data_SPU
#
_chem_comp.id SPU
_chem_comp.name
2-{[(R)-{[(2S,3R,4E)-2-amino-3-hydroxyoctadec-4-en-1-yl]oxy}(hydroxy)phosphoryl]oxy}-N,N,N-trimethylethanaminium
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C23 H50 N2 O5 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms "sphingosylphosphorylcholine, sphingosine phosphorylcholine"
_chem_comp.pdbx_formal_charge 1
_chem_comp.pdbx_initial_date 2009-07-28
_chem_comp.pdbx_modified_date 2020-06-17
_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 465.627
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code SPU
_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 3IF7
_chem_comp.pdbx_subcomponent_list ?
_chem_comp.pdbx_processing_site PDBJ
#
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
SPU C11 C11 C 0 1 N N N N N N -28.718 7.487 -17.410 11.604 -1.801 -0.565 C11 SPU 1
SPU C14 C14 C 0 1 N N N N N N -27.911 8.466 -18.257 10.711 -0.857 0.241 C14 SPU 2
SPU C17 C17 C 0 1 N N N N N N -28.363 9.910 -18.070 9.331 -0.774 -0.416 C17 SPU 3
SPU C20 C20 C 0 1 N N N N N N -27.333 10.669 -17.262 8.438 0.170 0.390 C20 SPU 4
SPU C23 C23 C 0 1 N N N N N N -26.988 12.047 -17.815 7.059 0.253 -0.267 C23 SPU 5
SPU C26 C26 C 0 1 N N N N N N -26.338 12.897 -16.737 6.165 1.197 0.540 C26 SPU 6
SPU C29 C29 C 0 1 N N N N N N -26.272 14.349 -17.119 4.786 1.280 -0.117 C29 SPU 7
SPU C32 C32 C 0 1 N N N N N N -25.278 15.108 -16.254 3.892 2.224 0.689 C32 SPU 8
SPU C35 C35 C 0 1 N N N N N N -24.714 16.282 -17.017 2.513 2.307 0.032 C35 SPU 9
SPU C38 C38 C 0 1 N N N N N N -23.893 15.744 -18.190 1.620 3.252 0.838 C38 SPU 10
SPU C41 C41 C 0 1 N N N N N N -22.538 16.370 -18.142 0.261 3.333 0.191 C41 SPU 11
SPU C43 C43 C 0 1 N N N N N N -21.926 16.816 -19.233 -0.814 3.066 0.890 C43 SPU 12
SPU C45 C45 C 0 1 N N R N N N -20.567 17.446 -19.070 -2.173 3.148 0.243 C45 SPU 13
SPU O47 O47 O 0 1 N N N N N N -20.236 18.008 -20.321 -2.020 3.418 -1.152 O47 SPU 14
SPU C49 C49 C 0 1 N N S N N N -20.632 18.579 -18.050 -2.906 1.818 0.428 C49 SPU 15
SPU N51 N51 N 0 1 N N N N N N -22.017 19.006 -17.877 -3.063 1.540 1.862 N51 SPU 16
SPU C54 C54 C 0 1 N N N N N N -20.118 18.244 -16.664 -4.285 1.900 -0.230 C54 SPU 17
SPU O57 O57 O 0 1 N N N N N N -20.933 19.008 -15.790 -4.924 0.624 -0.159 O57 SPU 18
SPU P58 P58 P 0 1 N N N N N N -20.797 18.817 -14.223 -6.393 0.344 -0.755 P58 SPU 19
SPU O59 O59 O 0 1 N N N N N N -21.683 17.632 -13.852 -7.478 1.207 0.065 O59 SPU 20
SPU O60 O60 O 0 1 N N N N N N -19.297 18.833 -13.963 -6.430 0.734 -2.182 O60 SPU 21
SPU O61 O61 O 0 1 N N N N N N -21.453 20.131 -13.541 -6.739 -1.222 -0.618 O61 SPU 22
SPU C62 C62 C 0 1 N N N N N N -21.363 20.319 -12.121 -7.930 -1.806 -1.150 C62 SPU 23
