2415: Electron Density Reconstruction 77

Closed since about 2 years ago

Summary

• Created: February 01, 2024
• Expires: February 15, 2024 at 18:00 UTC
• Max points: 100

Description

The structure of this protein has already been solved and published, but close inspection suggests that there are some problems with the published solution. We'd like to see if Foldit players can use the same electron density data to reconstruct a better model. It's a monomer, but not every segment may be visible. Also, if you're wondering if this is an example of a complete, well-folded globular protein like we tend to encourage Foldit players to go for, it's not. It's a part of a fibrous structural protein, and so on its own it might look a bit funny, but it's still helpful for understanding the function of the protein to improve the modeling.

• Sequence: LAAKEAKLRDLEDSLARERDTSRRLLAEKEREMAEMRARMQQQLDEYQELLDIKLALDMEIHAYRKLLEGEEER

Top groups

• 1. Anthropic Dreams 100 pts. 15,884
• 2. Go Science 63 pts. 15,880
• 3. L'Alliance Francophone 37 pts. 15,865
• 4. Contenders 21 pts. 15,865
• 5. Marvin's bunch 11 pts. 15,861
• 6. FamilyBarmettler 5 pts. 15,849
• 7. Australia 2 pts. 15,825
• 8. VeFold 1 pt. 15,666
• 9. BOINC@Poland 1 pt. 15,597
• 10. Rechenkraft.net 1 pt. 15,540

Top evolvers

• 1. Galaxie 100 pts. 15,884
• 2. LociOiling 52 pts. 15,882
• 3. alcor29 24 pts. 15,853
• 4. MicElephant 10 pts. 15,852
• 5. gmn 4 pts. 15,847
• 6. Oransche 1 pt. 15,833
• 7. Bletchley Park 1 pt. 15,830
• 8. Bruno Kestemont 1 pt. 15,819
• 9. maithra 1 pt. 15,811

Comments

[Sandrix72]

Was not given this protein us not too much time ago?

[horowsah]

Some of the reconstruction puzzles are on very similar proteins, sometimes on proteins that are the same but one is mutated for various reasons, and sometimes even the same protein. There are certain proteins that are thought of as "test" proteins for crystallography methods, and so they and variants of them are over-represented in the PDB. That said, some of those structures are still in need of major improvement. One might think that's silly, since it seems that the authors could have used the older structures as guides. In some cases, that's a perfectly valid criticism, but in other cases they specifically want to blind themselves to test their new methods, and sometimes that doesn't turn out so well. These days, the PDB wouldn't be happy about having such structures deposited, since it will muck up the structure quality of the PDB for others to use, but it used to be perfectly fine, and it's still possible to do it even today.