# electronic Ligand Builder and Optimisation Workbench (eLBOW)
#   - a module of PHENIX version dev-svn-
#   - file written: Sat Apr 25 12:05:28 2020
#   Inital geometry file: a 126 line input string
#   Ligand name: (2E,4E,6Z,8E)-3,7-dimethyl-8-(5-methyl-3,4-dihydronaphthalen-1(2H)-ylidene)octa-2,4,6-trienoic acid
#   Quantum optimisation: True
#   Method: PBEh-3c
#   Random seed: 3628800
#   SMILES string: CC(/C=C/C=C(C)\C=C\1CCCc2c(C)cccc\12)=C\C(O)=O
#
data_comp_list
loop_
_chem_comp.id
_chem_comp.three_letter_code
_chem_comp.name
_chem_comp.group
_chem_comp.number_atoms_all
_chem_comp.number_atoms_nh
_chem_comp.desc_level
_chem_comp.initial_date
_chem_comp.modified_date
_chem_comp.source
 2W0  2W0  '(2E,4E,6Z,8E)-3,7-dimethyl-8-(5-methyl-3,4-dihydronaphthalen-1(2H)-ylidene)octa-2,4,6-trienoic acid'  ligand  47  23  .  2021-08-04  2021-08-04  
;
Directly from eLBOW using geometry from QM method PBEh-3c with CPCM solvent model
Validated by Mogul as PERFECT
;

data_comp_2W0
loop_
_chem_comp_atom.comp_id
_chem_comp_atom.atom_id
_chem_comp_atom.type_symbol
_chem_comp_atom.type_energy
_chem_comp_atom.charge
_chem_comp_atom.partial_charge
_chem_comp_atom.x
_chem_comp_atom.y
_chem_comp_atom.z
 2W0  C5'  C  CH3   0  -0.740   5.2200  -2.5309  -1.1487
 2W0  C4   C  CR6   0   0.078   4.4851  -1.7585  -0.0914
 2W0  C3   C  CR16  0  -0.318   4.6762  -2.0711   1.2483
 2W0  C2   C  CR16  0  -0.243   4.0247  -1.3561   2.2449
 2W0  C1   C  CR16  0  -0.339   3.1738  -0.3245   1.9014
 2W0  C6   C  CR6   0   0.114   2.9425   0.0011   0.5602
 2W0  C5   C  CR6   0   0.014   3.6088  -0.7186  -0.4432
 2W0  C18  C  CH2   0  -0.507   3.4291  -0.3817  -1.9020
 2W0  C1'  C  CH2   0  -0.444   2.2710   0.5630  -2.1808
 2W0  C2'  C  CH2   0  -0.520   2.2461   1.6974  -1.1644
 2W0  C7   C  C     0   0.104   2.0346   1.1127   0.2013
 2W0  C8   C  C1    0  -0.398   1.0435   1.5124   1.0083
 2W0  C9   C  C     0   0.063   0.1433   2.6547   0.7372
 2W0  C19  C  CH3   0  -0.714   0.7474   4.0220   0.8402
 2W0  C10  C  C1    0  -0.273  -1.1648   2.4834   0.4719
 2W0  C11  C  C1    0  -0.220  -1.8113   1.1990   0.3584
 2W0  C12  C  C1    0  -0.299  -3.1225   1.0587   0.0858
 2W0  C13  C  C     0   0.205  -3.8221  -0.2093  -0.0435
 2W0  C20  C  CH3   0  -0.772  -3.0364  -1.4649   0.1763
 2W0  C14  C  C1    0  -0.474  -5.1372  -0.1502  -0.3567
 2W0  C15  C  C     0   0.523  -6.0613  -1.2698  -0.5513
 2W0  O2   O  O     0  -0.453  -5.8199  -2.4559  -0.4850
 2W0  O1   O  OH1   0  -0.608  -7.2865  -0.8164  -0.8324
 2W0  H1   H  HCH3  0   0.246   4.5348  -3.0743  -1.8021
 2W0  H2   H  HCH3  0   0.244   5.8117  -1.8751  -1.7899
 2W0  H3   H  HCH3  0   0.251   5.8963  -3.2579  -0.7013
 2W0  H4   H  HCR6  0   0.245   5.3508  -2.8765   1.5145
 2W0  H5   H  HCR6  0   0.251   4.1952  -1.5954   3.2864
 2W0  H6   H  HCR6  0   0.246   2.7027   0.2539   2.6856
 2W0  H7   H  HCH2  0   0.246   4.3596   0.0684  -2.2680
 2W0  H8   H  HCH2  0   0.250   3.3043  -1.2992  -2.4824
 2W0  H9   H  HCH2  0   0.244   2.3555   0.9603  -3.1936
