当前位置： SCI文献检索 > Biomed Research International期刊下所有文献 > Predicting flavin and nicotinamide adenine dinucleotide-binding sites in proteins using the fragment transformation method.

Predicting flavin and nicotinamide adenine dinucleotide-binding sites in proteins using the fragment transformation method.

Abstract：

:We developed a computational method to identify NAD- and FAD-binding sites in proteins. First, we extracted from the Protein Data Bank structures of proteins that bind to at least one of these ligands. NAD-/FAD-binding residue templates were then constructed by identifying binding residues through the ligand-binding database BioLiP. The fragment transformation method was used to identify structures within query proteins that resembled the ligand-binding templates. By comparing residue types and their relative spatial positions, potential binding sites were identified and a ligand-binding potential for each residue was calculated. Setting the false positive rate at 5%, our method predicted NAD- and FAD-binding sites at true positive rates of 67.1% and 68.4%, respectively. Our method provides excellent results for identifying FAD- and NAD-binding sites in proteins, and the most important is that the requirement of conservation of residue types and local structures in the FAD- and NAD-binding sites can be verified.

journal_name

Biomed Res Int

journal_title

BioMed research international

authors

Lu CH,Yu CS,Lin YF,Chen JY

doi

10.1155/2015/402536

subject

Has Abstract

pub_date

2015-01-01 00:00:00

pages

402536

eissn

2314-6133

issn

2314-6141

journal_volume

2015

pub_type

杂志文章

相关文献

Biomed Research International文献大全
  • EMRlog method for computer security for electronic medical records with logic and data mining.

    abstract：:The proper functioning of a hospital computer system is an arduous work for managers and staff. However, inconsistent policies are frequent and can produce enormous problems, such as stolen information, frequent failures, and loss of the entire or part of the hospital data. This paper presents a new method named EMRlo...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2015/542016

    authors： Martínez Monterrubio SM,Frausto Solis J,Monroy Borja R

    更新日期：2015-01-01 00:00:00

  • Altered functional connectivity within and between brain modules in absence epilepsy: a resting-state functional magnetic resonance imaging study.

    abstract：:Functional connectivity has been correlated with a patient's level of consciousness and has been found to be altered in several neuropsychiatric disorders. Absence epilepsy patients, who experience a loss of consciousness, are assumed to suffer from alterations in thalamocortical networks; however, previous studies ha...

    journal_title：BioMed research international

    pub_type： 临床试验,杂志文章

    doi：10.1155/2013/734893

    authors： Xu CP,Zhang SW,Fang T,Manxiu M,Chencan Q,Huafu C,Zhu HW,Li YJ,Zuxiang L

    更新日期：2013-01-01 00:00:00

  • Inflammatory Cellular Response to Mechanical Ventilation in Elastase-Induced Experimental Emphysema: Role of Preexisting Alveolar Macrophages Infiltration.

    abstract：:An excessive pulmonary inflammatory response could explain the poor prognosis of chronic obstructive pulmonary disease (COPD) patients submitted to invasive mechanical ventilation. The aim of this study was to evaluate the response to normal tidal volume mechanical ventilation in an elastase-induced murine model of pu...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2018/5721293

    authors： Rouze A,Voiriot G,Guivarch E,Roux F,Tran Van Nhieu J,Isabey D,Brochard L,Maitre B,Mekontso-Dessap A,Boczkowski J

    更新日期：2018-12-19 00:00:00

  • Ascorbic acid, ultraviolet C rays, and glucose but not hyperthermia are elicitors of human β-defensin 1 mRNA in normal keratinocytes.

    abstract：:Hosts' innate defense systems are upregulated by antimicrobial peptide elicitors (APEs). Our aim was to investigate the effects of hyperthermia, ultraviolet A rays (UVA), and ultraviolet C rays (UVC) as well as glucose and ascorbic acid (AA) on the regulation of human β-defensin 1 (DEFB1), cathelicidin (CAMP), and int...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2015/714580

    authors： Cruz Díaz LA,Flores Miramontes MG,Chávez Hurtado P,Allen K,Gonzalez Ávila M,Prado Montes de Oca E

    更新日期：2015-01-01 00:00:00

  • Identification of interconnected markers for T-cell acute lymphoblastic leukemia.

