data_52N
#
_chem_comp.id 52N
_chem_comp.name "1,2-dioctanoyl phosphatidyl epi-inositol (3,4)-bisphosphate"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C25 H49 O19 P3"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms ?
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2014-01-16
_chem_comp.pdbx_modified_date 2014-04-11
_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 746.566
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 52N
_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 4CLM
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site EBI
#
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
52N C1 C1 C 0 1 N N R N N N 24.820 21.792 -43.414 -3.524 0.160 0.440 C1 52N 1
52N O1 O1 O 0 1 N N N N N N 24.207 22.730 -42.511 -2.101 0.066 0.345 O1 52N 2
52N P1 P1 P 0 1 N N N N N N 24.772 23.604 -41.283 -1.104 1.125 1.035 P1 52N 3
52N C2 C2 C 0 1 N N S N N N 26.309 21.543 -43.205 -4.121 0.294 -0.962 C2 52N 4
52N O2 O2 O 0 1 N N N N N N 26.990 22.344 -44.181 -3.607 1.472 -1.588 O2 52N 5
52N C3 C3 C 0 1 N N S N N N 26.770 20.078 -43.307 -5.644 0.395 -0.860 C3 52N 6
52N O3 O3 O 0 1 N N N N N N 28.099 20.066 -43.847 -5.995 1.540 -0.081 O3 52N 7
52N P3 P3 P 0 1 N N N N N N 29.389 19.663 -42.947 -6.886 2.752 -0.655 P3 52N 8
52N C4 C4 C 0 1 N N R N N N 25.895 19.062 -44.080 -6.195 -0.866 -0.190 C4 52N 9
52N O4 O4 O 0 1 N N N N N N 26.384 18.845 -45.407 -7.617 -0.772 -0.094 O4 52N 10
52N P4 P4 P 0 1 N N N N N N 26.368 17.408 -46.170 -8.614 -1.831 -0.785 P4 52N 11
52N C5 C5 C 0 1 N N R N N N 24.378 19.325 -44.078 -5.597 -1.000 1.212 C5 52N 12
52N O5 O5 O 0 1 N N N N N N 23.842 19.363 -45.406 -5.948 0.145 1.991 O5 52N 13
52N C6 C6 C 0 1 N N S N N N 23.952 20.565 -43.276 -4.074 -1.100 1.110 C6 52N 14
52N O6 O6 O 0 1 N N N N N N 22.651 20.993 -43.685 -3.516 -1.226 2.420 O6 52N 15
52N C7 C7 C 0 1 N N N N N N 27.025 24.994 -41.222 1.523 1.609 0.981 C7 52N 16
52N C8 C8 C 0 1 N N R N N N 27.136 26.506 -41.415 2.812 1.003 0.422 C8 52N 17
52N C9 C9 C 0 1 N N N N N N 28.443 26.871 -40.741 3.984 1.945 0.707 C9 52N 18
52N C10 C10 C 0 1 N N N N N N 29.741 28.772 -39.922 6.310 2.143 0.229 C10 52N 19
52N C11 C11 C 0 1 N N N N N N 29.933 30.259 -39.737 7.596 1.669 -0.399 C11 52N 20
52N O11 O11 O 0 1 N N N N N N 23.694 24.624 -40.980 -1.448 2.493 0.585 O11 52N 21
52N C12 C12 C 0 1 N N N N N N 30.222 30.590 -38.279 8.717 2.657 -0.072 C12 52N 22
52N O12 O12 O 0 1 N N N N N N 25.220 22.712 -40.168 -1.250 1.034 2.636 O12 52N 23
52N C13 C13 C 0 1 N N N N N N 30.185 32.098 -38.025 10.023 2.176 -0.709 C13 52N 24
52N O13 O13 O 0 1 N N N N N N 25.985 24.408 -41.982 0.413 0.788 0.614 O13 52N 25
52N C14 C14 C 0 1 N N N N N N 29.424 32.413 -36.735 11.144 3.164 -0.382 C14 52N 26