SPU C65 C65 C 0 1 N N N N N N -21.298 21.815 -11.776 -7.943 -3.305 -0.844 C65 SPU 24
SPU N68 N68 N 1 1 N N N N N N -19.929 22.352 -11.745 -8.063 -3.508 0.606 N68 SPU 25
SPU C70 C70 C 0 1 N N N N N N -19.186 21.843 -12.893 -9.241 -2.787 1.106 C70 SPU 26
SPU C74 C74 C 0 1 N N N N N N -19.938 23.834 -11.792 -8.210 -4.942 0.889 C74 SPU 27
SPU C78 C78 C 0 1 N N N N N N -19.216 21.876 -10.554 -6.857 -2.999 1.273 C78 SPU 28
SPU C21 C21 C 0 1 N N N N N N -28.206 6.055 -17.651 12.983 -1.884 0.092 C21 SPU 29
SPU C22 C22 C 0 1 N N N N N N -29.539 5.285 -17.651 13.877 -2.828 -0.715 C22 SPU 30
SPU C231 C231 C 0 0 N N N N N N -28.769 3.951 -17.651 15.256 -2.911 -0.058 C231 SPU 31
SPU H11 H11 H 0 1 N N N N N N -28.604 7.743 -16.346 11.154 -2.794 -0.591 H11 SPU 32
SPU H11A H11A H 0 0 N N N N N N -29.780 7.549 -17.691 11.708 -1.423 -1.582 H11A SPU 33
SPU H14 H14 H 0 1 N N N N N N -26.853 8.391 -17.964 10.606 -1.235 1.258 H14 SPU 34
SPU H14A H14A H 0 0 N N N N N N -28.036 8.196 -19.316 11.161 0.136 0.267 H14A SPU 35
SPU H17 H17 H 0 1 N N N N N N -28.478 10.387 -19.055 9.436 -0.396 -1.433 H17 SPU 36
SPU H17A H17A H 0 0 N N N N N N -29.326 9.925 -17.539 8.881 -1.766 -0.442 H17A SPU 37
SPU H20 H20 H 0 1 N N N N N N -27.734 10.804 -16.247 8.334 -0.208 1.407 H20 SPU 38
SPU H20A H20A H 0 0 N N N N N N -26.410 10.071 -17.246 8.888 1.163 0.416 H20A SPU 39
SPU H23 H23 H 0 1 N N N N N N -26.290 11.935 -18.658 7.163 0.631 -1.284 H23 SPU 40
SPU H23A H23A H 0 0 N N N N N N -27.909 12.540 -18.159 6.609 -0.739 -0.293 H23A SPU 41
SPU H26 H26 H 0 1 N N N N N N -26.930 12.804 -15.814 6.061 0.819 1.557 H26 SPU 42
SPU H26A H26A H 0 0 N N N N N N -25.314 12.531 -16.573 6.615 2.190 0.566 H26A SPU 43
SPU H29 H29 H 0 1 N N N N N N -25.958 14.425 -18.170 4.890 1.658 -1.134 H29 SPU 44
SPU H29A H29A H 0 0 N N N N N N -27.269 14.796 -16.989 4.336 0.288 -0.143 H29A SPU 45
SPU H32 H32 H 0 1 N N N N N N -25.789 15.474 -15.351 3.788 1.846 1.706 H32 SPU 46
SPU H32A H32A H 0 0 N N N N N N -24.457 14.434 -15.968 4.343 3.217 0.715 H32A SPU 47
SPU H35 H35 H 0 1 N N N N N N -25.534 16.912 -17.393 2.617 2.685 -0.985 H35 SPU 48
SPU H35A H35A H 0 0 N N N N N N -24.072 16.883 -16.356 2.063 1.315 0.006 H35A SPU 49
SPU H38 H38 H 0 1 N N N N N N -23.802 14.651 -18.112 1.516 2.873 1.855 H38 SPU 50
SPU H38A H38A H 0 0 N N N N N N -24.388 15.997 -19.139 2.070 4.244 0.864 H38A SPU 51
SPU H41 H41 H 0 1 N N N N N N -22.039 16.463 -17.189 0.175 3.611 -0.849 H41 SPU 52
SPU H43 H43 H 0 1 N N N N N N -22.387 16.730 -20.206 -0.727 2.788 1.930 H43 SPU 53
SPU H45 H45 H 0 1 N N N N N N -19.833 16.699 -18.733 -2.749 3.948 0.707 H45 SPU 54
SPU HO47 HO47 H 0 0 N N N N N N -19.381 18.420 -20.268 -1.516 2.745 -1.630 HO47 SPU 55
