Hi Medhanjali, In Coot, there are two additional options for "automated" correction of Ramachandran outliers. You can find them under "Calculate".
For the entire structure in the "Calculate->all molecule" tab, select Refine/Improve Ramachandran Plot. For a specific region, you can use the "Calculate->fit loop->fit loop by rama search". These will attempt to fit to the Ramachandran plot but may still revert during subsequent refinement. Hope this helps. Best, Nick Clark On Fri, Mar 3, 2023 at 11:24 AM Medhanjali DasGupta < medhanjalidasgu...@gmail.com> wrote: > Hello all! > > Is there an easy way to fix the backbone angles in a protein structure to > fix the Ramachandran outliers in said structure? > > Coot has the "Edit backbone torsions" option but wondering if there's any > other tools available in coot or elsewhere? > > Thanks > Medhanjali Dasgupta > > ------------------------------ > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 > <https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.jiscmail.ac.uk%2Fcgi-bin%2FWA-JISC.exe%3FSUBED1%3DCCP4BB%26A%3D1&data=05%7C01%7Cndclark2%40g-mail.buffalo.edu%7C0c5dd5d3f0a54e2f586708db1c03c1f0%7C96464a8af8ed40b199e25f6b50a20250%7C0%7C0%7C638134574691699402%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C3000%7C%7C%7C&sdata=%2F7YAE6U9TmISVU0wejfzs0au9jHB56b8WNRQQxvjP%2BQ%3D&reserved=0> > -- Nicholas D. Clark (He/Him) PhD Candidate Malkowski Lab University at Buffalo Department of Structural Biology Jacob's School of Medicine & Biomedical Sciences 955 Main Street, RM 5130 Buffalo, NY 14203 Cell: 716-830-1908 ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
