Distortions in protein helices.

Abstract:

:alpha-helices are the most common secondary structures in observed proteins. However, they are not always found in ideal helical conformation and they often exhibit structural distortions. Quantification of these irregularities become essential in understanding the packing of helices and therefore, their role in the functional characteristics of the protein. The backbone torsions phi, psi are of limited utility in this endeavor, because distorted helices often maintain the backbone geometry. The local compensatory effects are responsible for the preservation of the entire hydrogen bond network of the helical stretch. Earlier descriptions of helical linearity and curvature rest mostly on approximation, thus motivating the search for a better method for understanding and quantifying helical irregularities. We developed a method which involves the rotation and superposition of identical repeating units of the protein by the quaternion method. The set of parameters derived from the rotation-superposition algorithm helps in identifying the bends and kinks which are not necessarily induced by unusual amino acids like proline. The quantification of irregularities of observed helices might lead to a better understanding of their packing interactions.

journal_name

Int J Biol Macromol

authors

Geetha V

doi

10.1016/0141-8130(96)01106-3

subject

Has Abstract

pub_date

1996-08-01 00:00:00

pages

81-9

issue

2

eissn

0141-8130

issn

1879-0003

pii

0141813096011063

journal_volume

19

pub_type

杂志文章
  • Characterization and anti-inflammatory effects of sulfated polysaccharide from the red seaweed Gelidium pacificum Okamura.

    abstract::In the present study, crude polysaccharides were extracted from Gelidium pacificum Okamura, and further purified to obtain the sulfated polysaccharide with molecular weight of 28,807 Da. Its monosaccharide composition mainly consisted of xylose (7.1%), galactose (59.7%) and galacturonic acid (19.76%). And the sulfate ...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2019.02.043

    authors: Cui M,Wu J,Wang S,Shu H,Zhang M,Liu K,Liu K

    更新日期:2019-05-15 00:00:00

  • Synthesis and characterization of a new soluble soybean polysaccharide-iron(III) complex using ion exchange column.

    abstract::A new ion exchange column method was investigated to synthesize the soluble soybean polysaccharide-iron(III) complex (SSPS-FeIII1) using soluble soybean polysaccharides (SSPS). The feasibility of ion exchange column reaction was explored firstly. Results indicated the D730 anion macroporous adsorption resin could effe...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2017.11.038

    authors: Gao W,Huang Y,He R,Zeng XA

    更新日期:2018-03-01 00:00:00

  • Chitosan-functionalized nanofibers: A comprehensive review on challenges and prospects for food applications.

    abstract::Chitosan exhibits outstanding properties, which allow a wide range of applications. For this reason, chitosan-based biomaterials have been developed over the years and, among these biomaterials, chitosan-based nanomaterials may significantly change the material properties, which could result in some exceptional featur...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章,评审

    doi:10.1016/j.ijbiomac.2018.11.042

    authors: de Farias BS,Sant'Anna Cadaval Junior TR,de Almeida Pinto LA

    更新日期:2019-02-15 00:00:00

  • Preparation and structural characterization of surface modified microporous bacterial cellulose scaffolds: A potential material for skin regeneration applications in vitro and in vivo.

    abstract::This study reports the fabrication of porogen-induced, surface-modified, 3-dimensionally microporous regenerated bacterial cellulose (rBC)/gelatin (3DMP rBC/G) scaffolds for skin regeneration applications. Round shaped gelatin microspheres (GMS), fabricated using a water-in-oil emulsion (WOE) method, were utilized as ...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2018.06.044

    authors: Khan S,Ul-Islam M,Ikram M,Islam SU,Ullah MW,Israr M,Jang JH,Yoon S,Park JK

    更新日期:2018-10-01 00:00:00

  • Cytotoxic, genotoxic, and oxidative stress-inducing effect of an l-amino acid oxidase isolated from Bothrops jararacussu venom in a co-culture model of HepG2 and HUVEC cells.

