User:Wayne Decatur/Editing Getting Unremediated PDB Files: Difference between revisions

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New page: All files obtained from the World Wide Protein Data Bank since August 1, 2007, are remediated. Information about the remediation project can be found at [http://www.wwpdb.org/docs.html the...
 
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===Why would you need an unremediated version of a pdb file?===
===Why would you need an unremediated version of a pdb file?===
A large change made in the course of remediation was the distinction between ribonucleotides (A, C, G, I, T, U) and deoxyribonucleotides (DA, DC, DG, DI, DT, DU). The main reason for getting unremediated PDB files is that when the remediated PDB files contain DNA, Protein Explorer (and perhaps some other software) does not display the DNA properly. If the PDB file does not contain DNA (protein, RNA, solvent and ligands are OK), you probably don't need the unremediated file. If a PDB file was published after August 1, 2007, it will not be available in unremediated form.
A significant change made in the course of remediation was the distinction between ribonucleotides (A, C, G, I, T, U) and deoxyribonucleotides (DA, DC, DG, DI, DT, DU). The main reason for getting unremediated PDB files is that when the remediated PDB files contain DNA, Protein Explorer (and perhaps some other software) does not display the DNA properly. If the PDB file does not contain DNA (protein, RNA, solvent and ligands are OK), you probably don't need the unremediated file. If a PDB file was published after August 1, 2007, it will not be available in unremediated form.




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