Abstract:
:While our understanding of the folding and structure of water-soluble proteins has progressed to the point where they can be artificially designed and produced from first principles, there has been only limited work toward the de novo design of membrane proteins. Such studies have been hindered in large part due to the practical challenges in the production and characterization of multispanning transmembrane (TM) proteins that arise from their highly hydrophobic character. In this work, we used molecular biology cloning techniques to produce a library of partially randomized Ala- and Ile-rich de novo helix-loop-helix (hairpin) TM constructs as models for tertiary TM-TM folding. From this plasmid DNA library, we selected sequences corresponding to hairpins with 0, 1, or 2 putative TM segments. While purification protocols could be adapted for application with a broad range of designed protein hairpins, bacterial expression of constructs with multiple predicted TM segments was limited as it is with native membrane proteins. Examples of the peptide hairpins obtained were characterized by circular dichroism spectroscopy, tryptophan fluorescence, and sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). We found that hairpins composed of two TM segments display characteristic behavior on detergent solubilization, such as an increase in helical structure (vs. that in aqueous buffer), and sequence-dependent migration rates in SDS-PAGE analysis-features that may serve as structural hallmarks to verify dual TM topology in hairpin sequences.
journal_name
Biopolymersjournal_title
Biopolymersauthors
Tulumello DV,Johnson RM,Isupov I,Deber CMdoi
10.1002/bip.22149subject
Has Abstractpub_date
2012-01-01 00:00:00pages
546-56issue
6eissn
0006-3525issn
1097-0282journal_volume
98pub_type
杂志文章相关文献
BIOPOLYMERS文献大全abstract::Electronic absorbance and fluorescence titrations are used to probe the interaction of chlorobenzylidine with DNA. The binding of chlorobenzylidine to DNA results in hypochromism, a small shift to a longer wavelength in the absorption spectra, and emission quenching in the fluorescence spectra. These spectral characte...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10001
更新日期:2001-01-01 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
pub_type: 杂志文章
doi:10.1002/bip.360290130
更新日期:1990-01-01 00:00:00
abstract::The use of peptide carriers, termed "cell-penetrating peptides (CPPs)" has attracted much attention due to their potential for cellular delivery of hydrophilic molecules with pharmacological interest, overcoming the membrane barrier. These peptides are able to deliver attached cargos in a nontoxic manner, with the upt...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.21367
更新日期:2010-01-01 00:00:00
abstract::The formation of the KRas4B-PDEδ complex activates different signaling pathways required for the development and maintenance of cancer. Previous experimental and theoretical studies have allowed researchers to design an inhibitor of the KRas4B-PDEδ complex, "Deltarasin." This inhibitor binds to the prenyl-binding pock...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.23333
更新日期:2019-11-01 00:00:00
abstract::Physiological properties of soluble antigen-antibody (Ag-Ab) complexes depend in part on the size of the complexes. In previous work, the size distribution and structure of model Ag-Ab complexes were determined by electron microscopy. In this study, we used constrained regularization analysis of quasi-elastic light sc...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360311107
更新日期:1991-10-01 00:00:00
abstract::The thermal conformational transitions of two sonicated samples of schizophyllan were studied in water-dimethylsulfoxide (DMSO) mixtures by high-sensitivity differential scanning calorimetry (DSC). Two transitions were observed over most of the range of solvent compositions. These were assigned to an internal change o...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360280208
更新日期:1989-02-01 00:00:00
abstract::Individual-site isotherms for the binding of bacteriophage lambda repressor to the left and right lambda operators have been determined [D. F. Senear, M. Brenowitz, M. A. Shea, and G. K. Ackers (1986) Biochemistry, Vol. 25, pp. 7344-7354.] using the DNAse protection technique [footprinting; D. J. Galas and A. Schmitz ...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360330903
更新日期:1993-09-01 00:00:00
abstract::Human hair as alpha-keratin fiber exhibits a complex morphology, which for the context of this investigation is considered as a filament/matrix-composite, comprising the intermediate filaments (IF) and a variety of amorphous protein components as matrix. Differential scanning calorimetry (DSC) under aqueous conditions...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.20599
更新日期:2006-12-15 00:00:00
abstract::The experimental thermodynamic data for the dissolution of five simple hydrocarbon molecules in water were combined with the solute-solvent interaction energy from a computer simulation study to yield data on the enthalpy change of solvent reorganization. Similar data were generated for dissolving these same solute mo...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360310809