    abstract::Hepatocellular carcinoma incidence rates have increased worldwide, which encouraged the development of new chemotherapeutic drugs. l-Amino acid oxidases from snake venoms are cytotoxic towards human tumor cells in in vitro monoculture systems, which do not simulate the tumor microenvironment. We examined the antitumor...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2019.01.059

    authors: Machado ART,Aissa AF,Ribeiro DL,Costa TR,Ferreira RS Jr,Sampaio SV,Antunes LMG

    更新日期:2019-04-15 00:00:00

  • Synthesis of acryloylated starch-g-poly acrylates crosslinked polymer functionalized by emulsified vinyltrimethylsilane derivative as a novel EOR agent for severe polymer flooding strategy.

    abstract::Starch is a natural polysaccharide with reasonable biodegradable properties, which grafted with vinyl monomers through different initiators to be applied in enhanced oil recovery (EOR) techniques. Several authors stated about starch modification through copolymerization and grafting of different monomers, however, the...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2018.11.056

    authors: El-Hoshoudy AN

    更新日期:2019-02-15 00:00:00

  • γ-Irradiation of oat grain - Effect on physico-chemical, structural, thermal, and antioxidant properties of extracted starch.

    abstract::Three different varieties of oat grains, Sabzaar, SKO-20, SKO-90 maintained at the moisture level of 12% were γ-irradiated at four different dosage levels - 5, 10, 15, and 20kGy. Starch was extracted and its physicochemical, structural, thermal, and antioxidant properties were studied. Amongst the physico-chemical pro...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2017.05.092

    authors: Mukhtar R,Shah A,Noor N,Gani A,Wani IA,Ashwar BA,Masoodi FA

    更新日期:2017-11-01 00:00:00

  • Macromolecular agents with antimicrobial potentialities: A drive to combat antimicrobial resistance.

    abstract::In recent years, the antimicrobial resistance (AMR) or multidrug resistance (MDR) has become a serious health concern and major challenging issue, worldwide. After decades of negligence, the AMR has now captured global attention. The increasing number of antibiotic-resistant strains has threatened the achievements of ...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章,评审

    doi:10.1016/j.ijbiomac.2017.05.071

    authors: Bilal M,Rasheed T,Iqbal HMN,Hu H,Wang W,Zhang X

    更新日期:2017-10-01 00:00:00

  • Valorization of industrial xylan-rich hemicelluloses into water-soluble derivatives by in-situ acetylation in EmimAc ionic liquid.

    abstract::In this study, aimed at valorization of industrial xylan-rich hemicelluloses (a by-product of dissolving pulp process), water-soluble hemicelluloses were fabricated with mild acetylation in 1-ethyl-3-methylimidazolium acetate ionic liquid (EmimAc) and dichloroacetyl chloride (Cl2AcCl) system by a facile and novel meth...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2020.06.289

    authors: Zhu R,Liu X,Li L,Wang Q,Zhao Q,Liu S,Feng W,Xu F,Zhang X

    更新日期:2020-11-15 00:00:00

  • Discovering and efficiently promoting the extracellular secretory expression of Thermobacillus sp. ZCTH02-B1 sucrose phosphorylase in Escherichia coli.

    abstract::Sucrose phosphorylase (SPase, EC2.4.1.7) is a promising transglycosylation biocatalyst used for producing glycosylated compounds that are widely used in the food, cosmetics, and pharmaceutical industries. In this study, a recombinant SPase from the Thermobacillus sp. ZCTH02-B1 (rTSPase), which was previously reported ...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2021.01.115

    authors: He X,Li Y,Tao Y,Qi X,Ma R,Jia H,Yan M,Chen K,Hao N

    更新日期:2021-01-19 00:00:00

  • Molecular α-relaxation process of exopolysaccharides extracted from Nostoc commune cyanobacteria.

