345

Question 13.6

Technically solve this task by querying PubMed: https://www.ncbi.nlm.nih.gov/

pubmed/?term=Baker-­D+AND+Nature, i.e. query: “Baker-D AND Nature”. This results

in the following articles, among others:

1. Bale JB, Gonen S, Liu Y et al. (2016) Accurate design of megadalton-scale two-­

component icosahedral protein complexes. Science. 2016 Jul 22; 353(6297):

389–394. PubMed PMID: 27463675.

2. Hsia Y, Bale JB, Gonen S et al. (2016) Design of a hyperstable 60-subunit protein

icosahedron. Nature. 2016 Jul 7; 535(7610): 136–139. PubMed PMID: 27309817;

PubMed Central PMCID: PMC4945409.

3. Boyken SE, Chen Z, Groves B et al. (2016) De novo design of protein homo-

oligomers with modular hydrogen-bond network-mediated specificity. Science.

2016 May 6; 352(6286): 680–687. https://doi.org/10.1126/science.aad8865.

Erratum in: Science. 2016 May 20; 352(6288). pii: aag1318. https://doi.

org/10.1126/science.aag1318. PubMed PMID: 27151862

4. Huang PS, Feldmeier K, Parmeggiani F et al. (2016) De novo design of a four-fold

symmetric TIM-barrel protein with atomic-level accuracy. Nat Chem Biol. 2016

Jan; 12(1): 29–34. https://doi.org/10.1038/nchembio.1966. Epub 2015 Nov 23.

PubMed PMID: 26595462; PubMed Central PMCID: PMC4684731.

5. Doyle L, Hallinan J, Bolduc J et al. (2015) Rational design of α-helical tandem

repeat proteins with closed architectures. Nature. 2015 Dec 24; 528(7583):

585–588. https://doi.org/10.1038/nature16191. Epub 2015 Dec 16. PubMed PMID:

26675735; PubMed Central PMCID: PMC4727831.

6. Brunette TJ, Parmeggiani F, Huang PS et al. (2015) Exploring the repeat protein

universe through computational protein design. Nature. 2015 Dec 24; 528(7583):

580–584. https://doi.org/10.1038/nature16162. Epub 2015 Dec 16. PubMed PMID:

26675729; PubMed Central PMCID: PMC4845728.

Now the next thing you can do is read these excellent articles as well. David Baker (and

others) have come a good step closer to protein design in recent times.

Question 13.7

(a) This is the following link: https://gosyn.bioapps.biozentrum.uni-­wuerzburg.de.

The descriptive publication can be found here: https://database.oxfordjournals.org/con­

tent/2013/bat043.full. Read the publication and/or work through the tutorial and database

on the net. With the database you can actually do synthetic biology design yourself and

compare technical and biological control.

20.13  Life Always Invents New Levels of Language