Trivial using command line. Example: - get a file from PDB:
phenix.fetch_pdb 1yjp - get all phi/psi for all residues: phenix.ramalyze 1yjp.pdb residue:score%:phi:psi:evaluation:type A 2 ASN:56.93:-60.58:141.19:Favored:General A 3 ASN:48.44:-119.25:125.15:Favored:General A 4 GLN:16.23:-126.16:112.81:Favored:General A 5 GLN:55.13:-114.98:126.76:Favored:General A 6 ASN:6.17:-116.42:97.69:Favored:General SUMMARY: 5 Favored, 0 Allowed, 0 Outlier out of 5 residues (altloc A where applicable) SUMMARY: 0.00% outliers (Goal: < 0.2%) SUMMARY: 100.00% favored (Goal: > 98%) Pavel On Fri, Mar 24, 2017 at 10:37 AM, Nigel Moriarty <nwmoria...@lbl.gov> wrote: > Alex > > It seems that nobody has answered your question. I'm not sure what you can > do in CCP4, but if I understand your question correctly, you can perform a > comprehensive validation in Phenix complete with Ramachandran plot > including clickable points relating to your residues which allow you to see > the residues in Coot. > > Happen to help further on the PHENIXBB or off-line. > > Cheers > > Nigel > > --- > Nigel W. Moriarty > Building 33R0349, Molecular Biophysics and Integrated Bioimaging > Lawrence Berkeley National Laboratory > Berkeley, CA 94720-8235 > Phone : 510-486-5709 <(510)%20486-5709> Email : nwmoria...@lbl.gov > Fax : 510-486-5909 <(510)%20486-5909> Web : CCI.LBL.gov > > On Thu, Mar 23, 2017 at 8:39 PM, Alex Lee <alexlee198...@gmail.com> wrote: > >> Dear All, >> >> Is there a tool or software which can give Ramachandran information of >> individual residues in a plot? >> >> I used Coot to check for Ramachandran plots, but it shows all the >> residues in a coordinate I put in Coot, not individual one. I also use >> "residue info" in coot, it tells Ramachandran "phi psi" angles of >> individual residue, but it does not show it in a plot, only numbers. >> >> Thanks ahead for any input. >> >> >
