[Chimera-users] Removing specific water molecules

[Marco Sette]

Dear Francesca,


pdb files are text files.

You can open it with a text editor (not word) and remove the lines 
corresponding to the water molecules. Then save and open in Chimera.


Best

Marco


Il 10/06/2021 16:47, Francesca Magarotto - francesca.magarotto2--- via 
Chimera-users ha scritto:
> Hi,
> I have a problem using Chimera: I need to delete specific water 
> molecules with a specific residue number, but this number is in common 
> with residues that are useful (such as ligands or co-factors).
> For example, I type "del :546-893" in the command line in order to 
> delete these water molecules, but I delete also the ligand and FAD and 
> I don't want to.
> I've read the guide about atom specification, but still I don't know 
> how to do it.
> Hope someone can help me,
> thank you.
> Francesca
>
> _______________________________________________
> Chimera-users mailing list: Chimera-users at cgl.ucsf.edu
> Manage subscription: https://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users

-- 
Dr.Marco Sette, Ph.D.
Department of Chemical Sciences and Technology
University of Rome, "Tor Vergata"
via della Ricerca Scientifica, 00133, Rome, Italy
e-mail: sette at uniroma2.it
e-mail: m77it at yahoo.it
Tel.: +39-0672594424
Fax: +39-0672594328
http://stc.uniroma2.it/?page_id=622&cn-entry-slug=marco-sette


Ai sensi del Regolamento (UE) 2016/679 e dei principi contenuti nelle linee guida del Garante per posta elettronica e interne (artt. 2 e 15 Cost.; Corte cost. 17 luglio 1998, n. 281 e 11 marzo 1993, n. 81; art. 49 Codice dell’amministrazione digitale) si precisa che le informazioni contenute in questo messaggio -come pure i dati esteriori delle comunicazioni e i file allegati- sono riservate e ad uso esclusivo del destinatario. Divulgazione, copia, stampa o qualunque altro uso da parte di altri non è autorizzato. Qualora il messaggio in parola Le fosse pervenuto per errore, La preghiamo di eliminarlo senza copiarlo e di non inoltrarlo a terzi, dandocene gentilmente comunicazione al seguente indirizzo e-mail privacy at uniroma2.it.

On the basis of “(UE) Rules 2016/679 and the codes in general guidelines of Garante for electronic and internal mail (artt. 2 e 15 Cost.; Corte cost. 17 luglio 1998, n. 281 e 11 marzo 1993, n. 81; art. 49 Codice dell’amministrazione digitale) information here contained and any attachments is confidential and intended for the recipient(s) only. Dissemination, copying, printing or use by anybody else is unauthorized. If you are not the intended recipient, please delete this message and any attachments and advise the sender by return e-mail to privacy at uniroma2.it.

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://plato.cgl.ucsf.edu/pipermail/chimera-users/attachments/20210610/54f66283/attachment.html>