52N O14 O14 O 0 1 N N N N N N 27.235 26.846 -42.790 3.058 -0.281 1.054 O14 52N 27
52N C15 C15 C 0 1 N N N N N N 29.449 33.903 -36.403 12.449 2.684 -1.020 C15 52N 28
52N O15 O15 O 0 1 N N N N N N 28.508 28.258 -40.477 5.185 1.429 0.074 O15 52N 29
52N C16 C16 C 0 1 N N N N N N 28.090 34.404 -35.924 13.571 3.672 -0.693 C16 52N 30
52N O16 O16 O 0 1 N N N N N N 30.610 27.972 -39.620 6.293 3.166 0.872 O16 52N 31
52N C17 C17 C 0 1 N N N N N N 27.818 33.999 -34.494 14.876 3.191 -1.330 C17 52N 32
52N O17 O17 O 0 1 N N N N N N 25.418 28.320 -42.797 4.064 -0.946 -0.798 O17 52N 33
52N C18 C18 C 0 1 N N N N N N 26.429 27.923 -43.349 3.710 -1.202 0.329 C18 52N 34
52N C19 C19 C 0 1 N N N N N N 26.863 28.507 -44.675 4.001 -2.558 0.919 C19 52N 35
52N C20 C20 C 0 1 N N N N N N 26.834 30.037 -44.700 4.748 -3.412 -0.108 C20 52N 36
52N C21 C21 C 0 1 N N N N N N 27.598 30.710 -43.552 5.044 -4.788 0.492 C21 52N 37
52N C22 C22 C 0 1 N N N N N N 29.110 30.613 -43.700 5.791 -5.642 -0.535 C22 52N 38
52N C23 C23 C 0 1 N N N N N N 29.779 31.976 -43.866 6.086 -7.018 0.064 C23 52N 39
52N C24 C24 C 0 1 N N N N N N 30.551 32.428 -42.629 6.833 -7.872 -0.962 C24 52N 40
52N C25 C25 C 0 1 N N N N N N 31.958 31.873 -42.625 7.128 -9.248 -0.363 C25 52N 41
52N O31 O31 O 0 1 N N N N N N 29.307 18.145 -42.836 -7.192 3.801 0.528 O31 52N 42
52N O32 O32 O 0 1 N N N N N N 29.273 20.370 -41.616 -6.085 3.495 -1.837 O32 52N 43
52N O33 O33 O 0 1 N N N N N N 30.513 20.188 -43.813 -8.162 2.218 -1.183 O33 52N 44
52N O41 O41 O 0 1 N N N N N N 25.439 16.461 -45.428 -8.469 -1.740 -2.386 O41 52N 45
52N O42 O42 O 0 1 N N N N N N 25.832 17.740 -47.543 -8.270 -3.198 -0.335 O42 52N 46
52N O43 O43 O 0 1 N N N N N N 27.840 17.045 -46.113 -10.131 -1.493 -0.364 O43 52N 47
52N H1 H1 H 0 1 N N N N N N 24.694 22.169 -44.440 -3.791 1.034 1.034 H1 52N 48
52N H2 H2 H 0 1 N N N N N N 26.572 21.905 -42.200 -3.854 -0.579 -1.556 H2 52N 49
52N HO2 HO2 H 0 1 N N N N N N 27.928 22.223 -44.092 -2.645 1.477 -1.686 HO2 52N 50
52N H3 H3 H 0 1 N N N N N N 26.831 19.704 -42.274 -6.070 0.491 -1.859 H3 52N 51
52N H4 H4 H 0 1 N N N N N N 26.022 18.110 -43.544 -5.927 -1.739 -0.784 H4 52N 52
52N H5 H5 H 0 1 N N N N N N 23.922 18.463 -43.568 -5.990 -1.898 1.690 H5 52N 53
52N HO5 HO5 H 0 1 N N N N N N 22.907 19.527 -45.366 -5.602 0.128 2.894 HO5 52N 54
52N H6 H6 H 0 1 N N N N N N 23.923 20.284 -42.213 -3.807 -1.974 0.516 H6 52N 55
52N HO6 HO6 H 0 1 N N N N N N 22.044 20.265 -43.624 -3.822 -2.005 2.904 HO6 52N 56
52N H7 H7 H 0 1 N N N N N N 26.837 24.791 -40.157 1.590 1.665 2.067 H7 52N 57
52N H7A H7A H 0 1 N N N N N N 27.978 24.533 -41.520 1.385 2.610 0.573 H7A 52N 58