SPU H49 H49 H 0 1 N N N N N N -19.976 19.355 -18.471 -2.330 1.017 -0.037 H49 SPU 56
SPU HN51 HN51 H 0 0 N N N N N N -22.056 19.748 -17.208 -3.594 2.269 2.315 HN51 SPU 57
SPU HN5A HN5A H 0 0 N N N N N N -22.379 19.327 -18.752 -3.487 0.637 2.011 HN5A SPU 58
SPU H54 H54 H 0 1 N N N N N N -20.211 17.168 -16.455 -4.893 2.640 0.292 H54 SPU 59
SPU H54A H54A H 0 0 N N N N N N -19.057 18.515 -16.557 -4.174 2.194 -1.274 H54A SPU 60
SPU H59 H59 H 0 1 N N N N N N -21.153 16.952 -13.454 -7.509 1.003 1.010 H59 SPU 61
SPU H62 H62 H 0 1 N N N N N N -22.250 19.878 -11.643 -8.800 -1.334 -0.694 H62 SPU 62
SPU H62A H62A H 0 0 N N N N N N -20.453 19.824 -11.750 -7.957 -1.655 -2.229 H62A SPU 63
SPU H65 H65 H 0 1 N N N N N N -21.865 22.367 -12.540 -8.791 -3.771 -1.347 H65 SPU 64
SPU H65A H65A H 0 0 N N N N N N -21.744 21.956 -10.780 -7.017 -3.757 -1.199 H65A SPU 65
SPU H70 H70 H 0 1 N N N N N N -18.161 22.242 -12.874 -10.135 -3.165 0.611 H70 SPU 66
SPU H70A H70A H 0 0 N N N N N N -19.152 20.744 -12.850 -9.330 -2.938 2.182 H70A SPU 67
SPU H70B H70B H 0 0 N N N N N N -19.685 22.158 -13.821 -9.132 -1.723 0.896 H70B SPU 68
SPU H74 H74 H 0 1 N N N N N N -18.904 24.208 -11.768 -7.336 -5.477 0.518 H74 SPU 69
SPU H74A H74A H 0 0 N N N N N N -20.427 24.168 -12.719 -8.299 -5.093 1.965 H74A SPU 70
SPU H74B H74B H 0 0 N N N N N N -20.490 24.225 -10.924 -9.105 -5.320 0.394 H74B SPU 71
SPU H78 H78 H 0 1 N N N N N N -18.196 22.287 -10.548 -6.851 -1.910 1.230 H78 SPU 72
SPU H78A H78A H 0 0 N N N N N N -19.750 22.207 -9.651 -6.854 -3.321 2.314 H78A SPU 73
SPU H78B H78B H 0 0 N N N N N N -19.168 20.777 -10.570 -5.972 -3.387 0.769 H78B SPU 74
SPU H44 H44 H 0 1 N N N N N N -27.658 5.954 -18.599 13.434 -0.891 0.118 H44 SPU 75
SPU H451 H451 H 0 0 N N N N N N -27.518 5.712 -16.864 12.879 -2.262 1.109 H451 SPU 76
SPU H46 H46 H 0 1 N N N N N N -30.211 5.465 -16.799 13.427 -3.821 -0.741 H46 SPU 77
SPU H47 H47 H 0 1 N N N N N N -30.211 5.465 -18.503 13.981 -2.450 -1.732 H47 SPU 78
SPU H48 H48 H 0 1 N N N N N N -29.483 3.115 -17.651 15.706 -1.919 -0.032 H48 SPU 79
SPU H491 H491 H 0 0 N N N N N N -28.137 3.893 -18.549 15.152 -3.289 0.959 H491 SPU 80
SPU H50 H50 H 0 1 N N N N N N -28.137 3.893 -16.753 15.892 -3.584 -0.632 H50 SPU 81
#
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
SPU C11 C14 SING N N 1
SPU C11 C21 SING N N 2
SPU C14 C17 SING N N 3
SPU C17 C20 SING N N 4
SPU C20 C23 SING N N 5
SPU C23 C26 SING N N 6
SPU C26 C29 SING N N 7
SPU C29 C32 SING N N 8
SPU C32 C35 SING N N 9
SPU C35 C38 SING N N 10
SPU C38 C41 SING N N 11
SPU C41 C43 DOUB N N 12
SPU C43 C45 SING N N 13
SPU C45 O47 SING N N 14
SPU C45 C49 SING N N 15
SPU C49 N51 SING N N 16
SPU C49 C54 SING N N 17
SPU C54 O57 SING N N 18
SPU O57 P58 SING N N 19
SPU P58 O59 SING N N 20
