How To Install dssp on Fedora 34
Introduction
In this tutorial we learn how to install dssp on Fedora 34.
What is dssp
The DSSP program standardizes protein secondary structure assignment. DSSP is a database of secondary structure assignments (and much more) for all protein entries in the Protein Data Bank (PDB). DSSP is also the program that calculates DSSP entries from PDB entries. DSSP does not predict secondary structure. References “A series of PDB related databases for everyday needs.”, Robbie P. Joosten, Tim A.H. te Beek, Elmar Krieger, Maarten L. Hekkelman, Rob W.W. Hooft, Reinhard Schneider, Chris Sander, and Gert Vriend. Nucleic Acids Research 2011 January; 39(Database issue) doi “Dictionary of protein secondary structure hydrogen-bonded and geometrical features.”, Kabsch W, Sander C, Biopolymers. 1983 22 2577-2637.
We can use yum or dnf to install dssp on Fedora 34. In this tutorial we discuss both methods but you only need to choose one of method to install dssp.
Install dssp on Fedora 34 Using dnf
Update yum database with dnf using the following command.
sudo dnf makecache --refresh
The output should look something like this:
Fedora 34 - x86_64 20 kB/s | 6.6 kB 00:00
Fedora 34 openh264 (From Cisco) - x86_64 1.4 kB/s | 989 B 00:00
Fedora Modular 34 - x86_64 68 kB/s | 6.5 kB 00:00
Fedora 34 - x86_64 - Updates 3.5 kB/s | 6.2 kB 00:01
Fedora Modular 34 - x86_64 - Updates 17 kB/s | 5.9 kB 00:00
Metadata cache created.
After updating yum database, We can install dssp using dnf by running the following command:
sudo dnf -y install dssp
Install dssp on Fedora 34 Using yum
Update yum database with yum using the following command.
sudo yum makecache --refresh
The output should look something like this:
Fedora 34 - x86_64 20 kB/s | 6.6 kB 00:00
Fedora 34 openh264 (From Cisco) - x86_64 1.4 kB/s | 989 B 00:00
Fedora Modular 34 - x86_64 68 kB/s | 6.5 kB 00:00
Fedora 34 - x86_64 - Updates 3.5 kB/s | 6.2 kB 00:01
Fedora Modular 34 - x86_64 - Updates 17 kB/s | 5.9 kB 00:00
Metadata cache created.
After updating yum database, We can install dssp using yum by running the following command:
sudo yum -y install dssp
How To Uninstall dssp on Fedora 34
To uninstall only the dssp package we can use the following command:
sudo dnf remove dssp
dssp Package Contents on Fedora 34
/usr/bin/mkdssp
/usr/lib/.build-id
/usr/lib/.build-id/3a
/usr/lib/.build-id/3a/58daba1aaba75a8ae2d9013a42133899167b40
/usr/share/doc/dssp
/usr/share/doc/dssp/README.txt
/usr/share/doc/dssp/changelog
/usr/share/licenses/dssp
/usr/share/licenses/dssp/LICENSE_1_0.txt
/usr/share/man/man1/mkdssp.1.gz
References
Summary
In this tutorial we learn how to install dssp on Fedora 34 using yum and dnf.