Protein surface recognition by synthetic agents: design and structural requirements of a family of artificial receptors that bind to cytochrome c.

abstract：:Previous studies have demonstrated that His 12 plays a major role in the pH-dependent stability of the helix formed by the isolated C-peptide (residues 1-13 of ribonuclease A). Here, amino acid replacement experiments show that His 12+ stabilizes the C-peptide helix chiefly by interacting with Phe 8. The Phe 8 ... His...

journal_title：Biopolymers

authors： Shoemaker KR,Fairman R,Schultz DA,Robertson AD,York EJ,Stewart JM,Baldwin RL

更新日期：1990-01-01 00:00:00

abstract：:Small disulfide-rich peptides are translated as larger precursors typically containing an N-terminal prepro sequence. In this study, we investigated the role of a propeptide in the oxidative folding of an extremely hydrophobic delta-conotoxin, PVIA. delta-Conotoxin PVIA (delta-PVIA) is a 29-amino acid neurotoxin stabi...

journal_title：Biopolymers

authors： Buczek P,Buczek O,Bulaj G

更新日期：2005-01-01 00:00:00

abstract：:We report on an unrestrained molecular dynamics simulation of the flavin mononucleotide (FMN)-RNA aptamer. The simulated average structure maintains both cross-strand and intermolecular FMN-RNA nuclear Overhauser effects from the nmr experiments and has all qualitative features of the nmr structure including the G10-U...

journal_title：Biopolymers

authors： Schneider C,Sühnel J

更新日期：1999-09-01 00:00:00

abstract：:The synthetic peptide Gly-L-Ala-L-Phe (C14H19N3O4.2H2O; GAF) crystallizes in the monoclinic space group P2I1), with a = 5.879(1), b = 7.966(1), c = 17.754(2) A, beta = 95.14(2) degrees, Dx = 1.321 g cm-3, and Z = 2. The crystal structure was solved by direct methods using the program SHELXS-86 and refined to an R valu...

journal_title：Biopolymers

authors： Ramasubbu N,Parthasarathy R

更新日期：1989-07-01 00:00:00

abstract：:Dielectric relaxation peak due to bound water was found around 100 MHz in poly(dG-dC).poly(dG-dC) and calf thymus DNA in water-ethanol mixtures with NaCl buffer. Relaxation time and strength show a transition for poly(dG-dC).poly(dG-dC) at an ethanol composition Cw = 0.45 (w/w) where the structural transition from B- ...

journal_title：Biopolymers

authors： Umehara T,Kuwabara S,Mashimo S,Yagihara S

更新日期：1990-01-01 00:00:00

abstract：:A detailed description of the two observed solution conformations of the pentapeptide lactone fragment of actinomycin D is presented using the distance constraints obtained from two-dimensional nuclear Overhauser enhancement spectra in combination with minimum energy calculations. Low energy conformational states that...

journal_title：Biopolymers

authors： Mauger AB,Gallagher KS,Silverton JV,Ferretti JA

更新日期：1989-10-01 00:00:00

abstract：:A series of novel nonpeptide inhibitors of the pp60(c-Src) (Src) SH2 domain is described that exploit multifunctional group replacement of the phenylphosphate moiety of phosphotyrosine (pTyr). Relative to an x-ray structure of citrate complexed to the pTyr binding site of the Src SH2 domain, these nonpeptide ligands i...

journal_title：Biopolymers

authors： Sundaramoorthi R,Kawahata N,Yang MG,Shakespeare WC,Metcalf CA 3rd,Wang Y,Merry T,Eyermann CJ,Bohacek RS,Narula S,Dalgarno DC,Sawyer TK

更新日期：2003-01-01 00:00:00

abstract：:The Lifson-Roig Model (LRM) and all its variants describe the α-helix to coil transition in terms of additive component-free energies within a free energy decomposition scheme, and these contributions are interpreted through sequence-context dependent nucleation and propagation parameters. Although this phenomenologic...

journal_title：Biopolymers

authors： Wood GG,Clinkenbeard DA,Jacobs DJ

更新日期：2011-04-01 00:00:00

abstract：:The preferred helical screw senses of chiral α-amino acids with a C(α)-tetrasubstituted α-carbon atom, as determined in the crystal state by X-ray diffraction analyses on derivatives and peptides, are reviewed. This survey covers C(α)-methylated and C(α)-ethylated α-amino acids, as well as α-amino acids cyclized on th...

