[ccp4bb] metal electron density detection

2016-10-25 Thread ansuman biswas
Hi all, Is there any program (like ARP/wARP) available to locate the correct metal atom automatically in the electron density ? best, Ansuman

[ccp4bb] ligand bonds (AlF3) breaking up after refinement in refmac

2015-01-28 Thread ansuman biswas
...@cnb.csic.es wrote: It could be a mixture of Mg2+ and Al3+Mark J van Raaij CNB-CSIC www.cnb.csic.es/~mjvanraaijOn 16 Jan 2015 20:07, ansuman biswas bubai_...@yahoo.co.in wrote: Dear users, I have a data at 2.2 A resolution. I am able to model AlF3 into the electron density (fig attached). However

Re: [ccp4bb] ligand bonds (AlF3) breaking up after refinement in refmac

2015-01-19 Thread ansuman biswas
...@cnb.csic.es wrote: It could be a mixture of Mg2+ and Al3+Mark J van Raaij CNB-CSIC www.cnb.csic.es/~mjvanraaijOn 16 Jan 2015 20:07, ansuman biswas bubai_...@yahoo.co.in wrote: Dear users, I have a data at 2.2 A resolution. I am able to model AlF3 into the electron density (fig attached). However

[ccp4bb] obtaining CC1/2 from old log file of hkl 2000

2014-12-21 Thread ansuman biswas
Dear All,  I have the scaled output and log file (from hkl2000) of a dataset collected at synchrotron . The log file does not have the columns for CC1/2, CC*, Rmeas and Rpim. I do not have access to the frames. Is it possible to obtain the requisite parameters from just the scaled

[ccp4bb] software or server to validate ligand density

2014-09-19 Thread ansuman biswas
the ligand is actually there or not ? The Twilight server appears to be for PDB files that have already been deposited. thanks and regards, Ansuman Biswas, dept. of Physics, Indian Institute of science

[ccp4bb] query regarding RMSD calculation

2013-06-23 Thread ansuman biswas
Dear all,     I have 2 queries regarding RMSD calculation and interpretation. 1. When 2 residue stretches are superposed using CCP4 superpose, the log file shows the atomwise-deviations between matched residue pairs. How to find the total deviation/RMSD between a specified residue pair