data_6PD
#
_chem_comp.id 6PD
_chem_comp.name
"[4-(2-pyrrolidin-1-ylethyl)piperidin-1-yl]-[4-[4-(2-pyrrolidin-1-ylethyl)piperidin-1-yl]carbonyl-3-[[4-(pyrrolidin-1-ylmethoxy)phenyl]amino]phenyl]methanone"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C41 H60 N6 O3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2016-05-18
_chem_comp.pdbx_modified_date 2017-05-19
_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 684.953
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 6PD
_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 5JSJ
_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.pdbx_backbone_atom_flag
_chem_comp_atom.pdbx_n_terminal_atom_flag
_chem_comp_atom.pdbx_c_terminal_atom_flag
_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
6PD C13 C1 C 0 1 N N N N N N 12.791 -6.216 3.275 6.192 1.141 -0.370 C13 6PD 1
6PD C15 C2 C 0 1 N N N N N N 12.250 -4.612 1.384 5.520 2.730 1.437 C15 6PD 2
6PD C17 C3 C 0 1 N N N N N N 13.181 -7.571 5.328 8.598 0.688 -0.870 C17 6PD 3
6PD C20 C4 C 0 1 N N N N N N 14.593 -10.738 4.117 10.791 -1.312 -3.082 C20 6PD 4
6PD C21 C5 C 0 1 N N N N N N 13.822 -11.082 5.362 11.794 -0.762 -2.047 C21 6PD 5
6PD C22 C6 C 0 1 N N N N N N 12.758 -9.985 5.514 10.960 0.159 -1.131 C22 6PD 6
6PD C26 C7 C 0 1 Y N N N N N 12.408 0.015 4.139 -2.180 3.136 0.870 C26 6PD 7
6PD C28 C8 C 0 1 Y N N N N N 11.559 1.412 5.710 -4.071 4.129 -0.219 C28 6PD 8
6PD O01 O1 O 0 1 N N N N N N 12.678 1.489 -1.815 -2.834 0.258 2.446 O01 6PD 9
6PD C02 C9 C 0 1 N N N N N N 11.968 1.598 -0.817 -1.920 -0.106 1.731 C02 6PD 10
6PD C03 C10 C 0 1 Y N N N N N 11.503 0.359 -0.151 -0.584 0.507 1.872 C03 6PD 11
6PD C04 C11 C 0 1 Y N N N N N 11.935 -0.083 1.102 -0.067 1.311 0.845 C04 6PD 12
6PD C05 C12 C 0 1 Y N N N N N 11.383 -1.318 1.615 1.190 1.885 0.984 C05 6PD 13
6PD C06 C13 C 0 1 Y N N N N N 10.473 -2.118 0.972 1.931 1.660 2.140 C06 6PD 14
6PD C07 C14 C 0 1 Y N N N N N 10.074 -1.674 -0.288 1.413 0.859 3.161 C07 6PD 15
6PD C08 C15 C 0 1 Y N N N N N 10.593 -0.472 -0.803 0.166 0.292 3.032 C08 6PD 16
6PD C09 C16 C 0 1 N N N N N N 10.045 -3.396 1.670 3.272 2.271 2.289 C09 6PD 17
6PD N10 N1 N 0 1 N N N N N N 10.878 -4.482 1.853 4.154 2.214 1.272 N10 6PD 18
6PD C11 C17 C 0 1 N N N N N N 10.406 -5.661 2.596 3.769 1.637 -0.023 C11 6PD 19
6PD C12 C18 C 0 1 N N N N N N 11.361 -5.948 3.782 4.781 0.550 -0.399 C12 6PD 20
6PD C14 C19 C 0 1 N N N N N N 13.245 -5.045 2.449 6.513 1.631 1.044 C14 6PD 21
6PD C16 C20 C 0 1 N N N N N N 13.803 -6.551 4.394 7.203 0.067 -0.778 C16 6PD 22
6PD N18 N2 N 0 1 N N N N N N 13.044 -8.885 4.569 9.568 -0.343 -1.263 N18 6PD 23
6PD C19 C21 C 0 1 N N N N N N 14.283 -9.281 3.818 9.436 -0.677 -2.704 C19 6PD 24
6PD O23 O2 O 0 1 N N N N N N 8.933 -3.498 2.176 3.576 2.823 3.328 O23 6PD 25
6PD N24 N3 N 0 1 N N N N N N 12.825 0.637 1.905 -0.811 1.532 -0.308 N24 6PD 26
6PD C25 C22 C 0 1 Y N N N N N 12.468 0.956 3.177 -1.906 2.403 -0.277 C25 6PD 27
6PD C27 C23 C 0 1 Y N N N N N 11.953 0.231 5.387 -3.261 3.994 0.899 C27 6PD 28
6PD C29 C24 C 0 1 Y N N N N N 11.598 2.375 4.764 -3.801 3.394 -1.364 C29 6PD 29
6PD C30 C25 C 0 1 Y N N N N N 12.024 2.124 3.510 -2.720 2.535 -1.395 C30 6PD 30
6PD O31 O3 O 0 1 N N N N N N 11.118 1.603 6.929 -5.135 4.974 -0.190 O31 6PD 31
6PD C32 C26 C 0 1 N N N N N N 9.636 1.342 6.871 -5.926 5.064 -1.377 C32 6PD 32
6PD N33 N4 N 0 1 N N N N N N 8.815 2.705 6.644 -6.846 3.920 -1.440 N33 6PD 33
6PD C34 C27 C 0 1 N N N N N N 8.732 3.237 5.230 -8.112 4.216 -0.722 C34 6PD 34