journal_title：Biopolymers

authors： Crisma M,Toniolo C

更新日期：2015-01-01 00:00:00

abstract：:The differences in the absorbance in the mid infrared region (Mid IR) between normal and abnormal tissues have been shown to be a possible criterion for the detection of different forms of cancer. The present work aimed to study the effects of cell growth and DNA synthesis on the RNA/DNA ratio, which is a promising pa...

journal_title：Biopolymers

authors： Sahu RK,Mordechai S,Manor E

更新日期：2008-11-01 00:00:00

abstract：:Laminins are a multifunctional molecule with numerous active sites that have been identified in short peptide sequences. Mixed peptide-conjugated chitosan membranes using laminin-derived active peptides have been previously demonstrated to be useful as a biomaterial for tissue engineering. In this study, two syndecan-...

journal_title：Biopolymers

authors： Otagiri D,Yamada Y,Hozumi K,Katagiri F,Kikkawa Y,Nomizu M

更新日期：2013-11-01 00:00:00

abstract：:The study of biologically active peptides is critical to the understanding of physiological pathways, especially those involved in the development of disease. Historically, the measurement of biologically active endogenous peptides has been undertaken by radioimmunoassay, a highly sensitive and robust technique that p...

journal_title：Biopolymers

authors： Xi L,Jin Y,Parker EA,Josh P,Jones A,Wijffels G,Colgrave ML

更新日期：2012-01-01 00:00:00

abstract：:The aminoacyl-tRNA synthetases are an ancient group of enzymes that catalyze the covalent attachment of an amino acid to its cognate transfer RNA. The question of specificity, that is, how each synthetase selects the correct individual or isoacceptor set of tRNAs for each amino acid, has been referred to as the second...

journal_title：Biopolymers

authors： Beuning PJ,Musier-Forsyth K

更新日期：1999-01-01 00:00:00

abstract：:RADA-16-I is a self-assembling peptide which forms biocompatible fibrils and hydrogels. We used molecular dynamics simulations, atomic-force microscopy, NMR spectroscopy, and thioflavin T binding assay to examine size, structure, and morphology of RADA-16-I aggregates. We used the native form of RADA-16-I (H-(ArgAlaAs...

journal_title：Biopolymers

authors： Bagrov D,Gazizova Y,Podgorsky V,Udovichenko I,Danilkovich A,Prusakov K,Klinov D

更新日期：2016-01-01 00:00:00

abstract：:Spin-spin and spin-lattice 1H-nmr relaxation times of the sea anemone polypeptide anthopleurin-A were measured at frequencies of 200, 300, 400, and 500 MHz. Relaxation times were fitted iteratively by least squares regression to the isotropic tumbling model, Woessner's model for anisotropic motion, and Lipari and Szab...

journal_title：Biopolymers

authors： Torda AE,Norton RS

更新日期：1989-03-01 00:00:00

abstract：:The results are presented for the deconvolution of IR spectra of disaccharides and polysaccharides with alpha and beta configurations of the 1 --> 4 glycosidic linkage (maltose, cellobiose, amylose, and cellulose), as well as of their corresponding monosaccharides (alpha- and beta-D-glucose) in the 1200-920 cm(-1) fre...

journal_title：Biopolymers

authors： Nikonenko NA,Buslov DK,Sushko NI,Zhbankov RG

更新日期：2000-01-01 00:00:00

abstract：:The shed epidermis (molt) of snakes comprises four distinct layers. The upper two layers, here considered as beta-layer, contain essentially beta-keratin. The following layer, known as mesos-layer, is similar to the human stratum corneum, and is formed by thin cells surrounded by intercellular lipids. The latter layer...

journal_title：Biopolymers

authors： Ripamonti A,Alibardi L,Falini G,Fermani S,Gazzano M

更新日期：2009-12-01 00:00:00

abstract：:The spatial variation in the composition of nonexpanded biopolymer blends prepared by extrusion of mixtures of gelatin with either native or pregelatinized waxy maize starch was studied using a 30-microm aperture FTIR microspectroscopy technique. The ratio of the areas of the "saccharide" bands (953-1180 cm(-1)) and t...

journal_title：Biopolymers

authors： Mousia Z,Farhat IA,Pearson M,Chesters MA,Mitchell JR

更新日期：2001-01-01 00:00:00

abstract：:We have studied by Raman and ir spectroscopy the structure of self-associated polyinosinic acid and polyguanylic acid in aqueous solution. The results are consistent with the formation of a four-stranded complex, which melts cooperatively near 60 degrees C in the case of poly(I) in the presence of K+ ions. The conform...

journal_title：Biopolymers

authors： Simard C,Savoie R

更新日期：1994-01-01 00:00:00

abstract：:Single-walled carbon nanotubes (SWNTs) have unique properties and are projected to have a major impact in nanoscale electronics, materials science, and nanomedicine. Yet, these potential applications are hindered by the need for sample purification to separate SWNTs from each other and from metallic catalyst and amorp...

