Re: [ccp4bb] AW: [ccp4bb] sigma value in structure file
Thank you all for your kind reply.. On Mon, Jun 17, 2013 at 7:02 PM, herman.schreu...@sanofi.com wrote: ** Dear Faisal, I might be missing something, but why not ask the annotator instead of the bulletin board? He should know which value is meant. For me, a sigma belongs to a set of observations or parameters and without any further information one can only guess (as Ed just did) which set. My guess would be, that instead of structure file, structure factor file was meant and that somehow a negative sigma slipped in for one of the structure factors, but again that is just guessing. My two cents, Herman -- *Von:* CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] *Im Auftrag von *Faisal Tarique *Gesendet:* Montag, 17. Juni 2013 08:41 *An:* CCP4BB@JISCMAIL.AC.UK *Betreff:* [ccp4bb] sigma value in structure file Dear all During PDB deposition the annotator me to verify and review the sigma value in the structure file which in my case was -0.03. I have some basic queries and request you all to please answer them. My first question is, what actually is a sigma value of a structure file. 2nd) where the value is mentioned?. 3rd) and What is the optimum sigma value range ? -- Regards Faisal School of Life Sciences JNU -- Regards Faisal School of Life Sciences JNU
[ccp4bb] sigma value in structure file
Dear all During PDB deposition the annotator me to verify and review the sigma value in the structure file which in my case was -0.03. I have some basic queries and request you all to please answer them. My first question is, what actually is a sigma value of a structure file. 2nd) where the value is mentioned?. 3rd) and What is the optimum sigma value range ? -- Regards Faisal School of Life Sciences JNU
Re: [ccp4bb] sigma value in structure file
The only thing that seems to make sense is bonds rmsd - but you should ask the annotator for specifics directly. If it is bonds rmsd, this has been discussed many times - just google rmsd bonds ccp4bb and look for most recent entries. On Mon, 2013-06-17 at 12:11 +0530, Faisal Tarique wrote: Dear all During PDB deposition the annotator me to verify and review the sigma value in the structure file which in my case was -0.03. I have some basic queries and request you all to please answer them. My first question is, what actually is a sigma value of a structure file. 2nd) where the value is mentioned?. 3rd) and What is the optimum sigma value range ? -- Regards Faisal School of Life Sciences JNU -- Edwin Pozharski, PhD, Assistant Professor University of Maryland, Baltimore -- When the Way is forgotten duty and justice appear; Then knowledge and wisdom are born along with hypocrisy. When harmonious relationships dissolve then respect and devotion arise; When a nation falls to chaos then loyalty and patriotism are born. -- / Lao Tse /
[ccp4bb] AW: [ccp4bb] sigma value in structure file
Dear Faisal, I might be missing something, but why not ask the annotator instead of the bulletin board? He should know which value is meant. For me, a sigma belongs to a set of observations or parameters and without any further information one can only guess (as Ed just did) which set. My guess would be, that instead of structure file, structure factor file was meant and that somehow a negative sigma slipped in for one of the structure factors, but again that is just guessing. My two cents, Herman Von: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] Im Auftrag von Faisal Tarique Gesendet: Montag, 17. Juni 2013 08:41 An: CCP4BB@JISCMAIL.AC.UK Betreff: [ccp4bb] sigma value in structure file Dear all During PDB deposition the annotator me to verify and review the sigma value in the structure file which in my case was -0.03. I have some basic queries and request you all to please answer them. My first question is, what actually is a sigma value of a structure file. 2nd) where the value is mentioned?. 3rd) and What is the optimum sigma value range ? -- Regards Faisal School of Life Sciences JNU
