Problem with T-cell Lymphoma Invasion Protein physics?

Case number:699969-989567
Opened by:BootsMcGraw
Opened on:Monday, April 18, 2011 - 03:52
Last modified:Tuesday, August 23, 2011 - 17:25

I've stumbled upon an odd development while working the T-cell Lymphoma Invasion Protein.

The loop between 9-Isoleucine and 15-Phenylalanine is acting strangely. At the end of a rebuild script, the highest scoring structure had this loop literally bent back upon itself (see figure1.png). When I tried to rebuild it manually, it stretched out to freakish proportions, and the score dropped to negative infinity. (Well, close enough.) I was too flabbergasted to get a screenshot.

When I did manage to get the loop back into a more reasonable shape, I shook the sidechains. 11-Lysine decided to then bury itself INSIDE the backbone (see figure2.png and figure3.png for before and after photos).

I call "BUG!" This protein ain't behavin'.

figure1.png24.05 KB
figure2.png31.06 KB
figure3.png31.15 KB
(Mon, 04/18/2011 - 03:52  |  5 comments)

Joined: 12/06/2008
Groups: Contenders
Type: Suggestion » Bug

Changing "Type" to "Bug".

Joined: 06/17/2010

It looks to me like ci=0 rebuild resoult, not a bug...

infjamc's picture
User offline. Last seen 6 hours 54 min ago. Offline
Joined: 02/20/2009
Groups: Contenders

Actually, it's a feature rather than a bug :-)

According to the developers' official reply ( see ), the abnormal backbone in the 9-15 loop was intentional because several residues were missing.

beta_helix's picture
User offline. Last seen 2 weeks 5 days ago. Offline
Joined: 05/09/2008
Groups: None
Status: Open » Closed

Thanks for pointing to that, infjamc... Closing feedback.

Joined: 11/10/2007
Groups: Window Group
Status: Closed » Closed

Marking as resolved.


Developed by: UW Center for Game Science, UW Institute for Protein Design, Northeastern University, Vanderbilt University Meiler Lab, UC Davis
Supported by: DARPA, NSF, NIH, HHMI, Amazon, Microsoft, Adobe, Boehringer Ingelheim, RosettaCommons