Sent: 05 April 2022 14:47
To: CCP4BB@jiscmail.ac.uk
Cc: David Briggs
Subject: Re: [ccp4bb] Has anyone successfully used RoseTTAFold or AF2 to guide
crystallization?
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Hi David,
do you think that alphafold2 dis/order prediction is better than specific
disorder predic
> Signalling and Structural Biology Lab
> The Francis Crick Institute
> London, UK
> ==
> about.me/david_briggs
> From: CCP4 bulletin board on behalf of Scott Classen
>
> Sent: Monday, April 4, 2022 8:06:38 PM
> To: CCP4BB@JISCMAIL.AC.UK
> Subject: [ccp4bb] Has anyo
I would say that in a small survey (~5-6) of bacterial enzymes from our lab,
AlphaFold2 predicted exactly the constructs that were discovered by limited
proteolysis and/or sequence alignment for currently unpublished structures.
It’s a useful tool but I’ve also had two cases where it
Subject: [ccp4bb] Has anyone successfully used RoseTTAFold or AF2 to guide
crystallization?
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Hello CCP4,
Has anyone successfully used the available ML/AI protein folding tools to guide
crystallization construct design? Maybe you had a protein or domain
It may also be useful to look at homologues of the protein of interest, as
sometimes Alphafold shows very different domain arrangements despite close
sequence similarity.
John
On Mon, Apr 4, 2022 at 3:17 PM Andrew Lovering
wrote:
> Hi Scott
> We have obtained a structure of a flexible
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From: CCP4 bulletin board On Behalf Of Scott Classen
Sent: Monday, April 4, 2022 3:07 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] Has anyone successfully used RoseTTAFold or AF2 to guid
The PROSS (Protein Repair One-Stop Shop) at:
https://pross.weizmann.ac.il/step/pross-terms
was used to both express and be able to crystallize human acetylcholinesterase
in E. coli, which prior to using PROSS had been impossible.
See paper:
Goldenzweig, A., Goldsmith, M., Hill, S. E., Gertman,
Hi Scott
We have obtained a structure of a flexible clamshell like fold only after using
a disulphide mutant to lock the domains based on a Rosetta Fold model.
Interestingly, Alphafold put the very same residues further apart (probably a
relevant "open" pose)
Andy
Hello CCP4,
Has anyone successfully used the available ML/AI protein folding tools to guide
crystallization construct design? Maybe you had a protein or domain that was
resistant to crystallization efforts and the folding algorithms predicted some
loops or termini that were disordered? Then