    abstract::Broadband dielectric spectroscopy was used to investigate the molecular α-relaxation of the exopolysaccharides (EPS) extracted from Nostoc commune cyanobacteria. The EPS were modified in different ways. EPS were carboxymethylated to obtain carboxymethyl-exopolysaccharides (CEPS). EPS and CEPS were doped with ammonium ...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2020.07.268

    authors: Gonzales KN,Troncoso OP,Torres FG,López D

    更新日期:2020-10-15 00:00:00

  • Effects of Se-enriched polysaccharides produced by Enterobacter cloacae Z0206 on alloxan-induced diabetic mice.

    abstract::In this study, the water-soluble selenium-enriched exopolysaccharides (Se-ECZ-EPS) were isolated from submerged culture broth of Enterobacter cloacae Z0206 through fermentation, ethanol precipitation and deproteinization. The protective effects of Se-ECZ-EPS on alloxan-induced diabetic mice were investigated. Diabetes...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2011.12.019

    authors: Jin M,Lu Z,Huang M,Wang Y,Wang Y

    更新日期:2012-03-01 00:00:00

  • BmajPLA2-II, a basic Lys49-phospholipase A2 homologue from Bothrops marajoensis snake venom with parasiticidal potential.

    abstract::Snake venoms contain various proteins, especially phospholipases A2 (PLA2s), which present potential applications in diverse areas of health and medicine. In this study, a new basic PLA2 from Bothrops marajoensis with parasiticidal activity was purified and characterized biochemically and biologically. B. marajoensis ...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2017.04.013

    authors: Grabner AN,Alfonso J,Kayano AM,Moreira-Dill LS,Dos Santos APA,Caldeira CAS,Sobrinho JC,Gómez A,Grabner FP,Cardoso FF,Zuliani JP,Fontes MRM,Pimenta DC,Gómez CV,Teles CBG,Soares AM,Calderon LA

    更新日期:2017-09-01 00:00:00

  • N-terminal residues are crucial for quaternary structure and active site conformation for the phosphoserine aminotransferase from enteric human parasite E. histolytica.

    abstract::Phosphoserine aminotransferase (PSAT) is a pyridoxal-5'phosphate (PLP)-dependent enzyme that catalyzes the second reversible step in the phosphoserine biosynthetic pathway producing serine. The crystal structure of E. histolytica PSAT (EhPSAT) complexed with PLP was elucidated at 3.0 Å resolution and the structures of...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2019.04.027

    authors: Singh RK,Tomar P,Dharavath S,Kumar S,Gourinath S

    更新日期:2019-07-01 00:00:00

  • Oral delivery of nanoparticles containing anticancer SN38 and hSET1 antisense for dual therapy of colon cancer.

    abstract::An oral delivery system intended for treatment of colon cancer in HT29 cancerous cells was investigated by encapsulating hSET1 antisense and SN38 anticancer in nanoparticles based on cysteine trimethyl chitosan (cysTMC) and carboxymethyl dextran (CMD). Studies have shown hSET1 as the main type of histone methyltransfe...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2015.03.066

    authors: Dinarvand M,Kiani M,Mirzazadeh F,Esmaeili A,Mirzaie Z,Soleimani M,Dinarvand R,Atyabi F

    更新日期:2015-01-01 00:00:00

  • Phosphagen kinase of the giant tubeworm Riftia pachyptila. Cloning and expression of cytoplasmic and mitochondrial isoforms of taurocyamine kinase.

    abstract::The giant tubeworm Riftia pachyptila lives at deep-sea hydrothermal vents along the East Pacific Rise and the Galapagos Rift. The large size and high growth rate of R. pachyptila is supported by an endosymbiotic relationship with a chemosynthetic bacterium. Elucidation of the regulation of energy metabolism of the gia...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2005.08.009

    authors: Uda K,Tanaka K,Bailly X,Zal F,Suzuki T

    更新日期:2005-10-30 00:00:00

  • Characterization and comparison of the mitochondrial genomes from two Lyophyllum fungal species and insights into phylogeny of Agaricomycetes.