 2W0  H10  H  HCH2  0   0.230   1.3228   0.0198  -2.1338
 2W0  H11  H  HCH2  0   0.243   3.1961   2.2428  -1.1996
 2W0  H12  H  HCH2  0   0.248   1.4584   2.4105  -1.4088
 2W0  H13  H  H     0   0.259   0.8635   0.9848   1.9409
 2W0  H14  H  HCH3  0   0.248   1.5766   4.1405   0.1389
 2W0  H15  H  HCH3  0   0.242   0.0168   4.8060   0.6428
 2W0  H16  H  HCH3  0   0.249   1.1623   4.1824   1.8380
 2W0  H17  H  H     0   0.240  -1.7865   3.3618   0.3230
 2W0  H18  H  H     0   0.264  -1.1891   0.3205   0.4937
 2W0  H19  H  H     0   0.246  -3.7198   1.9549  -0.0567
 2W0  H20  H  HCH3  0   0.252  -2.5294  -1.4300   1.1413
 2W0  H21  H  HCH3  0   0.278  -3.6512  -2.3553   0.1445
 2W0  H22  H  HCH3  0   0.255  -2.2600  -1.5601  -0.5855
 2W0  H23  H  H     0   0.265  -5.5785   0.8312  -0.4888
 2W0  H24  H  HOH1  0   0.478  -7.8872  -1.5649  -0.9602

loop_
_chem_comp_bond.comp_id
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.type
_chem_comp_bond.value_dist
_chem_comp_bond.value_dist_esd
_chem_comp_bond.value_dist_neutron
 2W0  C19  C9   single    1.498  0.020  1.498
 2W0  C10  C9   double    1.346  0.020  1.346
 2W0  C10  C11  single    1.442  0.020  1.442
 2W0  C9   C8   single    1.480  0.020  1.480
 2W0  C12  C11  double    1.347  0.020  1.347
 2W0  C12  C13  single    1.454  0.020  1.454
 2W0  C14  C13  double    1.353  0.020  1.353
 2W0  C14  C15  single    1.465  0.020  1.465
 2W0  C13  C20  single    1.497  0.020  1.497
 2W0  C2'  C1'  single    1.523  0.020  1.523
 2W0  C2'  C7   single    1.501  0.020  1.501
 2W0  O2   C15  double    1.212  0.020  1.212
 2W0  C15  O1   single    1.336  0.020  1.336
 2W0  C8   C7   double    1.339  0.020  1.339
 2W0  C1'  C18  single    1.520  0.020  1.520
 2W0  C7   C6   single    1.479  0.020  1.479
 2W0  C18  C5   single    1.508  0.020  1.508
 2W0  C6   C5   aromatic  1.403  0.020  1.403
 2W0  C6   C1   aromatic  1.399  0.020  1.399
 2W0  C5   C4   aromatic  1.405  0.020  1.405
 2W0  C1   C2   aromatic  1.381  0.020  1.381
 2W0  C4   C5'  single    1.502  0.020  1.502
 2W0  C4   C3   aromatic  1.389  0.020  1.389
 2W0  C2   C3   aromatic  1.389  0.020  1.389
 2W0  C5'  H1   single    0.970  0.020  1.090
 2W0  C5'  H2   single    0.970  0.020  1.090
 2W0  C5'  H3   single    0.970  0.020  1.090
 2W0  C3   H4   single    0.930  0.020  1.080
 2W0  C2   H5   single    0.930  0.020  1.080
 2W0  C1   H6   single    0.930  0.020  1.080
 2W0  C18  H7   single    0.970  0.020  1.090
 2W0  C18  H8   single    0.970  0.020  1.090
 2W0  C1'  H9   single    0.970  0.020  1.090
 2W0  C1'  H10  single    0.970  0.020  1.090
 2W0  C2'  H11  single    0.970  0.020  1.090
 2W0  C2'  H12  single    0.970  0.020  1.090
 2W0  C8   H13  single    0.930  0.020  1.080
 2W0  C19  H14  single    0.970  0.020  1.090
 2W0  C19  H15  single    0.970  0.020  1.090
 2W0  C19  H16  single    0.970  0.020  1.090
 2W0  C10  H17  single    0.930  0.020  1.080
 2W0  C11  H18  single    0.930  0.020  1.080
 2W0  C12  H19  single    0.930  0.020  1.080
