[ccp4bb] Protein-Protein Interaction prediction
Dear all, Can anyone help me with a web server or method for prediction of interfaces for protein-protein interaction? Thanks and best regards, Sayli Dalal Post-Doctoral Fellow Dept. of Biophysics NIMHANS
Re: [ccp4bb] phenix refinement about cis-proline
Shijun
You can ask all the questions you like about Phenix on PhenixBB. However,
to answer your question, you can set all peptides to trans using
apply_all_trans=True
or more specific control using
apply_cis_trans_specification {
cis_trans_mod = cis *trans
residue_selection = None
}
to any number of peptides.
Cheers
Nigel
---
Nigel W. Moriarty
Building 33R0349, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
Berkeley, CA 94720-8235
Phone : 510-486-5709 Email : nwmoria...@lbl.gov
Fax : 510-486-5909 Web : CCI.LBL.gov
On Thu, Mar 1, 2018 at 10:58 PM, 张士军 <21620150150...@stu.xmu.edu.cn> wrote:
> Dear all
>
>I am refining a structure which has cis-Pro and trans-Pro, the tans-Pro
> is gone when I set the "threshold degrees for cis-peptide " from default 45
> to 65, but still has cis-Pro. While no significant change when I set it to
> 15. My question is how to set in phenix refinement to clear the Pro
> residues in cis- or trans- conformations.
>
> Best Regards
>
> shijun
>
[ccp4bb] phenix refinement about cis-proline
Dear all I am refining a structure which has cis-Pro and trans-Pro, the tans-Pro is gone when I set the "threshold degrees for cis-peptide " from default 45 to 65, but still has cis-Pro. While no significant change when I set it to 15. My question is how to set in phenix refinement to clear the Pro residues in cis- or trans- conformations. Best Regards shijun
[ccp4bb] Scalable and Reproducible Structural Bioinformatics Workshop & Hackathon 2018
We are pleased to announce the second MMTF workshop: *Scalable and Reproducible Structural Bioinformatics Workshop & Hackathon 2018. *This workshop will be held May 7 – 9, 2018 at the University of California, San Diego and hosted by the Structural Bioinformatics Laboratory at the San Diego Supercomputer Center. *Sponsorship *This workshop is sponsored by the NIH Big Data to Knowledge (BD2K) initiative. Air travel and 4-day lodging can be provided for non-commercial participants, including a limited number of international participants. Applicants will be selected based on the best fit to the program on a rolling basis. *Apply now to secure your place in the workshop.* https://www.eiseverywhere.com/mmtfworkshop2018/ *Application deadline: April 1, 2018.* This 3-day hands-on workshop and hackathon introduces you to: · Application of state-of-the-art Big Data technologies to Structural Bioinformatics · Data mining and machine learning · 2D/3D visualization and deployment in Jupyter Notebooks The first two days of the workshop combine lectures, hands-on applications, and programming sessions. On the third day, participants apply the new technologies to their own projects. This workshop is aimed at graduate students, postdocs, staff, faculty, industrial researchers, and scientific software developers. Experience with Python is required. -- Peter Rose, Ph.D. Director, Structural Bioinformatics Laboratory San Diego Supercomputer Center UC San Diego +1-858-822-5497
[ccp4bb] Job opening at Merck in Kenilworth, NJ
All, We have an open position for a protein crystallographer with significant experience. The position is located in our Kenilworth, NJ Structural Sciences group. For the complete job description and to apply see the link below. Sincerely, Corey _ Corey Strickland, Ph.D. Director, Structural Sciences Merck Research Labs 2015 Galloping Hill Road Kenilworth, NJ 07033 https://taleo.msd.com/careersection/merck_external_career_section/jobdetail.ftl?job=CHE005843=en_id=mailto#.Wo81uGShbtc.mailto Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (2000 Galloping Hill Road, Kenilworth, New Jersey, USA 07033), and/or its affiliates Direct contact information for affiliates is available at http://www.merck.com/contact/contacts.html) that may be confidential, proprietary copyrighted and/or legally privileged. It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system.
[ccp4bb] An overview of our crystallographic science
Dear Colleagues, I prepared this overview of our crystallographic science in Biosciences Reports at the invitation of the Biochemical Society, which I imagine you would be interested in:- http://www.bioscirep.org/content/37/4/BSR20170204 It is open access. All best wishes, John Emeritus Professor John R Helliwell DSc