    abstract::Lyophyllum decastes and Lyophyllum shimeji are the two primary species within the L. decastes complex, and they differ considerably in their nutritional lifestyles and preferred growth environments. However, differences in their mitogenomes have not yet been investigated. In this study, the mitogenomes of the two spec...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2018.10.037

    authors: Li Q,Wang Q,Jin X,Chen Z,Xiong C,Li P,Zhao J,Huang W

    更新日期:2019-01-01 00:00:00

  • Structure function relationships of transgenic starches with engineered phosphate substitution and starch branching.

    abstract::Potato tuber starch was genetically engineered in the plant by the simultaneous antisense suppression of the starch branching enzyme (SBE) I and II isoforms. Starch prepared from 12 independent lines and three control lines were characterised with respect to structural and physical properties. The lengths of the amylo...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2005.05.006

    authors: Blennow A,Wischmann B,Houborg K,Ahmt T,Jørgensen K,Engelsen SB,Bandsholm O,Poulsen P

    更新日期:2005-08-01 00:00:00

  • Purification and characterization of a heterodimeric mycelial lectin from Penicillium proteolyticum with potent mitogenic activity.

    abstract::In the present study, Penicillium proteolyticum lectin was purified by DEAE-Sepharose chromatography followed by Sephadex G-100 gel filtration chromatography. A sequence of ion-exchange and gel filtration chromatography resulted in 52.30 fold purified lectin with a high yield of 84.21%. The purified P. proteolyticum l...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2019.01.103

    authors: Singh RS,Walia AK,Kennedy JF

    更新日期:2019-05-01 00:00:00

  • Antitumor and antiangiogenic activity of Schisandra chinensis polysaccharide in a renal cell carcinoma model.

    abstract::The aim of this study was to determine the antitumor and antiangiogenic effects of the Schisandra chinensis polysaccharides (SCP) in selected renal cell carcinoma (RCC) cells and evaluate its potential mechanism of action. In vitro, endothelial growth factor (VEGF) secretion by Caki-1 was blockaded in response to SCP ...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2014.02.025

    authors: Qu HM,Liu SJ,Zhang CY

    更新日期:2014-05-01 00:00:00

  • Room temperature, low-field 13C-n.m.r. spectra of degraded kappa/iota carrageenans.

    abstract::Using samples previously degraded by autohydrolysis, it is possible to obtain valuable low-field 13C-n.m.r. spectra of samples of kappa/iota carrageenans at room temperature. Spectroscopy of samples extracted at different stages of autohydrolysis helps to determine the mechanism of the reaction and the presence of low...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/0141-8130(91)90056-z

    authors: Stortz CA,Cerezo AS

    更新日期:1991-04-01 00:00:00

  • Biochemistry of fish stomach chitinase.

    abstract::Fish are reported to exhibit chitinase activity in the stomach. Analyses of fish stomach chitinases have shown that these enzymes have the physiological function of degrading chitinous substances ingested as diets. Osteichthyes, a group that includes most of the fishes, have several chitinases in their stomachs. From ...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章,评审

    doi:10.1016/j.ijbiomac.2017.03.118

    authors: Ikeda M,Kakizaki H,Matsumiya M

    更新日期:2017-11-01 00:00:00

  • Lactic acid oligomer (OLLA) grafted gum arabic based green adhesive for structural applications.

    abstract::L-Lactic acid (LA)-grafted-gum arabic (GA) graft copolymer [OLLA-g-GA] was prepared by using microwave heating in which the hydrophilic GA was grafted with insitu grown lactic acid oligomer. The grafting at OH and NH groups in GA backbone with oligo-(l-lactic acid) (OLLA) chains proved with the help of FTIR and NMR an...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2018.07.199

    authors: Tripathi N,Katiyar V

    更新日期:2018-12-01 00:00:00

  • Anomalous colloidal stability of protein coated polystyrene latex beads studied by small angle light scattering.

