Molecular design and genetic optimization of antimicrobial peptides containing unnatural amino acids against antibiotic-resistant bacterial infections.

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 developed dictionaries of two-, three-, and five-residue patterns in proteins and computed the average solvent accessibility of the central residues in their native proteins. These dictionaries serve as a look-up table for making subsequent predictions of solvent accessibility of amino acid residues. We find that p...

journal_title：Biopolymers

authors： Wang JY,Ahmad S,Gromiha MM,Sarai A

更新日期：2004-10-15 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：:To obtain information about the structure-activity relationships of analgesic peptides, we modified the previously reported tripeptide, H-Lys-Pro-Thr-OH (C). The proline part in C was replaced with various analogues of unconventional amino acids [(3aS, 7aS)-octahydroindole-2-carboxylic acid (Oic), (S,S,S,)-2-azabicicl...

journal_title：Biopolymers

authors： Caliendo G,Greco G,Grieco P,Perissutti E,Santagada V,Ialenti A,Maffia P,Albrizio S,Santini A

更新日期：1996-01-01 00:00:00

abstract：:A water-insoluble polysaccharide (TM8) was isolated from sclerotium of Pleurotus tuber-regium by extraction with 0.5M NaOH aqueous solutions at 120 degrees C. Its chemical structure was confirmed by infrared, high performance liquid chromatography, gas chromatography, and (13)C NMR in dimethylsulfoxide (DMSO) to be co...

journal_title：Biopolymers

authors： Zhang L,Zhang M,Dong J,Guo J,Song Y,Cheung PC

更新日期：2001-11-01 00:00:00

abstract：:It has recently been reported that synthetic peptides corresponding to the C-terminal sequence of G alpha, can be used to study the molecular mechanisms of interaction between this protein and G protein coupled receptors (Hamm et al., Science, 1988, Vol. 241, pp. 832-835). A conformational analysis on a 11 amino acids...

journal_title：Biopolymers

authors： Albrizio S,D'Ursi A,Fattorusso C,Galoppini C,Greco G,Mazzoni MR,Novellino E,Rovero P

更新日期：2000-09-01 00:00:00

abstract：:A method is presented for determining the concentrations of peptides and proteins having isodichroic points near 203 nm. The existence of an isodichroic point for a given substance indicates a local two-state (alpha-helix, random coil) population. The mean residue ellipticity at the isodichroic point, [theta lambda i]...

journal_title：Biopolymers

authors： Holtzer ME,Holtzer A

更新日期：1992-12-01 00:00:00

abstract：:Terminally blocked (L-Pro-Aib)n and Aib-(L-Pro-Aib)n sequential oligopeptides are known to form right-handed beta-bend ribbon spirals under a variety of experimental conditions. Here we describe the results of a complete CD and ir characterization of this subtype of 3(10)-helical structure. The electronic CD spectra w...

journal_title：Biopolymers

authors： Yoder G,Keiderling TA,Formaggio F,Crisma M,Toniolo C

更新日期：1995-01-01 00:00:00

abstract：:Calculations of the normal mode spectrum of a netropsin-DNA complex, an isolated DNA helix of the same sequence, and a free netropsin molecule were carried out and compared with observations. We find that the frequency of modes of the complex that are primarily vibrations localized to the helix are relatively unchange...

journal_title：Biopolymers

authors： Chen YZ,Prohofsky EW

更新日期：1995-06-01 00:00:00

abstract：:Hyaluronic acid (HA) is an important biomacromolecule, which fulfils a number of vital physiological functions (especially in the joint synovial fluid) and also has consumer and pharmaceutical applications. HA solution properties have already been quite thoroughly characterized in response to steady shear flows but ar...

journal_title：Biopolymers

authors： Haward SJ

更新日期：2014-03-01 00:00:00

abstract：:Peptides are frequently used model systems for protein folding. They are also gaining increased importance as therapeutics. Here, the ability of molecular dynamics (MD) simulation for describing the structure and dynamics of β-hairpin peptides was investigated, with special attention given to the impact of a single in...

