Abstract:
:The coupling between G protein-coupled receptors (GPCRs) and guanine nucleotide-binding proteins (G proteins) regulates various signal transductions from extracellular space into the cell. However, the coupling mechanism between GPCRs and G proteins is still unknown, and experimental determination of their coupling specificity and function is both expensive and time consuming. Therefore, it is significant to develop a theoretical method to predict the coupling specificity between GPCRs and G proteins as well as their function using their primary sequences. In this study, a novel four-layer predictor (GPCRsG_CWTIT) based on support vector machine (SVM), continuous wavelet transform (CWT) and information theory (IT) is developed to classify G proteins and predict the coupling specificity between GPCRs and G proteins. SVM is used for construction of models. CWT and IT are used to characterize the primary structure of protein. Performance of GPCRsG_CWTIT is evaluated with cross-validation test on various working dataset. The overall accuracy of the G proteins at the levels of class and family is 98.23 and 85.42%, respectively. The accuracy of the coupling specificity prediction varies from 74.60 to 94.30%. These results indicate that the proposed predictor is an effective and feasible tool to predict the coupling specificity between GPCRs and G proteins as well as their functions using only the protein full sequence. The establishment of such an accurate prediction method will facilitate drug discovery by improving the ability to identify and predict protein-protein interactions. GPCRsG_CWTIT and dataset can be acquired freely on request from the authors.
journal_name
Amino Acidsjournal_title
Amino acidsauthors
Li Z,Zhou X,Dai Z,Zou Xdoi
10.1007/s00726-011-1133-6subject
Has Abstractpub_date
2012-08-01 00:00:00pages
793-804issue
2eissn
0939-4451issn
1438-2199journal_volume
43pub_type
杂志文章相关文献
AMINO ACIDS文献大全abstract::Regulated proteolysis plays important roles in cell biology and pathological conditions. A crosstalk exists between apoptosis and the ubiquitin-proteasome system, two pathways responsible for regulated proteolysis executed by different proteases. To investigate whether the apoptotic process also affects the 20S protea...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-010-0575-6
更新日期:2011-07-01 00:00:00
abstract::Antimicrobial peptides (AMPs) with amphipathic β-hairpin structures have been demonstrated to possess potent antimicrobial activities and great cell selectivities. However, our understanding of β-hairpin antimicrobial peptides lags behind that of α-helices, mainly because it is difficult for short peptides to form rob...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-015-2029-7
更新日期:2015-11-01 00:00:00
abstract::Ocular ischemia resulting from perfusion disturbances may play a major role in initiation of glaucoma. Possibly secondary to ischemia autoimmunogenic events are activated in glaucoma patients with increased prevalence of systemic autoimmune diseases. The determination of potential molecular markers in blood leukocytes...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-001-0141-3
更新日期:2002-01-01 00:00:00
abstract::Mice over-expressing the creatine transporter have elevated myocardial creatine levels [Cr] and are protected against ischaemia/reperfusion injury via improved energy reserve. However, mice with very high [Cr] develop cardiac hypertrophy and dysfunction. To investigate these contrasting effects, we applied a non-biase...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-016-2236-x
更新日期:2016-08-01 00:00:00
abstract::Lateral diffusion of membrane-integral receptors within the plane of the membrane has been postulated to be mechanistically important for signal transduction. Direct measurement of polypeptide hormone receptor lateral mobility using fluorescence photobleaching recovery techniques indicates that tyrosine kinase recepto...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/BF00805831
更新日期:1995-06-01 00:00:00
abstract::Interferon tau (IFNT) was discovered as the pregnancy recognition signal in ruminants, but is now known to have a plethora of physiological functions in the mammalian uterus. The mammalian uterus includes, from the outer surface to the lumen, the serosa, myometrium and endometrium. The endometrium consists of the lumi...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s00726-014-1905-x
更新日期:2015-03-01 00:00:00
abstract::We have developed the first operationally simple and environmentally benign protocol for the aqueous asymmetric Michael addition reaction of chiral nickel(II) glycinate with nitroalkenes. The reactions proceeded smoothly in the presence of TBAB (tetrabutyl ammonium bromide) in neat water at room temperature and provid...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-011-0870-x
