fixing broken unit test (#6384)
* editing "correct" pdb file to have the right chemistry. Pushing to get help.
* copied the output of the test (build/test/debug/macos/11.6/64/arm/clang/13.0/default/PDB_w_glycans_IO_cxxtest.pdb._tmp_) to replace the old, wrong `test/core/io/5FYL_correct_output.pdb`. The PDB_w_glycans_IO unit test now passes.