    abstract::Results of small angle laser light scattering experiments carried out on polystyrene latex beads coated with lysate of Plasmodium falciparum (Pf) antigen (Ag) and human seropositive sera (10:1 ratio) are reported for various NaCl concentrations (0-300 mM). The protein coated beads showed time-dependent coagulation. Th...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/s0141-8130(00)00113-6

    authors: Bohidar HB,Bhakat P,Sharma J,Saxena A

    更新日期:2000-04-12 00:00:00

  • Effect of hydroxypropyl-β-cyclodextrin on the bounding of salazosulfapyridine to human serum albumin.

    abstract::The supramolecular interaction between salazosulfapyridine (SASP) and hydroxypropyl-β-cyclodextrin (HP-β-CD), as well as the influence of HP-β-CD on SASP's binding to human serum albumin (HSA), were investigated. Phase-solubility studies indicate that the HP-β-CD/SASP inclusion complex was formed at a 1:1 host-guest s...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2016.07.033

    authors: Tang P,Tang B,Wang Q,Xu K,Xiong X,Li H

    更新日期:2016-11-01 00:00:00

  • Anti-inflammatory potential of probiotic Lactobacillus spp. on carrageenan induced paw edema in Wistar rats.

    abstract::The aim of the present study was to evaluate the anti-inflammatory ability of novel indigenous probiotic Lactobacillus fermentum MCC 2759, L. fermentum MCC 2760 and Lactobacillus delbrueckii MCC 2775 in a carrageenan induced acute inflammatory paw edema model. Probiotic cultures were administered to male Wistar rats v...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2015.08.044

    authors: Archer AC,Muthukumar SP,Halami PM

    更新日期:2015-11-01 00:00:00

  • Hirudin protects against isoproternol-induced myocardial infraction by alleviating oxidative via an Nrf2 dependent manner.

    abstract::Oxidative stress plays a critical role in the progression of myocardial injury. Increasing evidence suggests that hiruidin can treat patients with cardio-injury. However, the mechanism of hirudin against myocardial infraction remains unknown. In the present study, we evaluated the potential role and mechanism of hirud...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2020.06.097

    authors: Zhang H,Chen H,Li J,Bian Y,Song Y,Li Z,He F,Liu S,Tsai Y

    更新日期:2020-11-01 00:00:00

  • Myo-inositol hexasulphate and low molecular weight heparin binding to human acidic fibroblast growth factor: a calorimetric and FTIR study.

    abstract::The interaction of an amino-terminal-truncated 139 amino-acids form of human acidic fibroblast growth factor with myo-inositol hexasulphate and low molecular weight (3500 g mol(-1)) heparin has been studied by isothermal titration calorimetry, differential scanning calorimetry and Fourier transform infrared spectrosco...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/s0141-8130(01)00131-3

    authors: Guzmán-Casado M,Cardenete A,Giménez-Gallego G,Parody-Morreale A

    更新日期:2001-04-12 00:00:00

  • Oral administration of chitin and chitosan prevents peanut-induced anaphylaxis in a murine food allergy model.

    abstract::Peanut allergy is IgE-mediated type-I hypersensitivity, and T helper 2 cytokines are central to those pathogenesis. We investigated the effects of the administration of chitin and chitosan on peanut-induced hypersensitivities in mouse food allergy models. Chitin and chitosan protected mice against peanut-induced anaph...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2013.06.017

    authors: Bae MJ,Shin HS,Kim EK,Kim J,Shon DH

    更新日期:2013-10-01 00:00:00

  • Nano photo scouring and nano photo bleaching of raw cellulosic fabric using nano TiO2.

    abstract::Photo catalytic action of nano TiO(2) for decomposing of some organic compounds is a well known phenomenon. This can be extended to the application on nano TiO(2) on the desized cotton fabric to decompose the hydrophobic impurities and coloring matters of the fabric. This can be nominating as a replacement for the con...

    journal_title:International journal of biological macromolecules

    pub_type: 杂志文章

    doi:10.1016/j.ijbiomac.2012.02.018

    authors: Montazer M,Morshedi S

    更新日期:2012-05-01 00:00:00