ATOM1 BOND_ANGLE TORSION_ANGLE BOND_LENGTH ATOM2
#bond lengths were determined by averaging bondds between atoms found in
#residue params files. All bonds not in params were assigned 1.54 and
#commented
aroC 1.390073 aroC
aroC 1.529832 CAbb
aroC 1.502305 CH2
aroC 1.347289 Narg
aroC 1.347566 Nhis
aroC 1.355759 Ntrp
aroC 1.090034 apo
aroC 1.375964 OH
CAbb 1.458001 Nbb
CAbb 1.458002 Npro
CAbb 1.528310 CH2
CAbb 1.539935 CH1
CAbb 1.521736 CH3
CAbb 1.523258 Cobb
CAbb 1.090538 Hapo
CAbb 1.528861 VIRT
CH1 1.540000 CH1 #not from params files
CH1 1.534033 CH2
CH1 1.521414 CH3
CH1 1.089952 Hapo
CH1 1.433545 OH
CH1 1.540000 COO #not from params file
CH2 1.513119 CH2
CH2 1.511680 CH3
CH2 1.510196 CNH2
CH2 1.513075 COO
CH2 1.091006 Hapo
CH2 1.454067 Narg
CH2 1.488108 Nlys
CH2 1.807563 S
CH2 1.475400 VIRT
CH2 1.401192 OH
CH3 1.540000 CH3 #not from params files
CH3 1.790388 S
CH3 1.089956 Hapo
CNH2 1.540000 CH1 #not from params
CNH2 1.318376 NH2O
CNH2 1.235282 ONH2 #I think this one may be messed up 
Hapo 1.329369 S
Hpol 1.010267 Narg
Hpol 1.000251 NH2O
Hpol 1.010212 Nlys
Hpol 1.006739 Ntrp
Hpol 0.960237 OH
Nbb 1.010000 HNbb 
OCbb 1.231015 Cobb
OOC 1.208033 COO
S 1.540000 S #not from params
OOC 1.540000 OOC #not from params
COO 1.540000 COO #not from params
VIRT 1.329369 S
VIRT 1.569086 VIRT
