The Download Tool can download coordinate and experimental data files, FASTA sequence files, and ligand data files for one or many PDB entries. After entering the IDs of interest, select the "Launch Download" button and you will be prompted to download and save locally a file called download_rcsb.jnlp. For Chrome, the file must be downloaded and then opened.
Choose the option "Open with Java Web Start (default)" and check the box "Do this automatically for files like this from now on". Then click OK.
Occassionally, in order to get past this step, you may need to add a Security Exception to your Java settings. Read more info here.
You will see the following dialogue if security settings are already correctly configured on your machine.
Click Open to run the application.
Click Run on the RCSB Download Application window. You will then be guided through the download process.
Select where the file(s) should be downloaded and then click Choose.
Click the Start Download button.
A progress bar will indicate 100% completeness once all files are downloaded. Click Done to end.
Based on the security settings on your machine, the following dialogue may appear. Please change the settings accordingly. The next images will guide you through changing the Security & Privacy settings and launching the Download Tool for Mac.
By default, Mac only allows apps downloaded from Mac App Store. Click the lock icon at the bottom of left-hand-side corner. You need to enter the password to make changes.
Choose the option "Anywhere" under "Allow apps downloaded from". Then click the button Allow From Anywhere to confirm the change. You may also want to click the lock icon again to prevent further changes.
Locate download_rcsb.jnlp and double click it to launch the application. When you launch the RCSB Download Application for the first time, you will see the following message. Click Open to run the download application.
RCSB PDB (citation) is managed by two members of the Research Collaboratory for Structural Bioinformatics: Rutgers and UCSD/SDSC
RCSB PDB is a member of the
The RCSB PDB is funded by a grant (DBI-1338415) from the
National Science Foundation, the
National Institutes of Health, and the
US Department of Energy.