6PD C35 C28 C 0 1 N N N N N N 7.688 4.380 5.252 -9.106 3.188 -1.320 C35 6PD 35
6PD C36 C29 C 0 1 N N N N N N 6.688 3.901 6.308 -8.689 3.129 -2.807 C36 6PD 36
6PD C37 C30 C 0 1 N N N N N N 7.363 2.672 7.015 -7.233 3.628 -2.837 C37 6PD 37
6PD N38 N5 N 0 1 N N N N N N 11.715 2.912 -0.395 -2.125 -1.068 0.811 N38 6PD 38
6PD C39 C31 C 0 1 N N N N N N 12.254 4.070 -1.107 -1.061 -1.444 -0.130 C39 6PD 39
6PD C40 C32 C 0 1 N N N N N N 13.248 4.823 -0.222 -0.843 -2.959 -0.047 C40 6PD 40
6PD C41 C33 C 0 1 N N N N N N 12.794 5.045 1.233 -2.175 -3.675 -0.285 C41 6PD 41
6PD C42 C34 C 0 1 N N N N N N 11.339 4.627 1.436 -3.174 -3.271 0.801 C42 6PD 42
6PD C43 C35 C 0 1 N N N N N N 10.931 3.320 0.754 -3.417 -1.765 0.732 C43 6PD 43
6PD C44 C36 C 0 1 N N N N N N 12.895 6.473 1.645 -1.954 -5.188 -0.238 C44 6PD 44
6PD C45 C37 C 0 1 N N N N N N 13.094 6.619 3.140 -3.257 -5.905 -0.598 C45 6PD 45
6PD N46 N6 N 0 1 N N N N N N 14.181 7.668 3.393 -3.046 -7.358 -0.553 N46 6PD 46
6PD C47 C38 C 0 1 N N N N N N 14.659 8.446 2.225 -2.921 -7.834 0.848 C47 6PD 47
6PD C48 C39 C 0 1 N N N N N N 15.564 9.539 2.836 -3.236 -9.347 0.738 C48 6PD 48
6PD C49 C40 C 0 1 N N N N N N 15.008 9.751 4.248 -4.355 -9.391 -0.328 C49 6PD 49
6PD C50 C41 C 0 1 N N N N N N 13.904 8.678 4.442 -4.204 -8.080 -1.123 C50 6PD 50
6PD H1 H1 H 0 1 N N N N N N 12.741 -7.092 2.611 6.250 1.978 -1.066 H1 6PD 51
6PD H2 H2 H 0 1 N N N N N N 12.267 -5.358 0.575 5.663 3.598 0.793 H2 6PD 52
6PD H3 H3 H 0 1 N N N N N N 12.572 -3.637 0.990 5.681 3.013 2.477 H3 6PD 53
6PD H4 H4 H 0 1 N N N N N N 13.826 -7.714 6.207 8.593 1.485 -1.614 H4 6PD 54
6PD H5 H5 H 0 1 N N N N N N 12.189 -7.223 5.653 8.877 1.100 0.100 H5 6PD 55
6PD H6 H6 H 0 1 N N N N N N 14.272 -11.376 3.281 11.083 -1.012 -4.088 H6 6PD 56
6PD H7 H7 H 0 1 N N N N N N 15.672 -10.872 4.287 10.734 -2.399 -3.013 H7 6PD 57
6PD H8 H8 H 0 1 N N N N N N 13.344 -12.067 5.256 12.228 -1.579 -1.469 H8 6PD 58
6PD H9 H9 H 0 1 N N N N N N 14.490 -11.091 6.236 12.578 -0.192 -2.545 H9 6PD 59
6PD H10 H10 H 0 1 N N N N N N 12.776 -9.598 6.543 11.298 0.075 -0.098 H10 6PD 60
6PD H11 H11 H 0 1 N N N N N N 11.765 -10.405 5.297 11.028 1.193 -1.469 H11 6PD 61
6PD H12 H12 H 0 1 N N N N N N 12.748 -0.980 3.892 -1.550 3.031 1.741 H12 6PD 62
6PD H13 H13 H 0 1 N N N N N N 11.717 -1.638 2.591 1.592 2.504 0.196 H13 6PD 63
6PD H14 H14 H 0 1 N N N N N N 9.368 -2.251 -0.867 1.992 0.687 4.057 H14 6PD 64
6PD H15 H15 H 0 1 N N N N N N 10.259 -0.168 -1.784 -0.231 -0.326 3.823 H15 6PD 65
6PD H16 H16 H 0 1 N N N N N N 9.393 -5.470 2.980 2.774 1.199 0.054 H16 6PD 66
6PD H17 H17 H 0 1 N N N N N N 10.385 -6.532 1.925 3.769 2.416 -0.785 H17 6PD 67
6PD H18 H18 H 0 1 N N N N N N 11.373 -5.078 4.455 4.562 0.180 -1.401 H18 6PD 68
6PD H19 H19 H 0 1 N N N N N N 11.001 -6.831 4.331 4.715 -0.271 0.315 H19 6PD 69
6PD H20 H20 H 0 1 N N N N N N 14.187 -5.318 1.951 6.431 0.800 1.745 H20 6PD 70
6PD H21 H21 H 0 1 N N N N N N 13.421 -4.194 3.124 7.527 2.030 1.070 H21 6PD 71
6PD H22 H22 H 0 1 N N N N N N 14.720 -6.967 3.951 7.208 -0.729 -0.034 H22 6PD 72
6PD H23 H23 H 0 1 N N N N N N 14.049 -5.638 4.955 6.924 -0.344 -1.748 H23 6PD 73
6PD H25 H25 H 0 1 N N N N N N 15.126 -8.651 4.137 9.263 0.226 -3.289 H25 6PD 74
6PD H26 H26 H 0 1 N N N N N N 14.118 -9.152 2.738 8.626 -1.391 -2.856 H26 6PD 75
6PD H27 H27 H 0 1 N N N N N N 13.716 0.915 1.547 -0.571 1.083 -1.133 H27 6PD 76
6PD H28 H28 H 0 1 N N N N N N 11.919 -0.574 6.106 -3.477 4.561 1.793 H28 6PD 77
