Re: [PyMOL] Secondary Structure Matching

[Hugo G. de T. <hug...@us...>]

I normally use this command with that purpose:
align obj1&(ss h)&name ca, obj2&(ss h)&name ca

That is, obj2 is structurally aligned onto obj1 on the basis the CA
trace on the regions where secondary structure matches alfa helix (ss h)

Hugo

Kerff Frédéric wrote:
> Hello,
>
> Is there a way to perform secondary structure matching with Pymol. I
> already tried the align function with different selections without any
> success but the 2 proteins obviously share the same fold with low sequence
> identity.
> I know it can be done in other software like Coot but I'd like to avoid
> having to switch from one program to another all the time.
> Thank you.
>
> Fred
>
>
>   


-- 
Hugo G. de Teran, PhD.
"Parga Pondal" Research fellow
Fundación Pública Galega de Medicina Xenómica - SERGAS
Santiago de Compostela (SPAIN) 

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e-mail:hug...@us...       http://web.usc.es/~hugogdt