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Wyszukujesz frazę "protein-protein interaction" wg kryterium: Temat


Tytuł:
An approach based on diffusion to study ligand-macromolecule interaction.
Autorzy:
Housaindokht, Mohammad
Bahrololoom, Mahmood
Tarighatpoor, Shirin
Mossavi-Movahedi, Ali
Powiązania:
https://bibliotekanauki.pl/articles/1043738.pdf
Data publikacji:
2002
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
binding isotherm
methyl orange
ligand-protein interaction
hen egg-white lysozyme
Opis:
A new approach has been developed to study binding of a ligand to a macromolecule based on the diffusion process. In terms of the Fick's first law, the concentration of free ligand in the presence of a protein can be determined by the measurement of those ligands which are diffused out. This method is applied to the study of binding of methyl-orange to lysozyme in phosphate buffer of pH 6.2, at 30°C. The binding isotherm was determined initially, followed by application of the Hill equation to the data obtained, then binding constant and binding capacity were estimated.
Źródło:
Acta Biochimica Polonica; 2002, 49, 3; 703-707
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Application of sparse linear discriminant analysis for prediction of protein-protein interactions
Autorzy:
Stąpor, K.
Fabian, P.
Powiązania:
https://bibliotekanauki.pl/articles/95137.pdf
Data publikacji:
2016
Wydawca:
Szkoła Główna Gospodarstwa Wiejskiego w Warszawie. Wydawnictwo Szkoły Głównej Gospodarstwa Wiejskiego w Warszawie
Tematy:
sparse discriminant analysis
feature selection
protein-protein interaction
Opis:
To understand the complex cellular mechanisms involved in a biological system, it is necessary to study protein-protein interactions (PPIs) at the molecular level, in which prediction of PPIs plays a significant role. In this paper we propose a new classification approach based on the sparse discriminant analysis [10] to predict obligate (permanent) and non-obligate (transient) protein-protein interactions. The sparse discriminant analysis [10] circumvents the limitations of the classical discriminant analysis [4, 9] in the high dimensional low sample size settings by incorporating inherently the feature selection into the optimization procedure. To characterize properties of protein interaction, we proposed to use the binding free energies. The performance of our proposed classifier is 75% ± 5%.
Źródło:
Information Systems in Management; 2016, 5, 1; 109-118
2084-5537
2544-1728
Pojawia się w:
Information Systems in Management
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Architecture of the exocyst complex in plant cells
Autorzy:
Kasprowicz, A.
Pihan, K.
Ochocki, M.
Kwiatkowski, W.
Wojtaszek, P.
Powiązania:
https://bibliotekanauki.pl/articles/80552.pdf
Data publikacji:
2013
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
conference
exocytosis
plant cell
eukaryotic cell
plasma membrane
protein-protein interaction
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 3
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Are carbonylated proteins involved in plant – mite-pest interactions?
Autorzy:
Szworst-Lupina, D.
Zagdanska, B.
Kielkiewicz, M.
Powiązania:
https://bibliotekanauki.pl/articles/80463.pdf
Data publikacji:
2013
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
conference
protein carbonylation
protein
maize cultivar
two-spotted spider mite
immunoblotting
mite-pest interaction
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 2
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Bacterial DNA repair genes and their eukaryotic homologues: 1. Mutations in genes involved in base excision repair (BER) and DNA-end processors and their implication in mutagenesis and human disease
Autorzy:
Krwawicz, Joanna
Arczewska, Katarzyna
Speina, Elzbieta
Maciejewska, Agnieszka
Grzesiuk, Elzbieta
Powiązania:
https://bibliotekanauki.pl/articles/1040919.pdf
Data publikacji:
2007
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
mutagenesis
AP endonuclease
SSBR
DNA damage
protein interaction
BER
DNA repair; glycosylase
SSB
Opis:
Base excision repair (BER) pathway executed by a complex network of proteins is the major system responsible for the removal of damaged DNA bases and repair of DNA single strand breaks (SSBs) generated by environmental agents, such as certain cancer therapies, or arising spontaneously during cellular metabolism. Both modified DNA bases and SSBs with ends other than 3'-OH and 5'-P are repaired either by replacement of a single or of more nucleotides in the processes called short-patch BER (SP-BER) or long-patch BER (LP-BER), respectively. In contrast to Escherichia coli cells, in human ones, the two BER sub-pathways are operated by different sets of proteins. In this review the selection between SP- and LP-BER and mutations in BER and end-processors genes and their contribution to bacterial mutagenesis and human diseases are considered.