SPU P58 O60 DOUB N N 21
SPU P58 O61 SING N N 22
SPU O61 C62 SING N N 23
SPU C62 C65 SING N N 24
SPU C65 N68 SING N N 25
SPU N68 C70 SING N N 26
SPU N68 C74 SING N N 27
SPU N68 C78 SING N N 28
SPU C21 C22 SING N N 29
SPU C22 C231 SING N N 30
SPU C11 H11 SING N N 31
SPU C11 H11A SING N E 32
SPU C14 H14 SING N N 33
SPU C14 H14A SING N N 34
SPU C17 H17 SING N N 35
SPU C17 H17A SING N N 36
SPU C20 H20 SING N N 37
SPU C20 H20A SING N N 38
SPU C23 H23 SING N N 39
SPU C23 H23A SING N N 40
SPU C26 H26 SING N N 41
SPU C26 H26A SING N N 42
SPU C29 H29 SING N N 43
SPU C29 H29A SING N N 44
SPU C32 H32 SING N N 45
SPU C32 H32A SING N N 46
SPU C35 H35 SING N N 47
SPU C35 H35A SING N N 48
SPU C38 H38 SING N N 49
SPU C38 H38A SING N N 50
SPU C41 H41 SING N N 51
SPU C43 H43 SING N N 52
SPU C45 H45 SING N N 53
SPU O47 HO47 SING N N 54
SPU C49 H49 SING N N 55
SPU N51 HN51 SING N N 56
SPU N51 HN5A SING N N 57
SPU C54 H54 SING N N 58
SPU C54 H54A SING N N 59
SPU O59 H59 SING N N 60
SPU C62 H62 SING N N 61
SPU C62 H62A SING N N 62
SPU C65 H65 SING N N 63
SPU C65 H65A SING N N 64
SPU C70 H70 SING N N 65
SPU C70 H70A SING N N 66
SPU C70 H70B SING N N 67
SPU C74 H74 SING N N 68
SPU C74 H74A SING N N 69
SPU C74 H74B SING N N 70
SPU C78 H78 SING N N 71
SPU C78 H78A SING N N 72
SPU C78 H78B SING N N 73
SPU C21 H44 SING N N 74
SPU C21 H451 SING N N 75
SPU C22 H46 SING N N 76
SPU C22 H47 SING N N 77
SPU C231 H48 SING N N 78
SPU C231 H491 SING N N 79
SPU C231 H50 SING N N 80
#
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
SPU SMILES ACDLabs 11.02 O=P(OCC(N)C(O)/C=C/CCCCCCCCCCCCC)(OCC[N+](C)(C)C)O
SPU SMILES_CANONICAL CACTVS 3.352 CCCCCCCCCCCCC\C=C\[C@@H](O)[C@@H](N)CO[P](O)(=O)OCC[N+](C)(C)C
SPU SMILES CACTVS 3.352 CCCCCCCCCCCCCC=C[CH](O)[CH](N)CO[P](O)(=O)OCC[N+](C)(C)C
SPU SMILES_CANONICAL "OpenEye OEToolkits" 1.7.0 CCCCCCCCCCCCC/C=C/[C@H]([C@H](CO[P@](=O)(O)OCC[N+](C)(C)C)N)O
SPU SMILES "OpenEye OEToolkits" 1.7.0 CCCCCCCCCCCCCC=CC(C(COP(=O)(O)OCC[N+](C)(C)C)N)O
SPU InChI InChI 1.03 InChI=1S/C23H49N2O5P/c1-5-6-7-8-9-10-11-12-13-14-15-16-17-18-23(26)22(24)21-30-31(27,28)29-20-19-25(2,3)4/h17-18,22-23,26H,5-16,19-21,24H2,1-4H3/p+1/b18-17+/t22-,23+/m0/s1
SPU InChIKey InChI 1.03 JLVSPVFPBBFMBE-HXSWCURESA-O
#
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
SPU "SYSTEMATIC NAME" ACDLabs 11.02 2-{[(R)-{[(2S,3R,4E)-2-amino-3-hydroxyoctadec-4-en-1-yl]oxy}(hydroxy)phosphoryl]oxy}-N,N,N-trimethylethanaminium
SPU "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.6.1 2-[[(E,2S,3R)-2-azanyl-3-hydroxy-octadec-4-enoxy]-hydroxy-phosphoryl]oxyethyl-trimethyl-azanium
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
SPU 'Create component' 2009-07-28 PDBJ
SPU 'Modify descriptor' 2011-06-04 RCSB
