protein homology
Two-layer SVM classifier for remote protein homology detection and fold recognition
... the protein accurately to various levels according to SCOP ...different protein folds in nature, mostly as a result of evolution but also due to constraints imposed by the basic physics and chemistry of ...
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Development of a computational framework for protein homology detection by incorporating realignment
... levels: class, fold, super family and family. The scope of our work will be at super- family level, in which families are grouped such that a common evolutionary origin is not obvious from sequence identity, but in the ...
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Protein homology reveals new targets for bioactive small molecules
... by homology, no lig- and has simply been tested ...target homology (Table 1, column ...dicted protein targets, it is important to realize that many of them have not been considered in experimental ...
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Insilico structure prediction of saer protein from staphylococcus aureus
... The homology modeling was used to build the initial model of SaeR ...protein. Homology modeling of the Sae R was performed using Modeller 9v8 ...(Bairoch,2000) protein sequence database ...
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A combined approach for genome wide protein function annotation/prediction
... Protein homology among different species could be exploited for this ...The protein YKL033W-A (UniProtID: Q86ZR7) of Saccharomyces cerevisiae does not show any interaction in its own net- ...with ...
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“Homology modeling of CCR2b receptor and Docking studies of (R)-3-aminopyrrolidine derivatives as CCR2b inhibitors” by A. Rohith Kumar*, Sri Ramya. Tata, Shravan kumar. Gunda, India.
... CCR2b protein, homology modeling of CCR2b was performed to P41597(C-C chemokine receptor type 2) with the template 3HV8, by comparative homology modeling using ...using protein structure ...
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Homology Modeling and Molecular Dynamic Study of Candida Albicans Heat Shock Protein 21, a Potential Target Protein for Antifungal Drug Development
... The construction of model on MOE 2011-12 was carried through following procedure; initially identity of residues was conserved by copying initial partial geometry of target sequence from template through MOE program. ...
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Using Chou’s Pseudo Amino Acid Composition for Protein Remote Homology Detection
... In our method, there is a parameter λ, which would im- pact on the performance of PseAACIndex (see method section for more information). λ can be any integer be- tween 1 and L-1, where L is the shortest protein ...
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Genetic analysis of the major homology region of the Rous sarcoma virus Gag protein.
... fusion protein.) In contrast, the GagX protein, which has a deletion of the amino terminus (78), was completely blocked (lane ...Gag protein contributed to normal particle density by influencing the ...
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Mutational analysis of two residues in the DYRK homology box of the protein kinase DYRK1A
... The plasmid for mammalian expression of GFP-DYRK1A has been described previously [12]. Point mutants of DYRK1A were generated using the QuikChange method. All mutagenesis plasmids were verified by DNA sequencing. The ...
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A NEW TARGET FOR DIABETES: HOMOLOGY MODELING AND IDENTIFICATION OF POTENTIAL LEADS THROUGH VIRTUAL SCREENING
... MCT11 protein template sequence is searched against the known protein structures sequence and model building is performed using the SWISS-MODEL an online ...known protein structures deposited in the ...
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Cloning and Bioinformatics Analysis of Rosa rugose S Locus F Box Gene (RrSLF)
... the protein shares 59% - 61% homology with the SFB/SLF amino acid sequences of Rosaceae Prunus fruit including Prunus speciosa ...30% homology with the SFB/SLF amino acid sequences of Non Rosaceae ...
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Homology modeling and ligand docking of Mitogen-activated protein kinase-activated protein kinase 5 (MK5)
... Atomic distances important for ligand binding were calculated for the entire 50 ns MD simulation. An average model was calculated from frames between 28.7 – 50 ns. This average structure was first optimized by the ...
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Acacia Zhao 692H_SGedit_revised_final_uploadCDR.pdf
... a homology search against the three internal standard genomes via BLASTn (e-value ...a homology search against the internal standard protein database using BLASTx (e-value ...of protein ...
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Immediate-early RNA 2.9 and early RNA 2.6 of bovine herpesvirus 1 are 3' coterminal and encode a putative zinc finger transactivator protein.
... The putative protein, named p135, contained a cysteine-rich zinc finger domain near the N terminus with homology to ICP0 of herpes simplex virus type 1, to protein 61 of varicella-zoster[r] ...
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Cloning and sequence of DNA encoding structural proteins of the autonomous parvovirus feline panleukopenia virus.
... Nucleic acid and protein sequence homology among parvoviruses" % Homology for: Virus pair Nucleotide FPV-MVM FPV-H-1 MVM-H-1 Frame II Frame I Amino acid Nucleotide 55 55 72 Amino acid 51[r] ...
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INSILICO ANALYSIS AND HOMOLOGY MODELLING OF TBC1D3 PROTEIN
... TBC1D3 protein is able to maintain the insulin pathway open so that the cells still take up ...TBC1D3 protein was done by using protparam, GOR IV ...
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Homology modeling and docking studies of ENPP4: a BCG activated tumoricidal macrophage protein
... target protein, ENPP4, was obtained from the National Center for Biotechnol- ogy Information NCBI ...template protein: ENPP1 (PDB Id 4GTX) ...The protein was solvated using a box of TIP3P [24] water ...
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Homology Modeling of Nitrogenase Iron Protein of Nitrogen Fixing Actinomycete Arthrobacter sp
... the protein model was estimated after the refinement process using Ramachandran map calculations computed with PROCHECK [34] ...iron protein for Arthrobacter was ...iron protein for Arthrobacter had ...
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Homology modeling active site predictive of VP24 protein involved in Ebola Virus
... viral protein (VP24) is a secondary matrix protein which has various roles in virulence of ...analyze protein sequence and predicted the 3 dimensional structure of VP24 protein using various ...
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