View/Open - Oregon State University
... The 5' cap and 3' poly-A sequence both play roles in helping to increase the stability of eukaryotic mRNAs. 12. Post-translational (= after translation has occurred) processing of proteins gives them their final structure and properties. One such modification was discussed for insulin. This involves ...
... The 5' cap and 3' poly-A sequence both play roles in helping to increase the stability of eukaryotic mRNAs. 12. Post-translational (= after translation has occurred) processing of proteins gives them their final structure and properties. One such modification was discussed for insulin. This involves ...
109 y+-TYPE CATIONIC AMINO ACID TRANSPORT
... hydrophilicity profiles. mCAT-1 and mCAT-2 proteins expressed in Xenopus oocytes are functionally indistinguishable and similar to transport system y +, but have distinct tissue distribution patterns. mCAT-1 expression is nearly ubiquitious and produces a single protein, while mCAT-2 is highly tissu ...
... hydrophilicity profiles. mCAT-1 and mCAT-2 proteins expressed in Xenopus oocytes are functionally indistinguishable and similar to transport system y +, but have distinct tissue distribution patterns. mCAT-1 expression is nearly ubiquitious and produces a single protein, while mCAT-2 is highly tissu ...
Database Searching
... • Do extensions only when there are two hits on the same diagonal within some distance A of each other (e.g., A =40) • Reduces sensitivity (ability to detect distantly related sequences) – To compensate, use lower t value (e.g., 11 rather ...
... • Do extensions only when there are two hits on the same diagonal within some distance A of each other (e.g., A =40) • Reduces sensitivity (ability to detect distantly related sequences) – To compensate, use lower t value (e.g., 11 rather ...
File
... 5) Now, we need to fold this amino acid sequence into a 3D shape for the hemoglobin protein to function properly. How do you fold this protein? Red amino acids are hydrophobic so they should be towards the ___inside_______(inside or outside) of the folded protein so they can __hide__ ___(hide or int ...
... 5) Now, we need to fold this amino acid sequence into a 3D shape for the hemoglobin protein to function properly. How do you fold this protein? Red amino acids are hydrophobic so they should be towards the ___inside_______(inside or outside) of the folded protein so they can __hide__ ___(hide or int ...
significance of the putative upstream polybasic nuclear localisation
... are calculated for two different states of the molecule - alone (in the form of homodimer) and hIFNγ bound to the receptor. The study was based on the tree-dimensional structures of hIFNγ (6, 22) and clearly demonstrated that a number of titratable groups (mainly basic) had a remarkable shifts in th ...
... are calculated for two different states of the molecule - alone (in the form of homodimer) and hIFNγ bound to the receptor. The study was based on the tree-dimensional structures of hIFNγ (6, 22) and clearly demonstrated that a number of titratable groups (mainly basic) had a remarkable shifts in th ...
Additional file 1
... betweenness (bh) measures of host proteins are partially correlated within the human cellular network [3]. We have also demonstrated, when considering low degree proteins (LD), that Hepatitis C Virus proteins tend to preferentially interact with highly central ones, i.e. the bottleneck or bridging p ...
... betweenness (bh) measures of host proteins are partially correlated within the human cellular network [3]. We have also demonstrated, when considering low degree proteins (LD), that Hepatitis C Virus proteins tend to preferentially interact with highly central ones, i.e. the bottleneck or bridging p ...
Effect of Systemic Fungicide on Nucleic Acid, Amino Acid and
... Effect of different concentrations of fungicide Topsin-M was observed on nucleic acid, amino acid and phenols of Cicer arietinum. Foliar application of fungicide was performed at 15 days old seedling and at fruiting stage. Nucleic acid (DNA and RNA) decreased while amino acid and phenols increased o ...
... Effect of different concentrations of fungicide Topsin-M was observed on nucleic acid, amino acid and phenols of Cicer arietinum. Foliar application of fungicide was performed at 15 days old seedling and at fruiting stage. Nucleic acid (DNA and RNA) decreased while amino acid and phenols increased o ...
Isolation of a New Member of the $100 Protein Family: Amino Acid
... with moderate affinity, and exposure of a hydrophobic site upon Ca+÷-saturation. Antibodies to brain S100 proteins, however, do not cross react with S100L. Tryptic peptides derived from S100L were sequenced revealing similarity to other members of the S100 family. Oligonucleotide probes based on the ...
... with moderate affinity, and exposure of a hydrophobic site upon Ca+÷-saturation. Antibodies to brain S100 proteins, however, do not cross react with S100L. Tryptic peptides derived from S100L were sequenced revealing similarity to other members of the S100 family. Oligonucleotide probes based on the ...
Proteins
... • Is a phosphoprotein, which has phosphate groups attached to some of the amino acid side chains. • casein is a mixture of at least three similar proteins, which differ primarily in molecular weight and amount of phosphorus they contain (number of phosphate groups). • Casein exists in milk as the ca ...
... • Is a phosphoprotein, which has phosphate groups attached to some of the amino acid side chains. • casein is a mixture of at least three similar proteins, which differ primarily in molecular weight and amount of phosphorus they contain (number of phosphate groups). • Casein exists in milk as the ca ...
Selenocysteine: The 21 Amino Acid
... In fact Selenocysteine is encoded by the UGA codon, the umber codon, which is normally a termination codon. ...