    abstract：:T-cell acute lymphoblastic leukemia (T-ALL) is a complex disease, resulting from proliferation of differentially arrested immature T cells. The molecular mechanisms and the genes involved in the generation of T-ALL remain largely undefined. In this study, we propose a set of genes to differentiate individuals with T-A...

    journal_title：BioMed research international

    pub_type： 杂志文章,meta分析

    doi：10.1155/2013/210253

    authors： Maiorov EG,Keskin O,Ng OH,Ozbek U,Gursoy A

    更新日期：2013-01-01 00:00:00

  • Comprehensive Identification of Potential Crucial Genes and miRNA-mRNA Regulatory Networks in Papillary Thyroid Cancer.

    abstract：Background:Thyroid cancer is the most common endocrine malignancy, with a recent global increase of 20% in age-related incidence. Ultrasonography and ultrasonography-guided fine-needle aspiration biopsy (FNAB) are the most widely used diagnostic tests for thyroid nodules; however, it is estimated that up to 25% of thyr...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2021/6752141

    authors： Nan BY,Xiong GF,Zhao ZR,Gu X,Huang XS

    更新日期：2021-01-12 00:00:00

  • VEGF Induce Vasculogenic Mimicry of Choroidal Melanoma through the PI3k Signal Pathway.

    abstract：Purpose:To explore the effect of VEGF (vascular endothelial growth factor) on the vasculogenic mimicry (VM) formation of Choroidal Melanoma (CM) through PI3k signal pathway, to find novel targets for CM therapy. Methods:This research investigated the molecular mechanism of VEGF promoting VM formation of CM. First, we ...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2019/3909102

    authors： Xu X,Zong Y,Gao Y,Sun X,Zhao H,Luo W,Jia S

    更新日期：2019-07-11 00:00:00

  • Does the Length of Elbow Flexors and Visual Feedback Have Effect on Accuracy of Isometric Muscle Contraction in Men after Stroke?

    abstract：UNLABELLED:The aim of the study was to determine the effect of different muscle length and visual feedback information (VFI) on accuracy of isometric contraction of elbow flexors in men after an ischemic stroke (IS). MATERIALS AND METHODS:Maximum voluntary muscle contraction force (MVMCF) and accurate determinate musc...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2016/7641705

    authors： Juodzbaliene V,Darbutas T,Skurvydas A,Brazaitis M

    更新日期：2016-01-01 00:00:00

  • Association between Adiponectin Gene Polymorphism and Environmental Risk Factors of Type 2 Diabetes Mellitus among the Chinese Population in Hohhot.

    abstract：Objective:The aim of this study was to investigate the association between adiponectin gene polymorphisms rs10937273, rs1501299, rs182052, rs2241767, and rs266729 and environmental risk factors of type 2 diabetes mellitus (T2DM) in Hohhot. The study explored different models of gene-environment interactions, aimed at p...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2020/6383906

    authors： Cui M,Gao Y,Zhao Y,Pang H,Chen L,Wang Z,Zhao L,Li M

    更新日期：2020-06-21 00:00:00

  • Activation of Leukopoiesis in Rat Blood with Trimecaine-Based Ionic Compounds.

    abstract：:A study of myelostimulating activity of ionic compounds-trimecaine alkyl iodide derivatives under the cipher BIV (BIV-117, BIV-118, and BIV-119) was conducted on a model of doxorubicin pancytopenia in white laboratory rats. It was established that the compounds BIV-117 and BIV-119 had a pronounced leukopoiesis-stimula...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2020/7636290

    authors： Baktybayeva L,Yu V,Zazybin A,Zolotareva D,Dauletbakov A

    更新日期：2020-01-13 00:00:00

  • The First Asian, Single-Center Experience of Blastocyst Preimplantation Genetic Diagnosis with HLA Matching in Thailand for the Prevention of Thalassemia and Subsequent Curative Hematopoietic Stem Cell Transplantation of Twelve Affected Siblings.