6PD H29 H29 H 0 1 N N N N N N 11.279 3.375 5.019 -4.437 3.493 -2.232 H29 6PD 78
6PD H30 H30 H 0 1 N N N N N N 11.994 2.911 2.771 -2.508 1.965 -2.288 H30 6PD 79
6PD H31 H31 H 0 1 N N N N N N 9.315 0.883 7.818 -6.499 5.991 -1.363 H31 6PD 80
6PD H32 H32 H 0 1 N N N N N N 9.425 0.653 6.040 -5.273 5.054 -2.250 H32 6PD 81
6PD H34 H34 H 0 1 N N N N N N 8.410 2.441 4.543 -7.993 4.057 0.350 H34 6PD 82
6PD H35 H35 H 0 1 N N N N N N 9.711 3.623 4.911 -8.442 5.234 -0.927 H35 6PD 83
6PD H36 H36 H 0 1 N N N N N N 8.150 5.334 5.547 -8.985 2.214 -0.846 H36 6PD 84
6PD H37 H37 H 0 1 N N N N N N 7.204 4.495 4.271 -10.132 3.542 -1.220 H37 6PD 85
6PD H38 H38 H 0 1 N N N N N N 6.490 4.700 7.037 -8.746 2.105 -3.175 H38 6PD 86
6PD H39 H39 H 0 1 N N N N N N 5.744 3.597 5.831 -9.325 3.782 -3.405 H39 6PD 87
6PD H40 H40 H 0 1 N N N N N N 7.249 2.753 8.106 -7.163 4.534 -3.439 H40 6PD 88
6PD H41 H41 H 0 1 N N N N N N 6.904 1.735 6.666 -6.584 2.855 -3.248 H41 6PD 89
6PD H42 H42 H 0 1 N N N N N N 12.766 3.729 -2.019 -1.356 -1.172 -1.143 H42 6PD 90
6PD H43 H43 H 0 1 N N N N N N 11.429 4.744 -1.380 -0.139 -0.928 0.136 H43 6PD 91
6PD H44 H44 H 0 1 N N N N N N 14.187 4.250 -0.202 -0.125 -3.265 -0.808 H44 6PD 92
6PD H45 H45 H 0 1 N N N N N N 13.429 5.808 -0.676 -0.462 -3.218 0.940 H45 6PD 93
6PD H46 H46 H 0 1 N N N N N N 13.429 4.435 1.892 -2.568 -3.396 -1.263 H46 6PD 94
6PD H47 H47 H 0 1 N N N N N N 10.697 5.430 1.043 -4.115 -3.800 0.644 H47 6PD 95
6PD H48 H48 H 0 1 N N N N N N 11.166 4.515 2.516 -2.771 -3.528 1.780 H48 6PD 96
6PD H49 H49 H 0 1 N N N N N N 9.887 3.428 0.424 -4.048 -1.459 1.566 H49 6PD 97
6PD H50 H50 H 0 1 N N N N N N 10.997 2.518 1.504 -3.908 -1.519 -0.210 H50 6PD 98
6PD H51 H51 H 0 1 N N N N N N 13.749 6.933 1.126 -1.178 -5.465 -0.951 H51 6PD 99
6PD H52 H52 H 0 1 N N N N N N 11.969 6.992 1.358 -1.646 -5.480 0.766 H52 6PD 100
6PD H53 H53 H 0 1 N N N N N N 12.153 6.942 3.609 -4.034 -5.628 0.115 H53 6PD 101
6PD H54 H54 H 0 1 N N N N N N 13.405 5.654 3.568 -3.566 -5.614 -1.602 H54 6PD 102
6PD H56 H56 H 0 1 N N N N N N 13.813 8.897 1.686 -1.908 -7.678 1.219 H56 6PD 103
6PD H57 H57 H 0 1 N N N N N N 15.232 7.805 1.538 -3.648 -7.336 1.490 H57 6PD 104
6PD H58 H58 H 0 1 N N N N N N 16.610 9.200 2.877 -2.360 -9.900 0.400 H58 6PD 105
6PD H59 H59 H 0 1 N N N N N N 15.502 10.468 2.250 -3.596 -9.737 1.690 H59 6PD 106
6PD H60 H60 H 0 1 N N N N N N 15.804 9.619 4.995 -4.218 -10.249 -0.986 H60 6PD 107
6PD H61 H61 H 0 1 N N N N N N 14.580 10.760 4.342 -5.333 -9.432 0.151 H61 6PD 108
6PD H62 H62 H 0 1 N N N N N N 12.905 9.118 4.304 -5.106 -7.477 -1.018 H62 6PD 109
6PD H63 H63 H 0 1 N N N N N N 13.971 8.227 5.443 -4.023 -8.302 -2.174 H63 6PD 110
#
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
6PD O01 C02 DOUB N N 1
6PD C39 N38 SING N N 2
6PD C39 C40 SING N N 3
6PD C02 N38 SING N N 4
6PD C02 C03 SING N N 5
6PD C08 C07 DOUB Y N 6
6PD C08 C03 SING Y N 7
6PD N38 C43 SING N N 8
6PD C07 C06 SING Y N 9
6PD C40 C41 SING N N 10
6PD C03 C04 DOUB Y N 11
6PD C43 C42 SING N N 12
6PD C06 C05 DOUB Y N 13
6PD C06 C09 SING N N 14
6PD C04 C05 SING Y N 15
6PD C04 N24 SING N N 16
6PD C41 C42 SING N N 17
6PD C41 C44 SING N N 18
6PD C15 N10 SING N N 19
6PD C15 C14 SING N N 20
6PD C44 C45 SING N N 21
6PD C09 N10 SING N N 22
6PD C09 O23 DOUB N N 23
6PD N10 C11 SING N N 24
6PD N24 C25 SING N N 25
6PD C47 C48 SING N N 26
6PD C47 N46 SING N N 27
6PD C14 C13 SING N N 28
6PD C11 C12 SING N N 29
6PD C48 C49 SING N N 30
6PD C45 N46 SING N N 31