SPU 'Modify synonyms' 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id SPU
_pdbx_chem_comp_synonyms.name "sphingosylphosphorylcholine, sphingosine phosphorylcholine"
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_synonyms.comp_id SPU
_pdbe_chem_comp_synonyms.name 'sphingosylphosphorylcholine, sphingosine phosphorylcholine'
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
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
SPU C11 C 30.280 -0.608 1
SPU C14 C 28.981 0.142 2
SPU C17 C 27.682 -0.608 3
SPU C20 C 26.383 0.142 4
SPU C23 C 25.084 -0.608 5
SPU C26 C 23.785 0.142 6
SPU C29 C 22.486 -0.608 7
SPU C32 C 21.187 0.142 8
SPU C35 C 19.887 -0.608 9
SPU C38 C 18.588 0.142 10
SPU C41 C 17.290 -0.608 11
SPU C43 C 15.990 0.142 12
SPU C45 C 14.691 -0.608 13
SPU O47 O 14.691 -2.107 14
SPU C49 C 13.392 0.142 15
SPU N51 N 13.392 1.643 16
SPU C54 C 12.093 -0.608 17
SPU O57 O 10.794 0.142 18
SPU P58 P 9.495 -0.608 19
SPU O59 O 8.745 0.692 20
SPU O60 O 10.245 -1.907 21
SPU O61 O 8.196 -1.357 22
SPU C62 C 6.897 -0.608 23
SPU C65 C 5.598 -1.357 24
SPU N68 N 4.299 -0.608 25
SPU C70 C 3.000 0.142 26
SPU C74 C 3.549 -1.907 27
SPU C78 C 5.049 0.692 28
SPU C21 C 31.579 0.142 29
SPU C22 C 32.878 -0.608 30
SPU C231 C 34.177 0.142 31
#
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
SPU C11 C14 SINGLE NONE 1
SPU C11 C21 SINGLE NONE 2
SPU C14 C17 SINGLE NONE 3
SPU C17 C20 SINGLE NONE 4
SPU C20 C23 SINGLE NONE 5
SPU C23 C26 SINGLE NONE 6
SPU C26 C29 SINGLE NONE 7
SPU C29 C32 SINGLE NONE 8
SPU C32 C35 SINGLE NONE 9
SPU C35 C38 SINGLE NONE 10
SPU C38 C41 SINGLE ENDUPRIGHT 11
SPU C41 C43 DOUBLE NONE 12
SPU C43 C45 SINGLE ENDUPRIGHT 13
SPU C45 O47 SINGLE BEGINWEDGE 14
SPU C45 C49 SINGLE NONE 15
SPU C49 N51 SINGLE BEGINDASH 16
SPU C49 C54 SINGLE NONE 17
SPU C54 O57 SINGLE NONE 18
SPU O57 P58 SINGLE NONE 19
SPU P58 O59 SINGLE BEGINDASH 20
SPU P58 O60 DOUBLE NONE 21
SPU P58 O61 SINGLE NONE 22
SPU O61 C62 SINGLE NONE 23
SPU C62 C65 SINGLE NONE 24
SPU C65 N68 SINGLE NONE 25
SPU N68 C70 SINGLE NONE 26
SPU N68 C74 SINGLE NONE 27
SPU N68 C78 SINGLE NONE 28
SPU C21 C22 SINGLE NONE 29
SPU C22 C231 SINGLE NONE 30
#
_pdbe_chem_comp_substructure.comp_id SPU
_pdbe_chem_comp_substructure.substructure_name phosphate
_pdbe_chem_comp_substructure.id F1
_pdbe_chem_comp_substructure.substructure_type fragment
_pdbe_chem_comp_substructure.substructure_smiles O=P(O)(O)O
_pdbe_chem_comp_substructure.substructure_inchis InChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)
_pdbe_chem_comp_substructure.substructure_inchikeys 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
SPU O57 F1 1
SPU P58 F1 1
SPU O60 F1 1
SPU O59 F1 1