52N H8 H8 H 0 1 N N N N N N 26.294 27.017 -40.925 2.711 0.864 -0.655 H8 52N 59
52N H9 H9 H 0 1 N N N N N N 28.524 26.320 -39.792 3.760 2.934 0.308 H9 52N 60
52N H9A H9A H 0 1 N N N N N N 29.278 26.591 -41.400 4.141 2.014 1.783 H9A 52N 61
52N H11 H11 H 0 1 N N N N N N 30.778 30.593 -40.357 7.852 0.686 -0.004 H11 52N 62
52N H11A H11A H 0 0 N N N N N N 29.018 30.783 -40.051 7.471 1.606 -1.480 H11A 52N 63
52N H12 H12 H 0 1 N N N N N N 29.466 30.103 -37.646 8.462 3.641 -0.466 H12 52N 64
52N H12A H12A H 0 0 N N N N N N 31.220 30.209 -38.018 8.843 2.720 1.009 H12A 52N 65
52N HO12 HO12 H 0 0 N N N N N N 24.736 22.924 -39.379 -1.039 0.164 3.001 HO12 52N 66
52N H13 H13 H 0 1 N N N N N N 31.215 32.474 -37.937 10.278 1.193 -0.315 H13 52N 67
52N H13A H13A H 0 0 N N N N N N 29.684 32.594 -38.870 9.898 2.113 -1.790 H13A 52N 68
52N H14 H14 H 0 1 N N N N N N 28.378 32.093 -36.853 10.888 4.148 -0.776 H14 52N 69
52N H14A H14A H 0 0 N N N N N N 29.886 31.857 -35.906 11.269 3.227 0.699 H14A 52N 70
52N H15 H15 H 0 1 N N N N N N 30.192 34.078 -35.611 12.705 1.700 -0.626 H15 52N 71
52N H15A H15A H 0 0 N N N N N N 29.736 34.463 -37.305 12.324 2.621 -2.101 H15A 52N 72
52N H16 H16 H 0 1 N N N N N N 28.070 35.502 -35.994 13.315 4.655 -1.087 H16 52N 73
52N H16A H16A H 0 0 N N N N N N 27.306 33.981 -36.570 13.696 3.735 0.388 H16A 52N 74
52N H17 H17 H 0 1 N N N N N N 26.832 34.378 -34.186 14.751 3.128 -2.411 H17 52N 75
52N H17A H17A H 0 0 N N N N N N 27.830 32.902 -34.415 15.675 3.895 -1.097 H17A 52N 76
52N H17B H17B H 0 0 N N N N N N 28.594 34.422 -33.839 15.132 2.207 -0.936 H17B 52N 77
52N H19 H19 H 0 1 N N N N N N 27.890 28.174 -44.884 4.616 -2.442 1.811 H19 52N 78
52N H19A H19A H 0 0 N N N N N N 26.189 28.132 -45.459 3.064 -3.047 1.185 H19A 52N 79
52N H20 H20 H 0 1 N N N N N N 27.276 30.373 -45.650 4.133 -3.529 -1.000 H20 52N 80
52N H20A H20A H 0 0 N N N N N N 25.784 30.361 -44.650 5.685 -2.923 -0.374 H20A 52N 81
52N H21 H21 H 0 1 N N N N N N 27.317 31.773 -43.521 5.659 -4.672 1.384 H21 52N 82
52N H21A H21A H 0 0 N N N N N N 27.307 30.226 -42.608 4.107 -5.277 0.758 H21A 52N 83
52N H22 H22 H 0 1 N N N N N N 29.520 30.128 -42.802 5.175 -5.759 -1.427 H22 52N 84
52N H22A H22A H 0 0 N N N N N N 29.338 30.000 -44.585 6.728 -5.153 -0.801 H22A 52N 85
52N H23 H23 H 0 1 N N N N N N 30.479 31.920 -44.713 6.701 -6.902 0.956 H23 52N 86
52N H23A H23A H 0 0 N N N N N N 29.001 32.722 -44.083 5.149 -7.507 0.331 H23A 52N 87
52N H24 H24 H 0 1 N N N N N N 30.599 33.527 -42.619 6.218 -7.989 -1.855 H24 52N 88
52N H24A H24A H 0 0 N N N N N N 30.024 32.076 -41.730 7.770 -7.383 -1.229 H24A 52N 89
52N H25 H25 H 0 1 N N N N N N 32.486 32.217 -41.723 6.191 -9.737 -0.097 H25 52N 90
52N H25A H25A H 0 0 N N N N N N 31.918 30.774 -42.630 7.661 -9.856 -1.095 H25A 52N 91
