data_X3D
# 
_chem_comp.id                                    X3D 
_chem_comp.name                                  "(14S,17R)-20-amino-17-hydroxy-11,17-dioxo-12,16,18-trioxa-17lambda~5~-phosphaicosan-14-yl tetradecanoate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C30 H60 N O8 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-10-26 
_chem_comp.pdbx_modified_date                    2023-03-17 
_chem_comp.pdbx_ambiguous_flag                   N 
_chem_comp.pdbx_release_status                   REL 
_chem_comp.pdbx_replaced_by                      ? 
_chem_comp.pdbx_replaces                         ? 
_chem_comp.formula_weight                        593.773 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     X3D 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   N 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        8EXH 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
loop_
_chem_comp_atom.comp_id 
_chem_comp_atom.atom_id 
_chem_comp_atom.alt_atom_id 
_chem_comp_atom.type_symbol 
_chem_comp_atom.charge 
_chem_comp_atom.pdbx_align 
_chem_comp_atom.pdbx_aromatic_flag 
_chem_comp_atom.pdbx_leaving_atom_flag 
_chem_comp_atom.pdbx_stereo_config 
_chem_comp_atom.model_Cartn_x 
_chem_comp_atom.model_Cartn_y 
_chem_comp_atom.model_Cartn_z 
_chem_comp_atom.pdbx_model_Cartn_x_ideal 
_chem_comp_atom.pdbx_model_Cartn_y_ideal 
_chem_comp_atom.pdbx_model_Cartn_z_ideal 
_chem_comp_atom.pdbx_component_atom_id 
_chem_comp_atom.pdbx_component_comp_id 
_chem_comp_atom.pdbx_ordinal 
X3D C17 C1  C 0 1 N N N 16.954 1.230  -39.054 -0.702  3.246  -1.158 C17 X3D 1   
X3D C12 C2  C 0 1 N N N 18.638 -2.581 -42.347 4.143   0.705  -1.250 C12 X3D 2   
X3D C16 C3  C 0 1 N N S 17.586 0.241  -40.030 -0.372  2.189  -2.214 C16 X3D 3   
X3D C11 C4  C 0 1 N N N 19.943 -2.183 -43.029 5.068   -0.351 -0.642 C11 X3D 4   
X3D C28 C5  C 0 1 N N N 20.884 1.643  -39.811 -3.630  0.491  -1.939 C28 X3D 5   
X3D C22 C6  C 0 1 N N N 11.152 -0.268 -40.255 -4.608  1.900  3.719  C22 X3D 6   
X3D C21 C7  C 0 1 N N N 11.878 1.050  -39.987 -3.767  3.036  3.134  C21 X3D 7   
X3D C36 C8  C 0 1 N N N 26.097 -0.222 -47.298 -12.239 -4.128 0.076  C36 X3D 8   
X3D C35 C9  C 0 1 N N N 25.383 -0.482 -45.974 -10.965 -3.536 0.684  C35 X3D 9   
X3D C31 C10 C 0 1 N N N 23.418 1.067  -41.938 -6.654  -1.223 -0.332 C31 X3D 10  
X3D C14 C11 C 0 1 N N N 16.628 -1.251 -41.573 1.775   1.314  -1.664 C14 X3D 11  
X3D C13 C12 C 0 1 N N N 17.483 -1.675 -42.763 2.686   0.274  -1.065 C13 X3D 12  
X3D C10 C13 C 0 1 N N N 21.012 -3.264 -42.915 6.524   0.079  -0.827 C10 X3D 13  
X3D C30 C14 C 0 1 N N N 23.109 2.143  -40.901 -5.772  -0.657 -1.448 C30 X3D 14  
X3D C29 C15 C 0 1 N N N 21.619 2.470  -40.861 -4.498  -0.066 -0.840 C29 X3D 15  
X3D C32 C16 C 0 1 N N N 24.627 1.417  -42.801 -7.928  -1.814 -0.940 C32 X3D 16  
X3D C34 C17 C 0 1 N N N 25.731 0.561  -44.915 -10.083 -2.971 -0.432 C34 X3D 17  
X3D C33 C18 C 0 1 N N N 25.160 0.198  -43.548 -8.809  -2.379 0.176  C33 X3D 18  