SPU O61 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id SPU
_pdbe_chem_comp_rdkit_properties.exactmw 465.345
_pdbe_chem_comp_rdkit_properties.amw 465.636
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 7
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 28
_pdbe_chem_comp_rdkit_properties.NumHBD 3
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 31
_pdbe_chem_comp_rdkit_properties.NumAtoms 81
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 8
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.913
_pdbe_chem_comp_rdkit_properties.NumRings 0
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 0
_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 3
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 261.291
_pdbe_chem_comp_rdkit_properties.tpsa 102.010
_pdbe_chem_comp_rdkit_properties.CrippenClogP 4.772
_pdbe_chem_comp_rdkit_properties.CrippenMR 128.829
_pdbe_chem_comp_rdkit_properties.chi0v 15.777
_pdbe_chem_comp_rdkit_properties.chi1v 8.421
_pdbe_chem_comp_rdkit_properties.chi2v 2.396
_pdbe_chem_comp_rdkit_properties.chi3v 2.396
_pdbe_chem_comp_rdkit_properties.chi4v 1.188
_pdbe_chem_comp_rdkit_properties.chi0n 64.883
_pdbe_chem_comp_rdkit_properties.chi1n 31.672
_pdbe_chem_comp_rdkit_properties.chi2n 1.766
_pdbe_chem_comp_rdkit_properties.chi3n 1.766
_pdbe_chem_comp_rdkit_properties.chi4n 0.800
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.270
_pdbe_chem_comp_rdkit_properties.kappa1 4.273
_pdbe_chem_comp_rdkit_properties.kappa2 18.190
_pdbe_chem_comp_rdkit_properties.kappa3 21.340
_pdbe_chem_comp_rdkit_properties.Phi 2.507
#
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
SPU UniChem ChEMBL CHEMBL1236027
SPU UniChem PDBe SPU
SPU UniChem 'KEGG LIGAND' C03640
SPU UniChem ChEBI 52897
SPU UniChem ChEBI 58906
SPU UniChem ZINC ZINC000008218753
SPU UniChem HMDB HMDB0006482
SPU UniChem NMRShiftDB 60020596
SPU UniChem Recon 'spc_hs'
SPU UniChem Nikkaji J3.144.218D
SPU UniChem Nikkaji J619.421D
SPU UniChem BRENDA 118929
SPU UniChem BRENDA 197736
SPU UniChem BRENDA 21355
SPU UniChem BRENDA 8192
SPU UniChem BRENDA 98250
SPU UniChem Rhea 58906
SPU UniChem 'Probes And Drugs' PD062278
SPU UniChem PubChem 5280613
SPU UniChem SureChEMBL SCHEMBL196365
SPU UniChem PubChem 25245908
#
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
SPU C11 6.878 0.114 1.236 ETKDGv3 1
SPU C14 6.122 -1.202 1.018 ETKDGv3 2
SPU C17 6.288 -1.699 -0.425 ETKDGv3 3
SPU C20 5.660 -3.086 -0.656 ETKDGv3 4
SPU C23 4.140 -3.167 -0.404 ETKDGv3 5
SPU C26 3.294 -2.149 -1.188 ETKDGv3 6
SPU C29 3.415 -2.323 -2.713 ETKDGv3 7
SPU C32 2.444 -1.411 -3.480 ETKDGv3 8
SPU C35 2.926 0.050 -3.524 ETKDGv3 9
SPU C38 1.933 0.962 -4.262 ETKDGv3 10
SPU C41 0.625 1.074 -3.528 ETKDGv3 11
