data_LPE
#
_chem_comp.id LPE
_chem_comp.name 1-O-OCTADECYL-SN-GLYCERO-3-PHOSPHOCHOLINE
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C26 H57 N O6 P"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms LPC-ETHER
_chem_comp.pdbx_formal_charge 1
_chem_comp.pdbx_initial_date 2002-03-29
_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 510.708
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code LPE
_chem_comp.pdbx_model_coordinates_details ?
_chem_comp.pdbx_model_coordinates_missing_flag Y
_chem_comp.pdbx_ideal_coordinates_details ?
_chem_comp.pdbx_ideal_coordinates_missing_flag N
_chem_comp.pdbx_model_coordinates_db_code ?
_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
LPE C1 C1 C 0 1 N N N N N N 53.174 22.947 -11.809 -13.660 1.938 7.981 C1 LPE 1
LPE O1 O1 O 0 1 N N N N N N 52.028 23.760 -11.808 -13.855 0.698 7.313 O1 LPE 2
LPE C2 C2 C 0 1 N N R N N N 53.916 23.119 -13.108 -13.762 3.068 6.966 C2 LPE 3
LPE O2H O2H O 0 1 N N N N N N 54.211 24.513 -13.270 -15.060 3.009 6.369 O2H LPE 4
LPE C3 C3 C 0 1 N N N N N N 55.192 22.339 -13.079 -13.591 4.430 7.629 C3 LPE 5
LPE C11 C11 C 0 1 N N N N N N 50.918 23.096 -11.257 -13.750 -0.400 8.207 C11 LPE 6
LPE C12 C12 C 0 1 N N N N N N 49.628 23.667 -11.808 -13.964 -1.708 7.455 C12 LPE 7
LPE O3 O3 O 0 1 N N N N N N 55.724 22.137 -14.367 -13.688 5.460 6.651 O3 LPE 8
LPE P P P 0 1 N N R N N N 57.314 21.900 -14.526 -13.534 6.994 7.137 P LPE 9
LPE O31 O31 O 0 1 N N N N N N 57.960 22.444 -13.260 -12.225 7.329 7.792 O31 LPE 10
LPE O32 O32 O 0 1 N N N N N N 57.595 20.471 -14.919 -13.838 7.843 5.793 O32 LPE 11
LPE O33 O33 O 0 1 N N N N N N 57.691 22.912 -15.709 -14.842 7.219 8.064 O33 LPE 12
LPE C31 C31 C 0 1 N N N N N N 57.743 24.314 -15.415 -16.133 6.936 7.551 C31 LPE 13
LPE C32 C32 C 0 1 N N N N N N 57.622 25.121 -16.711 -17.176 7.229 8.612 C32 LPE 14
LPE N N N 1 1 N N N N N N 56.230 25.590 -16.872 -18.522 6.894 8.081 N LPE 15
LPE C1N C1N C 0 1 N N N N N N 56.139 27.065 -17.000 -18.849 7.748 6.849 C1N LPE 16
LPE C2N C2N C 0 1 N N N N N N 55.637 24.988 -18.093 -18.593 5.417 7.672 C2N LPE 17
LPE C3N C3N C 0 1 N N N N N N 55.429 25.151 -15.703 -19.603 7.150 9.140 C3N LPE 18
LPE C13 C13 C 0 1 N N N N N N 49.872 24.470 -13.070 -13.875 -2.927 8.379 C13 LPE 19
LPE C14 C14 C 0 1 N N N N N N 49.926 25.964 -12.759 -14.110 -4.257 7.656 C14 LPE 20
LPE C15 C15 C 0 1 N N N N N N 49.064 26.718 -13.798 -14.052 -5.473 8.583 C15 LPE 21
