Re: [ccp4bb] Pseudo translational symmetry Problem or Wrong Spacegroup

2012-12-07 Thread Edward A. Berry
Does this mean that, when placing the first (or only) copy of a model, the score will not be elevated by presence of tNCS (Unless the model contains domains separated by more or less exactly the distance of the tNCS vector)? (In general, using a generic MR program that does not correct for TNS.) S

Re: [ccp4bb] Pseudo translational symmetry Problem or Wrong Spacegroup

2012-12-07 Thread Randy Read
Dear Yurong, I just wanted to check that you're using an up-to-date version of Phaser, which will account for the presence of translational NCS (tNCS). With older versions of Phaser, you could get apparent solutions that were incorrect but would give a high LLG just because they satisfied the

Re: [ccp4bb] Pseudo translational symmetry Problem or Wrong Spacegroup

2012-12-03 Thread Herman . Schreuder
Dear Yurong, your approach to individually refine each potential solution is correct. I do not know how things are implemented in phenix.refine, but the first thing to check is that your are using the correct space group as obtained from the MR program. Some refinement programs use the space g

Re: [ccp4bb] pseudo translational symmetry

2012-08-03 Thread Eleanor Dodson
Brilliant illustration - even in 3D! eleanor On 3 Aug 2012, at 14:01, Laurie Betts wrote: > I couldn't resist this shot. It might not make the cut.but > >

Re: [ccp4bb] pseudo translational symmetry

2012-08-03 Thread D Bonsor
"Some people might squawk at 2MB attachments on a BB..." Surely that is bark :)

Re: [ccp4bb] pseudo translational symmetry

2012-08-03 Thread David Schuller
One way to address this would be to provide a link to the image on the web, rather than including it as an attachment. On 08/03/12 14:04, Francis E Reyes wrote: Some people might squawk at 2MB attachments on a BB... But that made my day.. Thanks! On Aug 3, 2012, at 6:01 AM, Laurie Betts w

Re: [ccp4bb] pseudo translational symmetry

2012-08-03 Thread Francis E Reyes
Some people might squawk at 2MB attachments on a BB... But that made my day.. Thanks! On Aug 3, 2012, at 6:01 AM, Laurie Betts wrote: > I couldn't resist this shot. It might not make the cut.but > >

Re: [ccp4bb] pseudo translational symmetry

2012-08-03 Thread Jacob Keller
What symmetry operator is that towel indicating? Must be 24-fold rotational NCS? JPK On Fri, Aug 3, 2012 at 8:43 AM, Bosch, Juergen wrote: > Thank Laurie, > > what's that domain dangling off your DOG-domain ? And have you checked if > the off-origin peak is indeed the same height as the origin

Re: [ccp4bb] pseudo translational symmetry

2012-08-03 Thread Bosch, Juergen
Thank Laurie, what's that domain dangling off your DOG-domain ? And have you checked if the off-origin peak is indeed the same height as the origin peak ? May I include your slide in my class ? Jürgen On Aug 3, 2012, at 9:01 AM, Laurie Betts wrote: I couldn't resist this shot. It might not

Re: [ccp4bb] pseudo-translational symmetry

2009-08-10 Thread Eleanor Dodson
Oops - sorry to mislead you. Yes - you are absolutely right.. Eleanor ale...@pasteur.fr wrote: Just a small comment on Eleanor's instructive advices : ... If your original structure has cell (a2= 47.3, b2=58.9, c2=67.6) and angles (alpha2=90, beta2=99.2, gamma2=90) and the second cell i

Re: [ccp4bb] pseudo-translational symmetry

2009-08-10 Thread alebus
Just a small comment on Eleanor's instructive advices : > ... > If your original structure has cell > > (a2= 47.3, b2=58.9, c2=67.6) and angles (alpha2=90, beta2=99.2, gamma2=90) > > and the second cell is > (a1=67.5, b1=58.8, c1=98.9) and angles (alpha1=90, beta1=101.5, gamma1=90) > ... > I woul

Re: [ccp4bb] pseudo-translational symmetry

2009-08-10 Thread Eleanor Dodson
First - there doesnt seem much to worry about. The Rs will be higher than usual when you have a strong pseudo-translation vector. There are many weak observations for the h k l=2n+1 reflections. But in cases like this is is very helpful to force the same indexing on all your different data set