更新日期:2012-05-01 00:00:00
abstract::α-Pharmacological conotoxins are among the most selective ligands of nicotinic acetylcholine receptors with typical cysteine frameworks. They are characterized by the intercysteine loop and classified into various subfamilies, such as α3/5 and α4/7 conotoxins. A novel α-conotoxin, Pu14a (DCPPHPVPGMHKCVCLKTC), with a d...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-011-1093-x
更新日期:2012-07-01 00:00:00
abstract::Spore coat-associated alanine racemase of Bacillus subtilis, which converts L-alanine to D-alanine, that is, the germinant to the competitive inhibitor, to regulate spore germination for survival of the organism under unfavorable growth conditions, was examined. The dormant spores, L-alanine-initiated germination of w...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s007260070076
更新日期:2000-01-01 00:00:00
abstract::Studies have shown that specific amino acids are required for optimal growth of leukemic versus normal cells, and it is believed that the depletion of selected amino acids can abrogate tumor growth. We have developed a technique for studying the effect of amino acid deprivation on leukemic cell proliferation. The tech...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/BF00805995
更新日期:1992-10-01 00:00:00
abstract::The present research has been carried out to elicit the mechanism of antiangiogenic activity of a fusion peptide P2. Peptide P2 was designed by the connection of a heptapeptide MMP inhibitor to ES-2, a fragment of Endostatin. In a previous study, P2 demonstrated strong antiangiogenic and antitumor effect, and the curr...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-018-2589-4
更新日期:2018-08-01 00:00:00
abstract::Free D-aspartate (D-Asp) occurs in substantial amounts in the brain at the embryonic phase and in the first few postnatal days, and strongly decreases in adulthood. Temporal reduction of D-Asp levels depends on the postnatal onset of D-aspartate oxidase (DDO) activity, the only enzyme able to selectively degrade this ...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s00726-012-1356-1
更新日期:2012-11-01 00:00:00
abstract::Hepatocytes were cultured for 3 days as spheroids (aggregates) or as monolayers in basal medium and in sulfur amino acid-supplemented media. Cultured hepatocytes had low levels of cysteine dioxygenase (CDO) activity and normal levels of gamma-glutamylcysteine synthetase (GCS) and cysteine-sulfinate decarboxylase (CSDC...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s007260070017
更新日期:2000-01-01 00:00:00
abstract::Amnesia is a deficit in memory caused by brain damage, disease, or trauma. Until now, there are no successful medications on the drug market available to treat amnesia. Short analogs and mimetics of human urocortin 3 (Ucn 3) tripeptide were synthetized and tested for their action against amnesia induced by eletroconvu...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-016-2268-2
更新日期:2016-09-01 00:00:00
abstract::Filamentous fungi of the genusHypocrea were grown on malt extract/peptone agar, the mycelia were extracted with dichloromethane/methanol, and the extracts were totally hydrolyzed with 6 N HCl (110°C, 24 h). The amino acids (AA) released from peptides were converted into theirN(O)-pen-tafluoropropionyl 1-propyl esters ...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/BF00806923
更新日期:1991-06-01 00:00:00
abstract::Excitotoxicity induced by NMDA receptor stimulation is able to increase the activity of many enzymes involved in neuronal cell death. Primary cultures of rat cerebellar granule cells were used to elucidate the role of transglutaminase reaction in the excitotoxic cell response, and to evaluate the role of glutamate rec...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-003-0007-y
更新日期:2004-03-01 00:00:00
abstract::In the postgenomic era new technologies are emerging for global analysis of protein function. The introduction of active site-directed chemical probes for enzymatic activity profiling in complex mixtures, known as activity-based proteomics has greatly accelerated functional annotation of proteins. Here we review probe...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s00726-006-0305-2
更新日期:2006-06-01 00:00:00
abstract::The increased protein requirement of endurance athletes may be related to the need to replace exercise-induced oxidative losses, especially of the branched-chain amino acids (BCAA). However, it is unknown if non-essential amino acids (NEAA) influence the requirement for essential amino acids (EAA) during post-exercise...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-018-2639-y
更新日期:2018-12-01 00:00:00
abstract::Breast cancer epidemic in the early twenty-first century results in around two million new cases and half-a-million of the disease-related deaths registered annually worldwide. A particularly dramatic situation is attributed to some specific patient subgroups such as the triple-negative breast cancer (TNBC). TNBC is a...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-017-2524-0
