Molecular mechanism of the association and dissociation of Deltarasin from the heterodimeric KRas4B-PDEδ complex.

abstract：:A new procedure (POLYS) for producing three-dimensional structures of polysaccharides and complex carbohydrates is described. This employs a builder concept combining a database of monosaccharide structures with a database containing information on populations of independent neighboring glycosidic linkages in disaccha...

journal_title：Biopolymers

authors： Engelsen SB,Cros S,Mackie W,Pérez S

更新日期：1996-09-01 00:00:00

abstract：:We have studied the use of a new Monte Carlo (MC) chain generation algorithm, introduced by T. Garel and H. Orland [(1990) Journal of Physics A, Vol. 23, pp. L621-L626], for examining the thermodynamics of protein folding transitions and for generating candidate C(alpha) backbone structures as starting points for a de...

journal_title：Biopolymers

authors： Solomon JE,Liney D

更新日期：1995-11-01 00:00:00

abstract：:Substance P, one of the mammalian tachykinins, is known to interact strongly with lipid bilayers and this interaction may play a role in the receptor-peptide recognition process. The conformation of substance P bound to vesicles consisting of perdeuterated phosphatidylcholine has been investigated by means of two-dime...

journal_title：Biopolymers

authors： Augé S,Bersch B,Tropis M,Milon A

更新日期：2000-10-15 00:00:00

abstract：:The rheological characteristics of gastric and duodenal mucin solutions, the building blocks of the mucus layer that covers the epithelia of the two organs, were investigated using particle tracking microrheology. We used biochemically well characterized purified porcine mucins (MUC5AC and MUC2) as models for human mu...

journal_title：Biopolymers

authors： Georgiades P,Pudney PD,Thornton DJ,Waigh TA

更新日期：2014-04-01 00:00:00

abstract：:The total synthesis of a peptide segment corresponding to the DNA-binding segment of Sp1 (positions 532-623) using a native chemical ligation approach is described. The folding of the synthetic segment in the presence of Zn(II) gave a zinc-coordinated protein. The dissociation constant (K(D)) for the DNA binding of th...

journal_title：Biopolymers

authors： Futaki S,Tatsuto K,Shiraishi Y,Sugiura Y

更新日期：2004-01-01 00:00:00

abstract：:Suppressors of Cytokine Signaling (SOCS) proteins are negative regulators of JAK proteins that are receptor-associated tyrosine kinases, which play key roles in the phosphorylation and subsequent activation of several transcription factors named STATs. Unlike the other SOCS proteins, SOCS1 and 3 show, in the N-termina...

journal_title：Biopolymers

authors： La Manna S,Lopez-Sanz L,Leone M,Brandi P,Scognamiglio PL,Morelli G,Novellino E,Gomez-Guerrero C,Marasco D

更新日期：2017-11-20 00:00:00

abstract：:The periodical D-band pattern is generally considered a unique ultrastructural feature shared by all fibril-forming collagens, which correlates with the intrafibril, paracrystalline array of tropocollagen monomers. Distinct band patterns have been reported, however, for collagen stained long-spacing (SLS) crystallites...

journal_title：Biopolymers

authors： Ortolani F,Giordano M,Marchini M

更新日期：2000-11-01 00:00:00

abstract：:We report on the conformation of a tetrasaccharide fragment in the repeating subunit of the cell wall polysaccharide of Streptococcus mitis J22, a receptor for the lectin of Actinomyces viscosus T14V in a bacterial coaggregation that is important in the ecological interactions of oral bacteria. Although there is consi...

journal_title：Biopolymers

authors： Xu Q,Mohan S,Bush CA

更新日期：1996-03-01 00:00:00

abstract：:A short peptide-based molecule has been found to form a strong hydrogel at phosphate buffer solution of pH 7.46. The hydrogel has been characterized thoroughly using various techniques including field emission scanning electron microscopy (FE-SEM), wide angle powder X-ray diffraction (PXRD), and rheological analysis. ...

