Nucleotide and protein information
Nucleotide and protein databases
... - Links between nucleic an protein sequences records - Updates by NCBI staff and record status indication - Data validation and format consistency. - Overview of information from several[r] ...
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Molecular recognition: Computational studies on protein nucleotide interactions
... Thus, most program s reading PDB files must implicitly know the properties of all the residues in the file, use general properties for unknown residues and atom s, or attem p t to calculate the desired property from the ...
176
Studies on the relationship between single nucleotide polymorphisms and protein interactions
... 46 of these experiments, disease mutations were observed to cluster at the interaction sites. Gong and Blundell (2010) recently catalogued structural and functional features of proteins that influence the substitution ...
209
The similarity/dissimilarity analysis of protein sequence based on nucleotide triplet codon
... on nucleotide triplet codon, a graphical representation of protein sequences is ...distribution information of all the 20 kinds of amino acids is ...ND5 protein sequences of nine species is ...
8
Single nucleotide variants in pathological tissues: effect on protein structure and stability
... that information pertaining to interethnic and interindividual genetic differences can facilitate rational drug discovery in order to avoid or minimize the incidence of adverse events in clinical ...
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Single-Nucleotide polymorphism of PPARγ, a protein at the crossroads of physiological and pathological processes
... the protein. The structural analysis of nsSNP protein variants may help in understanding the molecular basis of diseases and, since individuals carrying variants may respond differently to drugs, it may ...
21
Analysis of CLIP and iCLIP methods for nucleotide resolution studies of protein RNA interactions
... Past studies summarized the CLIP data at multiple binding sites across the genome to show that they pro- vide quantitative information [10]. However, it was not clear if occupancy of individual binding sites ...
13
Nucleotide substitution rates for the full set of mitochondrial protein-coding genes in Coleoptera
... incorporating information on the genetic code as AA–codon replacement rates; Goldman and Young, 1994) was not found by Bayes and PM-factors to be better than the analysis with three codon partitions (first, second ...
44
New in protein structure and function annotation: Hotspots, single nucleotide polymorphisms and the 'Deep Web'
... scaffold protein, a ligand structure, and a set of amino-acid positions that will be mutated to create the binding site' ...on information provided by binding site ...
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Nucleotide sequence analysis and seroreactivities of the 65K heat shock protein from Mycobacterium paratuberculosis.
... disease. Information on the antigenic determinants or epitopes that are recognized by antibodies and/or T cells from animals with Johne’s disease and individ- uals with Crohn’s disease is ...
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Impact of non synonymous single nucleotide variants on protein fitness: experimental analysis for a comparative study
... obtain information about the dynamic properties of macromolecules and to analyze conformational ensembles and X-ray crystallography to solve the crystal structure of some of the variants obtaining three ...
256
iCLIP: Protein-RNA interactions at nucleotide resolution.
... 3. iCLIP protocol In this manuscript, we provide a detailed iCLIP protocol with comments, tips and explanations provided in the footnotes. For the most critical steps, we describe the results of example experi- ments at ...
14
The nucleotide sequence of the gene for human protein C
... The seven introns in the gene for protein C are located in essentially the same positions in the amino acid sequence as the seven introns in the gene for human factor IX,.. while the fir[r] ...
5
Modeling Effects of Human Single Nucleotide Polymorphisms on Protein-Protein Interactions
... 264 protein-protein complexes with known nonsynonymous single nucleotide polymorphisms (nsSNPs) at the interface was built using homology-based ...on protein-protein interactions cannot ...
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Nucleotide sequence and expression of the capsid protein gene of feline calicivirus.
... determined from this analysis that the amino acid sequence derived from the nucleotide sequence of the FCV cDNA clones matches the amino acid sequence experimentally derived from purifie[r] ...
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Primate cytomegalovirus assembly protein: genome location and nucleotide sequence.
... Translation of the APcDNA1 sense transcript alone in vitro (Fig. 1) resulted in the synthesis of a protein that comigrated with the 40-kDa assembly protein precursor (lane d); no protein[r] ...
8
Patterns of Nucleotide Substitution in Mitochondrial Protein Coding Genes of Vertebrates
... Ndh5 were used for estimating branch lengths by the maxi- mum likelihood method; a general reversible model of nucle- otide substitution and gammadistributed substitution-[r] ...
12
Nucleotide sequence of the gene encoding respiratory syncytial virus matrix protein.
... the mRNA's encoding the vesicular stomatitis virus G and M proteins determined from cDNA clones containing the complete coding regions. A simple method for DNA restriction site mapping[r] ...
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Nucleotide sequence changes in polyoma ts-a mutants: correlation with protein structure.
... The nucleotide sequence and genome organization of the polyoma early region: extensive nucleotide and amino acid homology with SV40. Nucleo-[r] ...
5
FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation
... A major difference with other standards is that we chose to make strandedness and reference sequence a property of the position, instead of the region. This is important in a number of use cases. For example, one may ...
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