INPUT
  
    Reading model from /net/marbles/raid1/dorothee/rerefine/cryoem/data_no_H/5wp6_8871/03_2024/5wp6_8871_neut.pdb
    Reading option "hydrogens=False" from command line
    Writing effective parameters to 5wp6_8871_neut.eff

    Ligand restraint generation using eLBOW, phenix.elbow
    

  Build ligand and use chemical components : DVT
Sorry: 
    Atoms in the input are supposed to be bound
     
    O16(DVT) - V4(DVT) = 3.46

    Fix the input file and retry

    EXITING