journal_title：Biopolymers

authors： Niebling S,Danelius E,Brath U,Westenhoff S,Erdélyi M

更新日期：2015-11-01 00:00:00

abstract：:Tissue engineering techniques particularly using electrospun scaffolds have been intensively used in recent years for the development of small diameter vascular grafts. However, the development of a completely successful scaffold that fulfills multiple requirements to guarantee complete vascular regeneration remains c...

journal_title：Biopolymers

authors： Vatankhah E,Prabhakaran MP,Semnani D,Razavi S,Morshed M,Ramakrishna S

更新日期：2014-12-01 00:00:00

abstract：:The discovery of extreme halophile microorganisms in the Dead Sea, which are specifically dependent on a multimolar salt environment to survive, stimulated major developments in biology and physical chemistry. The minireview focuses on the molecular level. After a brief introduction to the history of halophile studies...

journal_title：Biopolymers

authors： Zaccai G

更新日期：2013-04-01 00:00:00

abstract：:DMT1, also known as Nramp2, is an iron transporter, and belongs to the family of Nramp proteins. Disease-causing mutations both in Nramp1 and Nramp2 occurring at the conserved two adjacent glycine residues located within the fourth transmembrane domain (TM4) suggest that TM4 may serve an important biological function....

journal_title：Biopolymers

authors： Li H,Li F,Kwan M,He QY,Sun H

更新日期：2005-03-01 00:00:00

abstract：:In a seminal paper, Pakula and Sauer (Nature, 1990, 344, 363-364) demonstrated that the increase in side-chain hydrophobicity has a reverse relationship with protein stability. We have addressed this problem with several examples of mutants that span at different locations in protein structure based on secondary struc...

journal_title：Biopolymers

authors： Gromiha MM

更新日期：2009-07-01 00:00:00

abstract：:Synthetic RNA poly[r(A-T)] has been synthesized and its CD spectral properties compared to those of poly[r(A-U)], poly[d(A-T)], and poly[d(A-U)] in various salt and ethanolic solutions. The CD spectra of poly[r(A-T)] in an aqueous buffer and of poly[d(A-T)] in 70.8% v/v ethanol are very similar, suggesting that they b...

journal_title：Biopolymers

authors： Vorlícková M,Kypr J,Jovin TM,Planck M

更新日期：1990-02-05 00:00:00

abstract：:The coupling of nuC-O and deltaO-D vibrations in the 1200-900 cm(-1) IR range leads to band shifting in opposite directions, which provides information on intramolecular hydrogen bonding of carbohydrates in aqueous solution. The aqueous solution IR spectra of 2-acetamide-1,6-anhydro-2-deoxy-D-glucopyranose and cis-1,2...

journal_title：Biopolymers

authors： Carmona P,Molina M,Aboitiz N,Vicent C

更新日期：2002-01-01 00:00:00

abstract：:The design, synthesis, and evaluation of a novel series of receptors for protein surface recognition are described. The design of these agents is based around the attachment of four constrained peptide loops onto a central calix[4]arene scaffold. This arrangement mimics the role of the hypervariable loops in antibody ...

journal_title：Biopolymers

authors： Lin Q,Park HS,Hamuro Y,Lee CS,Hamilton AD

更新日期：1998-01-01 00:00:00

abstract：:Ubiquitin (Ub) is a small 76 amino acid long protein that is highly conserved in all eukaryotes studied to date. In humans, more than 600 ligases are involved in the reversible modification of specific lysine side-chain amines in substrate proteins by conjugation with the C-terminal carboxylate of Ub. Initially monoub...