更新日期:2018-04-01 00:00:00
abstract::Two synthetic routes to bis-armed-alpha-amino acid derivatives are described. The first route involves alkylation of dibromo derivatives with ethyl isocyanoacetate under phase-transfer catalysis (PTC) conditions. The second route uses a palladium-mediated Suzuki-Miyaura cross-coupling reaction between a DL-4-boronophe...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-006-0402-2
更新日期:2007-01-01 00:00:00
abstract::This study examines the hypothesis that glutamate tonically suppresses the activity of the enzyme aromatic L-amino acid decarboxylase (AADC), and hence the biosynthesis of dopamine, to explain how antagonists of glutamate receptors might potentiale the motor actions of L-DOPA in animal models of Parkinson's disease. A...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/BF01345241
更新日期:1998-01-01 00:00:00
abstract::In this review, recent studies on the electrophysiological effects of de novo synthesized ("endogenous") kynurenic acid (KYNA) are discussed. Endogenous KYNA is normally formed as a byproduct of tryptophan metabolism. Evidence for a physiological role in neuronal excitability has not been strong, in part because brain...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s007260070060
更新日期:2000-01-01 00:00:00
abstract::Minerals more readily adsorb amino acids with charged R groups than uncharged R groups, so that the incorporation of amino acids with charged R groups into peptides would be more frequent than for amino acids with uncharged R groups. However, 74% of the amino acids in the proteins of modern organisms contain uncharged...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s00726-004-0106-4
更新日期:2004-08-01 00:00:00
abstract::The tailor made amino acid β-N-methyl-amino-L-alanine (BMAA) is a neurotoxin produced by cyanobacteria. It has been associated with certain forms of progressive neurodegenerative disease, including sporadic Amyotrophic Lateral Sclerosis and Alzheimer's disease. Some different reports of BMAA in cyanobacterial blooms f...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-011-1057-1
更新日期:2012-06-01 00:00:00
abstract::The reactions of phosphorus trichloride with various amino acids afford the pentacoordinated spirophosphoranes. The reaction procedures were traced by (31)P NMR spectra techniques. A new crystal structure of alanine derivative was characterized, which is a slightly distorted TBP structure. Besides, this kind of spirop...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-005-0207-8
更新日期:2005-06-01 00:00:00
abstract::When considering protein phosphorylation in bacteria, phosphorylation of aspartic acid and histidine residues mediated by the two-component systems is the first to spring to mind. And yet other phosphorylation systems have been described in bacteria in the past 20 years including eukaryotic-like serine/threonine kinas...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s00726-009-0237-8
更新日期:2009-09-01 00:00:00
abstract::Taurine is a β-amino acid found in high concentrations in excitable tissues, including the heart. A significant reduction in myocardial taurine content leads to the development of a unique dilated, atrophic cardiomyopathy. One of the major functions of taurine in the heart is the regulation of the respiratory chain. H...
journal_title:Amino acids
pub_type: 杂志文章
doi:10.1007/s00726-015-2110-2
更新日期:2016-02-01 00:00:00
abstract::This mini review deals with the modern aspects of the spectroscopy and structural elucidation of amino acid derivatives and small biologically active compounds. Free peptide bond rotation in these systems yields various conformers, which possess differing biological activities. Another phenomenon is the intermolecular...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s00726-008-0220-9
更新日期:2010-01-01 00:00:00
abstract::The intestine is not only critical for the absorption of nutrients, but also interacts with a complex external milieu. Most foreign antigens enter the body through the digestive tract. Dietary amino acids are major fuels for the small intestinal mucosa, as well as important substrates for syntheses of intestinal prote...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s00726-008-0152-4
更新日期:2009-05-01 00:00:00
abstract::Arginine is a precursor of proteins and employed in urea synthesis. It is also the precursor of many other compounds, such as creatine, nitric oxide, polyamines, agmatine, proline. In this review, its transport and that of other basic amino acids are examined, along with its transformation into nitric oxide, agmatine ...
journal_title:Amino acids
pub_type: 杂志文章,评审
doi:10.1007/s00726-004-0081-9
更新日期:2004-07-01 00:00:00