Dear Dr. Elaine, 


Greetings! 

I hope this message finds you well. 


I would like to inquire if ChimeraX offers options for fixing PDB files, specifically for correcting hydrogen bonds and performing energy minimization, in preparation for docking studies. 

I look forward to hearing from you and appreciate your guidance. 


Best regards,
Ahmed Morsy



=========================
Ahmed Morsy, Ph.D.

Department of Stem Cell & Regenerative Biotechnology,

Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea

C.P.: +82/10-5299-5844

E-mail: ahmed_morsy86@yahoo.com; ahmed@konkuk.ac.kr

Orcid id: https://orcid.org/0000-0003-3873-9903 

Scopus id: 55258308400 (https://www.scopus.com/authid/detail.uri?authorId=55258308400) 

Researchgate: https://www.researchgate.net/profile/Ahmed-Abdal-Dayem 

GoogleScholar: https://scholar.google.co.kr/citations?user=NevFBgMAAAAJ&hl=en 




On Friday, August 9, 2024 at 04:13:02 PM GMT+9, ahmed morsy <ahmed_morsy86@yahoo.com> wrote:


Dear Dr. Elaine Meng,

Thank you very much for the prompt response and solving the issue.
I assure you that the sites are operating well.

Have a nice day!

Best regards,
Ahmed

=========================
Ahmed Morsy, Ph.D.

Department of Stem Cell & Regenerative Biotechnology,

Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea

C.P.: +82/10-5299-5844

E-mail: ahmed_morsy86@yahoo.com; ahmed@konkuk.ac.kr

Orcid id: https://orcid.org/0000-0003-3873-9903 

Scopus id: 55258308400 (https://www.scopus.com/authid/detail.uri?authorId=55258308400) 

Researchgate: https://www.researchgate.net/profile/Ahmed-Abdal-Dayem 

GoogleScholar: https://scholar.google.co.kr/citations?user=NevFBgMAAAAJ&hl=en 




On Thursday, August 8, 2024 at 04:30:23 AM GMT+9, Elaine Meng <meng@cgl.ucsf.edu> wrote:


Dear Dr. Ahmed Morsy,
The website and those links are working now.  Please try again -- sorry for the inconvenience.
Elaine
-----
Elaine C. Meng, Ph.D.                     
UCSF Chimera(X) team
Resource for Biocomputing, Visualization, and Informatics
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Aug 7, 2024, at 3:41 AM, ahmed morsy <ahmed_morsy86@yahoo.com> wrote:
>
> Dear Dr. Elaine Yang,
>
> I hope this message finds you well.
>
>
> I am reaching out to seek your assistance regarding some issues I am facing with accessing certain resources. Specifically, the following links are not working: Protein-Ligand Binding Sites Tutorial: https://www.rbvi.ucsf.edu/chimerax/docs/user/tutorials/binding-sites.html ViewDockX Tool: https://www.rbvi.ucsf.edu/chimerax/docs/user/tools/viewdockx.html.
>
>
> Additionally, I am unable to access any content from the ChimeraX tutorials. These resources are crucial for my current research, and I would greatly appreciate any help or guidance you can provide to resolve these issues.
>
>
> Thank you very much for your time and assistance.
>
>
> Best regards,
> Ahmed Morsy
> =========================
>
> Ahmed Morsy, Ph.D.
> Assistant Professor,
> Department of Stem Cell & Regenerative Biotechnology,
> Konkuk University, 120 Neungdong-ro, Gwangjin-gu, Seoul 05029, Korea
> Tel.: 02-450-0498
> C.P.: +82/10-5299-5844
> E-mail: ahmed_morsy86@yahoo.com; ahmed@konkuk.ac.kr
> Orcid id: https://orcid.org/0000-0003-3873-9903
> Scopus id: 55258308400 (https://www.scopus.com/authid/detail.uri?authorId=55258308400)
> Researchgate: https://www.researchgate.net/profile/Ahmed-Abdal-Dayem
> GoogleScholar: https://scholar.google.co.kr/citations?user=NevFBgMAAAAJ&hl=en