Tag Archives: Protein

Commentary

Book review of “The Cell’s Design” by Fazale Rana

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J.W. Wartick reviews “The Cell’s Design” by biochemist Fazale Rana.

Excerpt:

The first line of evidence comes from the machines in the cell. Again, Rana’s approach is analogical, rather than negative. The machine-like nature of the flagellum, along with other motor-like cellular functions presents an argument: “Organisms display design. Therefore, organisms are the product of a creator” (86).

The case doesn’t rest merely upon molecular machines. Rather, that is but one of the many lines of evidence. Rana draws out the implications of several “chicken-and-egg” paradoxes. These include the “mutual interdependence of DNA and proteins” (99), the origin of proteins themselves (100ff), and more (105ff). These systems present a kind of “irreducible complexity in which the system depends on the system to exist” (108).

Other elements of design are present in the cell as well. Aquaporins intricate and detailed workings illustrate the design that is present in the system (111ff). Other detailed, intricate designs (such as collagen, mRNA, and the breakdown of proteins) hint at the need for a designer. But the reasoning is not only supported by the details, it is also bolstered by the structural composition of the cell (126ff). The analogy of cells to machines is strengthened further by the quality control systems within the cell (198ff). Again, the reasoning is analogical–these things are designed, therefore they need a designer.

“Information can’t be separated from the activity of an intelligent agent” (142). The numerous examples of information in the cell lead to the inference of an agent. But it is not only the information’s presence that hints at a designer. Here Rana’s case really builds on and develops the work of other ID theorists. The information alone could be enough to infer an agent, but one must also account for the fact that cellular information follows rules like syntax, semantics, and pragmatics (144ff). It is not merely information, it is the use of that information and the rules governing that use that strengthen the case for an agent behind the information.

It never hurts to know a lot about cosmology and biochemistry, those seem to be the best areas for offensive science apologetics.

I have this book and a later book by Rana called “Creating Life in the Lab” sitting on my ironing board (which is where I put all my to-read books) . Maybe it’s time for me to start reading those and posting book reviews.

Videos

Video shows how DNA information directs protein synthesis

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SOMEONE didn’t like my post on the UK income-splitting , so I’m posting this video instead.

Please don’t link to the income-splitting post!

Commentary

Protein binding: by chance or intelligent design?

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Dr. Fazale Rana has this interesting post up on protein binding at Reasons to Believe.

Excerpt:

Nobody likes getting the flu. In fact, the influenza virus represents a serious health challenge. For most people it causes a few days of misery, but tragically for others, it takes their lives.

Biomedical researchers are looking for ways to develop therapies against the strains of the influenza virus that avoid destruction by the immune system or fail to respond to antiviral drugs. Recently scientists from the University of Washington and The Scripps Institute made progress toward this end. They designed novel proteins from scratch that bind to the stem region of hemagglutinin, a viral protein that plays a central role in the infection process.1 The hope is that the new proteins will have therapeutic use and also help with diagnosis.

This advance has obvious biomedical importance. It also contributes toward understanding the fundamental nature of protein-protein interactions (PPIs), and with this insight comes powerful new evidence that life stems from a Creator.

Often, in order to carry out their function, proteins must interact and bind in a highly specific manner with other proteins. These PPIs are selective. If the wrong proteins bind to each other, the interaction is of no use to the cell.

A large and varied population of proteins crowds the cell’s interior. Even the simplest bacterium harbors several thousand different types of proteins, along with numerous copies of the other biomolecules inside it. The jam-packed environment complicates things. Proteins are more likely to encounter the “wrong” partners than the ones they are designed to interact with.

Biochemists are currently working to understand the specificity of PPIs and how proteins avoid unintended interactions. As it turns out, protein surfaces are carefully structured to allow strong interactions between protein pairs while minimizing the strength of the unwanted interactions. Recent work by Harvard scientists indicates that the concentration of PPI-participating proteins in the cell is also designed carefully.

In other words, protein structure and concentrations have to be precisely regulated to promote the PPIs critical for life.

The rest of the article talks about all the intricate and cutting-edge engineering and computation done by the scientists to create a situation where the proteins could bind, and then ends with this:

When considering this study, it is remarkable to note how much effort it took to design a protein that binds to a specific location on the hemagglutinin molecule. As biochemists Bryan Der and Brian Kuhlman point out while commenting on this work, the design of these proteins required:

…cutting-edge software developed by ~20 groups worldwide and 100,000 hours of highly parallel computing time. It also involved using a technique known as yeast display to screen candidate proteins and select those with high binding affinities, as well as x-ray crystallography to validate designs.2

If it takes this much work and intellectual input to create a single protein from scratch, is it really reasonable to think that undirected evolutionary processes could accomplish this task routinely?

If you have to involve human intelligence to this degree, then I think that the best explanation is intelligent design.