Usually you can bully coot into doing it but by bit. Say you need to
renumber A 1-8. I often have to change the chain id to Z say then renumber
Z. And so on . Then go back once you have finished and reset chain id fir
Z1-8 to A. Tedious but possible!
Or just run a few cycles of buccaneer with your
Dear Mark,
Thanks for the clarification.
Regards
Kavya
On 2023-02-05 04:02, Mark J. van Raaij wrote:
> PS it's probably not a salt crystal...TCEP is not a salt, your ligand I
> presume is also not a salt, a small cleaved peptide neither. As to why
> previously in a very similar conditi
PS it’s probably not a salt crystal…TCEP is not a salt, your ligand I presume
is also not a salt, a small cleaved peptide neither. As to why previously in a
very similar condition you did get your desired protein plus (other) ligand
crystal, it just means the molecule (TCEP') crystallises in a s
the unit cell in the c direction is quite long, 49 Å, this gives the relatively
close spots in one direction.
Mark J van Raaij
Dpto de Estructura de Macromoleculas, lab 20B
Centro Nacional de Biotecnologia - CSIC
calle Darwin 3
E-28049 Madrid, Spain
tel. +34 91 585 4616 (internal 432092)
Section
Hi all,
I have been refining a structure and somehow along the way the residue numbers
have completely shifted. For instance, the first section of residues are
shifted by say 8 numbers, then there is a gap from where the resnumbers go from
121, 151, 152, 153...and so on. Its quite the mess.
Dear all,
Sorry for the confusion created, I did not mean that a protein would
have fit in the small unit cell. My question was -
1. Why are there closely spaced spots arising in salt crystal?
2. If TCEP could crystallize in the condition, I have got a protein
(same as this)+ligand (differen
Dear Mark,
I did think it was salt, so I checked the same batch of protein which
went for crystallization by running a gel, it was intact, no cleavage.
My doubts arose because of two things
1. I crystallized the same protein with another ligand, in very similar
condition (10% PEG3350, 50mM Zn
Hi Jessica,
I am quite sure the protein cannot be fit in this unitcell. I was just
curious why the diffraction has closely spaced spots.
Thanks
On 2023-02-04 00:02, Jessica Bruhn wrote:
> Hi Kavya,
>
> As others have mentioned, the unit cell is too small to contain your protein.
> With
Dear Thomas,
Interestingly, I had crystallized the same protein with another ligand
before with the same condition except that it had sodium citrate in
addition. I was able to collect the data for this and it was a
protein-ligand complex, which could be seen in the density. So I was
speculating