 2W0  C20  H20  single    0.970  0.020  1.090
 2W0  C20  H21  single    0.970  0.020  1.090
 2W0  C20  H22  single    0.970  0.020  1.090
 2W0  C14  H23  single    0.930  0.020  1.080
 2W0  O1   H24  single    0.850  0.020  0.980

loop_
_chem_comp_angle.comp_id
_chem_comp_angle.atom_id_1
_chem_comp_angle.atom_id_2
_chem_comp_angle.atom_id_3
_chem_comp_angle.value_angle
_chem_comp_angle.value_angle_esd
 2W0  H3   C5'  H2   107.81  3.000
 2W0  H3   C5'  H1   107.67  3.000
 2W0  H2   C5'  H1   106.72  3.000
 2W0  H3   C5'  C4   110.98  3.000
 2W0  H2   C5'  C4   111.71  3.000
 2W0  H1   C5'  C4   111.73  3.000
 2W0  C5   C4   C3   119.61  3.000
 2W0  C3   C4   C5'  119.74  3.000
 2W0  C5   C4   C5'  120.65  3.000
 2W0  H4   C3   C2   119.88  3.000
 2W0  H4   C3   C4   119.33  3.000
 2W0  C2   C3   C4   120.78  3.000
 2W0  H5   C2   C1   120.12  3.000
 2W0  H5   C2   C3   120.19  3.000
 2W0  C1   C2   C3   119.69  3.000
 2W0  H6   C1   C6   119.87  3.000
 2W0  H6   C1   C2   119.17  3.000
 2W0  C6   C1   C2   120.94  3.000
 2W0  C7   C6   C5   120.22  3.000
 2W0  C5   C6   C1   119.18  3.000
 2W0  C7   C6   C1   120.58  3.000
 2W0  C18  C5   C6   121.37  3.000
 2W0  C6   C5   C4   119.80  3.000
 2W0  C18  C5   C4   118.82  3.000
 2W0  H8   C18  H7   105.32  3.000
 2W0  H8   C18  C1'  109.71  3.000
 2W0  H7   C18  C1'  109.28  3.000
 2W0  H8   C18  C5   109.86  3.000
 2W0  H7   C18  C5   108.27  3.000
 2W0  C1'  C18  C5   114.02  3.000
 2W0  H10  C1'  H9   106.73  3.000
 2W0  H10  C1'  C2'  109.09  3.000
 2W0  H9   C1'  C2'  110.45  3.000
 2W0  H10  C1'  C18  110.11  3.000
 2W0  H9   C1'  C18  109.72  3.000
 2W0  C2'  C1'  C18  110.66  3.000
 2W0  H12  C2'  H11  107.07  3.000
 2W0  H12  C2'  C7   110.92  3.000
 2W0  H11  C2'  C7   110.20  3.000
 2W0  H12  C2'  C1'  110.45  3.000
 2W0  H11  C2'  C1'  109.57  3.000
 2W0  C7   C2'  C1'  108.63  3.000
 2W0  C8   C7   C2'  122.45  3.000
 2W0  C8   C7   C6   122.15  3.000
 2W0  C2'  C7   C6   115.28  3.000
 2W0  H13  C8   C9   115.55  3.000
 2W0  H13  C8   C7   119.67  3.000
 2W0  C9   C8   C7   124.77  3.000
 2W0  C10  C9   C19  121.44  3.000
 2W0  C10  C9   C8   121.96  3.000
 2W0  C19  C9   C8   116.53  3.000
 2W0  H16  C19  H15  108.32  3.000
 2W0  H16  C19  H14  106.39  3.000
 2W0  H15  C19  H14  108.34  3.000
 2W0  H16  C19  C9   110.48  3.000
 2W0  H15  C19  C9   111.95  3.000
 2W0  H14  C19  C9   111.16  3.000
 2W0  H17  C10  C11  116.92  3.000
 2W0  H17  C10  C9   118.71  3.000
 2W0  C11  C10  C9   124.37  3.000
 2W0  H18  C11  C12  119.95  3.000
 2W0  H18  C11  C10  117.01  3.000
 2W0  C12  C11  C10  123.03  3.000
 2W0  H19  C12  C13  116.31  3.000
 2W0  H19  C12  C11  118.43  3.000
 2W0  C13  C12  C11  125.27  3.000
 2W0  C14  C13  C20  125.49  3.000
 2W0  C20  C13  C12  117.76  3.000
 2W0  C14  C13  C12  116.75  3.000
 2W0  H22  C20  H21  108.16  3.000
 2W0  H22  C20  H20  106.83  3.000
 2W0  H21  C20  H20  108.44  3.000
 2W0  H22  C20  C13  110.11  3.000
 2W0  H21  C20  C13  112.80  3.000
 2W0  H20  C20  C13  110.30  3.000
