Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-25 Thread Phoebe Rice
tal ions if present. >   > Cheers. >   > Ray Brown > > -------- > > From: Hubing Lou > To: CCP4BB@JISCMAIL.AC.UK > Sent: Thu, July 21, 2011 6:39:49 AM > Subject: Re: [ccp4bb] Phaser and

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-25 Thread ccp4
ntical >> sequences. >> >> To solve this structure you probably have to do Se-labeled protein and >> SAD >> etc. or collect anomalous from metal ions if present. >> >> Cheers. >> >> Ray Brown >> >> -- &

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-25 Thread Hubing Lou
rown > > -- > *From:* Hubing Lou > > *To:* CCP4BB@JISCMAIL.AC.UK > *Sent:* Thu, July 21, 2011 6:39:49 AM > *Subject:* Re: [ccp4bb] Phaser and Molrep gave different solutions > > I was worried as well with the low TFZ score. Usually successful

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-22 Thread ccp4
IL.AC.UK] *On Behalf Of >> *Hubing >> Lou >> *Sent:* Thursday, July 21, 2011 6:46 AM >> *To:* CCP4BB@JISCMAIL.AC.UK >> *Subject:* [ccp4bb] Phaser and Molrep gave different solutions >> >> Dear all, >> >> I am stuck in a molecular replacement case

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-21 Thread Randy Read
Hi, Although it's pretty much true that if TFZ>8, the solution is correct, there are hard cases where a correct solution has a significantly lower TFZ score. Also, we've been finding that TFZ scores are generally lower for monoclinic space groups like P21, at least in the search for the first

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-21 Thread Hubing Lou
o:CCP4BB@JISCMAIL.AC.UK] *On Behalf Of > *Hubing > Lou > *Sent:* Thursday, July 21, 2011 6:46 AM > *To:* CCP4BB@JISCMAIL.AC.UK > *Subject:* [ccp4bb] Phaser and Molrep gave different solutions > > Dear all, > > I am stuck in a molecular replacement case and looking for a

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-21 Thread Herman . Schreuder
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Hubing Lou Sent: Thursday, July 21, 2011 6:46 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [ccp4bb] Phaser and Molrep gave different solutions Dear all, I am stuck in a

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-21 Thread Antony Oliver
Have you tried using the DNA as your search model? - I have had success this way round - certainly more phasing power than your protein model, I guess. Also, refine with your DNA in place, and your phases/ map should improve - hopefully allowing you to place your protein molecules with ease. T

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-21 Thread Hubing Lou
I was worried as well with the low TFZ score. Usually successful cases with score >8. I am still puzzled why Phaser and Molrep gave different solutions. Does this mean molecular replacement do not work out in this case so more crystals have to be prepared? A little more information might be helpfu

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-21 Thread Vellieux Frederic
Hi, It's not a bad idea to read the Phaser manual for molecular replacement; see http://www.phaser.cimr.cam.ac.uk/index.php/Molecular_Replacement Soon after the start, in a table on the right hand side, there is: TFZ score < 5, have I solved it ? No. Hence with a TFZ score of 3.8 you do not

Re: [ccp4bb] Phaser and Molrep gave different solutions

2011-07-20 Thread Francois Berenger
On 07/21/2011 01:45 PM, Hubing Lou wrote: Dear all, I am stuck in a molecular replacement case and looking for advices. I have been working on a protein-DNA complex structure. Data was processed by HKL2000 to 2.6Ang and some of the data statistics are shown below: Space group: P21, Unit Cell: 5