Or, it could be MPD ;-? Best wishes, Jon Cooper. jon.b.coo...@protonmail.com
Sent from Proton Mail Android -------- Original Message -------- On 05/06/2024 17:54, Jeroen Mesters wrote: > Thank you for this intriguing information! > > At the same time, this also implies that not all entities that have been > modelled as MPD are actually MDP but could also be a betain, right!?….. > > Best, > > Jeroen > > __ > Dr. math. et dis. nat. Jeroen R. Mesters > Biological Safety Officer (BBS) > Deputy, Lecturer, Program Coordinator Infection Biology > Visiting Professorship in Biophysics South Bohemian University > University of Lübeck > Center for Structural and Cell Biology in Medicine > Institute of Biochemistry > Ratzeburger Allee 160 > 23562 Lübeck > > https://orcid.org/0000-0001-8532-6699 > >> Am 05.06.2024 um 18:41 schrieb Zachary A. Wood <z...@uga.edu>: >> >> Hello Everyone, >> >> It does look like trimethylglycine (betaine), but another view might help. >> If it is, it is also made in ecoli and PEOPLE. It is a pretty common >> metabolite in the microbial and animal kingdom…useful for balancing osmotic >> stress and stabilizing protein structure (it is a strong kosmotrope). >> >> Best regards, >> >> Z >> >> *********************************************** >> Zachary A. Wood, Ph.D. (He/Him) >> Professor and Graduate Coordinator >> >> Josiah Meigs Distinguished Teaching Professor >> >> Associate Director of SER-CAT >> Department of Biochemistry & Molecular Biology >> University of Georgia >> Life Sciences Building, Rm A426B >> 120 Green Street >> Athens, GA 30602-7229 >> Office: 706-583-0304 >> Lab: 706-583-0303 >> FAX: 706-542-1738 >> *********************************************** >> >> From:CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> on behalf of Jeroen Mesters >> <0000cf8d8aa45b08-dmarc-requ...@jiscmail.ac.uk> >> Date:Wednesday, June 5, 2024 at 12:29 PM >> To:CCP4BB@JISCMAIL.AC.UK<CCP4BB@JISCMAIL.AC.UK> >> Subject:Re: [ccp4bb] Ligand identification in X-ray density >> >> You don't often get email >> from0000cf8d8aa45b08-dmarc-requ...@jiscmail.ac.uk.[Learn why this is >> important](https://aka.ms/LearnAboutSenderIdentification) >> >> [EXTERNAL SENDER - PROCEED CAUTIOUSLY] >> >> Hi, >> >> proteins my pick up ligands from the „source" from which they were >> isolated…. Looks to me like trimethylglycine, an amino-acid derivative found >> in plants… >> >> Regards, >> >> Jeroen >> >> __ >> >> https://orcid.org/0000-0001-8532-6699 >> >>> Am 05.06.2024 um 17:44 schrieb Khadijah Ameen Khan >>> <khadijahameenk...@gmail.com>: >>> >>> Dear All, >>> >>> I am a first-year PhD student in a structural biology lab. I am building a >>> model in 1.5 ang X-ray diffraction data. I would appreciate your >>> suggestions for fitting a ligand in an unknown X-ray density (attached >>> image) in the protein binding pocket. The details for protein purification >>> and crystallization buffers are below: >>> >>> Purification: NaCl, Tris-HCl pH 8.5, Glycerol >>> >>> Crystallization: Carboxylic acid mix (Sodium formate, Ammonium acetate, >>> Sodium citrate, Potassium Sodium Tartrate and Sodium Oxamate),Tris, Bicine >>> buffer, Precipitant (PEG3350, MPD) >>> >>> I have tried fitting all the buffer and crystallization components but none >>> of these components are giving the right solution (Either the difference >>> map gets red with increased B-factor or it remains green). >>> >>> I would really appreciate your input on this. I have attached an image >>> showing the density. >>> >>> Thank you. >> >> --------------------------------------------------------------- >> >> To unsubscribe from the CCP4BB list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 > > --------------------------------------------------------------- > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
