 |
 |
Dear Rangana, Thank you for the novel approach! I'll try to install the EMDA first. Best wishes, Si Hoon ᐧ On Tue, Jun 28, 2022 at 6:26 PM Rangana Warshamanage - MRC LMB < [log in to unmask]> wrote: > Hi Si Hoon Park, > > Also, you can use EMDA for fitting a map into map or a model into a map > using overlay command > > https://emda.readthedocs.io/en/latest/rst/emda_cmd_caller.html#overlay > > E.g. > $ emda overlay --map your.map your.pdb --modelres 25.0 > > This will fit your model into your map and will print you the average > correlation per iteration. > > Overlay works if your initial configurations are close. I believe your > manually fitted model should be close enough. > If you would like to know the algorithm, here it is > https://www.sciencedirect.com/science/article/pii/S1047847721001313 > > Hope that helps. > > Rangana > > > On 28 Jun 2022, at 09:03, Si Hoon Park <[log in to unmask]> wrote: > > Dear CCPEM community, > Thank you for all your efforts in the field of structural biology. > I would like to ask you about how to fit the model into a low resolution > map. > I've got an electron density map of the protein oligomer on the lipid > bilayer at ~25 A resolution. > Although the resolution was low, the shape of both proteins and lipid > bilayer were distinct in plain sight. Therefore, I was able to fit the > model into the map manually. Is there a way to calculate the correlation > coefficient between the model and map? Or, Could I fit the model into the > low resolution map automatically? > > Sincerely, > Si Hoon Park > > ######################################################################## > > To unsubscribe from the CCPEM list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCPEM&A=1 > > This message was issued to members of www.jiscmail.ac.uk/CCPEM, a mailing > list hosted by www.jiscmail.ac.uk, terms & conditions are available at > https://www.jiscmail.ac.uk/policyandsecurity/ > > > ######################################################################## To unsubscribe from the CCPEM list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCPEM&A=1 This message was issued to members of www.jiscmail.ac.uk/CCPEM, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/