Phe(7)-Phe(8)-Gly(9)-Leu(10)-Met(11)-NH2). The heptapeptide 1 frequently exhibits opposite effects to those induced by SP, such as exerting antinociception, or attenuating thermal hyperalgesia and mechanical allodynia. The heptapeptide SP1-7 amide (2, Arg(1)-Pro(2)-Lys(3)-Pro(4)-Gln(5)-Gln(6)-Phe(7)-NH2) is often more efficacious than 1 in experimental pain models...
August 30, 2017: European Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/28580552/ability-of-t1-lipase-to-degrade-amorphous-p-3hb-structural-and-functional-study
#18
Rauda A Mohamed, Abu Bakar Salleh, Adam Thean Chor Leow, Normi M Yahaya, Mohd Basyaruddin Abdul Rahman
An enzyme with broad substrate specificity would be an asset for industrial application. T1 lipase apparently has the same active site residues as polyhydroxyalkanoates (PHA) depolymerase. Sequences of both enzymes were studied and compared, and a conserved lipase box pentapeptide region around the nucleophilic serine was detected. The alignment of 3-D structures for both enzymes showed their active site residues were well aligned with an RMSD value of 1.981 Å despite their sequence similarity of only 53...
June 3, 2017: Molecular Biotechnology
https://www.readbyqxmd.com/read/28560271/data-from-docking-simulations-to-develop-an-efficient-strategy-able-to-evaluate-the-interactions-between-rage-and-mda-induced-albumin-adducts
#19
Angelica Mazzolari, Crescenzo Coppa, Alessandra Altomare, Genny Degani, Giulio Vistoli
This data article contains the results of docking simulations performed in order to develop a suitable in silico strategy able to assess the stability of the putative complexes between RAGE and MDA induced adducts on human albumin as experimentally determined doi: 10.1016/j.redox.2016.12.017, (Degani et al., 2017) [1]. The docking simulations involved different approaches to give a simplified yet realistic representation of the protein adducts and their environment. With increasing complexity, simulations involved the corresponding albumin tripeptides and pentapeptides with the modified residue in the central position as well as pseudo-structures which were generated by collecting the albumin residues around the adducted residue within a sphere of 7...
June 2017: Data in Brief
https://www.readbyqxmd.com/read/28538145/nmr-analysis-of-amide-hydrogen-exchange-rates-in-a-pentapeptide-repeat-protein-from-a-%C3%A2-thaliana
#20
Shenyuan Xu, Shuisong Ni, Michael A Kennedy
At2g44920 from Arabidopsis thaliana is a pentapeptide-repeat protein (PRP) composed of 25 repeats capped by N- and C-terminal α-helices. PRP structures are dominated by four-sided right-handed β-helices typically consisting of mixtures of type II and type IV β-turns. PRPs adopt repeated five-residue (Rfr) folds with an Rfr consensus sequence (STAV)(D/N)(L/F)(S/T/R)(X). Unlike other PRPs, At2g44920 consists exclusively of type II β-turns. At2g44920 is predicted to be located in the thylakoid lumen although its biochemical function remains unknown...
May 23, 2017: Biophysical Journal
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