The phylogeny shows the relationship of different CASP genes that code for different Caspase proteins in different eukaryotic organisms. This tree was created using CFLAR as the outgroup; (Dereeper, 2008). CFLAR is naturally the most distantly related gene to the others, however CFLAR is in fact quite similar to CASP8. The proteins they both produce are structurally similar, for instance they both have DED domains; (Stennicke & Salvesen, 2000; Watt et al., 1999). Conversely, the protein CFLAR encodes, lacks Caspase activity and is involved in the process of anti-apoptosis, which contrasts the function of CASP8; (Frank et al., 2006). The “CASP” genes form a monophyletic group, as they are all involved in causing apoptosis, whereas CFLAR …show more content…
This effect may be due to the loss of its hydrophobicity due to the missense mutation, and thus may alter the function of the active site of the enzyme.
Similarly, an SNP of CASP8 with a G->C mutation at position 904, substituting histidine to aspartic acid, has been associated with reducing the risk of breast cancer (MacPherson et al., 2004). Although, both amino acids have similar hydrophilic properties, making this mutation synonymous. Therefore, this requires more research to investigate the intricacies of the protein when the residue is changed.
To amplify CASP8-212 (one of the protein coding regions in the CASP8 gene) by RT-PCR, the gene’s cDNA sequence was obtained from the Ensembl database and then run through a primer-BLAST; (Yates et al., 2016; Ye et al., 2012). Out of the 4 primers listed in Table 1, primer 3 would be recommended after conducting a cost-benefit analysis; one reason being due to the GC% being low at 55% for both forward and reverse primers, being better than primers 2 & 4 that have a GC% greater than 55%. Having a substantial GC%, makes the PCR inefficient, due to excessive costs. While denaturing nucleic acid during PCR, the temperature is raised; and considering that GC are joined via 3 H-bonds, and AT only 2, GC would require higher temperatures to break them. Also primer 3 has a higher product length than primer 5 (which that has the same
When the pH is not at its optimum, the differing pH's will disrupt the bonding between the R groups of the amino acid causing its structure and the shape of the activation site to change
1. List whether the student was positive or negative for each characteristic and include whether the characteristic is dominant or recessive. (6 points)
[An active site can be altered by a non-competitive enzyme which encircles the enzyme and alters the shape of the active site which could be very dangerous.]
There are six variant forms of an enzyme; one is normal and five are mutant. The normal enzyme has glutamine at amino acid position 150, which is on the protein surface. Each mutant form has an amino acid substitution at position 150 as indicated. Which mutant form is most likely to have an increase
The Cas9 protein is an enzyme that effectively acts as a pair of molecular ‘scissors’, cutting
What other conditions that may affect the action of enzymes? Substrates could affect the action of the
The independent variable in this investigation is pH. Each individual enzyme has it’s own pH characteristic. This is because the hydrogen and ionic bonds between –NH2 and –COOH groups of the polypeptides that make up the enzyme, fix the exact arrangement of the active site of an enzyme. It is crucial to be aware of how even small changes in the
Since the side chains are bonded to ions in solution, they are unavailable to bond with each other. This lack of bonding amongst the side chains effects the tertiary structures of the protein, changing its shape. The tertiary structure is important because for an enzyme to work, it must have a very specific shape to fit, lock and key style, onto the substrate. As the substrate and enzyme bind the shape of the substrate molecule slightly bends. This strains the bonds of the substrate, allowing them to be broken easy.
people with Cystic Fibrosis. Most of these mutations change single protein amino acids in the CFTR
Mutations that affect this cascade are thus of primary importance. There are three main genes, APP, PS1, and PS2, that when mutated alter the
A boy, named Finny, falls off of a tree at Devon Private School causing everyone to fall into depression. When asked by Finny how he fell off the tree, he said that he was not exactly sure how it happened but all he remembered was that him and Gene decided to jump off of the tree into the water, so they can start preparing for the war and so they took off their clothes and Finny started to climb the tree with Gene on his footsteps. When he reached the edge of the branch he stood and waited for Gene to get their; however, while he was looking at the water, the branch suddenly shook causing him to fall from the branch. When asked by Gene about this matter he clearly responds
The agouti gene takes control the sharing of black pigment through the creation of eumelanin, the pigment can be uniformed or shared to places on this body these include the edge of the ears, the mane, the tail, the lower legs and the nose. The agouti gene is very different and unique for many different reasons; the agouti gene is extremely different phenotypically which depends on the method of diffusion and it has different genetic material which is dependent on the zygosity.
There are three factors that will alter an enzyme: temperature, pH and salt. All three will change the structure of the enzyme by denaturation and rendering it useless when a drastic change occurs from levels that are normal. A slight alteration can speed up reaction to certain saturation or slow the process of reaction.
So if the ionic bonds are important to structural stability, then the shape of the enzyme will change which in turn affects the functionality of the enzyme. As a type of protein, enzymes are easily affected by changes in pH. At their optimum pH the shape of the enzyme is such the active site can fit perfectly with the substrate. As the pH deviates, either decrease or increase from the optimum the acid or base conditions begin to disrupt some of the loops between the loops of the protein chains. If this disruption occurs on the active site the site will become distorted and the substrate will not fit perfectly.
Reference primers (PowerUp SYBR Green Fast PCR master mix, forward primer, reverse primer and ultrapure water).