name ='r-adenosine_3ter'
symbol ='RA3'

phosphate = Group('na_phosphate')
sugar = Group('ribose_3ter')
base = Group('adenine')

bonds = [Bond(sugar.O_5, phosphate.P), Bond(base.N_9, sugar.C_1), ]

chain_links = [phosphate.P, None]

amber_charge = {phosphate.P:           1.1662,
                phosphate.O_1:        -0.7760,
                phosphate.O_2:        -0.7760,
                sugar.O_5:            -0.4989,
                sugar.C_5:             0.0558,
                sugar.H_51:            0.0679,
                sugar.H_52:            0.0679,
                sugar.C_4:             0.1065,
                sugar.H_4:             0.1174,
                sugar.O_4:            -0.3548,
                sugar.C_1:             0.0394,
                sugar.H_1:             0.2007,
                base.N_9:             -0.0251,
                base.C_8:              0.2006,
                base.H_8:              0.1553,
                base.N_7:             -0.6073,
                base.C_5:              0.0515,
                base.C_6:              0.7009,
                base.N_6:             -0.9019,
                base.H_61:             0.4115,
                base.H_62:             0.4115,
                base.N_1:             -0.7615,
                base.C_2:              0.5875,
                base.H_2:              0.0473,
                base.N_3:             -0.6997,
                base.C_4:              0.3053,
                sugar.C_3:             0.2022,
                sugar.H_3:             0.0615,
                sugar.C_2:             0.0670,
                sugar.H_21:            0.0972,
                sugar.O_2:            -0.6139,
                sugar.H_O2:            0.4186,
                sugar.O_3:            -0.6541,
                sugar.H_3_terminal:    0.4376,
                }