X3D C37 C19 C 0 1 N N N 26.079 -1.447 -48.207 -13.121 -4.693 1.192  C37 X3D 19  
X3D C38 C20 C 0 1 N N N 26.855 -1.213 -49.501 -14.394 -5.284 0.585  C38 X3D 20  
X3D C01 C21 C 0 1 N N N 22.762 -8.841 -52.144 16.976  -3.479 1.473  C01 X3D 21  
X3D C02 C22 C 0 1 N N N 23.508 -7.952 -51.152 16.051  -2.423 0.865  C02 X3D 22  
X3D C03 C23 C 0 1 N N N 22.617 -7.491 -50.002 14.594  -2.854 1.050  C03 X3D 23  
X3D C04 C24 C 0 1 N N N 23.347 -6.543 -49.054 13.669  -1.798 0.442  C04 X3D 24  
X3D C05 C25 C 0 1 N N N 22.416 -5.939 -48.006 12.213  -2.228 0.627  C05 X3D 25  
X3D C06 C26 C 0 1 N N N 23.166 -5.511 -46.748 11.288  -1.172 0.019  C06 X3D 26  
X3D C07 C27 C 0 1 N N N 22.508 -4.313 -46.072 9.831   -1.603 0.204  C07 X3D 27  
X3D C08 C28 C 0 1 N N N 22.618 -4.354 -44.551 8.906   -0.547 -0.404 C08 X3D 28  
X3D C09 C29 C 0 1 N N N 22.136 -3.048 -43.924 7.450   -0.977 -0.219 C09 X3D 29  
X3D C26 C30 C 0 1 N N N 18.907 0.736  -40.612 -1.670  1.578  -2.748 C26 X3D 30  
X3D N23 N1  N 0 1 N N N 11.120 -0.535 -41.682 -3.721  0.850  4.236  N23 X3D 31  
X3D O15 O1  O 0 1 N N N 16.699 0.062  -41.095 0.444   1.147  -1.618 O15 X3D 32  
X3D O18 O2  O 0 1 N N N 15.758 0.681  -38.575 -1.518  2.663  -0.140 O18 X3D 33  
X3D O20 O3  O 0 1 N N N 12.758 0.862  -38.916 -3.045  2.559  1.998  O20 X3D 34  
X3D O24 O4  O 0 1 N N N 14.309 -0.081 -39.777 -2.786  4.689  0.670  O24 X3D 35  
X3D O25 O5  O 0 1 N N N 14.189 1.690  -37.695 -0.808  3.939  2.046  O25 X3D 36  
X3D O27 O6  O 0 1 N N N 19.488 1.671  -39.754 -2.454  1.064  -1.639 O27 X3D 37  
X3D O39 O7  O 0 1 N N N 21.497 0.980  -39.046 -3.993  0.422  -3.089 O39 X3D 38  
X3D O40 O8  O 0 1 N N N 15.908 -2.035 -41.055 2.243   2.299  -2.185 O40 X3D 39  
X3D P19 P1  P 0 1 N N N 14.335 1.288  -39.142 -2.055  3.489  1.133  P19 X3D 40  
X3D H1  H1  H 0 1 N N N 17.641 1.412  -38.214 0.221   3.618  -0.715 H1  X3D 41  
X3D H2  H2  H 0 1 N N N 16.746 2.179  -39.570 -1.239  4.071  -1.626 H2  X3D 42  
X3D H3  H3  H 0 1 N N N 18.394 -3.618 -42.622 4.305   1.660  -0.751 H3  X3D 43  
X3D H4  H4  H 0 1 N N N 18.770 -2.512 -41.257 4.359   0.808  -2.313 H4  X3D 44  
X3D H5  H5  H 0 1 N N N 17.762 -0.711 -39.507 0.175   2.654  -3.035 H5  X3D 45  
X3D H6  H6  H 0 1 N N N 20.320 -1.262 -42.560 4.852   -0.455 0.421  H6  X3D 46  
X3D H7  H7  H 0 1 N N N 19.742 -1.996 -44.094 4.905   -1.307 -1.140 H7  X3D 47  
X3D H8  H8  H 0 1 N N N 10.122 -0.201 -39.874 -5.227  2.285  4.530  H8  X3D 48  
X3D H9  H9  H 0 1 N N N 11.680 -1.086 -39.743 -5.248  1.484  2.940  H9  X3D 49  
X3D H10 H10 H 0 1 N N N 12.442 1.352  -40.882 -4.421  3.854  2.832  H10 X3D 50  
X3D H11 H11 H 0 1 N N N 11.147 1.832  -39.734 -3.065  3.393  3.888  H11 X3D 51  
X3D H12 H12 H 0 1 N N N 27.142 0.051  -47.090 -12.783 -3.348 -0.457 H12 X3D 52  
X3D H13 H13 H 0 1 N N N 25.596 0.611  -47.814 -11.974 -4.925 -0.617 H13 X3D 53  
X3D H14 H14 H 0 1 N N N 24.297 -0.462 -46.148 -11.230 -2.738 1.378  H14 X3D 54  
