The relationship between classification of multi-domain proteins using an alignment-free approach and their functions: a case study with immunoglobulins.

abstract：:Conventional methods for detecting single nucleotide polymorphisms (SNPs), including direct DNA sequencing, pyrosequencing, and melting curve analysis, are to a great extent limited by their requirement for particular detection instruments. To overcome this limitation, we established a novel SNP detection technique ut...

journal_title：Molecular bioSystems

authors： Imai K,Ogai Y,Nishizawa D,Kasai S,Ikeda K,Koga H

更新日期：2007-08-01 00:00:00

abstract：:Integrative pharmacology has been used to identify the key active constituents (KACs) of Buchang Naoxintong capsules (BNCs), a traditional Chinese medical preparation; this approach involves the evaluation of the content profiles and drug-like properties of the BNC constituents and development of an ingredient-target ...

journal_title：Molecular bioSystems

authors： Haiyu X,Yang S,Yanqiong Z,Qiang J,Defeng L,Yi Z,Feng L,Hongjun Y

更新日期：2016-01-01 00:00:00

abstract：:We employed high-temperature classical molecular dynamics (MD) simulations to investigate the unfolding process of the wild-type (WT) and F508del-NBD1 domains of CFTR protein, with and without second-site mutations. To rationalize the in vitro behavior of F508del-NBD1, namely its lower folding yield and higher aggrega...

journal_title：Molecular bioSystems

authors： Estácio SG,Martiniano HF,Faísca PF

更新日期：2016-08-16 00:00:00

abstract：:There are major issues regarding the proposed pathway for starch degradation in germinating cereal grain. Given the commercial importance but genetic intractability of the problem, we have embarked on a program of chemical genetics studies to identify and dissect the pathway and regulation of starch degradation in ger...

journal_title：Molecular bioSystems

authors： Rejzek M,Stevenson CE,Southard AM,Stanley D,Denyer K,Smith AM,Naldrett MJ,Lawson DM,Field RA

更新日期：2011-03-01 00:00:00

abstract：:Sponge metagenomes are accessible genetic sources containing genes and gene clusters responsible for the biosynthesis of sponge-derived bioactive natural products. In this study, we obtained the clone pDC112, producing turbomycin A and 2,2-di(3-indolyl)-3-indolone, based on the functional screening of the metagenome l...

journal_title：Molecular bioSystems

authors： Takeshige Y,Egami Y,Wakimoto T,Abe I

更新日期：2015-05-01 00:00:00

abstract：:Dynamic physical interactions between proteins underpin all key cellular processes and are a highly attractive area for the development of research tools and medicines. Protein-protein interactions frequently involve α-helical structures, but peptides matching the sequences of these structures usually do not fold corr...

journal_title：Molecular bioSystems

authors： Mart RJ,Errington RJ,Watkins CL,Chappell SC,Wiltshire M,Jones AT,Smith PJ,Allemann RK

更新日期：2013-11-01 00:00:00

abstract：:CC chemokine receptor 5 (CCR5), a member of G protein-coupled receptors (GPCRs), plays a vital role in inflammatory responses to infection. Alterations in the expression of CCR5 have been correlated with disease progression in many types of cancers. The idea of using CCR5 as a target for therapeutic intervention has b...

journal_title：Molecular bioSystems

authors： Wang J,Shu M,Wang Y,Hu Y,Wang Y,Luo Y,Lin Z

更新日期：2016-10-18 00:00:00

abstract：:Major progress in the study of RNase P has resulted from crystallography of bacterial catalytic subunits and the discovery of catalytic activity in eukaryotes. Several new substrates have also been identified, primarily in bacteria but also in yeast. Our current world should be called the "RNA-protein world" rather th...

journal_title：Molecular bioSystems

authors： Altman S

更新日期：2007-09-01 00:00:00

abstract：:Epigenetic regulation by histone methylation is crucial for proper programming of the genome during development. Homeostasis of histone methylation is balanced by the activities of histone methyltransferases and demethylases. Although these methyltransferases and demethylases represent logical targets for potential dr...

journal_title：Molecular bioSystems

authors： Liu Y,Platchek M,Kement B,Bee WT,Truong M,Zeng X,Hung S,Lin H,Morrow D,Kallal LA,Xie Q,Agarwal P,Pope AJ,Wu Z

更新日期：2014-02-01 00:00:00

abstract：:In actively proliferating cells, such as the cells of the developing embryo, DNA repair is crucial for preventing the accumulation of mutations and synchronizing cell division. Sea urchin embryo growth was analyzed and extracts were prepared. The relative activity of DNA polymerase, apurinic/apyrimidinic (AP) endonucl...