journal_title：Biopolymers

authors： Nandi N,Baral A,Basu K,Roy S,Banerjee A

更新日期：2017-01-01 00:00:00

abstract：:Gelsolin is an actin-severing protein whose action is initiated by Ca(2+) and inhibited by binding to phosphorylated inositol lipid or phosphoinositides. The regions of gelsolin responsible for phosphoinositide binding are comprised of residues 150-169 (G150-169) and 135-142 (G135-142). The corresponding peptides poss...

journal_title：Biopolymers

authors： Liepiņa I,Czaplewski C,Janmey P,Liwo A

更新日期：2003-01-01 00:00:00

abstract：:Structural characterization of G protein-coupled receptors (GPCRs) is hindered by the inherent hydrophobicity, flexibility, and large size of these signaling proteins. Insights into conformational preferences and the three-dimensional (3D) structure of domains of these receptors can be obtained using polypeptide fragm...

journal_title：Biopolymers

authors： Caroccia KE,Estephan R,Cohen LS,Arshava B,Hauser M,Zerbe O,Becker JM,Naider F

更新日期：2011-01-01 00:00:00

abstract：:The occurrence of a highly conserved 11-mer repeating motif in the primary sequence is a major characteristic of group 3 late embryogenesis abundant (LEA3) proteins, which are strongly associated with abiotic stress tolerance of the plants. In this study, the three-dimensional structure, mimetic membrane association, ...

journal_title：Biopolymers

authors： Xue R,Liu Y,Zheng Y,Wu Y,Li X,Pei F,Ni J

更新日期：2012-01-01 00:00:00

abstract：:A theoretical study is presented of the influence of salt bridges between cationic side chains and DNA phosphates on DNA conformation and flexibility. The DNA sequence studied is that of the catabolite activator protein binding oligomer from the crystallized complex. The effect of salt bridges is modeled by neutraliza...

journal_title：Biopolymers

authors： Gurlie R,Duong TH,Zakrzewska K

更新日期：1999-04-01 00:00:00

abstract：:Prolonged exposure (>90 days) of bovine beta-lactoglobulin (BLG) to subdenaturing concentrations of either urea or potassium thiocyanate resulted in the formation of ordered polymers in the form of fibrils. The fibrils obtained with each chaotrope showed major differences in morphology, surface properties, thiol acces...

journal_title：Biopolymers

authors： Rasmussen P,Barbiroli A,Bonomi F,Faoro F,Ferranti P,Iriti M,Picariello G,Iametti S

更新日期：2007-05-01 00:00:00

abstract：:Cyclic pentapeptides are excellent models for reverse turns and have been used extensively in our laboratory to explore the influence of different amino acid sequences on turn preference. This paper is divided into two parts: In the first, we review our previous studies of cyclic pentapeptides. We summarize work that ...

journal_title：Biopolymers

authors： Stradley SJ,Rizo J,Bruch MD,Stroup AN,Gierasch LM

更新日期：1990-01-01 00:00:00

abstract：:Molecular dynamics (MD) simulations on stem loop 2 of U1 small nuclear RNA and a construct of the U1A protein were carried out to obtain predictions of the structures for the unbound forms in solution and to elucidate dynamical aspects of induced fit upon binding. A crystal structure of the complex between the U1A pro...

journal_title：Biopolymers

authors： Pitici F,Beveridge DL,Baranger AM

更新日期：2002-12-15 00:00:00

abstract：:The spectroscopic properties of syringomycin E, an antibiotic lipodepsinonapeptide associated with pathological states in plants, have been investigated by uv absorbance and CD spectroscopies, and by the synthesis of relevant model compounds. Initial studies [E. Vaillo, A. Ballio, P. L. Luisi, and R. M. Thomas (1990) ...

journal_title：Biopolymers

authors： Vaillo E,Ballio A,Luisi PL,Thomas RM

更新日期：1992-10-01 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：:A novel nucleic acid model using peptide ribonucleic acid (PRNA), which contains 5'-amino-5'-deoxypyrimidine ribonucleoside as a recognition site for nucleic acids, has been designed, synthesized and applied to the external reversible control of recognition behavior of the complementary polynucleotide through the orie...