X3D H15 H15 H 0 1 N N N 25.676 -1.475 -45.603 -10.421 -4.316 1.217  H15 X3D 55  
X3D H16 H16 H 0 1 N N N 22.542 0.945  -42.591 -6.110  -2.002 0.201  H16 X3D 56  
X3D H17 H17 H 0 1 N N N 23.620 0.121  -41.415 -6.919  -0.425 0.361  H17 X3D 57  
X3D H18 H18 H 0 1 N N N 17.894 -0.775 -43.243 2.524   -0.681 -1.563 H18 X3D 58  
X3D H19 H19 H 0 1 N N N 16.849 -2.216 -43.480 2.470   0.171  -0.002 H19 X3D 59  
X3D H20 H20 H 0 1 N N N 20.550 -4.245 -43.100 6.740   0.183  -1.890 H20 X3D 60  
X3D H21 H21 H 0 1 N N N 21.434 -3.243 -41.900 6.687   1.035  -0.328 H21 X3D 61  
X3D H22 H22 H 0 1 N N N 23.423 1.785  -39.910 -5.508  -1.455 -2.141 H22 X3D 62  
X3D H23 H23 H 0 1 N N N 23.668 3.055  -41.155 -6.316  0.122  -1.981 H23 X3D 63  
X3D H24 H24 H 0 1 N N N 21.495 3.537  -40.624 -3.954  -0.846 -0.307 H24 X3D 64  
X3D H25 H25 H 0 1 N N N 21.182 2.261  -41.849 -4.763  0.732  -0.147 H25 X3D 65  
X3D H26 H26 H 0 1 N N N 25.423 1.815  -42.155 -8.472  -1.034 -1.473 H26 X3D 66  
X3D H27 H27 H 0 1 N N N 24.332 2.183  -43.533 -7.663  -2.612 -1.633 H27 X3D 67  
X3D H28 H28 H 0 1 N N N 26.826 0.634  -44.835 -9.819  -3.769 -1.125 H28 X3D 68  
X3D H29 H29 H 0 1 N N N 25.320 1.533  -45.225 -10.627 -2.191 -0.965 H29 X3D 69  
X3D H30 H30 H 0 1 N N N 24.338 -0.519 -43.687 -8.266  -3.159 0.709  H30 X3D 70  
X3D H31 H31 H 0 1 N N N 25.954 -0.267 -42.945 -9.074  -1.582 0.869  H31 X3D 71  
X3D H32 H32 H 0 1 N N N 25.035 -1.687 -48.458 -12.576 -5.473 1.725  H32 X3D 72  
X3D H33 H33 H 0 1 N N N 26.531 -2.294 -47.670 -13.385 -3.895 1.885  H33 X3D 73  
X3D H34 H34 H 0 1 N N N 26.815 -2.120 -50.122 -14.130 -6.082 -0.109 H34 X3D 74  
X3D H35 H35 H 0 1 N N N 26.407 -0.372 -50.050 -15.023 -5.687 1.379  H35 X3D 75  
X3D H36 H36 H 0 1 N N N 27.903 -0.978 -49.263 -14.938 -4.505 0.051  H36 X3D 76  
X3D H37 H37 H 0 1 N N N 23.445 -9.145 -52.950 16.813  -4.435 0.975  H37 X3D 77  
X3D H38 H38 H 0 1 N N N 22.387 -9.735 -51.625 18.014  -3.173 1.341  H38 X3D 78  
X3D H39 H39 H 0 1 N N N 21.916 -8.283 -52.572 16.760  -3.583 2.536  H39 X3D 79  
X3D H40 H40 H 0 1 N N N 24.355 -8.518 -50.738 16.213  -1.468 1.364  H40 X3D 80  
X3D H41 H41 H 0 1 N N N 23.884 -7.066 -51.685 16.267  -2.320 -0.198 H41 X3D 81  
X3D H42 H42 H 0 1 N N N 21.741 -6.972 -50.418 14.432  -3.809 0.552  H42 X3D 82  
X3D H43 H43 H 0 1 N N N 22.285 -8.373 -49.435 14.378  -2.957 2.113  H43 X3D 83  
X3D H44 H44 H 0 1 N N N 24.143 -7.101 -48.540 13.832  -0.842 0.941  H44 X3D 84  
X3D H45 H45 H 0 1 N N N 23.792 -5.728 -49.643 13.885  -1.694 -0.621 H45 X3D 85  
X3D H46 H46 H 0 1 N N N 21.919 -5.058 -48.439 12.050  -3.184 0.128  H46 X3D 86  
X3D H47 H47 H 0 1 N N N 21.660 -6.688 -47.730 11.997  -2.332 1.690  H47 X3D 87  
X3D H48 H48 H 0 1 N N N 23.183 -6.353 -46.041 11.450  -0.216 0.518  H48 X3D 88  
X3D H49 H49 H 0 1 N N N 24.197 -5.242 -47.023 11.504  -1.069 -1.044 H49 X3D 89  
X3D H50 H50 H 0 1 N N N 22.994 -3.395 -46.434 9.669   -2.558 -0.294 H50 X3D 90  