    abstract：Results:In 221 cycles from 138 patients (104 cycles requiring HLA matching), 90.5% had embryo(s) biopsied for genetic testing. There were 119 embryo transfers for thalassemia (76) and thalassemia-HLA cases (43), respectively, resulting in overall clinical pregnancy rates of 54.6%, implantation rates of 45.7%, and live ...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2020/5292090

    authors： Tiewsiri K,Manipalviratn S,Sutheesophon W,Vanichsetakul P,Thaijaroen P,Ketcharoon P,Bradley CK,McArthur SJ,Krutsawad W,Marshall JTA,Papadopoulos KI

    更新日期：2020-06-26 00:00:00

  • Artificial Intelligence in Coronary Computed Tomography Angiography: From Anatomy to Prognosis.

    abstract：:Cardiac computed tomography angiography (CCTA) is widely used as a diagnostic tool for evaluation of coronary artery disease (CAD). Despite the excellent capability to rule-out CAD, CCTA may overestimate the degree of stenosis; furthermore, CCTA analysis can be time consuming, often requiring advanced postprocessing t...

    journal_title：BioMed research international

    pub_type： 杂志文章,评审

    doi：10.1155/2020/6649410

    authors： Muscogiuri G,Van Assen M,Tesche C,De Cecco CN,Chiesa M,Scafuri S,Guglielmo M,Baggiano A,Fusini L,Guaricci AI,Rabbat MG,Pontone G

    更新日期：2020-12-16 00:00:00

  • In Vitro Protective Effects of Lycium barbarum Berries Cultivated in Umbria (Italy) on Human Hepatocellular Carcinoma Cells.

    abstract：:Lycium barbarum is a famous plant in the traditional Chinese medicine. The plant is known to have health-promoting bioactive components. The properties of Lycium barbarum berries cultivated in Umbria (Italy) and their effect on human hepatocellular carcinoma cells (HepG2) have been investigated in this work. The obtai...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2016/7529521

    authors： Ceccarini MR,Vannini S,Cataldi S,Moretti M,Villarini M,Fioretti B,Albi E,Beccari T,Codini M

    更新日期：2016-01-01 00:00:00

  • Elevated expression of fractalkine (CX3CL1) and fractalkine receptor (CX3CR1) in the dorsal root ganglia and spinal cord in experimental autoimmune encephalomyelitis: implications in multiple sclerosis-induced neuropathic pain.

    abstract：:Multiple sclerosis (MS) is a central nervous system (CNS) disease resulting from a targeted autoimmune-mediated attack on myelin proteins in the CNS. The release of Th1 inflammatory mediators in the CNS activates macrophages, antibodies, and microglia resulting in myelin damage and the induction of neuropathic pain (N...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2013/480702

    authors： Zhu W,Acosta C,MacNeil B,Cortes C,Intrater H,Gong Y,Namaka M

    更新日期：2013-01-01 00:00:00

  • Low-Molecular-Weight Polyethyleneimine Grafted Polythiophene for Efficient siRNA Delivery.

    abstract：:Owing to its hydrophilicity, negative charge, small size, and labile degradation by endogenous nucleases, small interfering RNA (siRNA) delivery must be achieved by a carrier system. In this study, cationic copolymers composed of low-molecular-weight polyethylenimine and polythiophenes were synthesized and evaluated a...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2015/406389

    authors： He P,Hagiwara K,Chong H,Yu HH,Ito Y

    更新日期：2015-01-01 00:00:00

  • Somatostatin receptor based imaging and radionuclide therapy.

    abstract：:Somatostatin (SST) receptors (SSTRs) belong to the typical 7-transmembrane domain family of G-protein-coupled receptors. Five distinct subtypes (termed SSTR1-5) have been identified, with SSTR2 showing the highest affinity for natural SST and synthetic SST analogs. Most neuroendocrine tumors (NETs) have high expressio...

    journal_title：BioMed research international

    pub_type： 杂志文章,评审

    doi：10.1155/2015/917968

    authors： Xu C,Zhang H

    更新日期：2015-01-01 00:00:00

  • Amides Derived from Vanillic Acid: Coupling Reactions, Antimicrobial Evaluation, and Molecular Docking.

