I am currently facing two transformational issues. Suppose I am given a protein's residue sequence and calpha distance matrix; is there a way to generate the 3d coordinates of the protein's residues from this information(I think there theoretically should be since it is a bijection up to rotation/translation). The second issue I am faced with is generating pdb files. How does one make a pdb file given the coordinates of the protein's residues along with the sequence? Is this enough information?

  • $\begingroup$ We have two questions here: the first one is geometrical rather than biological, the second one would be perhaps better to ask on bioinformatics.SE, but shortly, if you have only coordinates of Cα atoms you can only write a PDB file with coordinates of Cα atoms only. $\endgroup$ – marcin May 12 at 7:58

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