Źródło:
Acta Biochimica Polonica; 2007, 54, 3; 413-434
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Biochemical and structural studies of plant circadian clock proteins
Autorzy:
Saini, R.
Szpotkowski, K.
Kozak, M.
Jaskolski, M.
Davis, S.J.
Powiązania:
https://bibliotekanauki.pl/articles/80840.pdf
Data publikacji:
2013
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
circadian clock
diurnal change
plant circadian clock
protein
multiple feedback loop
crystallization
recombinant fusion protein
early flowering
small angle X-ray scattering
protein-protein interaction
biochemical study
structural study
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 1
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Cysteine-rich receptor-like kinases (CRK) in ROS signalling in Arabidopsis thaliana
Autorzy:
Gauthier, A.
Idanheimo, N.
Salojarvi, J.
Wrzaczek, M.
Kangasjarvi, J.
Powiązania:
https://bibliotekanauki.pl/articles/80229.pdf
Data publikacji:
2013
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
conference
receptor-like kinase
reactive oxygen species
signalling
Arabidopsis thaliana
protein-protein interaction
crk mutant
xanthine oxidase
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 2
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Docking for drug interface residues of modelled VPS33B of human with PtpA of Mycobacterium tuberculosis CDC1551
Autorzy:
Reddy, K.M.
Pattathil, M.D.
Jayachandra, S.Y.
Parameshwar, A.
Sulochana, M.B.
Powiązania:
https://bibliotekanauki.pl/articles/11443.pdf
Data publikacji:
2014
Wydawca:
Przedsiębiorstwo Wydawnictw Naukowych Darwin / Scientific Publishing House DARWIN
Tematy:
antigenicity
protein-protein interaction
network
homology modelling
drug design
interface residue
Mycobacterium tuberculosis
man
protein
biological function
Opis:
VPS33B, a human Vacuolar Protein Sorting (VPS) protein which mediates the phagolysosomal fusion in macrophage of the eukaryotic organisms. This protein has a great role during the mycobacterial infections, which binds with the Mycobacterium protein tyrosine phosphatase A (PtpA). A single functional domain of PtpA has been identified using SMART domain databases, followed by finding the antigenicity of PtpA using CLC main workbench tool. The protein-protein interaction network predicts the interface of biological functions of proteins, built by using Cytoscape 2.8.3 version tool for manual literature survey of protein sets. According to the literature the specific interactivity of PtpA with VPS33B of human lead to pathogenesis, and provided a good platform to find the structure of VPS33B as it lacks the 3 dimensional structure in PDB. Homology Modelling of VPS33B provides a significant properties to design a specific drug through screening the drug databases (eDrug3D). The modelled protein has been validated through SAVES server maintained by NIH and UCLA with the standard Ramachandran plot with accuracy of 90.7 %. From our findings the interface residues are very crucial points which has been found through docking the modelled protein and Mycobacterium protein and interface residues were selected manually using PyMol software.
Źródło:
International Letters of Natural Sciences; 2014, 11, 2
2300-9675
Pojawia się w:
International Letters of Natural Sciences
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Electrostatics in computer-aided drug design
Autorzy:
Naray-Szabo, G.
Matyus, P.
Powiązania:
https://bibliotekanauki.pl/articles/1953955.pdf
Data publikacji:
1998
Wydawca:
Politechnika Gdańska
Tematy:
electrostatics
drug design
molecular electrostatic potential
molecular electrostatic field
similarity
pharmacophore
ComFa method
protein-ligand interaction
Opis:
Hydrogen bonds and charge-charge interactions, determined by molecular electrostatics, play essential role in biopolymer-ligand associations. Accordingly, electrostatics is crucial in the qualitative and quantitative characterisation of the binding of drugs to their target molecules. In the following, we will give an account on the role of molecular electrostatics in a drug design, laying emphasis on our own work. We will survey the most important computation methods of molecular electrostatic potentials, then outline basic aspects of molecular recognition: steric, electrostatic and hydrophobic complementarity. On the basis of the complementarity, we will also define molecular similarity and discuss various applications of these concepts to the treatment of protein-ligand interactions and a rational drug design. Special attention will be paid to a receptor mapping and to a comparative molecular field analysis, with some our recent applications. A further important point will be the molecular electrostatic field (potential gradient) as a hydrophobicity measure. We will argue that the hydrophobic complementarity and similarity can be treated on the basis of matching regions of the interacting molecules that are characterised by a similar magnitude of the electrostatic field. The concept of the electrostatic complementarity will be extended to enzyme-substrate interactions, providing a firm basis for the quantitative estimation of catalytic rate enhancement.