... In fact Selenocysteine is encoded by the UGA codon, the umber codon, which is normally a termination codon. ...
bottom-up-methodology
... ASN[CCO-CYTOSOL] # cysteine and methionine require sulfur handling; if it is not clear # how to start from SULFATE, try starting from HS (hydrogen sulfide) instead # sulfur bearing amino acids can generally be saved for last # requires serine, acetyl-CoA, and hydrogen sulfide CYS[CCO-CYTOSOL] # glut ...
... ASN[CCO-CYTOSOL] # cysteine and methionine require sulfur handling; if it is not clear # how to start from SULFATE, try starting from HS (hydrogen sulfide) instead # sulfur bearing amino acids can generally be saved for last # requires serine, acetyl-CoA, and hydrogen sulfide CYS[CCO-CYTOSOL] # glut ...
Bioinformatics Resources and Tools on the Web: A Primer
... • Two reasonable hits are found, but the hits have suspicious characteristics – besides the fact that they weren’t included in the complete genome! ...
... • Two reasonable hits are found, but the hits have suspicious characteristics – besides the fact that they weren’t included in the complete genome! ...
View document as pdf
... for the transportation of the amino acids into the ribosome complex in order for the peptide bond to form. Additionally, students can use the individual models of the tRNAs to further investigate the structure of these molecules. ...
... for the transportation of the amino acids into the ribosome complex in order for the peptide bond to form. Additionally, students can use the individual models of the tRNAs to further investigate the structure of these molecules. ...
Excerpt from J.Mol.Biol.
... Figure 5. Stereo picture of the binding site of BH4 in the ternary Fe(II)·BH4·THA structure. Side-chains for Leu248 and Leu249 are omitted for clarity. All potential hydrogen bonds to the pterin moiety are shown as dotted lines. The green model of BH4 illustrates its position in the binary Fe(II)·B ...
... Figure 5. Stereo picture of the binding site of BH4 in the ternary Fe(II)·BH4·THA structure. Side-chains for Leu248 and Leu249 are omitted for clarity. All potential hydrogen bonds to the pterin moiety are shown as dotted lines. The green model of BH4 illustrates its position in the binary Fe(II)·B ...
identification of glycosylated peptides
... the possible forms of the glycosylated tryptic peptide T45 from rt-PA. This glycoform was found to have a typical structure including one sialic acid, two galactoses and two N-acetylglucosamines (GlcN) (labeled as structure 211). Theoretical m/z values for all possible cleavage products of the glyco ...
... the possible forms of the glycosylated tryptic peptide T45 from rt-PA. This glycoform was found to have a typical structure including one sialic acid, two galactoses and two N-acetylglucosamines (GlcN) (labeled as structure 211). Theoretical m/z values for all possible cleavage products of the glyco ...
Sequence Analysis, `16 -
... (Cycle 2) (a) Construct a profile from the results of Cycle 1. (b) Search the database using the profile. (Cycle 3) (a) Construct a profile from the results of Cycle 2. (b) Search the database using the profile. And So On... (user sets the number of cycles) Psi-BLAST is much more sensitive than BLAS ...
... (Cycle 2) (a) Construct a profile from the results of Cycle 1. (b) Search the database using the profile. (Cycle 3) (a) Construct a profile from the results of Cycle 2. (b) Search the database using the profile. And So On... (user sets the number of cycles) Psi-BLAST is much more sensitive than BLAS ...
Prediction for Essential Proteins with the Support Vector Machine
... In the above, TP (true positive) denotes the number of true objects (essential proteins) correctly predicted, FP (false positive) denotes the number of false objects (nonessential proteins) wrongly predicted, FN (false negative) denotes the number of true objects (essential proteins) wrongly predict ...
... In the above, TP (true positive) denotes the number of true objects (essential proteins) correctly predicted, FP (false positive) denotes the number of false objects (nonessential proteins) wrongly predicted, FN (false negative) denotes the number of true objects (essential proteins) wrongly predict ...
3.2 Carbohydrates, Lipids and Proteins
... The bond that is formed from an acid group (COOH) and the amino group (NH2) is called a peptide bond. Because of this special bond, proteins are frequently called polypeptides (many peptide bonds). Assessment Statement 3.2.5 ...
... The bond that is formed from an acid group (COOH) and the amino group (NH2) is called a peptide bond. Because of this special bond, proteins are frequently called polypeptides (many peptide bonds). Assessment Statement 3.2.5 ...
How will Hemoglobin Affect the Winner of this Year`s Super Bowl
... 5) Now we need to fold this amino acid sequence into a 3D shape for the hemoglobin protein to function properly. How do you fold this protein? Red amino acids are hydrophobic so that should be towards the ___inside_______(inside or outside) of the folded protein so they can __hide__ ___(hide or inte ...
... 5) Now we need to fold this amino acid sequence into a 3D shape for the hemoglobin protein to function properly. How do you fold this protein? Red amino acids are hydrophobic so that should be towards the ___inside_______(inside or outside) of the folded protein so they can __hide__ ___(hide or inte ...
Protein structure prediction
Protein structure prediction is the prediction of the three-dimensional structure of a protein from its amino acid sequence — that is, the prediction of its folding and its secondary, tertiary, and quaternary structure from its primary structure. Structure prediction is fundamentally different from the inverse problem of protein design. Protein structure prediction is one of the most important goals pursued by bioinformatics and theoretical chemistry; it is highly important in medicine (for example, in drug design) and biotechnology (for example, in the design of novel enzymes). Every two years, the performance of current methods is assessed in the CASP experiment (Critical Assessment of Techniques for Protein Structure Prediction). A continuous evaluation of protein structure prediction web servers is performed by the community project CAMEO3D.