52N H25B H25B H 0 0 N N N N N N 32.493 32.225 -43.519 7.744 -9.132 0.529 H25B 52N 92
52N HO31 HO31 H 0 0 N N N N N N 30.003 17.751 -43.349 -7.726 4.558 0.253 HO31 52N 93
52N HO32 HO32 H 0 0 N N N N N N 29.944 21.039 -41.553 -5.237 3.870 -1.562 HO32 52N 94
52N HO41 HO41 H 0 0 N N N N N N 24.690 16.257 -45.976 -8.679 -0.870 -2.751 HO41 52N 95
52N HO43 HO43 H 0 0 N N N N N N 28.211 17.085 -46.987 -10.788 -2.093 -0.744 HO43 52N 96
#
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
52N C1 C6 SING N N 1
52N C1 C2 SING N N 2
52N C1 O1 SING N N 3
52N C1 H1 SING N N 4
52N O1 P1 SING N N 5
52N O13 P1 SING N N 6
52N P1 O11 DOUB N N 7
52N P1 O12 SING N N 8
52N O2 C2 SING N N 9
52N C3 C2 SING N N 10
52N C2 H2 SING N N 11
52N O2 HO2 SING N N 12
52N C4 C3 SING N N 13
52N O3 C3 SING N N 14
52N C3 H3 SING N N 15
52N O3 P3 SING N N 16
52N O33 P3 DOUB N N 17
52N P3 O31 SING N N 18
52N P3 O32 SING N N 19
52N O4 C4 SING N N 20
52N C4 C5 SING N N 21
52N C4 H4 SING N N 22
52N P4 O4 SING N N 23
52N O42 P4 DOUB N N 24
52N P4 O43 SING N N 25
52N P4 O41 SING N N 26
52N O5 C5 SING N N 27
52N C5 C6 SING N N 28
52N C5 H5 SING N N 29
52N O5 HO5 SING N N 30
52N O6 C6 SING N N 31
52N C6 H6 SING N N 32
52N O6 HO6 SING N N 33
52N O13 C7 SING N N 34
52N C8 C7 SING N N 35
52N C7 H7 SING N N 36
52N C7 H7A SING N N 37
52N O14 C8 SING N N 38
52N C8 C9 SING N N 39
52N C8 H8 SING N N 40
52N C9 O15 SING N N 41
52N C9 H9 SING N N 42
52N C9 H9A SING N N 43
52N O15 C10 SING N N 44
52N C10 C11 SING N N 45
52N C10 O16 DOUB N N 46
52N C11 C12 SING N N 47
52N C11 H11 SING N N 48
52N C11 H11A SING N N 49
52N C12 C13 SING N N 50
52N C12 H12 SING N N 51
52N C12 H12A SING N N 52
52N O12 HO12 SING N N 53
52N C13 C14 SING N N 54
52N C13 H13 SING N N 55
52N C13 H13A SING N N 56
52N C14 C15 SING N N 57
52N C14 H14 SING N N 58
52N C14 H14A SING N N 59
52N C18 O14 SING N N 60
52N C15 C16 SING N N 61
52N C15 H15 SING N N 62
52N C15 H15A SING N N 63
52N C16 C17 SING N N 64
52N C16 H16 SING N N 65
52N C16 H16A SING N N 66
52N C17 H17 SING N N 67
52N C17 H17A SING N N 68
52N C17 H17B SING N N 69
52N C18 O17 DOUB N N 70
52N C19 C18 SING N N 71
52N C20 C19 SING N N 72
52N C19 H19 SING N N 73
52N C19 H19A SING N N 74
52N C20 C21 SING N N 75
52N C20 H20 SING N N 76
52N C20 H20A SING N N 77
52N C22 C21 SING N N 78
52N C21 H21 SING N N 79
52N C21 H21A SING N N 80
52N C23 C22 SING N N 81
52N C22 H22 SING N N 82
52N C22 H22A SING N N 83
52N C23 C24 SING N N 84
52N C23 H23 SING N N 85
52N C23 H23A SING N N 86
52N C24 C25 SING N N 87
52N C24 H24 SING N N 88
52N C24 H24A SING N N 89
52N C25 H25 SING N N 90
52N C25 H25A SING N N 91
52N C25 H25B SING N N 92
52N O31 HO31 SING N N 93
