Re: [ccp4bb] DNA RNA annealing problem

2015-07-08 Thread Craig Bingman
The concentration of oligonucleotide seems much lower than you will ultimately need for biophysical work. Annealing two strands is a bimolecular reaction and it will be driven by mass action more to completion at higher total oligonucleotide concentrations. I also agree with the posts that hav

Re: [ccp4bb] Aimless and multiple crystals

2014-05-08 Thread Craig Bingman
How close are the cell constants? On May 8, 2014, at 12:17 PM, Katherine Sippel wrote: > I forgot to mention the space group is P1. Sorry about that. > > Thanks, > Katherine > > > On Thu, May 8, 2014 at 12:02 PM, Katherine Sippel > wrote: > Hi all, > > I have two nice, but a hair under-co

Re: [ccp4bb] Space group problem

2014-05-07 Thread Craig Bingman
It is definitely P6 or P3 with a twinning about the unique axis. The differences in merging statistics between P2 P3 and P6 are not very significant in my opinion. On May 7, 2014, at 1:16 PM, wrote: > additional info: > If I let xds go through, it will choose P6. actually pointless suggest

Re: [ccp4bb] Refmac bond restraints across special positions?

2014-03-12 Thread Craig Bingman
I haven’t tried this in a long time, but in the old days, we would have simply refined one strand. On Mar 12, 2014, at 4:05 PM, Oleg Tsodikov wrote: > Colleagues, > > We have determined a structure of a palindromic DNA molecule, in which one > half of the DNA is in the asymmetric unit. Is the

Re: [ccp4bb] vitrification vs freezing

2012-11-16 Thread Craig Bingman
On Nov 16, 2012, at 12:26 PM, Ronald E Stenkamp wrote: > I'm a little confused. Petsko and others were doing > low-temperature/freezing/vitrification crystal experiments in the 1970s, > right? (J. Mol. Biol., 96(3) 381, 1975). Is there a big difference between > what they were doing and what

Re: [ccp4bb] vitrification vs freezing

2012-11-15 Thread Craig Bingman
"cryopreserved" It says that the crystals were transferred to cryogenic temperatures in an attempt to increase their lifetime in the beam, and avoids all of the other problems with all of the other language described. I was really trying to stay out of this, because I understand what eve

Re: [ccp4bb] cryo for high salt crystal

2012-07-10 Thread Craig Bingman
You can sometimes cryoprotect crystals like this with the Mitegen low viscosity cryo oil and their micro mount loops. If that doesn't work, then you can gradually raise the concentration of sucrose or ethylene glycol so that your crystals freeze well. I don't think it should take anything like

Re: [ccp4bb] Substituting zero vs. Fc for unobserved reflections

2012-03-27 Thread Craig Bingman
I would be concerned about the completeness of the data if adding Fcalc values has such a large effect on the appearance of this electron density.

Re: crystal friendly solvents that are useful for dissolving hydrophobic small molecules?

2007-01-22 Thread Craig Bingman
On Monday 22 January 2007 04:57 pm, Maneesh Yadav wrote: > I've noticed that the iodobenzene does largely disappear overnight (in > hanging drop), I don't know if this is because of evaporation or the > iodobenzene just "falls" into the reservoir. Maybe stick to sitting drop. Or it partitions thro

Re: crystal friendly solvents that are useful for dissolving hydrophobic small molecules?

2007-01-22 Thread Craig Bingman
Do you mean N,N-dimethylformamide, aka dimethylformamide, aka DMF, or do I need a chemistry lesson? On Monday 22 January 2007 02:49 pm, Parthasarathy, Gopalakrishnan wrote: > Hi Todd, > DMF (Dimethyl Fluoride) is a good alternative to DMSO. > > Sarathy -- Craig A. Bingman, Ph.D. Center for