journal_title：Biopolymers

authors： Wada T,Sato H,Inoue Y

更新日期：2004-01-01 00:00:00

abstract：:The solution conformations of a hybrid sequence peptide related to the bee venom peptide apamin have been determined using two-dimensional 1H-nmr. Apamin is an 18 amino acid peptide containing a C-terminal helix that is stabilized by two disulfide bonds. The deletion of one residue (K4) of the N-terminal "scaffold" re...

journal_title：Biopolymers

authors： Volkman BF,Wemmer DE

更新日期：1997-04-05 00:00:00

abstract：:We have determined using NMR the structure of the complex between the third double-stranded RNA-binding domain (dsRBD3) of Drosophila Staufen protein and a RNA stem-loop with optimal binding properties in vitro. This work was designed to understand how dsRBD proteins bind RNA and to investigate the role of Staufen dsR...

journal_title：Biopolymers

authors： Ramos A,Bayer P,Varani G

更新日期：1999-01-01 00:00:00

abstract：:The Electrostatically Driven Monte Carlo (EDMC) method was applied in a study of a decamer of glycine whose conformational behavior is described by the Empirical Conformational Energy Program for Peptides (ECEPP/2) potential energy model. When free neutral end groups were used, it was found that conformations that wer...

journal_title：Biopolymers

authors： Ripoll DR,Vásquez MJ,Scheraga HA

更新日期：1991-02-15 00:00:00

abstract：:Antimicrobial peptides (AMPs) have been the focus of intense research towards the finding of a viable alternative to current small-molecule antibiotics, owing to their commonly observed and naturally occurring resistance against pathogens. However, natural peptides have many problems such as low bioavailability and hi...

journal_title：Biopolymers

authors： He Y,He X

更新日期：2016-09-01 00:00:00

abstract：:The solid state conformational analysis of [Tyr4] cyclolinopeptide A has been carried out by x-ray diffraction studies. The crystal structure of the monoclinic form, grown from a dioxane-water mixture [alpha = 9.849 (5) A, b = 20.752 (4) A, c = 16.728 (5) A, beta = 98.83 (3) degrees, space group P21, Z = 2], shows the...

journal_title：Biopolymers

authors： Saviano M,Rossi F,Filizola M,Isernia C,Di Blasio B,Benedetti E,Pedone C,Siemion IZ,Pedyczak A

更新日期：1995-10-01 00:00:00

abstract：:We review the neighbor exclusion model and some of its applications to analyze the binding data of DNA-ligand complexes. We revisit the closed form of the model developed by McGhee and von Hippel in 1974, showing that this classic model can be used to help studying the behavior of DNA contour and persistence lengths w...

journal_title：Biopolymers

authors： Rocha MS

更新日期：2010-01-01 00:00:00

abstract：:Our previous studies of the potential utility of the C(alpha)D(alpha) stretch frequency, nu(CD), as a tool for determining conformation in peptide systems (Mirkin and Krimm, J Phys Chem A 2004, 108, 10923-10924; 2007, 111, 5300-5303) dealt with the spectroscopic characteristics of isolated alanine peptides with alpha(...

journal_title：Biopolymers

authors： Mirkin NG,Krimm S

更新日期：2009-09-01 00:00:00

abstract：:Proteases play crucial roles in various biological processes, and their activities are essential for all living organisms-from viruses to humans. Since their functions are closely associated with many pathogenic mechanisms, their inhibitors or activators are important molecular targets for developing treatments for va...

journal_title：Biopolymers

authors： Hamada Y,Kiso Y

更新日期：2016-11-04 00:00:00

abstract：:Lung cancer is usually fatal once it becomes metastatic. However, in order to develop metastases, a tumor usually invades the basal membrane and enters the vascular or lymphatic system. In this study, a three-dimensional artificial membrane using collagen type I, one of the main components of basal membranes, was esta...

journal_title：Biopolymers

authors： Yang Y,Sulé-Suso J,Sockalingum GD,Kegelaer G,Manfait M,El Haj AJ

更新日期：2005-08-15 00:00:00

abstract：:Side-chain lactam bridges linking amino acid residues that are spaced several residues apart in the linear sequence offer a convenient and flexible method for introducing conformational constraints into a peptide structure. The availability of a variety of selectively cleavable protecting groups for amines and carboxy...

journal_title：Biopolymers

authors： Taylor JW

更新日期：2002-01-01 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