    abstract：:A series of amides derived from vanillic acid were obtained by coupling reactions using PyBOP ((Benzotriazol-1-yloxy)tripyrrolidinophosphonium hexafluorophosphate) and DCC (Dicyclohexylcarbodiimide) coupling reagents. These were submitted to biological evaluation for species of Candida, Staphylococcus, and Pseudomonas...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2019/9209676

    authors： Santos Oliveira AJM,de Castro RD,Pessôa HLF,Wadood A,de Sousa DP

    更新日期：2019-04-15 00:00:00

  • Prognostic Value of Osteopontin Splice Variant-c Expression in Breast Cancers: A Meta-Analysis.

    abstract：:Objectives. Osteopontin (OPN) is overexpressed in breast cancers, while its clinical and prognostic significance remained unclear. This study aimed to assess the prognostic value of OPN, especially its splice variants, in breast cancers. Methods. Data were extracted from eligible studies concerning the OPN and OPN-c e...

    journal_title：BioMed research international

    pub_type： 杂志文章,meta分析

    doi：10.1155/2016/7310694

    authors： Hao C,Wang Z,Gu Y,Jiang WG,Cheng S

    更新日期：2016-01-01 00:00:00

  • Reconstruction of cochlea based on micro-CT and histological images of the human inner ear.

    abstract：:The study of the normal function and pathology of the inner ear has unique difficulties as it is inaccessible during life and, so, conventional techniques of pathologic studies such as biopsy and surgical excision are not feasible, without further impairing function. Mathematical modelling is therefore particularly at...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2014/485783

    authors： Bellos C,Rigas G,Spiridon IF,Bibas A,Iliopoulou D,Böhnke F,Koutsouris D,Fotiadis DI

    更新日期：2014-01-01 00:00:00

  • Esculetin Neutralises Cytotoxicity of t-BHP but Not of H2O2 on Human Leukaemia NB4 Cells.

    abstract：:The coumarin esculetin shows antioxidant action on some cell types, both by scavenging ROS and by decreasing ROS production. We have previously demonstrated the induction of apoptosis by esculetin on NB4 human leukaemia cells by an ill-defined mechanism related to ROS levels. In this work, we analyze the effect of the...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2017/9491045

    authors： Rubio V,García-Pérez AI,Tejedor MC,Herráez A,Diez JC

    更新日期：2017-01-01 00:00:00

  • Systematic Approach for the Formulation and Optimization of Solid Lipid Nanoparticles of Efavirenz by High Pressure Homogenization Using Design of Experiments for Brain Targeting and Enhanced Bioavailability.

    abstract：:The nonnucleoside reverse transcriptase inhibitors, used for the treatment of HIV infections, are reported to have low bioavailability pertaining to high first-pass metabolism, high protein binding, and enzymatic metabolism. They also show low permeability across blood brain barrier. The CNS is reported to be the most...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2017/5984014

    authors： Gupta S,Kesarla R,Chotai N,Misra A,Omri A

    更新日期：2017-01-01 00:00:00

  • Morphophysiological and Comparative Metabolic Profiling of Purslane Genotypes (Portulaca oleracea L.) under Salt Stress.

    abstract：:Purslane, a fleshy herbaceous plant, plays a pivotal role in various preventive and therapeutic purposes. To date, no report has documented the consequence of salt stress on metabolite accumulation in purslane. Herein, we proposed an insight into the metabolic and physiological traits of purslane under saline stress e...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2020/4827045

    authors： Zaman S,Bilal M,Du H,Che S

    更新日期：2020-06-17 00:00:00

  • Molecular mechanisms of curcumin on diabetes-induced endothelial dysfunctions: Txnip, ICAM-1, and NOX2 expressions.

    abstract：:We aim to investigate the effects of curcumin on preventing diabetes-induced vascular inflammation in association with its actions on Txnip, ICAM-1, and NOX2 enzyme expressions. Male Wistar rats were divided into four groups: control (CON), diabetic (DM; streptozotocin (STZ), i.v. 55 mg/kg BW), control-treated with cu...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2014/161346

    authors： Wongeakin N,Bhattarakosol P,Patumraj S

    更新日期：2014-01-01 00:00:00

  • Hereditary Syndromes Manifesting as Endometrial Carcinoma: How Can Pathological Features Aid Risk Assessment?

    abstract：:Endometrial carcinoma is the most common gynecological tumor worldwide. It can be the presenting malignancy, acting as the harbinger, of an undiagnosed hereditary syndrome. Up to 50% of females with Lynch syndrome present in this manner. Differentiation between Lynch, Muir-Torre, and Cowden syndromes can at times be c...