52N O32 HO32 SING N N 94
52N O41 HO41 SING N N 95
52N O43 HO43 SING N N 96
#
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
52N SMILES ACDLabs 12.01 O=C(OCC(OC(=O)CCCCCCC)COP(=O)(O)OC1C(O)C(O)C(OP(=O)(O)O)C(OP(=O)(O)O)C1O)CCCCCCC
52N InChI InChI 1.03 InChI=1S/C25H49O19P3/c1-3-5-7-9-11-13-18(26)39-15-17(41-19(27)14-12-10-8-6-4-2)16-40-47(37,38)44-23-20(28)21(29)24(42-45(31,32)33)25(22(23)30)43-46(34,35)36/h17,20-25,28-30H,3-16H2,1-2H3,(H,37,38)(H2,31,32,33)(H2,34,35,36)/t17-,20+,21-,22+,23-,24-,25+/m1/s1
52N InChIKey InChI 1.03 XLNCEHRXXWQMPK-KWIFDMFUSA-N
52N SMILES_CANONICAL CACTVS 3.385 CCCCCCCC(=O)OC[C@H](CO[P](O)(=O)O[C@@H]1[C@@H](O)[C@@H](O)[C@@H](O[P](O)(O)=O)[C@@H](O[P](O)(O)=O)[C@H]1O)OC(=O)CCCCCCC
52N SMILES CACTVS 3.385 CCCCCCCC(=O)OC[CH](CO[P](O)(=O)O[CH]1[CH](O)[CH](O)[CH](O[P](O)(O)=O)[CH](O[P](O)(O)=O)[CH]1O)OC(=O)CCCCCCC
52N SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 CCCCCCCC(=O)OC[C@H](COP(=O)(O)O[C@@H]1[C@H]([C@H]([C@H]([C@H]([C@H]1O)OP(=O)(O)O)OP(=O)(O)O)O)O)OC(=O)CCCCCCC
52N SMILES "OpenEye OEToolkits" 1.7.6 CCCCCCCC(=O)OCC(COP(=O)(O)OC1C(C(C(C(C1O)OP(=O)(O)O)OP(=O)(O)O)O)O)OC(=O)CCCCCCC
#
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
52N "SYSTEMATIC NAME" ACDLabs 12.01 "(2R)-3-{[(S)-hydroxy{[(1R,2S,3R,4R,5S,6S)-2,3,6-trihydroxy-4,5-bis(phosphonooxy)cyclohexyl]oxy}phosphoryl]oxy}propane-1,2-diyl dioctanoate"
52N "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.6 "[(2R)-2-octanoyloxy-3-[oxidanyl-[(1R,2S,3R,4R,5S,6S)-2,3,6-tris(oxidanyl)-4,5-diphosphonooxy-cyclohexyl]oxy-phosphoryl]oxy-propyl] octanoate"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
52N 'Create component' 2014-01-16 EBI
52N 'Initial release' 2014-04-16 RCSB
#
loop_
_software.name
_software.version
_software.description
rdkit 2025.03.3 'Core functionality.'
pdbeccdutils 1.0.0 '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
52N C1 C 10.301 5.535 1
52N O1 O 11.600 4.785 2
52N P1 P 11.600 3.285 3
52N C2 C 10.301 7.035 4
52N O2 O 11.600 7.785 5
52N C3 C 9.002 7.785 6
52N O3 O 9.002 9.285 7
52N P3 P 7.702 10.035 8
52N C4 C 7.702 7.035 9
52N O4 O 6.404 7.785 10
52N P4 P 5.104 7.035 11
52N C5 C 7.702 5.535 12
52N O5 O 6.404 4.785 13
52N C6 C 9.002 4.785 14
52N O6 O 9.002 3.285 15
52N C7 C 12.899 1.035 16
52N C8 C 12.899 -0.465 17
52N C9 C 11.600 -1.215 18
52N C10 C 10.301 -3.465 19
52N C11 C 10.301 -4.965 20
52N O11 O 13.100 3.285 21
52N C12 C 9.002 -5.715 22
52N O12 O 10.100 3.285 23
52N C13 C 9.002 -7.215 24
52N O13 O 11.600 1.785 25
52N C14 C 7.702 -7.965 26
52N O14 O 14.198 -1.215 27
52N C15 C 7.702 -9.465 28
52N O15 O 11.600 -2.715 29
52N C16 C 6.404 -10.215 30
52N O16 O 9.002 -2.715 31
52N C17 C 6.404 -11.715 32