更新日期:1991-07-01 00:00:00
abstract::A series of iota-carrageenans containing different amounts of nu-carrageenan (0-23 monomer %) have been prepared from neutrally extracted carrageenan of Eucheuma denticulatum. nu-Carrageenan is the biochemical precursor of iota-carrageenan. The conformational order-disorder transition and rheological properties of the...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10250
更新日期:2002-11-15 00:00:00
abstract::Second-generation dendrimers have been prepared on solid phase by successive additions of branched polyproline building blocks starting from two different branching units anchored to the solid support. The preparation of Pro-rich building blocks was carried out by stepwise solid-phase synthesis and their iterative add...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.20125
更新日期:2004-01-01 00:00:00
abstract::The applicability of the FTIR attenuated total reflectance technique for in situ monitoring of plant physiological processes such as leaf senescence and aging has been examined. Difference spectra obtained by subtracting the spectrum of the young plant leaf from that of the older one revealed positive bands at 1650-15...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10297
更新日期:2003-01-01 00:00:00
abstract::Fluorescence binding measurements and molecular modeling were employed to study the interaction of hypericin (Hyp) with human (HSA), rat (RSA), and bovine (BSA) serum albumins. Fluorescence emission data show the solubility of Hyp increasing in the order BSA, HSA, and RSA. Molecular modeling was used to construct the ...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10110
更新日期:2002-01-01 00:00:00
abstract::Peptide-bond modification via N-hydroxylation has been explored as a strategy for metal coordination to induce conformational rigidity and orient side chains for specific molecular recognition. N-Hydroxyamides were prepared by reacting N-benzyloxyamino acid esters or amides with Fmoc-AA-Cl/AgCN (Fmoc: 9-fluorenylmetho...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10471
更新日期:2003-01-01 00:00:00
abstract::Myosins are a large family of molecular motors that use the common P-loop, Switch 1 and Switch 2 nucleotide binding motifs to recognize ATP, to create a catalytic site than can efficiently hydrolyze ATP and to communicate the state of the nucleotide pocket to other allosteric binding sites on myosin. The energy of ATP...
journal_title:Biopolymers
pub_type: 杂志文章,评审
doi:10.1002/bip.22853
更新日期:2016-08-01 00:00:00
abstract::The physicochemical characteristics of the green fluorescent protein (GFP), including the thermodynamic properties (entropy, enthalpy, Gibbs' free energy, heat capacity), normal mode vibrations, and atomic fluctuations, were investigated. The Gaussian 03 computational chemistry program was employed for normal mode ana...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.20264
更新日期:2005-06-15 00:00:00
abstract::A suite of FORTRAN programs, PREF, is described for calculating preference functions from the data base of known protein structures and for comparing smoothed profiles of sequence-dependent preferences in proteins of unknown structure. Amino acid preferences for a secondary structure are considered as functions of a s...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360330208
更新日期:1993-02-01 00:00:00
abstract::In order to check our current knowledge on the principles involved in beta-hairpin formation, we have modified the sequence of a 3:5 beta-hairpin forming peptide with two different purposes, first to increase the stability of the formed 3:5 beta-hairpin, and second to convert the 3:5 beta-hairpin into a 2:2 beta-hairp...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.20345
更新日期:2005-10-15 00:00:00
abstract::Targeting double-stranded DNA with homopyrimidine PNAs results in strand displacement complexes PNA/DNA/PNA rather than PNA/DNA/DNA triplex structures. Not much is known about the binding properties of DNA-PNA chimeras. A 16-mer 5'-DNA-3'-p-(N)PNA(C) has been investigated for its ability to hybridize a complementary d...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10599
更新日期:2004-03-01 00:00:00
abstract::Spontaneous cortical activity of single neurons is often either dismissed as noise, or is regarded as carrying no functional significance and hence is ignored. Our findings suggest that such concepts should be revised. We explored the coherent population activity of neuronal assemblies in primary sensory area in the a...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.10273
更新日期:2003-03-01 00:00:00
abstract::Small multidisulfide-containing proteins are attractive structural templates to produce a biologically active conformation that mimics the binding surface of natural large proteins. In particular, the structural motif that is evolutionary conserved in all scorpion toxins has a small size (30-40 amino acid residues), a...