Źródło:
TASK Quarterly. Scientific Bulletin of Academic Computer Centre in Gdansk; 1998, 2, 4; 551-562
1428-6394
Pojawia się w:
TASK Quarterly. Scientific Bulletin of Academic Computer Centre in Gdansk
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Functionality versus strength - has functional selection taken place in the case of the ecdysteroid receptor response element?
Autorzy:
Grad, Iwona
Kochman, Marian
Ożyhar, Andrzej
Powiązania:
https://bibliotekanauki.pl/articles/1043745.pdf
Data publikacji:
2002
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
ultraspiracle
nuclear receptor
Drosophila
protein-DNA interaction
ecdysteroid receptor
20-hydroxyecdysone
Opis:
Nuclear receptors are ligand-dependent transcription factors responsible for controlling differentiation, growth and development of higher eukaryotes. Three amino acids within the recognition α-helix of the DNA-binding domain of the nuclear receptors constitute the so-called "P-box" which determines response element specificity. In the ultraspiracle (Usp) protein, which together with EcR forms the heterodimeric ecdysone receptor, the P-box residues are E19, G20 and G23. Substitution of E19, the most characteristic amino acid for estrogen receptor-like P-boxes, with alanine showed that the mutation did not appreciably alter the affinity of the wild-type Usp DNA-binding domain (UspDBDWT) for a probe containing natural ecdysone response element (hsp27wt). Since in many cases E19 contacts a G/C base pair in position -4, which is absent in hsp27wt, we analysed the interaction of UspDBDWT, E19A and other P-box region mutants with the hsp27wt derivative which contains a G/C instead of an T/A base pair in position -4. UspDBDWT exhibited higher affinity for this element than for hsp27wt. Moreover, a different interaction pattern of P-box region mutants was also observed. Thus we conclude that the E19 residue of UspDBD is not involved in any hsp27wt sequence-discerning contacts. However, substitution of the hsp27wt T/A base pair in position -4 with G/C generates target sequence with distinct functional characteristics and possibly with a new specificity. These results could serve as a basis for understanding the role of the presence of a T/A or G/C base-pair in the position -4 in the two types of ecdysone response elements found in nature.
Źródło:
Acta Biochimica Polonica; 2002, 49, 3; 747-756
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Identification of candidate genes related to aroma in rice by analyzing the microarray data of highly aromatic and nonaromatic recombinant inbred line bulks
Autorzy:
Zinati, Z.
Delavari, A.
Powiązania:
https://bibliotekanauki.pl/articles/80716.pdf
Data publikacji:
2019
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
rice
Oryza sativa
aroma
aroma-related gene
gene ontology enrichment analysis
microarray analysis
protein-protein interaction
protein interaction network
inbred line
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2019, 100, 3
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Identification of cell cycle proteins interacting with Arabidopsis thaliana proliferating cell nuclear antigen using bimolecular fluorescence complementation assay
Autorzy:
Strzalka, W.
Jakubowska, A.
Bartnicki, F.
Pels, K.
Kowalska, E.
Powiązania:
https://bibliotekanauki.pl/articles/80766.pdf
Data publikacji:
2013
Wydawca:
Polska Akademia Nauk. Czytelnia Czasopism PAN
Tematy:
conference
proliferating cell nuclear antigen
bimolecular fluorescence
cell cycle
protein interaction
Arabidopsis thaliana
DNA replication
cyclin dependent kinase inhibitor
cyclin-dependent kinase 2
Źródło:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology; 2013, 94, 3
0860-7796
Pojawia się w:
BioTechnologia. Journal of Biotechnology Computational Biology and Bionanotechnology
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Identification of specific interaction of juvenile hormone binding protein with isocitrate dehydrogenase
Autorzy:
Zalewska, Marta
Ożyhar, Andrzej
Kochman, Marian
Powiązania:
https://bibliotekanauki.pl/articles/1039963.pdf
Data publikacji:
2011
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
protein-protein interaction
JHBP
Opis:
Juvenile hormone (JH) is essential for multiple physiological processes: it controls larval development, metamorphosis and adult reproduction. In insect hemolymph more than 99 % of JH is bound to juvenile hormone binding protein (JHBP), which protects JH from degradation by nonspecific hydrolases and serves as a carrier to supply the hormone to the target tissues. In Galleria mellonella hemolymph, JHBP is found in a complex with lipid-binding high molecular weight proteins (HMWP) and this interaction is enhanced in the presence of JH. In this report, we present studies on the interaction of JHBP with low molecular weight proteins (LMWP) in the hemolymph. Using ligand blotting we found that JHBP interacts with a protein of about 44 kDa. To identify the protein that preferentially binds JHBP, a LMWP fraction was applied to a Sepharose-bound JHBP and, after washing, the column was eluted with free JHBP acting as a specific competitor or with carbonic anhydrase as a negative control. The eluted proteins were separated by SDS/PAGE and analyzed by mass spectrometry. Isocitrate dehydrogenase was identified as a component of the supramolecular complex of JHBP with hemolymph proteins.
