This just appeared and may be relevant: https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkad726/7272628
Critical Reviews and Perspectives When will RNA get its AlphaFold moment? Mark van Raaij Dpto de Estructura de Macromoleculas, lab 20B Centro Nacional de Biotecnologia - CSIC calle Darwin 3 E-28049 Madrid, Spain tel. +34 91 585 4616 (internal 432092) > On 18 Sep 2023, at 18:07, William G. Scott > <00002844d921eb97-dmarc-requ...@jiscmail.ac.uk> wrote: > > The phosphorus absorption edge is about 5.8Å. > > I've had much better luck with 5-Br-U for anomalous phasing. > > Molecular replacement with sub-structural fragments can also work: > <https://scottlab.ucsc.edu/scottlab/reprints/2010_Scott_Methods.pdf> > > > Yours sincerely, > > William G. Scott > Professor, Department of Chemistry and Biochemistry > and The Center for the Molecular Biology of RNA > University of California at Santa Cruz > Santa Cruz, California 95064 > USA > >> On Sep 18, 2023, at 2:43 AM, Eleanor Dodson >> <0000176a9d5ebad7-dmarc-requ...@jiscmail.ac.uk> wrote: >> >> I am afraid most scientists will use the most straightforward technique! >> If SAD is available the PHOSPHATE backbone of DNA will provide sufficient >> signal to allow SAD to work, and you get an unambiguous answer to whether it >> is A-DNA or B or Z... >> MR will usually work of course as well >> Eleanor >> >> >> On Mon, 18 Sept 2023 at 09:18, Natesh Ramanathan <nat...@iisertvm.ac.in> >> wrote: >> Dear Fu Xingke, >> >> Depends on what Nucleic Acid you are talking of. If it is RNA, you >> can expect some sequence to tertiary structure correspondence so you might >> be able to try more MR as compared to DNA. DNA may have double helical >> architecture but less sequence to tertiary structure correspondence, and >> hence DNA is less likely to have a 3D structure like RNA specific structure >> for a sequence. >> >> SAD has become a straight forward method to avoid all these problems >> to get ab-initio structure. So many go for it directly. >> >> Hope that helps. >> Best wishes, >> Natesh >> >> On Mon, 18 Sept 2023 at 13:36, fuxingke <fuxingke0...@163.com> wrote: >> Dear Colleagues, >> >> Reacently, I find the structures of Nucleic acid are solved by >> single-wavelength anomalous diffraction(SAD). So, why molecular replacement >> (MR) not? >> >> Regards >> >> >> >> Best wishes, >> >> Fu Xingke >> >> Institute of Physics CAS >> >> To unsubscribe from the CCP4BB list, click the following link: >> https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 >> >> >> >> -- >> ---------------------------------------------------------- >> "Live Simply and do Serious Things .. " >> - Dorothy Mary Crowfoot Hodgkin OM, FRS >> >> "In Science truth always wins" >> - Max Ferdinand Perutz OM FRS >> ---------------------------------------------------------- >> Dr. Ramanathan Natesh >> Associate Professor, >> School of Biology and Center for High-Performance Computing (CHPC), >> Founding and Current President of Cryo Electron Microscopy and 3 Dimensional >> Image Processing Society of India (CEM3DIPSI), >> Indian Institute of Science Education and Research Thiruvananthapuram >> (IISER-TVM), >> Maruthamala P.O., Vithura, >> Thiruvananthapuram, 695551, Kerala, India >> >> nat...@iisertvm.ac.in >> http://faculty.iisertvm.ac.in/natesh >> >> Researcher ID: http://www.researcherid.com/rid/C-4488-2008 >> ORCID: http://orcid.org/0000-0002-1145-5962 >> Vidwan-ID : 94134: http://iisertvm.irins.org/profile/94134 >> PUBLONS: https://publons.com/author/1520837/ramanathan-natesh#profile >> >> Office Ph. 0091- 471-2778087 >> >> >> 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/ ######################################################################## 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/