52N O17 O 12.899 -3.465 33
52N C18 C 14.198 -2.715 34
52N C19 C 15.497 -3.465 35
52N C20 C 15.497 -4.965 36
52N C21 C 16.796 -5.715 37
52N C22 C 16.796 -7.215 38
52N C23 C 18.095 -7.965 39
52N C24 C 18.095 -9.465 40
52N C25 C 19.394 -10.215 41
52N O31 O 8.453 11.334 42
52N O32 O 6.952 8.736 43
52N O33 O 6.404 10.785 44
52N O41 O 5.854 5.736 45
52N O42 O 3.805 6.285 46
52N O43 O 4.354 8.334 47
#
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
52N C1 C6 SINGLE NONE 1
52N C1 C2 SINGLE NONE 2
52N C1 O1 SINGLE BEGINDASH 3
52N O1 P1 SINGLE NONE 4
52N O13 P1 SINGLE NONE 5
52N P1 O11 DOUBLE NONE 6
52N P1 O12 SINGLE BEGINWEDGE 7
52N C2 O2 SINGLE BEGINWEDGE 8
52N C3 C2 SINGLE NONE 9
52N C4 C3 SINGLE NONE 10
52N C3 O3 SINGLE BEGINWEDGE 11
52N O3 P3 SINGLE NONE 12
52N O33 P3 DOUBLE NONE 13
52N P3 O31 SINGLE NONE 14
52N P3 O32 SINGLE NONE 15
52N C4 O4 SINGLE BEGINWEDGE 16
52N C4 C5 SINGLE NONE 17
52N P4 O4 SINGLE NONE 18
52N O42 P4 DOUBLE NONE 19
52N P4 O43 SINGLE NONE 20
52N P4 O41 SINGLE NONE 21
52N C5 O5 SINGLE BEGINWEDGE 22
52N C5 C6 SINGLE NONE 23
52N C6 O6 SINGLE BEGINWEDGE 24
52N O13 C7 SINGLE NONE 25
52N C8 C7 SINGLE BEGINDASH 26
52N O14 C8 SINGLE NONE 27
52N C8 C9 SINGLE NONE 28
52N C9 O15 SINGLE NONE 29
52N O15 C10 SINGLE NONE 30
52N C10 C11 SINGLE NONE 31
52N C10 O16 DOUBLE NONE 32
52N C11 C12 SINGLE NONE 33
52N C12 C13 SINGLE NONE 34
52N C13 C14 SINGLE NONE 35
52N C14 C15 SINGLE NONE 36
52N C18 O14 SINGLE NONE 37
52N C15 C16 SINGLE NONE 38
52N C16 C17 SINGLE NONE 39
52N C18 O17 DOUBLE NONE 40
52N C19 C18 SINGLE NONE 41
52N C20 C19 SINGLE NONE 42
52N C20 C21 SINGLE NONE 43
52N C22 C21 SINGLE NONE 44
52N C23 C22 SINGLE NONE 45
52N C23 C24 SINGLE NONE 46
52N C24 C25 SINGLE NONE 47
#
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
52N MurckoScaffold S1 scaffold C1CCCCC1 InChI=1S/C6H12/c1-2-4-6-5-3-1/h1-6H2 XDTMQSROBMDMFD-UHFFFAOYSA-N
52N cyclohexane F1 fragment C1CCCCC1 InChI=1S/C6H12/c1-2-4-6-5-3-1/h1-6H2 XDTMQSROBMDMFD-UHFFFAOYSA-N
52N phosphate F2 fragment O=P(O)(O)O InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4) NBIIXXVUZAFLBC-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
52N C1 S1 1
52N C2 S1 1
52N C3 S1 1
52N C4 S1 1
52N C5 S1 1
52N C6 S1 1
52N C1 F1 1
52N C6 F1 1
52N C5 F1 1
52N C4 F1 1
52N C3 F1 1
52N C2 F1 1
52N O1 F2 1
52N P1 F2 1
52N O11 F2 1
52N O13 F2 1
52N O12 F2 1
52N O3 F2 2
52N P3 F2 2
52N O33 F2 2
52N O31 F2 2
52N O32 F2 2
52N O4 F2 3
52N P4 F2 3
52N O42 F2 3
52N O43 F2 3
52N O41 F2 3
#
_pdbe_chem_comp_rdkit_properties.comp_id 52N
_pdbe_chem_comp_rdkit_properties.exactmw 746.208
_pdbe_chem_comp_rdkit_properties.amw 746.570
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 19