6PD C25 C30 DOUB Y N 32
6PD C25 C26 SING Y N 33
6PD C13 C12 SING N N 34
6PD C13 C16 SING N N 35
6PD N46 C50 SING N N 36
6PD C30 C29 SING Y N 37
6PD C19 C20 SING N N 38
6PD C19 N18 SING N N 39
6PD C20 C21 SING N N 40
6PD C26 C27 DOUB Y N 41
6PD C49 C50 SING N N 42
6PD C16 C17 SING N N 43
6PD N18 C17 SING N N 44
6PD N18 C22 SING N N 45
6PD C29 C28 DOUB Y N 46
6PD C34 C35 SING N N 47
6PD C34 N33 SING N N 48
6PD C35 C36 SING N N 49
6PD C21 C22 SING N N 50
6PD C27 C28 SING Y N 51
6PD C28 O31 SING N N 52
6PD C36 C37 SING N N 53
6PD N33 C32 SING N N 54
6PD N33 C37 SING N N 55
6PD C32 O31 SING N N 56
6PD C13 H1 SING N N 57
6PD C15 H2 SING N N 58
6PD C15 H3 SING N N 59
6PD C17 H4 SING N N 60
6PD C17 H5 SING N N 61
6PD C20 H6 SING N N 62
6PD C20 H7 SING N N 63
6PD C21 H8 SING N N 64
6PD C21 H9 SING N N 65
6PD C22 H10 SING N N 66
6PD C22 H11 SING N N 67
6PD C26 H12 SING N N 68
6PD C05 H13 SING N N 69
6PD C07 H14 SING N N 70
6PD C08 H15 SING N N 71
6PD C11 H16 SING N N 72
6PD C11 H17 SING N N 73
6PD C12 H18 SING N N 74
6PD C12 H19 SING N N 75
6PD C14 H20 SING N N 76
6PD C14 H21 SING N N 77
6PD C16 H22 SING N N 78
6PD C16 H23 SING N N 79
6PD C19 H25 SING N N 80
6PD C19 H26 SING N N 81
6PD N24 H27 SING N N 82
6PD C27 H28 SING N N 83
6PD C29 H29 SING N N 84
6PD C30 H30 SING N N 85
6PD C32 H31 SING N N 86
6PD C32 H32 SING N N 87
6PD C34 H34 SING N N 88
6PD C34 H35 SING N N 89
6PD C35 H36 SING N N 90
6PD C35 H37 SING N N 91
6PD C36 H38 SING N N 92
6PD C36 H39 SING N N 93
6PD C37 H40 SING N N 94
6PD C37 H41 SING N N 95
6PD C39 H42 SING N N 96
6PD C39 H43 SING N N 97
6PD C40 H44 SING N N 98
6PD C40 H45 SING N N 99
6PD C41 H46 SING N N 100
6PD C42 H47 SING N N 101
6PD C42 H48 SING N N 102
6PD C43 H49 SING N N 103
6PD C43 H50 SING N N 104
6PD C44 H51 SING N N 105
6PD C44 H52 SING N N 106
6PD C45 H53 SING N N 107
6PD C45 H54 SING N N 108
6PD C47 H56 SING N N 109
6PD C47 H57 SING N N 110
6PD C48 H58 SING N N 111
6PD C48 H59 SING N N 112
6PD C49 H60 SING N N 113
6PD C49 H61 SING N N 114
6PD C50 H62 SING N N 115
6PD C50 H63 SING N N 116
#
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
6PD InChI InChI 1.03 InChI=1S/C41H60N6O3/c48-40(46-27-15-33(16-28-46)13-25-43-19-1-2-20-43)35-7-12-38(41(49)47-29-17-34(18-30-47)14-26-44-21-3-4-22-44)39(31-35)42-36-8-10-37(11-9-36)50-32-45-23-5-6-24-45/h7-12,31,33-34,42H,1-6,13-30,32H2
6PD InChIKey InChI 1.03 LPCWQWNRCGWRFC-UHFFFAOYSA-N
6PD SMILES_CANONICAL CACTVS 3.385 O=C(N1CC[C@H](CCN2CCCC2)CC1)c3ccc(C(=O)N4CC[C@@H](CCN5CCCC5)CC4)c(Nc6ccc(OCN7CCCC7)cc6)c3
6PD SMILES CACTVS 3.385 O=C(N1CC[CH](CCN2CCCC2)CC1)c3ccc(C(=O)N4CC[CH](CCN5CCCC5)CC4)c(Nc6ccc(OCN7CCCC7)cc6)c3
6PD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 c1cc(ccc1Nc2cc(ccc2C(=O)N3CCC(CC3)CCN4CCCC4)C(=O)N5CCC(CC5)CCN6CCCC6)OCN7CCCC7
6PD SMILES "OpenEye OEToolkits" 2.0.6 c1cc(ccc1Nc2cc(ccc2C(=O)N3CCC(CC3)CCN4CCCC4)C(=O)N5CCC(CC5)CCN6CCCC6)OCN7CCCC7
#
_pdbx_chem_comp_identifier.comp_id 6PD
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version 2.0.6
_pdbx_chem_comp_identifier.identifier
"[4-(2-pyrrolidin-1-ylethyl)piperidin-1-yl]-[4-[4-(2-pyrrolidin-1-ylethyl)piperidin-1-yl]carbonyl-3-[[4-(pyrrolidin-1-ylmethoxy)phenyl]amino]phenyl]methanone"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
6PD 'Create component' 2016-05-18 PDBJ
6PD 'Modify formula' 2017-05-16 PDBJ
6PD 'Initial release' 2017-05-24 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2023.03.3 'Core functionality.'