journal_title：Biopolymers

authors： Weller CE,Pilkerton ME,Chatterjee C

更新日期：2014-02-01 00:00:00

abstract：:Thermal unfolding of bovine serum albumin (BSA) has been studied in the presence of 2,2,2-trifluoroethanol (TFE) using high-sensitivity microdifferential scanning calorimetry. Quantitative thermodynamic parameters accompanying the thermal transitions have been evaluated. TFE is observed to be a stabilizer or a destabi...

journal_title：Biopolymers

authors： Banerjee T,Kishore N

更新日期：2005-06-05 00:00:00

abstract：:TACC3 is a centrosomal adaptor protein that plays important roles during mitotic spindle assembly. It interacts with chTOG/XMAP215, which catalyzes the addition of tubulin dimers during microtubule growth. A 3D coiled-coil model for this interaction is available but the structural details are not well described. To ch...

journal_title：Biopolymers

authors： Partida-Hanon A,Treviño MA,Mompeán M,Jiménez MÁ,Bruix M

更新日期：2017-11-01 00:00:00

abstract：:The question of long-range allosteric transitions of DNA secondary structure and their possible involvement in transcriptional activation is discussed in the light of new results. A variety of recent evidence strongly supports a fluctuating long-range description of DNA secondary structure. Balanced equilibria between...

journal_title：Biopolymers

authors： Schurr JM,Delrow JJ,Fujimoto BS,Benight AS

更新日期：1997-01-01 00:00:00

abstract：:A topochemical model to explain the biological activity of dendrotoxin-I (DTX-I), a potent blocker for potassium channels, was developed by searching common spatial arrangements of functionally important residues between DTX-I, alpha-dendrotoxin, dendrotoxin-K, BgK, ShK, and charybdotoxin. The first three are structur...

journal_title：Biopolymers

authors： Katoh E,Nishio H,Inui T,Nishiuchi Y,Kimura T,Sakakibara S,Yamazaki T

更新日期：2000-07-01 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：:Interactions between biological macromolecules have characteristic values of affinity and specificity that are set according to the biological function that is served by the interaction in the organism. Here we examine the molecular mechanisms that are used to achieve the required values of affinity and specificity in...

journal_title：Biopolymers

authors： Szwajkajzer D,Carey J

更新日期：1997-01-01 00:00:00

abstract：:Bovine carbonmonoxy hemoglobin investigated with light scattering studies is found to dissociate from its native tetramer structure into dimers and monomers. The values of the hydrated tetramer radius, RT = 32.1 A, and the fractional dissociation vs pH, have been obtained at different ionic strengths from the autocorr...

journal_title：Biopolymers

authors： Lunelli L,Zuliani P,Baldini G

更新日期：1994-06-01 00:00:00

abstract：:The aim of this study was to investigate the effect of dopa and catecholamines on the generation of oxygen active species during oxidation of farmorubicin by "Fenton-like" reagents using chemiluminescent and spectrophotometric techniques. The tested catechols were found to reduce the light emission accompanying oxidat...

journal_title：Biopolymers

authors： Kruk I,Lichszteld K,Aboul-Enein HY

更新日期：2002-01-01 00:00:00

abstract：:As a model of receptor protein, a series of 3alpha-helix bundle peptides constructed on a template peptide were designed so as to possess a hydrophobic cavity. The size of cavity was modulated by simple replacements of Leu residues to Ala residues in the hydrophobic core. Binding abilities to 8-anilino-1-naphthalenesu...

journal_title：Biopolymers

authors： Obataya I,Sakamoto S,Ueno A,Mihara H

更新日期：2001-08-01 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：:Calcium ions (Ca(2+) ) play key roles in various fundamental biological processes such as cell signaling and brain function. Molecular dynamics (MD) simulations have been used to study such interactions, however, the accuracy of the Ca(2+) models provided by the standard MD force fields has not been rigorously tested....

journal_title：Biopolymers

authors： Yoo J,Wilson J,Aksimentiev A

更新日期：2016-10-01 00:00:00