Index  | Recent Threads  | Unanswered Threads  | Who's Active  | Guidelines  | Search
 

Quick Go »
No member browsing this thread
Thread Status: Active
Total posts in this thread: 3
[ Jump to Last Post ]
Post new Thread
Author
Previous Thread This topic has been viewed 1904 times and has 2 replies Next Thread
Former Member
Cruncher
Joined: May 22, 2018
Post Count: 0
Status: Offline
Reply to this Post  Reply with Quote 
TIPS AND TRICKS --- How to get info about the molecule that you are working on

The molecule file is usually located in a certain slot in Documents and Settings->All Users->Application Data->BOINC->slots->and then some number. (look for a .pdb file and some files that have wcg in their title).

There will be a pdb file in the directory, but this is not a true pdb file, it is only a soft link to a file in Documents and Settings->All Users->Application Data->BOINC->projects->www.worldcommunitygrid.org.

You will need to open this soft link in notepad and open the corresponding file in the projects directory. Then open it with any molecular viewing program (RASMOL has a command prompt where you can type "show sequence"). RASMOL is the preferred one for this demonstration, so get rasmol if you do not have it.

http://www.umass.edu/microbio/rasmol/

type "show sequence" (this is a tricky step, the command prompt for rasmol is a hidden window once you open rasmol so mouse all the way down and bring the window up from there)

copy down the amino acid letters for the three word codes you see. (twenty letters will do the trick most of the time)

Go on to BLAST sequence search in uniprot.org and type the sequence.

If there are many 100% matches, then click the one that is for the organism "Human" (if there are more than one of those then see where they are different and see which one is the molecule that you are working on)
----------------------------------------
[Edit 3 times, last edit by Former Member at Aug 1, 2010 4:58:21 AM]
[Jul 31, 2010 3:29:59 PM]   Link   Report threatening or abusive post: please login first  Go to top 
sk..
Master Cruncher
http://s17.rimg.info/ccb5d62bd3e856cc0d1df9b0ee2f7f6a.gif
Joined: Mar 22, 2007
Post Count: 2324
Status: Offline
Project Badges:
Reply to this Post  Reply with Quote 
Re: TIPS AND TRICKS --- How to get info about the molecule that you are working on

In Boinc you can click on a work unit, Properties, and double click on the Workunit name followed by Ctrl+C to copy it.
For example,

CMD2_ 0671-TPM2A.clustersOccur-2RMK_ A.clustersOccur_ 3_ 104403_

110086_ 0--

ts05_ e413_ pe0000_ 1--

HFCC_ n1_ 00103337_ n1_ 0001_ 0--

X0000033480985200406081952_ 0--

E200060_ 203_ A.18.C14H10SSeSi2.14.1.set1d06_ 0--

But I dont think you will find any HCC beaker references in the protein data bank biggrin
----------------------------------------
[Edit 1 times, last edit by skgiven at Jul 31, 2010 5:50:10 PM]
[Jul 31, 2010 5:49:22 PM]   Link   Report threatening or abusive post: please login first  Go to top 
Former Member
Cruncher
Joined: May 22, 2018
Post Count: 0
Status: Offline
Reply to this Post  Reply with Quote 
rose Re: TIPS AND TRICKS --- How to get info about the molecule that you are working on


But I dont think you will find any HCC beaker references in the protein data bank biggrin




No, but there is one JPEG-2000 file with every workunit. peace monkey alien 1 cow
[Jul 31, 2010 7:47:10 PM]   Link   Report threatening or abusive post: please login first  Go to top 
[ Jump to Last Post ]
Post new Thread