    journal_title：BioMed research international

    pub_type： 杂志文章,评审

    doi：10.1155/2015/219012

    authors： Wong A,Ngeow J

    更新日期：2015-01-01 00:00:00

  • Differential response of oyster shell powder on enzyme profile and nutritional value of oyster mushroom Pleurotus florida PF05.

    abstract：:Oyster mushroom Pleurotus florida was cultivated on different combinations of wheat straw (WS) as basal substrate and oyster shell powder (OSP) supplement. The OSP supplementation considerably responded to different cultivation phases. The mycelium grew fast and showed rapid growth rate (8.91 mmd(-1)) in WS + OSP (97 ...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2014/386265

    authors： Naraian R,Narayan OP,Srivastava J

    更新日期：2014-01-01 00:00:00

  • Retracted: Leaf Rolling and Stem Fasciation in Grass Pea (Lathyrus sativus L.) Mutant Are Mediated through Glutathione-Dependent Cellular and Metabolic Changes and Associated with a Metabolic Diversion through Cysteine during Phenotypic Reversal.

    abstract：:[This retracts the article DOI: 10.1155/2014/479180.]. ...

    journal_title：BioMed research international

    pub_type： 撤回出版物

    doi：10.1155/2016/4938464

    authors： BioMed Research International

    更新日期：2016-01-01 00:00:00

  • Phytoremediation potential of Maná-Cubiu (Solanum sessiliflorum Dunal) for the deleterious effects of methylmercury on the reproductive system of rats.

    abstract：:Methylmercury, organic form of mercury, can increase the number of abnormal sperm and decrease sperm concentration and testosterone levels possibly due to the damage caused by reactive species to germ and Leydig cells. Maná-cubiu (Solanum sessiliflorum Dunal) is a native fruit from Amazon rich in iron, zinc, niacin, p...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2014/309631

    authors： Frenedoso da Silva R,Missassi G,dos Santos Borges C,Silva de Paula E,Hornos Carneiro MF,Grotto D,Barbosa Junior F,De Grava Kempinas W

    更新日期：2014-01-01 00:00:00

  • Cytogenetic abnormality in exfoliated cells of buccal mucosa in head and neck cancer patients in the Tunisian population: impact of different exposure sources.

    abstract：:Chromosome/DNA instability could be one of the primary causes of malignant cell transformation. The objective of the present study was to evaluate the spontaneous genetic damages in exfoliated cells of buccal mucosa of head and neck cancer (HNC) by counting micronucleus (MN) and binucleated (BN) cells frequencies. MN ...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2013/905252

    authors： Khlifi R,Trabelsi-Ksibi F,Chakroun A,Rebai A,Hamza-Chaffai A

    更新日期：2013-01-01 00:00:00

  • Oxidative stress, prooxidants, and antioxidants: the interplay.

    abstract：:Oxidative stress is a normal phenomenon in the body. Under normal conditions, the physiologically important intracellular levels of reactive oxygen species (ROS) are maintained at low levels by various enzyme systems participating in the in vivo redox homeostasis. Therefore, oxidative stress can also be viewed as an i...

    journal_title：BioMed research international

    pub_type： 杂志文章,评审

    doi：10.1155/2014/761264

    authors： Rahal A,Kumar A,Singh V,Yadav B,Tiwari R,Chakraborty S,Dhama K

    更新日期：2014-01-01 00:00:00

  • Montelukast, a Cysteinyl Leukotriene Receptor 1 Antagonist, Induces M2 Macrophage Polarization and Inhibits Murine Aortic Aneurysm Formation.

    abstract：Background:The pathogenesis of abdominal aortic aneurysm (AAA) is characterized by atherosclerosis with chronic inflammation in the aortic wall. Montelukast is a selective cys-LT 1 receptor antagonist that can suppress atherosclerotic diseases. We evaluated the in vitro properties of montelukast and its in vivo activit...

    journal_title：BioMed research international

    pub_type： 杂志文章

    doi：10.1155/2019/9104680

    authors： Kawai Y,Narita Y,Yamawaki-Ogata A,Usui A,Komori K

    更新日期：2019-05-27 00:00:00