Re: [ccp4bb] [External] Re: [ccp4bb] alternatives to Consurf server

mailto:CCP4BB@JISCMAIL.AC.UK>> on behalf of Andrew Gnann mailto:adgn...@gmail.com>> Sent: Thursday, January 4, 2024 8:29 AM To: CCP4BB@JISCMAIL.AC.UK<mailto:CCP4BB@JISCMAIL.AC.UK> mailto:CCP4BB@JISCMAIL.AC.UK>> Subject: [External] Re: [ccp4bb] alternatives to Consurf

Re: [ccp4bb] [External] Re: [ccp4bb] alternatives to Consurf server

logy & Biophysics University of Iowa 51 Newton Rd, 4-611 BSB Iowa City, IA 52242 319-335-7671 From: CCP4 bulletin board on behalf of Andrew Gnann Sent: Thursday, January 4, 2024 8:29 AM To: CCP4BB@JISCMAIL.AC.UK Subject: [External] Re: [ccp4bb] alternatives to Consurf se

Re: [ccp4bb] alternatives to Consurf server

You can also map conservation with VMD, if memory serves (have not done this in quite a while). On Thu, Jan 4, 2024 at 9:34 AM Roberto Steiner < 2497b6493202-dmarc-requ...@jiscmail.ac.uk> wrote: > ConservFold from the Rodrigues lab at Warwick is something that you might > consider. >

Re: [ccp4bb] alternatives to Consurf server

ConservFold from the Rodrigues lab at Warwick is something that you might consider. https://www.rodrigueslab.com/resources Roberto A Steiner www.steinerlab.org https://twitter.com/steiner_lab roberto.stei...@kcl.ac.uk Randall

Re: [ccp4bb] alternatives to Consurf server

Hi Andre, I recently prepared a Consurf-like figure using conservation scores pulled from alignments in JalView. You would follow instructions for running data2bfactor.py in PyMOL, feeding the conservation scores to replace your model's B factor column. Then set up a color ramp like you would use

[ccp4bb] alternatives to Consurf server

Dear CCP4ers, Wishing you all a Happy New Year! You may have noticed that the Consurf server has been down since the conflicts in the Middle East began. Does anyone know of alternative tools that can provide similar results? Best regards. Andre S. Godoy, PhD  Universidade de São Paulo