Źródło:
Acta Biochimica Polonica; 2011, 58, 1; 119-124
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Influence of dipeptidyl peptidase IV on enzymatic properties of adenosine deaminase
Autorzy:
Sharoyan, Svetlana
Antonyan, Alvard
Mardanyan, Sona
Lupidi, Giulio
Cristalli, Gloria
Powiązania:
https://bibliotekanauki.pl/articles/1041210.pdf
Data publikacji:
2006
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
protein-protein interaction
large and small adenosine deaminases
CD26-dipeptidyl peptidase IV
enzyme-substrate and enzyme-inhibitor interactions
Opis:
The importance of ADA (adenosine deaminase) in the immune system and the role of its interaction with an ADA-binding cell membrane protein dipeptidyl peptidase IV (DPPIV), identical to the activated immune cell antigen, CD26, has attracted the interest of researchers for many years. To investigate the specific properties in the structure - function relationship of the ADA/DPPIV-CD26 complex, its soluble form, identical to large ADA (LADA), was isolated from human blood serum, human pleural fluid and bovine kidney cortex. The kinetic constants (Km and Vmax) of LADA and of small ADA (SADA), purified from bovine lung and spleen, were compared using adenosine (Ado) and 2'-deoxyadenosine (2'-dAdo) as substrates. The Michaelis constant, Km, evidences a higher affinity of both substrates (in particular of more toxic 2'-dAdo) for LADA and proves the modulation of toxic nucleoside neutralization in the extracellular medium due to complex formation between ADA and DPPIV-CD26. The values of Vmax are significantly higher for SADA, but the efficiency, Vmax /Km, in LADA-catalyzed 2'-dAdo deamination is higher than that in Ado deamination. The interaction of all enzyme preparations with derivatives of adenosine and erythro-9-(2-hydroxy-3-nonyl)adenine (EHNA) was studied. 1-DeazaEHNA and 3-deazaEHNA demonstrate stronger inhibiting activity towards LADA, the DPPIV-CD26-bound form of ADA. The observed differences between the properties of the two ADA isoforms may be considered as a consequence of SADA binding with DPPIV-CD26. Both SADA and LADA indicated a similar pH-profile of adenosine deamination reaction with the optimum at pHs 6.5 - 7.5, while the pH-profile of dipeptidyl peptidase activity of the ADA/DPPIV-CD26 complex appeared in a more alkaline region.
Źródło:
Acta Biochimica Polonica; 2006, 53, 3; 539-546
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł
Tytuł:
Interaction of maize (Zea mays) protein phosphatase 2A with tubulin
Autorzy:
Awotunde, Olubunmi
Lechward, Katarzyna
Krajewska, Katarzyna
Żołnierowicz, Stanisław
Muszyńska, Grażyna
Powiązania:
https://bibliotekanauki.pl/articles/1043655.pdf
Data publikacji:
2003
Wydawca:
Polskie Towarzystwo Biochemiczne
Tematy:
protein phosphatase 2A
tubulin
protein-protein interaction
plant cytoskeleton organization
maize
Opis:
Immunological and biochemical evidence has been obtained for an interaction of maize protein phosphatase 2A (PP2A) holoenzyme with tubulin. Tubulin co-purifies with maize seedling PP2A. Affinity chromatography of the maize PP2A preparation on immobilized tubulin revealed two peaks of phosphorylase a phosphatase activity. In one of the peaks, the catalytic (C) and constant regulatory (A) subunits of PP2A were identified by Western blotting. The subunits (C and A) of PP2A were co-immunoprecipitated from maize seedlings homogenate by an anti-α-tubulin antibody. The interaction of plant PP2A with tubulin indicates a possible role of reversible protein phosphorylation in the dynamic structure of plant cytoskeleton.
Źródło:
Acta Biochimica Polonica; 2003, 50, 1; 131-138
0001-527X
Pojawia się w:
Acta Biochimica Polonica
Dostawca treści:
Biblioteka Nauki
Artykuł

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