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New insight into protein structures that could treat Huntington’s disease

11 February 2021
Simple Science Summary
Our cells have specialized waste disposal systems to keep our body free from clumps of defective proteins. To fight diseases like Huntington’s, where protein clumps damage and ultimately kill brain cells, it is necessary to know how these disposal systems – which are themselves made up of proteins – work. Scientists studied a disposal system that protects against clumps like those in Huntington’s disease. As these disposal proteins themselves also form ‘good’ clumps, it was difficult to discover their exact structure. Using special techniques, the scientists discovered that, under normal circumstances, two regions of these proteins are folded onto themselves. However, when they encounter the clumps, these two parts release each other and are then free to attach to another protein that dissolves the clumps. In the distant future, this insight may lead to drugs that stimulate the prevention of these harmful protein clumps.

In Huntington’s disease, a faulty protein aggregates in brain cells and eventually kills them. Such protein aggregates could, in principle, be prevented with a heat shock protein. However, it is not well known how these proteins interact with the Huntington’s disease protein. New research by Patrick van der Wel (University of Groningen, the Netherlands) and colleagues at the University of Texas has partially resolved the structure of heat shock proteins that bind to such aggregating proteins, helping us to understand how they work. The results were published on 11 February in the journal Nature Communications.

Heat shock proteins (Hsp) are produced by cells that are exposed to stressful conditions. The Hsp family is diverse, and quite a few of the proteins function as chaperone. This means that they help other proteins to fold (or re-fold after being damaged) in the correct way. “These proteins can assist in folding thousands of different proteins. To this end, they use co-chaperones with specific binding abilities,” explains Patrick van der Wel, Associate Professor of Solid State NMR Spectroscopy at the University of Groningen.

Patrick van der Wel | Photo Sylvia Germes
Patrick van der Wel | Photo Sylvia Germes

Ordered

One class of heat shock proteins, Hsp40, helps to suppress protein aggregates like those that appear in Huntington’s disease. These Hsp40 proteins come in different kinds, and some of them will bind specifically to aggregating proteins with a lot of repeated glutamine amino acids, like the faulty protein found in Huntington’s disease. One of these Hsp40 proteins is called DnaJB8, and this was the protein studied by Van der Wel and his colleagues.

“In order to understand the action of DnaJB8, we need to know what it looks like,” says Van der Wel. However, it is difficult to resolve the structure of this type of protein. “It appears as a dimer or an oligomer, so a number of these protein units work together, but their structure is not really ordered,” he continues. This makes it impossible to use standard techniques, which all require ordered structures.

Carbon atoms

Van der Wel was asked by colleagues at the University of Texas to help tackle this problem. Van der Wel is specialized in solid state NMR spectroscopy, a technology that can measure how atoms are connected to each other. In simple terms, the NMR signals of two connected carbon atoms in DnaJB8 depend on how they interact with other atoms in the molecule. Therefore, the measured spectrum of the carbon atoms can show in which amino acid they are located. Such information can be used to get an idea of the protein’s structure, even if it is not well ordered.

Solid-state NMR spectroscopy (top right) highlights how DnaJB8 chaperone protein blocks itself. In the displayed NMR data each signal comes from an amino acid in a key part of the chaperone protein: its J-domain. Based on the shape and steepness of the contour lines, we know that this domain is trapped by the chaperone itself, keeping it from doing its job. Fortunately it is also shown how this inactivated state can be disrupted, revealing an intricate orchestration in how chaperone proteins work together to fight and prevent diseases such as Huntington’s disease.
Solid-state NMR spectroscopy (top right) highlights how DnaJB8 chaperone protein blocks itself. In the displayed NMR data each signal comes from an amino acid in a key part of the chaperone protein: its J-domain. Based on the shape and steepness of the contour lines, we know that this domain is trapped by the chaperone itself, keeping it from doing its job. Fortunately it is also shown how this inactivated state can be disrupted, revealing an intricate orchestration in how chaperone proteins work together to fight and prevent diseases such as Huntington’s disease.

The DnaJB8 protein is made up of different domains, with different functions. Through a series of experiments, Van der Wel was able to determine which domains are stuck inside the DnaJB8 protein, and which are available on the outside. The experiments suggested that the so-called ‘J domain’ of DnaJB8 was able to switch between being stuck and being accessible. This is important because this part of the DnaJB8 protein is responsible for turning on the Hsp70 protein, which can prevent the protein aggregates from forming. In other words, there seems to be a ‘switch’ in DnaJB8 that controls this interaction with Hsp70. Interestingly, this switch was found to be located in a domain of DnaJB8 whose exact role was previously unclear.

Hypothesis

“Thus, our hypothesis based on the structure was that the DnaJB8 is inactive until it binds to the faulty proteins, and that it then attracts Hsp70,” says Van der Wel. A series of simulations and experiments at the University of Texas confirmed this idea and yielded a detailed model of how these proteins work together.

DnaJB8 is a protein that is mainly found in the testes. However, a very similar protein called DnaJB6 is present in the brain, where Huntington’s disease strikes. It seems more than likely that this protein acts similarly, when it protects against glutamine-rich proteins that aggregate in the brain cells of patients. “It may take many more years, but now that we understand how this process works, it could help us to find a way to enhance the activity of DnaJB6, which could reduce the protein aggregates that cause the disease,” concludes Van der Wel.

Reference: Bryan D. Ryder, Irina Matlahov, Sofia Bali, Jaime Vaquer-Alicea, Patrick C. A. van der Wel, & Lukasz A. Joachimiak: Regulatory inter-domain interactions influence Hsp70 recruitment to the DnaJB8 chaperone. Nature Communications, 11 February 2021

Last modified:12 February 2021 2.53 p.m.
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