age-
> From: CCP4 bulletin board On Behalf Of
> Munoz.Ines
> Sent: Thursday, April 7, 2022 10:36
> To: CCP4BB@JISCMAIL.AC.UK
> Subject: Re: [ccp4bb] Add secondary structure definition into an alphafold PDB
>
> Harry, you are right! It was the first program that I used but as
Thanks Paul, I´ll give it a try
Best
Inés
> El 7 abr 2022, a las 10:33, Paul Emsley escribió:
>
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> On 07/04/2022
Harry, you are right! It was the first program that I used but as long as I
have seen it gives you the info regarding the amino acids that form those areas
but then you have to include this info into your pdb manually.
Best
Inés
> El 7 abr 2022, a las 10:29, Harry Powell - CCP4BB
>
On 07/04/2022 09:24, Munoz.Ines wrote:
Dear all,
Is there any program or server that automatically assign the secondary
structure elements into a pdb generated by alpha fold?
If you are using Coot, you can use
Calculate -> Scripting -> Python
add_header_secondary_structure_info(imol)
Also, of course, you could get the up-to-date version from -
https://swift.cmbi.umcn.nl/gv/dssp/
Harry
> On 7 Apr 2022, at 09:29, Harry Powell - CCP4BB
> wrote:
>
> Hi Ines
>
> DSSP? (In ccp4 as “mkdssp” in $CBIN)? Should work with any (valid??) PDB file
>
> “Oldie but goodie”...
Hi Ines
DSSP? (In ccp4 as “mkdssp” in $CBIN)? Should work with any (valid??) PDB file
“Oldie but goodie”...
Harry
> On 7 Apr 2022, at 09:24, Munoz.Ines wrote:
>
> Dear all,
>
> Is there any program or server that automatically assign the secondary
> structure elements into a pdb generated
Dear all,
Is there any program or server that automatically assign the secondary
structure elements into a pdb generated by alpha fold?
Many thanks
Inés
Inés G. Muñoz
Head of Crystallography and Protein Engineering Unit
Spanish National Cancer Research Centre, CNIO