SPU C43 0.534 1.706 -2.346 ETKDGv3 12
SPU C45 -0.750 1.747 -1.556 ETKDGv3 13
SPU O47 -1.765 2.291 -2.362 ETKDGv3 14
SPU C49 -1.146 0.333 -1.061 ETKDGv3 15
SPU N51 -0.023 -0.272 -0.334 ETKDGv3 16
SPU C54 -2.408 0.381 -0.177 ETKDGv3 17
SPU O57 -2.755 -0.926 0.219 ETKDGv3 18
SPU P58 -4.097 -0.834 1.267 ETKDGv3 19
SPU O59 -4.621 -2.408 1.607 ETKDGv3 20
SPU O60 -3.687 -0.156 2.556 ETKDGv3 21
SPU O61 -5.356 0.042 0.516 ETKDGv3 22
SPU C62 -6.474 0.047 1.372 ETKDGv3 23
SPU C65 -7.603 0.851 0.697 ETKDGv3 24
SPU N68 -8.873 0.957 1.479 ETKDGv3 25
SPU C70 -8.655 1.650 2.772 ETKDGv3 26
SPU C74 -9.469 -0.379 1.725 ETKDGv3 27
SPU C78 -9.834 1.755 0.680 ETKDGv3 28
SPU C21 6.699 0.622 2.671 ETKDGv3 29
SPU C22 7.455 1.938 2.887 ETKDGv3 30
SPU C231 7.278 2.447 4.314 ETKDGv3 31
SPU H11 6.496 0.879 0.524 ETKDGv3 32
SPU H11A 7.961 -0.046 1.035 ETKDGv3 33
SPU H14 5.045 -1.035 1.234 ETKDGv3 34
SPU H14A 6.511 -1.971 1.721 ETKDGv3 35
SPU H17 7.373 -1.779 -0.654 ETKDGv3 36
SPU H17A 5.861 -0.960 -1.136 ETKDGv3 37
SPU H20 5.877 -3.406 -1.698 ETKDGv3 38
SPU H20A 6.164 -3.821 0.008 ETKDGv3 39
SPU H23 3.797 -4.193 -0.662 ETKDGv3 40
SPU H23A 3.941 -3.036 0.681 ETKDGv3 41
SPU H26 3.570 -1.119 -0.886 ETKDGv3 42
SPU H26A 2.232 -2.298 -0.894 ETKDGv3 43
SPU H29 4.454 -2.118 -3.047 ETKDGv3 44
SPU H29A 3.177 -3.378 -2.971 ETKDGv3 45
SPU H32 2.362 -1.787 -4.523 ETKDGv3 46
SPU H32A 1.433 -1.476 -3.022 ETKDGv3 47
SPU H35 3.088 0.440 -2.498 ETKDGv3 48
SPU H35A 3.902 0.092 -4.055 ETKDGv3 49
SPU H38 1.748 0.558 -5.281 ETKDGv3 50
SPU H38A 2.377 1.974 -4.379 ETKDGv3 51
SPU H41 -0.256 0.614 -3.967 ETKDGv3 52
SPU H43 1.413 2.187 -1.926 ETKDGv3 53
SPU H45 -0.569 2.399 -0.667 ETKDGv3 54
SPU HO47 -2.339 2.850 -1.776 ETKDGv3 55
SPU H49 -1.374 -0.300 -1.948 ETKDGv3 56
SPU HN51 -0.240 -1.277 -0.142 ETKDGv3 57
SPU HN5A 0.099 0.210 0.586 ETKDGv3 58
SPU H54 -3.238 0.826 -0.770 ETKDGv3 59
SPU H54A -2.200 1.027 0.707 ETKDGv3 60
SPU H59 -3.820 -2.868 1.966 ETKDGv3 61
SPU H62 -6.206 0.530 2.337 ETKDGv3 62
SPU H62A -6.818 -0.995 1.546 ETKDGv3 63
SPU H65 -7.205 1.869 0.480 ETKDGv3 64
SPU H65A -7.805 0.377 -0.292 ETKDGv3 65
SPU H70 -9.623 1.869 3.276 ETKDGv3 66
SPU H70A -8.119 2.614 2.623 ETKDGv3 67
SPU H70B -8.066 1.026 3.478 ETKDGv3 68
SPU H74 -8.867 -0.970 2.447 ETKDGv3 69
SPU H74A -9.554 -0.959 0.779 ETKDGv3 70
SPU H74B -10.488 -0.287 2.164 ETKDGv3 71
SPU H78 -9.437 2.776 0.478 ETKDGv3 72
SPU H78A -10.043 1.269 -0.300 ETKDGv3 73
SPU H78B -10.806 1.872 1.211 ETKDGv3 74
SPU H44 5.616 0.782 2.872 ETKDGv3 75
SPU H451 7.081 -0.143 3.383 ETKDGv3 76
SPU H46 7.075 2.708 2.181 ETKDGv3 77
SPU H47 8.538 1.784 2.692 ETKDGv3 78
SPU H48 7.835 3.399 4.441 ETKDGv3 79
SPU H491 7.672 1.705 5.041 ETKDGv3 80
SPU H50 6.203 2.634 4.527 ETKDGv3 81
#