Hi,
not sure if it was so wise to send pdb & mtz file into the free wild
world. Hope you don't have neck to neck competition on your project.
I have attached you a file, where you still need to work on, but it
looks very promising.
Now what did I do ?
1. open coords in coot
2. goto the menu Draw / Cell Symmetry
3. select the Yes button for Master Switch blabla
4. click on Symmetry by Molecule, select Display as CA's (makes it
easier to see what you want)
5. change the radius to e.g. 20 or 30 A
6. click OK or Apply
Now you will see some grey symmetry molecules and your stretch of grey
backbone which you want to have closer to your molecules can be selected
by clicking on it with the middle mouse button
Then go to File / Save Symmetry Coordinates and click on the grey
backbone of one of the stretches which is closer to e.g.molecule A,
repeat this for molecule B
Now you can either manually delete those chains you don't want e.g. in
an editor of your choice and read in your molecule A & B missing the
chains in space, read in the new stretches and then go to Calculate /
Merge Molecules.
You will then end up with the file I attached.
If you have further questions feel free to ask, however I would
recommend not to send your data into the world wild web.
Good luck with your structure and congratulations !
Juergen
bc_panlf wrote:
>Hi all:
>I am a beginner for protein crystallography. After I used Arp/wrap to
>build a model structure from molecular replacement, one part of the output
>model structure is very strange, the first beta strand is isolated and not
>fit to the other part. someone tell me coot can do this ,somehow
>symmetrically translate. but i don't know how.can anyone tell me how to
>fix this problem?
>i post the pdb and mtz file in the attachment.
> Thank you very much !!
>
>
--
Jščrgen Bosch
University of Washington
Dept. of Biochemistry, K-426
1705 NE Pacific Street
Seattle, WA 98195
Box 357742
Phone: +1-206-616-4510
FAX: +1-206-685-7002
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