Getting Unremediated PDB Files: Difference between revisions

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Use the simple interface [http://www.umass.edu/microbio/chime/pe_beta/pe/protexpl/unremed.htm here at Eric Martz's UMASS site] to easily get July 31, 2007 unremediated pdb files [ftp://snapshots.wwpdb.org/ via ftp at the RCSB Protein Data Bank] n the directory 20070731. This is primarily for obtaining DNA before the residues were re-named DC, DG, DT, DA, for Protein Explorer/Chime.<br>
Use the simple interface [http://www.umass.edu/microbio/chime/pe_beta/pe/protexpl/unremed.htm here at Eric Martz's UMASS site] to easily get July 31, 2007 unremediated pdb files [ftp://snapshots.wwpdb.org/ via ftp at the RCSB Protein Data Bank] in the directory 20070731. This is primarily for obtaining DNA before the residues were re-named DC, DG, DT, DA, for Protein Explorer/Chime.<br>
The March 16, 2009 unremediated versions are also available [ftp://snapshots.wwpdb.org/ via ftp at the RCSB Protein Data Bank] in the directory 20090316.
The March 16, 2009 unremediated versions are also available [ftp://snapshots.wwpdb.org/ via ftp at the RCSB Protein Data Bank] in the directory 20090316.
These files come back in a compressed form. Eric Martz's site lists Winzip as an alternative for PC but this program is not free once a trial period expires; Stuffit expander failed to uncompress such a file on a PC although Eric lists it as useful on Macs. I found to uncompress them, I could upload them to the Web hosting server I have access to and use 'zcat -d <nowiki>[FILE NAME]</nowiki>' to have it show an uncompressed form in my Secure Shell client using logging enabled to save a file of the output locally on my own drive. Others have mentioned using a DOS version of uncompress on a PC, called uncomp.exe.
These files come back in a compressed form. Eric Martz's site lists Winzip as an alternative for PC but this program is not free once a trial period expires; Stuffit expander failed to uncompress such a file on a PC although Eric lists it as useful on Macs. I found to uncompress them, I could upload them to the Web hosting server I have access to and use 'zcat -d <nowiki>[FILE NAME]</nowiki>' to have it show an uncompressed form in my Secure Shell client using logging enabled to save a file of the output locally on my own drive. Others have mentioned using a DOS version of uncompress on a PC, called uncomp.exe.
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