On Wed, 21 Aug 2019 at 19:35, Vijayakumar Rajendran < vijayakumar.thenilgi...@gmail.com> wrote:
> Dear Eleanor, > Thanks a lot. Its working great.. > > On Wed, 21 Aug 2019 at 17:12, Eleanor Dodson < > 0000176a9d5ebad7-dmarc-requ...@jiscmail.ac.uk> wrote: > >> Here is the reason! >> >> Col Sort Min Max Num % Mean Mean Resolution >> Type Column >> num order Missing complete abs. Low High >> label >> >> 1 ASC -80 80 0 100.00 0.3 30.2 61.16 1.00 >> H H >> 2 NONE -80 80 0 100.00 0.0 30.2 61.16 1.00 >> H K >> 3 NONE 0 93 0 100.00 34.9 34.9 61.16 1.00 >> H L >> 4 BOTH 0.0 0.0 0 100.00 0.00 0.00 61.16 1.00 >> F FCalc >> 5 NONE 0.0 90.0 0 100.00 0.83 0.83 61.16 1.00 >> P PHICalc >> >> >> No. of reflections used in FILE STATISTICS 1277880 >> >> If your Fcalc range is 0.0 to 0.0 then there WILL be no density! >> Not sure how you achieved that.. >> >> >> Oh yes I do.. >> Here are your coordinatesRYST1 80.620 80.620 93.880 90.00 90.00 >> 90.00 P 42 21 2 8 >> ORIGX1 1.000000 0.000000 0.000000 0.00000 >> ORIGX2 0.000000 1.000000 0.000000 0.00000 >> ORIGX3 0.000000 0.000000 1.000000 0.00000 >> SCALE1 0.012404 0.000000 0.000000 0.00000 >> SCALE2 0.000000 0.012404 0.000000 0.00000 >> SCALE3 0.000000 0.000000 0.010652 0.00000 >> HETATM 1 O HOH A1001 -18.238 -1.176 25.716 0.00 0.00 >> O >> HETATM 2 O HOH A1002 -18.238 -0.676 25.216 0.00 0.00 >> O >> HETATM 3 O HOH A1003 -18.238 -0.676 25.716 0.00 0.00 >> O >> HETATM 4 O HOH A1004 -18.238 -0.176 25.216 0.00 0.00 >> O >> HETATM 5 O HOH A1005 -18.238 -0.176 25.716 0.00 0.00 >> O >> HETATM 6 O HOH A1006 -17.738 -5.676 39.216 0.00 0.00 >> O >> HETATM 7 O HOH A1007 -17.738 -5.176 39.216 0.00 0.00 >> >> >> Note all "atoms" have occupancy = 0.00... >> >> I have reset the occupancy to 1 and the Bvalue to 20 and now you get a >> good looking map >> >> Here are new files >> Eleanor >> >> >> >> >> On Wed, 21 Aug 2019 at 09:12, Paul Emsley <pems...@mrc-lmb.cam.ac.uk> >> wrote: >> >>> On 20/08/2019 14:31, Vijayakumar Rajendran wrote: >>> >>> > I have a problem in viewing electron density map by opening .mtz file >>> in coot. Actually I have a PDB >>> > cordinates of water molecules of my protein using Hollow program. I >>> generated the .mtz file using SFall >>> > program in CCP4i by providing the cryst card. The generated mtz file >>> contains FCalc and PhiCalc. When I open >>> > this mtz file in coot along with the hollow pdb file, I am not getting >>> the electron density. >>> >>> Why are you not getting electron density? What does Coot say in the >>> terminal? Is there an error message on >>> reading the mtz file? Is a map molecule generated? If so, what does the >>> map density histogram look like? >>> >>> ######################################################################## >>> >>> To unsubscribe from the CCP4BB list, click the following link: >>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1 >>> >> >> ------------------------------ >> >> To unsubscribe from the CCP4BB list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1 >> > > > -- > > Dr. R. Vijayakumar, > DBT- Research Associate, > Molecular Biophysics Unit, > Indian Institute of Science, > Bangalore 560 012 > Website: https://vijayphd.wixsite.com/home > Research Gate: http://www.researchgate.net/profile/Vijayakumar_Rajendran > -- Dr. R. Vijayakumar, DBT- Research Associate, Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012 Website: https://vijayphd.wixsite.com/home Research Gate: http://www.researchgate.net/profile/Vijayakumar_Rajendran ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1