journal_title：Molecular bioSystems

authors： Torgasheva NA,Menzorova NI,Sibirtsev YT,Rasskazov VA,Zharkov DO,Nevinsky GA

更新日期：2016-06-21 00:00:00

abstract：:The induction of fungal metabolites by fungal co-cultures grown on solid media was explored using multi-well co-cultures in 2 cm diameter Petri dishes. Fungi were grown in 12-well plates to easily and rapidly obtain the large number of replicates necessary for employing metabolomic approaches. Fungal culture using suc...

journal_title：Molecular bioSystems

authors： Bertrand S,Azzollini A,Schumpp O,Bohni N,Schrenzel J,Monod M,Gindro K,Wolfender JL

更新日期：2014-07-29 00:00:00

abstract：:Microtubules (mt) are highly dynamic polymers composed of alpha- and beta-tubulin monomers that are present in all dividing and non-dividing cells. A broad variety of natural products exists that are known to interfere with the microtubule network, by either stabilizing or de-stabilizing these rope-like polymers. Amon...

journal_title：Molecular bioSystems

authors： Eirich J,Burkhart JL,Ullrich A,Rudolf GC,Vollmar A,Zahler S,Kazmaier U,Sieber SA

更新日期：2012-08-01 00:00:00

abstract：:Differential gene expression governs the development, function and pathology of multicellular organisms. Transcription regulatory networks study differential gene expression at a systems level by mapping the interactions between regulatory proteins and target genes. While microarray transcription profiles are the most...

journal_title：Molecular bioSystems

authors： Vermeirssen V,Joshi A,Michoel T,Bonnet E,Casneuf T,Van de Peer Y

更新日期：2009-12-01 00:00:00

abstract：:Histone deacetylases (HDACs) contribute to regulation of gene expression by mediating higher-order chromatin structures. They assemble into large multiprotein complexes that regulate activity and specificity. We report the development of small molecule probes with class IIa and pan-HDAC activity that contain photoreac...

journal_title：Molecular bioSystems

authors： Albrow VE,Grimley RL,Clulow J,Rose CR,Sun J,Warmus JS,Tate EW,Jones LH,Storer RI

更新日期：2016-05-24 00:00:00

abstract：:Recently, accumulating studies have indicated that microRNAs (miRNAs) play an important role in exploring the pathogenesis of various human diseases at the molecular level and may result in the design of specific tools for diagnosis, treatment evaluation and prevention. Experimental identification of disease-related m...

journal_title：Molecular bioSystems

authors： Sun D,Li A,Feng H,Wang M

更新日期：2016-06-21 00:00:00

abstract：:Upon entering biological systems, such as the blood stream, nanoparticles form molecular complexes with the proteins encountered called protein coronas, which shield the surface of the exogenous nanoparticle. The most abundant blood proteins, such as albumin, initially occupy the surface of the nanoparticle. Owing to ...

journal_title：Molecular bioSystems

authors： Ramezani F,Rafii-Tabar H

更新日期：2015-02-01 00:00:00

abstract：:G protein-coupled receptors (GPCRs) are key signaling proteins that regulate how cells interact with their environment. Traditional signaling cascades involving GPCRs have been well described and are well established and very important clinical targets. With the development of more recent technologies, hints about the...

journal_title：Molecular bioSystems

authors： Zhang X,Eggert US

更新日期：2013-04-05 00:00:00

abstract：:Small molecule modulators are critical for dissecting and understanding signaling pathways at the molecular level. Interleukin 6 (IL-6) is a cytokine that signals via the JAK-STAT pathway and is implicated in cancer and inflammation. To identify modulators of this pathway, we screened a chemical collection against an ...

journal_title：Molecular bioSystems

authors： Johnson RL,Huang R,Jadhav A,Southall N,Wichterman J,MacArthur R,Xia M,Bi K,Printen J,Austin CP,Inglese J

更新日期：2009-09-01 00:00:00

abstract：:Recently, the development of Src/Abl (c-Src/Bcr-Abl tyrosine kinases) dual inhibitors has attracted considerable attention from the research community for treatment of malignancies. In order to explore the different structural features impacting the Src and Abl inhibitory activities of N(9)-arenethenyl purines and to ...

journal_title：Molecular bioSystems

authors： Ma S,Zeng G,Fang D,Wang J,Wu W,Xie W,Tan S,Zheng K

更新日期：2015-02-01 00:00:00

abstract：:A novel class of pH-sensitive PEG lipids bearing acid-cleavable acetal linkages and short PEG chains have been synthesised and used in ternary vector formulations. The cleavage pH was influenced by structural components including the terminal PEG moiety and spacer length. ...