pdbeccdutils 0.8.4 'Wrapper to provide 2D templates and molecular fragments.'
#
loop_
_pdbe_chem_comp_atom_depiction.comp_id
_pdbe_chem_comp_atom_depiction.atom_id
_pdbe_chem_comp_atom_depiction.element
_pdbe_chem_comp_atom_depiction.model_Cartn_x
_pdbe_chem_comp_atom_depiction.model_Cartn_y
_pdbe_chem_comp_atom_depiction.pdbx_ordinal
6PD C13 C 18.364 -4.998 1
6PD C15 C 17.065 -2.748 2
6PD C17 C 19.663 -7.248 3
6PD C20 C 18.913 -11.056 4
6PD C21 C 20.413 -11.056 5
6PD C22 C 20.877 -9.629 6
6PD C26 C 18.364 4.002 7
6PD C28 C 19.663 6.252 8
6PD O01 O 13.168 4.002 9
6PD C02 C 13.168 2.502 10
6PD C03 C 14.467 1.752 11
6PD C04 C 15.766 2.502 12
6PD C05 C 17.065 1.752 13
6PD C06 C 17.065 0.252 14
6PD C07 C 15.766 -0.498 15
6PD C08 C 14.467 0.252 16
6PD C09 C 18.364 -0.498 17
6PD N10 N 18.364 -1.998 18
6PD C11 C 19.663 -2.748 19
6PD C12 C 19.663 -4.248 20
6PD C14 C 17.065 -4.248 21
6PD C16 C 18.364 -6.498 22
6PD N18 N 19.663 -8.748 23
6PD C19 C 18.450 -9.629 24
6PD O23 O 19.663 0.252 25
6PD N24 N 15.766 4.002 26
6PD C25 C 17.065 4.752 27
6PD C27 C 19.663 4.752 28
6PD C29 C 18.364 7.002 29
6PD C30 C 17.065 6.252 30
6PD O31 O 20.962 7.002 31
6PD C32 C 20.962 8.502 32
6PD N33 N 22.262 9.252 33
6PD C34 C 23.632 8.642 34
6PD C35 C 24.636 9.757 35
6PD C36 C 23.886 11.056 36
6PD C37 C 22.418 10.744 37
6PD N38 N 11.869 1.752 38
6PD C39 C 10.570 2.502 39
6PD C40 C 9.271 1.752 40
6PD C41 C 9.271 0.252 41
6PD C42 C 10.570 -0.498 42
6PD C43 C 11.869 0.252 43
6PD C44 C 7.972 -0.498 44
6PD C45 C 6.673 0.252 45
6PD N46 N 5.374 -0.498 46
6PD C47 C 4.004 0.112 47
6PD C48 C 3.000 -1.002 48
6PD C49 C 3.750 -2.301 49
6PD C50 C 5.217 -1.990 50
#
loop_
_pdbe_chem_comp_bond_depiction.comp_id
_pdbe_chem_comp_bond_depiction.atom_id_1
_pdbe_chem_comp_bond_depiction.atom_id_2
_pdbe_chem_comp_bond_depiction.value_order
_pdbe_chem_comp_bond_depiction.bond_dir
_pdbe_chem_comp_bond_depiction.pdbx_ordinal
6PD O01 C02 DOUBLE NONE 1
6PD C39 N38 SINGLE NONE 2
6PD C39 C40 SINGLE NONE 3
6PD C02 N38 SINGLE NONE 4
6PD C02 C03 SINGLE NONE 5
6PD C08 C07 DOUBLE NONE 6
6PD C08 C03 SINGLE NONE 7
6PD N38 C43 SINGLE NONE 8
6PD C07 C06 SINGLE NONE 9
6PD C40 C41 SINGLE NONE 10
6PD C03 C04 DOUBLE NONE 11
6PD C43 C42 SINGLE NONE 12
6PD C06 C05 DOUBLE NONE 13
6PD C06 C09 SINGLE NONE 14
6PD C04 C05 SINGLE NONE 15
6PD C04 N24 SINGLE NONE 16
6PD C41 C42 SINGLE NONE 17
6PD C41 C44 SINGLE NONE 18
6PD C15 N10 SINGLE NONE 19
6PD C15 C14 SINGLE NONE 20
6PD C44 C45 SINGLE NONE 21
6PD C09 N10 SINGLE NONE 22
6PD C09 O23 DOUBLE NONE 23
6PD N10 C11 SINGLE NONE 24
6PD N24 C25 SINGLE NONE 25
6PD C47 C48 SINGLE NONE 26
6PD C47 N46 SINGLE NONE 27
6PD C14 C13 SINGLE NONE 28
6PD C11 C12 SINGLE NONE 29
6PD C48 C49 SINGLE NONE 30
6PD C45 N46 SINGLE NONE 31
6PD C25 C30 SINGLE NONE 32
6PD C25 C26 DOUBLE NONE 33
6PD C13 C12 SINGLE NONE 34
6PD C13 C16 SINGLE NONE 35
6PD N46 C50 SINGLE NONE 36
6PD C30 C29 DOUBLE NONE 37
6PD C19 C20 SINGLE NONE 38
6PD C19 N18 SINGLE NONE 39
6PD C20 C21 SINGLE NONE 40
6PD C26 C27 SINGLE NONE 41
6PD C49 C50 SINGLE NONE 42
6PD C16 C17 SINGLE NONE 43
6PD N18 C17 SINGLE NONE 44
6PD N18 C22 SINGLE NONE 45
6PD C29 C28 SINGLE NONE 46
6PD C34 C35 SINGLE NONE 47