X3D H51 H51 H 0 1 N N N 21.443 -4.297 -46.346 9.615   -1.706 1.267  H51 X3D 91  
X3D H52 H52 H 0 1 N N N 22.003 -5.183 -44.170 9.068   0.409  0.095  H52 X3D 92  
X3D H53 H53 H 0 1 N N N 23.669 -4.519 -44.272 9.122   -0.443 -1.467 H53 X3D 93  
X3D H54 H54 H 0 1 N N N 22.983 -2.569 -43.411 7.234   -1.081 0.844  H54 X3D 94  
X3D H55 H55 H 0 1 N N N 21.770 -2.387 -44.723 7.287   -1.933 -0.717 H55 X3D 95  
X3D H56 H56 H 0 1 N N N 19.591 -0.116 -40.739 -2.242  2.343  -3.273 H56 X3D 96  
X3D H57 H57 H 0 1 N N N 18.721 1.205  -41.589 -1.433  0.765  -3.434 H57 X3D 97  
X3D H58 H58 H 0 1 N N N 10.644 -1.398 -41.849 -3.074  1.224  4.913  H58 X3D 98  
X3D H59 H59 H 0 1 N N N 10.639 0.207  -42.149 -4.253  0.087  4.628  H59 X3D 99  
X3D H61 H61 H 0 1 N N N 14.065 0.914  -37.161 -0.282  3.202  2.385  H61 X3D 100 
# 
loop_
_chem_comp_bond.comp_id 
_chem_comp_bond.atom_id_1 
_chem_comp_bond.atom_id_2 
_chem_comp_bond.value_order 
_chem_comp_bond.pdbx_aromatic_flag 
_chem_comp_bond.pdbx_stereo_config 
_chem_comp_bond.pdbx_ordinal 
X3D C01 C02 SING N N 1  
X3D C02 C03 SING N N 2  
X3D C03 C04 SING N N 3  
X3D C38 C37 SING N N 4  
X3D C04 C05 SING N N 5  
X3D C37 C36 SING N N 6  
X3D C05 C06 SING N N 7  
X3D C36 C35 SING N N 8  
X3D C06 C07 SING N N 9  
X3D C07 C08 SING N N 10 
X3D C35 C34 SING N N 11 
X3D C34 C33 SING N N 12 
X3D C08 C09 SING N N 13 
X3D C09 C10 SING N N 14 
X3D C33 C32 SING N N 15 
X3D C11 C10 SING N N 16 
X3D C11 C12 SING N N 17 
X3D C32 C31 SING N N 18 
X3D C13 C12 SING N N 19 
X3D C13 C14 SING N N 20 
X3D C31 C30 SING N N 21 
X3D N23 C22 SING N N 22 
X3D C14 O15 SING N N 23 
X3D C14 O40 DOUB N N 24 
X3D O15 C16 SING N N 25 
X3D C30 C29 SING N N 26 
X3D C29 C28 SING N N 27 
X3D C26 C16 SING N N 28 
X3D C26 O27 SING N N 29 
X3D C22 C21 SING N N 30 
X3D C16 C17 SING N N 31 
X3D C21 O20 SING N N 32 
X3D C28 O27 SING N N 33 
X3D C28 O39 DOUB N N 34 
X3D O24 P19 DOUB N N 35 
X3D P19 O20 SING N N 36 
X3D P19 O18 SING N N 37 
X3D P19 O25 SING N N 38 
X3D C17 O18 SING N N 39 
X3D C17 H1  SING N N 40 
X3D C17 H2  SING N N 41 
X3D C12 H3  SING N N 42 
X3D C12 H4  SING N N 43 
X3D C16 H5  SING N N 44 
X3D C11 H6  SING N N 45 
X3D C11 H7  SING N N 46 
X3D C22 H8  SING N N 47 
X3D C22 H9  SING N N 48 
X3D C21 H10 SING N N 49 
X3D C21 H11 SING N N 50 
X3D C36 H12 SING N N 51 
X3D C36 H13 SING N N 52 
X3D C35 H14 SING N N 53 
X3D C35 H15 SING N N 54 
X3D C31 H16 SING N N 55 
X3D C31 H17 SING N N 56 
X3D C13 H18 SING N N 57 
X3D C13 H19 SING N N 58 
X3D C10 H20 SING N N 59 
X3D C10 H21 SING N N 60 
X3D C30 H22 SING N N 61 
X3D C30 H23 SING N N 62 
X3D C29 H24 SING N N 63 
X3D C29 H25 SING N N 64 
X3D C32 H26 SING N N 65 
X3D C32 H27 SING N N 66 
X3D C34 H28 SING N N 67 
X3D C34 H29 SING N N 68 
X3D C33 H30 SING N N 69 
X3D C33 H31 SING N N 70 
X3D C37 H32 SING N N 71 
X3D C37 H33 SING N N 72 
X3D C38 H34 SING N N 73 
X3D C38 H35 SING N N 74 
X3D C38 H36 SING N N 75 
X3D C01 H37 SING N N 76 
X3D C01 H38 SING N N 77 
X3D C01 H39 SING N N 78 