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 8
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 34
_pdbe_chem_comp_rdkit_properties.NumHBD 8
_pdbe_chem_comp_rdkit_properties.NumHBA 19
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 47
_pdbe_chem_comp_rdkit_properties.NumAtoms 96
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 22
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.920
_pdbe_chem_comp_rdkit_properties.NumRings 1
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 1
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 1
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 8
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 342.036
_pdbe_chem_comp_rdkit_properties.tpsa 302.570
_pdbe_chem_comp_rdkit_properties.CrippenClogP 1.717
_pdbe_chem_comp_rdkit_properties.CrippenMR 160.096
_pdbe_chem_comp_rdkit_properties.chi0v 24.282
_pdbe_chem_comp_rdkit_properties.chi1v 14.726
_pdbe_chem_comp_rdkit_properties.chi2v 4.891
_pdbe_chem_comp_rdkit_properties.chi3v 4.891
_pdbe_chem_comp_rdkit_properties.chi4v 3.370
_pdbe_chem_comp_rdkit_properties.chi0n 70.598
_pdbe_chem_comp_rdkit_properties.chi1n 34.110
_pdbe_chem_comp_rdkit_properties.chi2n 3.357
_pdbe_chem_comp_rdkit_properties.chi3n 3.357
_pdbe_chem_comp_rdkit_properties.chi4n 1.970
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.850
_pdbe_chem_comp_rdkit_properties.kappa1 10.391
_pdbe_chem_comp_rdkit_properties.kappa2 21.386
_pdbe_chem_comp_rdkit_properties.kappa3 18.643
_pdbe_chem_comp_rdkit_properties.Phi 4.728
#
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
52N UniChem ZINC ZINC000098208503
52N UniChem PubChem 73441659
#
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
52N C1 3.175 0.917 -1.614 ETKDGv3 1
52N O1 3.649 -0.419 -1.661 ETKDGv3 2
52N P1 2.901 -1.272 -2.939 ETKDGv3 3
52N C2 2.934 1.297 -0.141 ETKDGv3 4
52N O2 2.381 2.590 -0.089 ETKDGv3 5
52N C3 4.240 1.211 0.711 ETKDGv3 6
52N O3 4.191 2.152 1.772 ETKDGv3 7
52N P3 3.556 1.427 3.184 ETKDGv3 8
52N C4 5.530 1.455 -0.130 ETKDGv3 9
52N O4 6.558 1.987 0.688 ETKDGv3 10
52N P4 7.618 0.750 1.208 ETKDGv3 11
52N C5 5.272 2.432 -1.291 ETKDGv3 12
52N O5 4.871 3.678 -0.772 ETKDGv3 13
52N C6 4.211 1.866 -2.282 ETKDGv3 14
52N O6 3.534 2.914 -2.929 ETKDGv3 15
52N C7 1.111 -2.375 -1.531 ETKDGv3 16
52N C8 -0.320 -2.309 -0.978 ETKDGv3 17
52N C9 -0.565 -3.451 0.010 ETKDGv3 18
52N C10 -2.416 -4.283 1.429 ETKDGv3 19
52N C11 -3.830 -4.131 1.896 ETKDGv3 20
52N O11 3.056 -0.509 -4.237 ETKDGv3 21
52N C12 -4.798 -4.987 1.068 ETKDGv3 22
52N O12 3.639 -2.786 -3.105 ETKDGv3 23
52N C13 -4.953 -4.464 -0.371 ETKDGv3 24
52N O13 1.243 -1.464 -2.598 ETKDGv3 25
52N C14 -5.855 -5.359 -1.239 ETKDGv3 26