6PD C34 N33 SINGLE NONE 48
6PD C35 C36 SINGLE NONE 49
6PD C21 C22 SINGLE NONE 50
6PD C27 C28 DOUBLE NONE 51
6PD C28 O31 SINGLE NONE 52
6PD C36 C37 SINGLE NONE 53
6PD N33 C32 SINGLE NONE 54
6PD N33 C37 SINGLE NONE 55
6PD C32 O31 SINGLE NONE 56
#
loop_
_pdbe_chem_comp_substructure.comp_id
_pdbe_chem_comp_substructure.substructure_name
_pdbe_chem_comp_substructure.id
_pdbe_chem_comp_substructure.substructure_type
_pdbe_chem_comp_substructure.substructure_smiles
_pdbe_chem_comp_substructure.substructure_inchis
_pdbe_chem_comp_substructure.substructure_inchikeys
6PD MurckoScaffold S1 scaffold O=C(c1ccc(C(=O)N2CCC(CCN3CCCC3)CC2)c(Nc2ccc(OCN3CCCC3)cc2)c1)N1CCC(CCN2CCCC2)CC1 InChI=1S/C41H60N6O3/c48-40(46-27-15-33(16-28-46)13-25-43-19-1-2-20-43)35-7-12-38(41(49)47-29-17-34(18-30-47)14-26-44-21-3-4-22-44)39(31-35)42-36-8-10-37(11-9-36)50-32-45-23-5-6-24-45/h7-12,31,33-34,42H,1-6,13-30,32H2 LPCWQWNRCGWRFC-UHFFFAOYSA-N
6PD amide F1 fragment CC(N)=O InChI=1S/C2H5NO/c1-2(3)4/h1H3,(H2,3,4) DLFVBJFMPXGRIB-UHFFFAOYSA-N
6PD phenyl F2 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
6PD Z2092370954 F3 fragment CCN(C)C(=O)c1cccc(N)c1 InChI=1S/C10H14N2O/c1-3-12(2)10(13)8-5-4-6-9(11)7-8/h4-7H,3,11H2,1-2H3 URNKFNQWYLXELN-UHFFFAOYSA-N
#
loop_
_pdbe_chem_comp_substructure_mapping.comp_id
_pdbe_chem_comp_substructure_mapping.atom_id
_pdbe_chem_comp_substructure_mapping.substructure_id
_pdbe_chem_comp_substructure_mapping.substructure_ordinal
6PD C13 S1 1
6PD C15 S1 1
6PD C17 S1 1
6PD C20 S1 1
6PD C21 S1 1
6PD C22 S1 1
6PD C26 S1 1
6PD C28 S1 1
6PD O01 S1 1
6PD C02 S1 1
6PD C03 S1 1
6PD C04 S1 1
6PD C05 S1 1
6PD C06 S1 1
6PD C07 S1 1
6PD C08 S1 1
6PD C09 S1 1
6PD N10 S1 1
6PD C11 S1 1
6PD C12 S1 1
6PD C14 S1 1
6PD C16 S1 1
6PD N18 S1 1
6PD C19 S1 1
6PD O23 S1 1
6PD N24 S1 1
6PD C25 S1 1
6PD C27 S1 1
6PD C29 S1 1
6PD C30 S1 1
6PD O31 S1 1
6PD C32 S1 1
6PD N33 S1 1
6PD C34 S1 1
6PD C35 S1 1
6PD C36 S1 1
6PD C37 S1 1
6PD N38 S1 1
6PD C39 S1 1
6PD C40 S1 1
6PD C41 S1 1
6PD C42 S1 1
6PD C43 S1 1
6PD C44 S1 1
6PD C45 S1 1
6PD N46 S1 1
6PD C47 S1 1
6PD C48 S1 1
6PD C49 S1 1
6PD C50 S1 1
6PD N10 F1 1
6PD C09 F1 1
6PD O23 F1 1
6PD C06 F1 1
6PD N38 F1 2
6PD C02 F1 2
6PD O01 F1 2
6PD C03 F1 2
6PD C26 F2 1
6PD C25 F2 1
6PD C30 F2 1
6PD C29 F2 1
6PD C28 F2 1
6PD C27 F2 1
6PD C03 F2 2
6PD C08 F2 2
6PD C07 F2 2
6PD C06 F2 2
6PD C05 F2 2
6PD C04 F2 2
6PD C12 F3 1
6PD C11 F3 1
6PD N10 F3 1
6PD C15 F3 1
6PD C09 F3 1
6PD O23 F3 1
6PD C06 F3 1
6PD C07 F3 1
6PD C08 F3 1
6PD C03 F3 1
6PD C04 F3 1
6PD N24 F3 1
6PD C05 F3 1
6PD C14 F3 2
6PD C15 F3 2
6PD N10 F3 2
6PD C11 F3 2
6PD C09 F3 2
6PD O23 F3 2
6PD C06 F3 2
6PD C07 F3 2
6PD C08 F3 2
6PD C03 F3 2
6PD C04 F3 2
6PD N24 F3 2
6PD C05 F3 2
#
_pdbe_chem_comp_rdkit_properties.comp_id 6PD
_pdbe_chem_comp_rdkit_properties.exactmw 684.473
_pdbe_chem_comp_rdkit_properties.amw 684.970
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 9
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 1
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 13
_pdbe_chem_comp_rdkit_properties.NumHBD 1
_pdbe_chem_comp_rdkit_properties.NumHBA 7
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 50
_pdbe_chem_comp_rdkit_properties.NumAtoms 110
