Re: [COOT] real space refinement of alpha-23 link between GAl and Sia fails

>Made 0 CHO-SS-and-other trans-peptide restraints > > It actually found the ALPHA2-3 link (but between C1 and C3? it's > strange..) and finally it didn't add any restraints. Paul, could you > please look into this? > > Best regards, > Keitaro > > On Wed,

Re: [COOT] real space refinement of alpha-23 link between GAl and Sia fails

the version of Coot, and how did you install it? > > Best regards, > Keitaro > > On Wed, 22 Nov 2023 at 19:02, Christian Roth > wrote: > > > > Hi, > > I have a sugar ligand with a Sia linked alpha 23 to Gal. Refinement with > Refmac of phenix works and the l

[COOT] real space refinement of alpha-23 link between GAl and Sia fails

Hi, I have a sugar ligand with a Sia linked alpha 23 to Gal. Refinement with Refmac of phenix works and the link is recognized from the monomer dictionary. After opening in Coot all intersugarbonds/links are shown properly. Realspace refinement works for the other bonds, but the Sia Gal bond gets b

[COOT] FLEV more than one residue

Dear all, If I FLEV a ligand to get a 2D map of the interactions, I get marvellous pictures for a small molecule ligand. However if I want to do that for a short peptide or glycan, it seems I am limited to only one residue at a time. Is there a way to select more than one residue and get a 2D repr

[COOT] Coot - 3D Anaglyph

If one does not stick to Coot, an option is pymol. There is a stereo mode for anaglyph pictures Christian

[COOT] modified Asp link to mainchain

continous, but this is definitely the case. How I have to modify my pdb that the an refeinemnt over more residues is possible? Thanks for your help Christian -- Christian Roth Institut für Bioanalytische Chemie Biotechnologisch-Biomedizinisches Zentrum Fakultät für Chemie und Mineralogie

[COOT] merge water chains

help. Christian -- Christian Roth Institut für Bioanalytische Chemie Biotechnologisch-Biomedizinisches Zentrum Fakultät für Chemie und Mineralogie Universität Leipzig Deutscher Platz 5 04103 Leipzig Telefon: +49 (0)341 97 31316 Fax: +49 (0)341 97 31319

[COOT] Coot and bonds to symmetry related molecules

some tips. Best regards Christian -- Christian Roth Institut für Bioanalytische Chemie Biotechnologisch-Biomedizinisches Zentrum Fakultät für Chemie und Mineralogie Universität Leipzig Deutscher Platz 5 04103 Leipzig Telefon: +49 (0)341 97 31316 Fax: +49 (0)341 97 31319

[COOT] Baton build mode

in advance for your help Christian -- Christian Roth Institut für Bioanalytische Chemie Biotechnologisch-Biomedizinisches Zentrum Fakultät für Chemie und Mineralogie Universität Leipzig Deutscher Platz 5 04103 Leipzig Telefon: +49 (0)341 97 31316 Fax: +49 (0)341 97 31319