Lumbini, 2.5A is close to the coordination bond length of sulfur-metal. Did you use IMAC during purification?
ср, 10 июл. 2019 г. в 08:44, Eleanor Dodson < [email protected]>: > I am serious about checking the anomalous map!! > (trivial from REFMAC - key word anom map on) > Then do a peak search and just check first that the rogue residue IS CYS > first - you should see the S as a peak..) > > Eleanor > > > On Wed, 10 Jul 2019 at 07:38, Lumbini Yadav <[email protected]> wrote: > >> Thanks for the reply. >> The distance between sulphur and centre of Fo-Fc map is around 2.5A. >> The density does not appear to be of hydrogen (attached image) anisotropy >> refinement also does not help. >> >> On Tue, Jul 9, 2019 at 5:13 PM Anthony Addlagatta <[email protected]> >> wrote: >> >>> Lumbini, >>> >>> It would useful to know the distance between the sulfur and center of >>> the Fo-Fc map that you have shown. Since you have very high resolution >>> data, the extra density could be for a hydrogen atom in CSO-H (sufeneic >>> acid) or anisotropy of the oxygen atom. >>> >>> Anthony >>> ------------------------------ >>> *From: *[email protected] >>> *To: *[email protected] >>> *Sent: *Tuesday, July 9, 2019 4:48:32 PM >>> *Subject: *Re: [ccp4bb] Fo-Fc density close to cysteine residue >>> >>> Any anomalous diffraction? >>> >>> On Tue, 9 Jul 2019 at 10:32, Lumbini Yadav <[email protected]> wrote: >>> >>>> Dear all, >>>> >>>> >>>> >>>> We have found a huge Fo-Fc density close to cysteine residue (see >>>> attached image) in the structure with resolution of 1.2A. In the >>>> crystallization condition, we have PEG 3350, Potassium phosphate >>>> monobasic, glycerol and protein was in Tris and NaCl. Before freezing >>>> the crystals were soaked in mother liquor containing sodium dithionite. >>>> >>>> >>>> >>>> I have tried different modified cysteine (CSX, CSO, OCS, CME, CSS, SNC, >>>> CSD, CXM, SCH, CSU) from the library and also SO3, SO2 and peroxide. >>>> But in all the screenings we do see some part of Fo-Fc density >>>> unaddressed at 3 sigma. >>>> >>>> >>>> >>>> Does anyone have an idea about what this density could be? Covalent >>>> modification? >>>> >>>> >>>> >>>> Thanks. >>>> >>>> >>>> >>>> Kind regards, >>>> >>>> Lumbini >>>> >>>> ------------------------------ >>>> >>>> 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 >>> >>> >>> >>> >>> ------------------------------ >>> >>> 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 >> > > ------------------------------ > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1 > -- Evgenii Osipov Laboratory for Biocrystallography, Department of Pharmaceutical Sciences, KU Leuven O&N2 ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB&A=1