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 9
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 2
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.659
_pdbe_chem_comp_rdkit_properties.NumRings 7
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 5
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 5
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 5
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 5
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 5
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 384.185
_pdbe_chem_comp_rdkit_properties.tpsa 71.600
_pdbe_chem_comp_rdkit_properties.CrippenClogP 5.205
_pdbe_chem_comp_rdkit_properties.CrippenMR 197.516
_pdbe_chem_comp_rdkit_properties.chi0v 24.408
_pdbe_chem_comp_rdkit_properties.chi1v 13.368
_pdbe_chem_comp_rdkit_properties.chi2v 5.628
_pdbe_chem_comp_rdkit_properties.chi3v 5.628
_pdbe_chem_comp_rdkit_properties.chi4v 3.432
_pdbe_chem_comp_rdkit_properties.chi0n 84.408
_pdbe_chem_comp_rdkit_properties.chi1n 43.315
_pdbe_chem_comp_rdkit_properties.chi2n 5.628
_pdbe_chem_comp_rdkit_properties.chi3n 5.628
_pdbe_chem_comp_rdkit_properties.chi4n 3.432
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -3.140
_pdbe_chem_comp_rdkit_properties.kappa1 7.737
_pdbe_chem_comp_rdkit_properties.kappa2 17.385
_pdbe_chem_comp_rdkit_properties.kappa3 9.391
_pdbe_chem_comp_rdkit_properties.Phi 2.690
#
loop_
_pdbe_chem_comp_external_mappings.comp_id
_pdbe_chem_comp_external_mappings.source
_pdbe_chem_comp_external_mappings.resource
_pdbe_chem_comp_external_mappings.resource_id
6PD UniChem ChEMBL CHEMBL4476514
6PD UniChem PDBe 6PD
6PD UniChem PubChem 126480597
6PD UniChem BindingDb 50505575
6PD UniChem 'Probes And Drugs' PD131710
#
loop_
_pdbe_chem_comp_rdkit_conformer.comp_id
_pdbe_chem_comp_rdkit_conformer.atom_id
_pdbe_chem_comp_rdkit_conformer.Cartn_x_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_y_rdkit
_pdbe_chem_comp_rdkit_conformer.Cartn_z_rdkit
_pdbe_chem_comp_rdkit_conformer.rdkit_method
_pdbe_chem_comp_rdkit_conformer.rdkit_ordinal
6PD C13 7.727 -1.160 1.005 ETKDGv3 1
6PD C15 5.846 -0.526 2.551 ETKDGv3 2
6PD C17 9.815 -1.910 -0.272 ETKDGv3 3
6PD C20 12.526 -0.815 -2.521 ETKDGv3 4
6PD C21 13.050 -2.148 -2.016 ETKDGv3 5
6PD C22 11.952 -2.690 -1.122 ETKDGv3 6
6PD C26 -0.612 3.196 -1.695 ETKDGv3 7
6PD C28 -2.547 3.957 -0.402 ETKDGv3 8
6PD O01 -1.031 -0.192 -2.389 ETKDGv3 9
6PD C02 -1.174 -0.600 -1.203 ETKDGv3 10
6PD C03 0.033 -0.768 -0.359 ETKDGv3 11
6PD C04 1.004 0.177 -0.299 ETKDGv3 12
6PD C05 2.246 -0.095 0.459 ETKDGv3 13
6PD C06 2.420 -1.261 1.104 ETKDGv3 14
6PD C07 1.339 -2.274 1.065 ETKDGv3 15
6PD C08 0.220 -2.045 0.370 ETKDGv3 16
6PD C09 3.647 -1.529 1.887 ETKDGv3 17
6PD N10 4.928 -0.992 1.502 ETKDGv3 18
6PD C11 5.312 -0.890 0.086 ETKDGv3 19
6PD C12 6.725 -1.449 -0.150 ETKDGv3 20
6PD C14 7.193 -0.084 1.968 ETKDGv3 21
6PD C16 9.121 -0.759 0.475 ETKDGv3 22
6PD N18 11.192 -1.532 -0.647 ETKDGv3 23
6PD C19 11.237 -0.561 -1.749 ETKDGv3 24
6PD O23 3.565 -2.244 2.922 ETKDGv3 25
6PD N24 0.868 1.449 -0.953 ETKDGv3 26
6PD C25 -0.255 2.321 -0.742 ETKDGv3 27
6PD C27 -1.811 4.042 -1.519 ETKDGv3 28
6PD C29 -2.120 3.030 0.679 ETKDGv3 29
