Re: [ccp4bb] Why Does Cross-linking Mean Anything?

2011-09-16 Thread R. M. Garavito
Jacob, One of the problems with glutaraldehyde is the its chemistry is so bizarre. It actually forms quite long transient polymers in solution. You also have to ask yourself why formaldehyde also "fixes" tissues. This is why glutaraldehyde works so well for tissue fixation for EM as op

Re: [ccp4bb] Why Does Cross-linking Mean Anything?

2011-09-15 Thread Herwig Schuler
Dear Jacob, agree, it's a mess. From what I read, the glutataldehyde concentration should be low (<0.01%) and the x-linked complex that you get should not occur in high salt conditions (reasoning that 1.2M KCl would break the average complex apart). Have seen papers where more selective zero le

Re: [ccp4bb] Why Does Cross-linking Mean Anything?

2011-09-15 Thread Jacob Keller
>> Maybe one should do a gradient of >> gluteraldehyde concentrations, then plot the deviation of the observed >> cross-linked oligomerization from a theoretical null hypothesis? > > Right - just do it side-by-side with a protein known to be monomeric of > roughly the same size/lysine content...  A

Re: [ccp4bb] Why Does Cross-linking Mean Anything?

2011-09-15 Thread Ed Pozharski
On Thu, 2011-09-15 at 15:10 -0500, Jacob Keller wrote: > Maybe one should do a gradient of > gluteraldehyde concentrations, then plot the deviation of the observed > cross-linked oligomerization from a theoretical null hypothesis? Right - just do it side-by-side with a protein known to be monomer

[ccp4bb] Why Does Cross-linking Mean Anything?

2011-09-15 Thread Jacob Keller
Dear Crystallographers and Biochemists, cross-linking, say with gluteraldehyde, is an oft-used method of demonstrating a protein's oligomeric state in solution. I have a difficulty with this, however: theoretically (and in practice!), one can tune the amount of cross-linker to get what ever result