[ccp4bb] how to refine RNA with two phosphate at 5' by phenix

[Lisa Wang]

hi all,
I have one structure contains dsRNA with two phosphate group at 5'.. I named
the first residue GDP and got a cif file by running phenix.elbow. Then I
refine my structure by running phenix.refine my.pdb my.cif. But the fist and
the second residue do not link with each other, that is no bond between O3*
of the fist residue and P of the second residue.
Please give me some idea. Thanks