journal_title:Biopolymers
pub_type: 杂志文章,评审
doi:10.1002/(SICI)1097-0282(1998)47:1<93::AID-BIP10>3.
更新日期:1998-01-01 00:00:00
abstract::The interaction of the immunogenic peptide of human hepatitis B virus (HBV) preS(120-145), including B and T epitopes, with phospholipid vesicles has been studied by fluorescence techniques and CD. In addition, interaction of three lipopeptides derived from preS(120-145) containing stearoyl, cholanoyl, and tripalmitoy...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/(sici)1097-0282(199605)38:5<607::aid-bip6>
更新日期:1996-05-01 00:00:00
abstract::Dehydrophenylalanine, ΔPhe, is the most commonly studied α,β-dehydroamino acid. In nature, further modifications of the α,β-dehydroamino acids were found, for example, replacement of the C-terminal amide group by oxazole ring. The conformational properties of oxazole-dehydrophenylalanine residue (ΔPhe-Ozl), both isome...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.22852
更新日期:2016-05-01 00:00:00
abstract::The characterization of elastic properties of biopolymers is crucial to understand many molecular reactions determined by conformational bending fluctuations of the polymer. Direct measurement of such elastic properties using single-molecule methods is usually hindered by the intrinsic tendency of such biopolymers to ...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.22533
更新日期:2014-12-01 00:00:00
abstract::Polymeric macromolecules, when viewed abstractly as strings of symbols, can be treated in terms of formal language theory, providing a mathematical foundation for characterizing such strings both as collections and in terms of their individual structures. In addition this approach offers a framework for analysis of ma...
journal_title:Biopolymers
pub_type: 杂志文章,评审
doi:10.1002/bip.22101
更新日期:2013-03-01 00:00:00
abstract::In this paper, we explore the possibility of using experimental observations in the Monte Carlo chain growth method that we have previously developed. In this method, the macromolecule (peptide, protein, nuclei acid, etc.) is grown atom-by-atom (or residue-by-residue, etc.) and partial chains are replicated according ...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.360331210
更新日期:1993-12-01 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
pub_type: 杂志文章
doi:10.1002/bip.21048
更新日期:2008-11-01 00:00:00
abstract::A novel heptapeptide comprising Ile-Gln-Ser-Pro-His-Phe-Phe (IQSPHFF) identified and found to undergo self-assembly into microparticles in solution. To understand the effects of ultraviolet (UV) irradiation on the self-assembly process, IQSPHFF solutions were exposed to the UV light of 365 nm at room temperature. This...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.22346
更新日期:2014-03-01 00:00:00
abstract::The DNA-binding protein HU from Bacillus stearothermophilus (HUBst) is a dimer with a molecular weight of 195 kDa that is capable of bending DNA. An x-ray structure has been determined previously [Tanaka et al. 1984) Nature, vol. 310, pp. 376-381], but no structure could be established for a large part of the supposed...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/(sici)1097-0282(1996)40:5<553::aid-bip13>3
更新日期:1996-01-01 00:00:00
abstract::A new family of small plant peptides was recently described and found to be widespread throughout the Millereae and Heliantheae tribes of the sunflower family Asteraceae. These peptides originate from the post-translational processing of unusual seed-storage albumin genes, and have been termed PawS-derived peptides (P...
journal_title:Biopolymers
pub_type: 杂志文章
doi:10.1002/bip.22901
更新日期:2016-11-01 00:00:00