journal_title：Biopolymers

authors： Chiu CC,Dieckmann GR,Nielsen SO

更新日期：2009-01-01 00:00:00

abstract：:We present a novel infrared method to investigate the functionality of a protein monolayer tethered to a metal substrate. The approach employs Surface Enhanced Infrared Absorption Spectroscopy (SEIRAS), which renders high surface sensitivity by enhancing the signal of the adsorbed protein by up to approximately 2 orde...

journal_title：Biopolymers

authors： Ataka K,Heberle J

更新日期：2006-07-01 00:00:00

abstract：:Molecular modeling is used to demonstrate that the major structural deformations of DNA caused by four different minor groove binding proteins, TBP, SRY, LEF-1, and PurR, can all be mimicked by stretching the double helix between two 3'-phosphate groups flanking the binding region. This deformation reproduces the wide...

journal_title：Biopolymers

authors： Lebrun A,Lavery R

更新日期：1999-04-15 00:00:00

abstract：:Synthesis and CD and (13)C(alpha)-NMR studies in a near-neutral saline buffer are reported for a 65-residue peptide ((190)Tm(254)) comprising residues 190-254 of the alpha-tropomyosin chain. CD on a version disulfide cross-linked via the N-terminal cysteine side chains indicates that this dimer is highly helical and m...

journal_title：Biopolymers

authors： Emerson Holtzer M,Mints L,Hogue Angeletti R,d'Avignon DA,Holtzer A

更新日期：2001-10-05 00:00:00

abstract：:The x-ray conformations of 5-, 7-, 9-, and 12-residue loops in bovine pancreatic trypsin inhibitor (BPTI) were predicted by the use of multiple independent Monte Carlo simulating annealing (MCSA) runs starting from random conformations. Four buried water molecules interacted with a 12-residue loop that started at resi...

journal_title：Biopolymers

authors： Carlacci L

更新日期：2001-04-05 00:00:00

abstract：:The role of phosphorylation in stabilizing the N-termini of alpha-helices is examined using computer simulations of model peptides. The models comprise either a phosphorylated or unphosphorylated serine at the helix N-terminus, followed by nine alanines. Monte Carlo/stochastic Dynamics simulations were performed on th...

journal_title：Biopolymers

authors： Smart JL,McCammon JA

更新日期：1999-03-01 00:00:00

abstract：:Phosphorylation and dephosphorylation are key events in protein expression and regulation and in signal transduction. Phosphopeptides are very useful reagents for the study of these processes, and have been used to great advantage in the study of phosphatase substrate specificity, SH2 domain ligand specificity, and pr...

journal_title：Biopolymers

authors： McMurray JS,Coleman DR 4th,Wang W,Campbell ML

更新日期：2001-01-01 00:00:00

abstract：:It was shown earlier, from database analysis, model building studies, and molecular dynamics simulations that formation of cross-strand bifurcated or Extra Watson-Crick hydrogen (EWC) bonds between successive base pairs may lead to extra rigidity to DNA double helices of certain sequences. The strengths of these hydro...

journal_title：Biopolymers

authors： Bandyopadhyay D,Bhattacharyya D

更新日期：2006-10-15 00:00:00

abstract：:The presence of non-native kinetic traps in the free energy landscape of a protein may significantly lengthen the overall folding time so that the folding process becomes unreliable. We use a computational model alpha-helical hairpin peptide to calculate structural free energy landscapes and relate them to the kinetic...

journal_title：Biopolymers

authors： Chapagain PP,Gerstman BS

更新日期：2006-02-15 00:00:00

abstract：:Vibrational absorption and vibrational circular dichroism (VCD) spectra of valinomycin are measured, in different solvents, in the ester and amide carbonyl stretching regions. The influence of cations, namely Li(+), Na(+), K(+), and Cs(+), in methanol-d(4) solvent is also investigated. Ab initio quantum mechanical cal...

journal_title：Biopolymers

authors： Wang F,Zhao C,Polavarapu PL

更新日期：2004-09-01 00:00:00

abstract：:Photon correlation spectroscopy has been used to study the translational (D0) and internal dynamics of monodisperse linear and polydisperse superhelical plasmid-DNAs. Scattering vector dependent correlation functions were measured and analyzed with the inverse Laplace transform CONTIN written by S. Provencher. For sca...

journal_title：Biopolymers

authors： Seils J,Dorfmüller T

更新日期：1991-06-01 00:00:00