6PD C30 -1.036 2.263 0.518 ETKDGv3 30
6PD O31 -3.700 4.744 -0.295 ETKDGv3 31
6PD C32 -4.590 4.710 0.821 ETKDGv3 32
6PD N33 -5.739 5.609 0.606 ETKDGv3 33
6PD C34 -6.564 5.189 -0.543 ETKDGv3 34
6PD C35 -6.776 6.402 -1.433 ETKDGv3 35
6PD C36 -5.640 7.331 -1.083 ETKDGv3 36
6PD C37 -5.320 6.999 0.362 ETKDGv3 37
6PD N38 -2.497 -0.910 -0.714 ETKDGv3 38
6PD C39 -2.793 -0.961 0.726 ETKDGv3 39
6PD C40 -4.123 -0.256 1.005 ETKDGv3 40
6PD C41 -5.306 -0.878 0.212 ETKDGv3 41
6PD C42 -4.834 -1.686 -1.025 ETKDGv3 42
6PD C43 -3.593 -1.072 -1.682 ETKDGv3 43
6PD C44 -6.189 -1.743 1.143 ETKDGv3 44
6PD C45 -7.475 -2.237 0.458 ETKDGv3 45
6PD N46 -8.361 -2.900 1.442 ETKDGv3 46
6PD C47 -7.967 -4.302 1.667 ETKDGv3 47
6PD C48 -8.816 -5.189 0.763 ETKDGv3 48
6PD C49 -9.892 -4.285 0.195 ETKDGv3 49
6PD C50 -9.744 -2.977 0.950 ETKDGv3 50
6PD H1 7.846 -2.094 1.601 ETKDGv3 51
6PD H2 6.026 -1.350 3.276 ETKDGv3 52
6PD H3 5.384 0.325 3.097 ETKDGv3 53
6PD H4 9.225 -2.208 -1.168 ETKDGv3 54
6PD H5 9.852 -2.789 0.410 ETKDGv3 55
6PD H6 12.324 -0.860 -3.614 ETKDGv3 56
6PD H7 13.266 -0.008 -2.322 ETKDGv3 57
6PD H8 13.977 -1.990 -1.422 ETKDGv3 58
6PD H9 13.266 -2.845 -2.855 ETKDGv3 59
6PD H10 12.385 -3.244 -0.260 ETKDGv3 60
6PD H11 11.310 -3.382 -1.717 ETKDGv3 61
6PD H12 -0.053 3.258 -2.620 ETKDGv3 62
6PD H13 2.999 0.681 0.512 ETKDGv3 63
6PD H14 1.459 -3.218 1.583 ETKDGv3 64
6PD H15 -0.543 -2.812 0.327 ETKDGv3 65
6PD H16 5.287 0.179 -0.216 ETKDGv3 66
6PD H17 4.598 -1.443 -0.562 ETKDGv3 67
6PD H18 6.654 -2.550 -0.290 ETKDGv3 68
6PD H19 7.092 -1.027 -1.112 ETKDGv3 69
6PD H20 7.071 0.882 1.431 ETKDGv3 70
6PD H21 7.909 0.075 2.803 ETKDGv3 71
6PD H22 9.023 0.125 -0.192 ETKDGv3 72
6PD H23 9.769 -0.466 1.330 ETKDGv3 73
6PD H25 10.370 -0.678 -2.440 ETKDGv3 74
6PD H26 11.231 0.472 -1.339 ETKDGv3 75
6PD H27 1.663 1.784 -1.544 ETKDGv3 76
6PD H28 -2.106 4.716 -2.314 ETKDGv3 77
6PD H29 -2.673 2.969 1.607 ETKDGv3 78
6PD H30 -0.726 1.607 1.321 ETKDGv3 79
6PD H31 -4.960 3.671 0.977 ETKDGv3 80
6PD H32 -4.049 5.020 1.742 ETKDGv3 81
6PD H34 -6.085 4.379 -1.140 ETKDGv3 82
6PD H35 -7.541 4.809 -0.175 ETKDGv3 83
6PD H36 -7.746 6.888 -1.185 ETKDGv3 84
6PD H37 -6.762 6.130 -2.511 ETKDGv3 85
6PD H38 -5.928 8.398 -1.207 ETKDGv3 86
6PD H39 -4.759 7.105 -1.724 ETKDGv3 87
6PD H40 -4.242 7.180 0.577 ETKDGv3 88
6PD H41 -5.911 7.664 1.028 ETKDGv3 89
6PD H42 -2.002 -0.455 1.317 ETKDGv3 90
6PD H43 -2.849 -2.020 1.058 ETKDGv3 91
6PD H44 -4.014 0.809 0.705 ETKDGv3 92
6PD H45 -4.313 -0.257 2.100 ETKDGv3 93
6PD H46 -5.931 -0.033 -0.154 ETKDGv3 94
6PD H47 -5.651 -1.733 -1.777 ETKDGv3 95
6PD H48 -4.587 -2.730 -0.728 ETKDGv3 96
6PD H49 -3.851 -0.081 -2.115 ETKDGv3 97
6PD H50 -3.266 -1.742 -2.507 ETKDGv3 98
6PD H51 -6.488 -1.134 2.024 ETKDGv3 99
6PD H52 -5.593 -2.603 1.517 ETKDGv3 100
6PD H53 -7.234 -2.924 -0.385 ETKDGv3 101
6PD H54 -7.978 -1.342 0.028 ETKDGv3 102
6PD H56 -6.886 -4.487 1.488 ETKDGv3 103
6PD H57 -8.172 -4.557 2.730 ETKDGv3 104
6PD H58 -8.198 -5.614 -0.058 ETKDGv3 105
6PD H59 -9.268 -6.022 1.346 ETKDGv3 106
6PD H60 -10.907 -4.718 0.337 ETKDGv3 107
6PD H61 -9.713 -4.114 -0.889 ETKDGv3 108
6PD H62 -10.035 -2.110 0.316 ETKDGv3 109
6PD H63 -10.428 -2.983 1.827 ETKDGv3 110
#