52N O14 -0.522 -1.068 -0.300 ETKDGv3 27
52N C15 -7.313 -5.486 -0.756 ETKDGv3 28
52N O15 -1.890 -3.359 0.522 ETKDGv3 29
52N C16 -8.066 -4.153 -0.600 ETKDGv3 30
52N O16 -1.725 -5.259 1.828 ETKDGv3 31
52N C17 -8.180 -3.377 -1.912 ETKDGv3 32
52N O17 -1.074 0.164 -2.181 ETKDGv3 33
52N C18 -0.802 0.138 -0.950 ETKDGv3 34
52N C19 -0.804 1.408 -0.163 ETKDGv3 35
52N C20 -2.236 1.857 0.152 ETKDGv3 36
52N C21 -2.279 3.010 1.169 ETKDGv3 37
52N C22 -1.652 4.304 0.628 ETKDGv3 38
52N C23 -1.823 5.456 1.628 ETKDGv3 39
52N C24 -1.267 6.786 1.095 ETKDGv3 40
52N C25 0.261 6.808 1.035 ETKDGv3 41
52N O31 3.411 2.610 4.384 ETKDGv3 42
52N O32 4.600 0.211 3.727 ETKDGv3 43
52N O33 2.192 0.834 2.908 ETKDGv3 44
52N O41 8.670 0.333 -0.052 ETKDGv3 45
52N O42 6.847 -0.473 1.656 ETKDGv3 46
52N O43 8.528 1.332 2.510 ETKDGv3 47
52N H1 2.188 1.042 -2.124 ETKDGv3 48
52N H2 2.197 0.567 0.267 ETKDGv3 49
52N HO2 1.863 2.656 0.755 ETKDGv3 50
52N H3 4.330 0.161 1.079 ETKDGv3 51
52N H4 5.826 0.494 -0.615 ETKDGv3 52
52N H5 6.234 2.555 -1.844 ETKDGv3 53
52N HO5 5.149 4.371 -1.426 ETKDGv3 54
52N H6 4.755 1.271 -3.054 ETKDGv3 55
52N HO6 4.172 3.312 -3.578 ETKDGv3 56
52N H7 1.811 -2.143 -0.693 ETKDGv3 57
52N H7A 1.312 -3.404 -1.903 ETKDGv3 58
52N H8 -1.050 -2.416 -1.812 ETKDGv3 59
52N H9 -0.437 -4.428 -0.507 ETKDGv3 60
52N H9A 0.162 -3.387 0.851 ETKDGv3 61
52N H11 -3.892 -4.444 2.961 ETKDGv3 62
52N H11A -4.129 -3.062 1.845 ETKDGv3 63
52N H12 -5.785 -4.961 1.575 ETKDGv3 64
52N H12A -4.447 -6.043 1.054 ETKDGv3 65
52N HO12 4.608 -2.589 -3.172 ETKDGv3 66
52N H13 -5.338 -3.422 -0.360 ETKDGv3 67
52N H13A -3.954 -4.434 -0.856 ETKDGv3 68
52N H14 -5.846 -4.970 -2.280 ETKDGv3 69
52N H14A -5.410 -6.377 -1.282 ETKDGv3 70
52N H15 -7.336 -6.027 0.214 ETKDGv3 71
52N H15A -7.866 -6.124 -1.480 ETKDGv3 72
52N H16 -7.583 -3.519 0.172 ETKDGv3 73
52N H16A -9.093 -4.377 -0.239 ETKDGv3 74
52N H17 -7.186 -3.004 -2.234 ETKDGv3 75
52N H17A -8.846 -2.501 -1.765 ETKDGv3 76
52N H17B -8.612 -4.021 -2.707 ETKDGv3 77
52N H19 -0.244 1.244 0.784 ETKDGv3 78
52N H19A -0.280 2.187 -0.754 ETKDGv3 79
52N H20 -2.749 2.164 -0.786 ETKDGv3 80
52N H20A -2.800 1.001 0.583 ETKDGv3 81
52N H21 -1.758 2.702 2.102 ETKDGv3 82
52N H21A -3.344 3.202 1.424 ETKDGv3 83
52N H22 -0.570 4.137 0.451 ETKDGv3 84
52N H22A -2.136 4.575 -0.336 ETKDGv3 85
52N H23 -1.326 5.200 2.590 ETKDGv3 86
52N H23A -2.907 5.595 1.834 ETKDGv3 87
52N H24 -1.683 6.998 0.086 ETKDGv3 88
52N H24A -1.600 7.602 1.773 ETKDGv3 89
52N H25 0.636 6.106 0.262 ETKDGv3 90
52N H25A 0.693 6.538 2.022 ETKDGv3 91
52N H25B 0.604 7.829 0.767 ETKDGv3 92
52N HO31 3.120 2.116 5.192 ETKDGv3 93
52N HO32 5.453 0.679 3.915 ETKDGv3 94
52N HO41 8.123 -0.201 -0.682 ETKDGv3 95
52N HO43 9.165 0.604 2.719 ETKDGv3 96
#