 2W0  H23  C14  C15  114.77  3.000
 2W0  H23  C14  C13  117.60  3.000
 2W0  C15  C14  C13  127.63  3.000
 2W0  O1   C15  O2   121.74  3.000
 2W0  O1   C15  C14  110.31  3.000
 2W0  O2   C15  C14  127.95  3.000
 2W0  H24  O1   C15  109.54  3.000

loop_
_chem_comp_tor.comp_id
_chem_comp_tor.id
_chem_comp_tor.atom_id_1
_chem_comp_tor.atom_id_2
_chem_comp_tor.atom_id_3
_chem_comp_tor.atom_id_4
_chem_comp_tor.value_angle
_chem_comp_tor.value_angle_esd
_chem_comp_tor.period
 2W0  CONST_01  C1   C6   C5   C4      0.00   0.0  0
 2W0  CONST_02  C1   C2   C3   C4      0.00   0.0  0
 2W0  CONST_03  C6   C5   C4   C3      0.00   0.0  0
 2W0  CONST_04  C6   C1   C2   C3      0.00   0.0  0
 2W0  CONST_05  C5   C6   C1   C2      0.00   0.0  0
 2W0  CONST_06  C5   C4   C3   C2      0.00   0.0  0
 2W0  CONST_07  C18  C5   C4   C5'     0.00   0.0  0
 2W0  CONST_08  C6   C5   C4   C5'   180.00   0.0  0
 2W0  CONST_09  C2   C3   C4   C5'   180.00   0.0  0
 2W0  CONST_10  H5   C2   C3   C4    180.00   0.0  0
 2W0  CONST_11  H6   C1   C2   C3    180.00   0.0  0
 2W0  CONST_12  H4   C3   C2   C1    180.00   0.0  0
 2W0  CONST_13  H24  O1   C15  C14   180.00   0.0  0
 2W0  Var_01    C1'  C18  C5   C4    168.77  30.0  1
 2W0  Var_02    C2'  C7   C6   C1    158.11  30.0  1
 2W0  Var_03    C1'  C2'  C7   C6     50.58  30.0  1
 2W0  Var_04    C2'  C1'  C18  C5     43.43  30.0  1
 2W0  Var_05    C7   C2'  C1'  C18   -62.14  30.0  1
 2W0  Var_06    C9   C8   C7   C6    177.01  30.0  2
 2W0  Var_07    H1   C5'  C4   C3    117.15  30.0  2
 2W0  Var_08    C19  C9   C8   C7    -70.99  30.0  2
 2W0  Var_09    C11  C10  C9   C8     -3.13   0.0  2
 2W0  Var_10    C13  C12  C11  C10   179.79   0.0  2
 2W0  Var_11    C15  C14  C13  C12   179.62   0.0  2
 2W0  Var_12    C12  C11  C10  C9   -179.69  30.0  2
 2W0  Var_13    C14  C13  C12  C11  -178.28  30.0  2
 2W0  Var_14    O2   C15  C14  C13    -0.99  30.0  2
 2W0  Var_15    H14  C19  C9   C8     59.64  30.0  3
 2W0  Var_16    H20  C20  C13  C12    53.65  30.0  3

loop_
_chem_comp_plane_atom.comp_id
_chem_comp_plane_atom.plane_id
_chem_comp_plane_atom.atom_id
_chem_comp_plane_atom.dist_esd
 2W0  plan-1  C14  0.020
 2W0  plan-1  C15  0.020
 2W0  plan-1  O2   0.020
 2W0  plan-1  O1   0.020
 2W0  plan-1  H24  0.020
 2W0  plan-2  C5'  0.020
 2W0  plan-2  C4   0.020
 2W0  plan-2  C3   0.020
 2W0  plan-2  C2   0.020
 2W0  plan-2  C1   0.020
 2W0  plan-2  C6   0.020
 2W0  plan-2  C5   0.020
 2W0  plan-2  C18  0.020
 2W0  plan-2  C7   0.020
 2W0  plan-2  H4   0.020
 2W0  plan-2  H5   0.020
 2W0  plan-2  H6   0.020
 2W0  plan-3  C8   0.020
 2W0  plan-3  C9   0.020
 2W0  plan-3  C19  0.020
 2W0  plan-3  C10  0.020
 2W0  plan-3  C11  0.020
 2W0  plan-3  H17  0.020
 2W0  plan-4  C10  0.020
 2W0  plan-4  C11  0.020
 2W0  plan-4  C12  0.020
 2W0  plan-4  C13  0.020
 2W0  plan-4  H18  0.020
 2W0  plan-4  H19  0.020
 2W0  plan-5  C12  0.020
 2W0  plan-5  C13  0.020
 2W0  plan-5  C20  0.020
 2W0  plan-5  C14  0.020
 2W0  plan-5  C15  0.020
 2W0  plan-5  H23  0.020