journal_title：Molecular bioSystems

authors： Wong JB,Grosse S,Tabor AB,Hart SL,Hailes HC

更新日期：2008-06-01 00:00:00

abstract：:Recently circular RNA (circularRNA) has been discovered as an increasingly important type of long non-coding RNA (lncRNA), playing an important role in gene regulation, such as functioning as miRNA sponges. So it is very promising to identify circularRNA transcripts from de novo assembled transcripts obtained by high-...

journal_title：Molecular bioSystems

authors： Pan X,Xiong K

更新日期：2015-08-01 00:00:00

abstract：:The aim of this study was to investigate the cellular lipid metabolism associated with β-amyloid peptide (Aβ)-induced neurotoxicity as well as the neuroprotective effect of (-)-epigallocatechin gallate (EGCG), a major polyphenol in green tea. An ultra-performance liquid chromatography-quadrupole-time-of-flight mass sp...

journal_title：Molecular bioSystems

authors： Zhang H,Wang JR,Yau LF,Ho HM,Chan CL,Hu P,Liu L,Jiang ZH

更新日期：2012-10-30 00:00:00

abstract：:A major effort in systems biology is the development of mathematical models that describe complex biological systems at multiple scales and levels of abstraction. Determining the topology-the set of interactions-of a biological system from observations of the system's behavior is an important and difficult problem. He...

journal_title：Molecular bioSystems

authors： Hagen DR,Tidor B

更新日期：2015-02-01 00:00:00

abstract：:Protein-adsorptive properties are a key feature of membranes used for haemodialysis treatment. Protein adsorption is vital to the biocompatibility of a membrane material and influences membrane's performance. The object of the present study is to investigate membrane biocompatibility by correlating the adsorbed proteo...

journal_title：Molecular bioSystems

authors： Urbani A,Lupisella S,Sirolli V,Bucci S,Amoroso L,Pavone B,Pieroni L,Sacchetta P,Bonomini M

更新日期：2012-04-01 00:00:00

abstract：:Are protein functions continuous or discretized? Proteomics investigations are starting to address this non-trivial awesome question focusing upon determining the nature of biological molecular relationships. In the following editorial we present a number of experimental studies published in this themed Proteomics Iss...

journal_title：Molecular bioSystems

authors： Urbani A,Castagnola M,Fasano M,Bini L,Modesti A,Timperio AM,Roncada P

更新日期：2013-06-01 00:00:00

abstract：:Homogeneous oligodeoxyguanylates incorporating small-molecule intercalator pyrene moieties in a 1,5 relationship form various structures of dimer, trimer, tetramer and internal hairpin form that are yellowish in color because of the intermolecular interactions between the pyrene units. ...

journal_title：Molecular bioSystems

authors： Jeong HS,Park M,Yi JW,Joo T,Kim BH

更新日期：2010-06-01 00:00:00

abstract：:Structural and functional changes in albumin are of particular interest as numerous studies in vivo have reported a strong involvement of glycated-HSA in the development and progression of chronic diabetic complications. Non-enzymatic addition of glucose molecules to a protein induces structural changes in it. These c...

journal_title：Molecular bioSystems

authors： Neelofar K,Arif Z,Alam K,Ahmad J

更新日期：2016-07-19 00:00:00

abstract：:Stochastic fluctuations (noise) in gene expression can cause members of otherwise genetically identical populations to display drastically different phenotypes. An understanding of the sources of noise and the strategies cells employ to function reliably despite noise is proving to be increasingly important in describ...

journal_title：Molecular bioSystems

authors： Tabor JJ,Bayer TS,Simpson ZB,Levy M,Ellington AD

更新日期：2008-07-01 00:00:00

abstract：:Proteins are dynamic creatures. Intrinsically disordered proteins (IDPs) function as multiplicity of structures and their activities can only be described by stochastic structure-function relationships. In their complex forms, however, IDPs were thought to lose their plasticity and behave similarly to globular protein...

journal_title：Molecular bioSystems

authors： Fuxreiter M

更新日期：2012-01-01 00:00:00

abstract：:The first fluorescent labeling technology, which can induce not only an increase in the fluorescence intensity but also a shift in the fluorescence spectrum, has been developed for "ratiometric" measurements for a protein by utilizing a newly designed "field-sensitive" fluorescent probe and its corresponding unique am...

journal_title：Molecular bioSystems

authors： Soh N,Seto D,Nakano K,Imato T

更新日期：2006-02-01 00:00:00