Re: [ccp4bb] How to define the DNA bond between P and O3’ from two different symmetric units?

2018-01-30 Thread Edward A. Berry
Dear Peng, The choice of asymmetric unit is somewhat arbitrary. Please forgive me and ignore this if I am saying something obvious and you already know this does not apply in your case, but I see most of your previous posts concern EM structures, so perhaps you are relatively new to solving

Re: [ccp4bb] How to define the DNA bond between P and O3’ from two different symmetric units?

2018-01-30 Thread Peng
Dear Nicolas, Thank you for your help. Our DNA is not a palindromic sequence, and I think it should not be degraded easily. The data can be processed in the space groups C2221, P41212 or lower, with 12bp, 6bp ,24bp or longer in one NCS. I can see the connection between two symmetric DNA

Re: [ccp4bb] How to define the DNA bond between P and O3’ from two different symmetric units?

2018-01-30 Thread Nicolas FOOS
Dear Peng, to me your problem sound a bit strange, except if it's a palindromic sequence. I don't understand how you can have one part of the DNA in one asymmetric unit and one in another one. My question are : maybe you considering a NCS as a true symmetry and underestimate the unit-cell

[ccp4bb] How to define the DNA bond between P and O3’ from two different symmetric units?

2018-01-29 Thread Peng
Hello, everyone, Recently, we solve a protein-DNA complex. 20bp-DNA was used for crystallization, but only 6bp was found in one symmetric unit. My question is: How to define the DNA bond between P and O3’ from two different symmetric units during my refinement? Peng