X3D C02 H40 SING N N 79 
X3D C02 H41 SING N N 80 
X3D C03 H42 SING N N 81 
X3D C03 H43 SING N N 82 
X3D C04 H44 SING N N 83 
X3D C04 H45 SING N N 84 
X3D C05 H46 SING N N 85 
X3D C05 H47 SING N N 86 
X3D C06 H48 SING N N 87 
X3D C06 H49 SING N N 88 
X3D C07 H50 SING N N 89 
X3D C07 H51 SING N N 90 
X3D C08 H52 SING N N 91 
X3D C08 H53 SING N N 92 
X3D C09 H54 SING N N 93 
X3D C09 H55 SING N N 94 
X3D C26 H56 SING N N 95 
X3D C26 H57 SING N N 96 
X3D N23 H58 SING N N 97 
X3D N23 H59 SING N N 98 
X3D O25 H61 SING N N 99 
# 
loop_
_pdbx_chem_comp_descriptor.comp_id 
_pdbx_chem_comp_descriptor.type 
_pdbx_chem_comp_descriptor.program 
_pdbx_chem_comp_descriptor.program_version 
_pdbx_chem_comp_descriptor.descriptor 
X3D SMILES           ACDLabs              12.01 "NCCOP(O)(=O)OCC(COC(=O)CCCCCCCCCC)OC(=O)CCCCCCCCCCCCC"                                                                                                                         
X3D InChI            InChI                1.06  "InChI=1S/C30H60NO8P/c1-3-5-7-9-11-13-14-15-17-19-21-23-30(33)39-28(27-38-40(34,35)37-25-24-31)26-36-29(32)22-20-18-16-12-10-8-6-4-2/h28H,3-27,31H2,1-2H3,(H,34,35)/t28-/m0/s1" 
X3D InChIKey         InChI                1.06  BMOFTHAXXFOIRF-NDEPHWFRSA-N                                                                                                                                                     
X3D SMILES_CANONICAL CACTVS               3.385 "CCCCCCCCCCCCCC(=O)O[C@@H](COC(=O)CCCCCCCCCC)CO[P](O)(=O)OCCN"                                                                                                                  
X3D SMILES           CACTVS               3.385 "CCCCCCCCCCCCCC(=O)O[CH](COC(=O)CCCCCCCCCC)CO[P](O)(=O)OCCN"                                                                                                                    
X3D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCCCCCCCCCCCC(=O)O[C@@H](COC(=O)CCCCCCCCCC)COP(=O)(O)OCCN"                                                                                                                    
X3D SMILES           "OpenEye OEToolkits" 2.0.7 "CCCCCCCCCCCCCC(=O)OC(COC(=O)CCCCCCCCCC)COP(=O)(O)OCCN"                                                                                                                         
# 
loop_
_pdbx_chem_comp_identifier.comp_id 
_pdbx_chem_comp_identifier.type 
_pdbx_chem_comp_identifier.program 
_pdbx_chem_comp_identifier.program_version 
_pdbx_chem_comp_identifier.identifier 
X3D "SYSTEMATIC NAME" ACDLabs              12.01 "(14S,17R)-20-amino-17-hydroxy-11,17-dioxo-12,16,18-trioxa-17lambda~5~-phosphaicosan-14-yl tetradecanoate" 
X3D "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "[(2~{S})-1-[2-azanylethoxy(oxidanyl)phosphoryl]oxy-3-undecanoyloxy-propan-2-yl] tetradecanoate"           
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
X3D "Create component" 2022-10-26 RCSB 
X3D "Initial release"  2023-03-22 RCSB 
# 
