Re: [ccp4bb] how to add atoms in refmac library
Thanx to all the problem is solved now..[?] On Fri, Feb 15, 2013 at 2:49 PM, Ganesh Natrajan ganesh.natra...@ibs.frwrote: Hi, Zinc is very much present in the Refmac library. ZN zinc non-polymer 1 1C Are you using the correct atom id in your PDB file? It has to be ZN. Ganesh Le 14/02/13 21:28, Faisal Tarique a écrit : Dear all My protein has Zinc atom but the refmac does not identifies it during refinement..Can anybody please tell me how to add Zinc atom into the refmac library for the successful refinement of the coordinates. -- Regards Faisal School of Life Sciences JNU -- Regards Faisal School of Life Sciences JNU 330.gif
Re: [ccp4bb] undefined electron density
Faisal, I guess you have to update the water molecules yet. In most places it looks like density for water molecules. The density near T279 may be acetate ion. It is just a guess based on the shape of electron density and the direction of the N-H moieties..etc. (it is hard to see 3d here). I do not want to guess too much and put you in trouble. It appears that you have around 2.5A data...don't extrapolate your imagination too much and get caught by the program TWILIGHT Ramagopal Dear all I request you to please tell me the missing molecule in the electron density map of my protein (in the attachment)..i had purified my protein in tris buffer however the crystallization buffer was the mixture of bicine and trizma having pH 8.5. The precipitant was a mixture of Peg 20,000 and peg 550 mme and for additives i had used the mixture of Sodium formate, ammonium acetate, trisodium citrate, sodium potassium tartarate and sodium oxamate..Please help me out i am confused.. -- Regards Faisal School of Life Sciences JNU