LPE C16 C16 C 0 1 N N N N N N 49.982 27.600 -14.683 -14.220 -6.776 7.798 C16 LPE 22
LPE C17 C17 C 0 1 N N N N N N ? ? ? -14.124 -7.994 8.718 C17 LPE 23
LPE C18 C18 C 0 1 N N N N N N ? ? ? -14.265 -9.330 7.981 C18 LPE 24
LPE C19 C19 C 0 1 N N N N N N ? ? ? -14.092 -10.587 8.839 C19 LPE 25
LPE C20 C20 C 0 1 N N N N N N ? ? ? -14.299 -11.889 8.062 C20 LPE 26
LPE C21 C21 C 0 1 N N N N N N ? ? ? -14.105 -13.110 8.965 C21 LPE 27
LPE C22 C22 C 0 1 N N N N N N ? ? ? -14.348 -14.411 8.198 C22 LPE 28
LPE C23 C23 C 0 1 N N N N N N ? ? ? -14.185 -15.667 9.059 C23 LPE 29
LPE C24 C24 C 0 1 N N N N N N ? ? ? -14.500 -16.996 8.365 C24 LPE 30
LPE C25 C25 C 0 1 N N N N N N ? ? ? -14.267 -18.217 9.258 C25 LPE 31
LPE C26 C26 C 0 1 N N N N N N ? ? ? -14.589 -19.545 8.565 C26 LPE 32
LPE C27 C27 C 0 1 N N N N N N ? ? ? -14.292 -20.806 9.380 C27 LPE 33
LPE C28 C28 C 0 1 N N N N N N ? ? ? -14.676 -22.095 8.670 C28 LPE 34
LPE H11 1H1 H 0 1 N N N N N N 53.828 23.236 -10.973 -14.430 2.027 8.754 H11 LPE 35
LPE H12 2H1 H 0 1 N N N N N N 52.875 21.895 -11.696 -12.671 1.918 8.451 H12 LPE 36
LPE H21 1H2 H 0 1 N N N N N N 53.301 22.754 -13.944 -13.036 2.928 6.157 H21 LPE 37
LPE HO21 1HO2 H 0 0 N N N N N N 54.276 24.925 -12.416 -15.470 2.193 6.691 HO21 LPE 38
LPE H31 1H3 H 0 1 N N N N N N 55.928 22.895 -12.480 -12.617 4.520 8.120 H31 LPE 39
LPE H32 2H3 H 0 1 N N N N N N 54.975 21.352 -12.644 -14.377 4.610 8.369 H32 LPE 40
LPE H111 1H11 H 0 0 N N N N N N 50.976 22.027 -11.511 -12.764 -0.377 8.681 H111 LPE 41
LPE H112 2H11 H 0 0 N N N N N N 50.929 23.231 -10.165 -14.515 -0.285 8.982 H112 LPE 42
LPE H121 1H12 H 0 0 N N N N N N 48.944 22.838 -12.042 -13.205 -1.802 6.669 H121 LPE 43
LPE H122 2H12 H 0 0 N N N N N N 49.193 24.335 -11.050 -14.946 -1.673 6.971 H122 LPE 44
LPE HO31 1HO3 H 0 0 N N N N N N 57.654 20.408 -15.865 -13.124 7.947 5.127 HO31 LPE 45
LPE H311 1H31 H 0 0 N N N N N N 56.913 24.577 -14.743 -16.164 5.875 7.283 H311 LPE 46
LPE H312 2H31 H 0 0 N N N N N N 58.702 24.548 -14.930 -16.296 7.532 6.648 H312 LPE 47
LPE H321 1H32 H 0 0 N N N N N N 58.298 25.988 -16.668 -17.205 8.289 8.879 H321 LPE 48
LPE H322 2H32 H 0 0 N N N N N N 57.895 24.485 -17.566 -17.029 6.616 9.504 H322 LPE 49
LPE H1N1 1H1N H 0 0 N N N N N N 56.116 27.520 -15.999 -19.896 7.575 6.591 H1N1 LPE 50
LPE H1N2 2H1N H 0 0 N N N N N N 57.013 27.439 -17.553 -18.677 8.794 7.111 H1N2 LPE 51
LPE H1N3 3H1N H 0 0 N N N N N N 55.220 27.330 -17.543 -18.188 7.433 6.039 H1N3 LPE 52
LPE H2N1 1H2N H 0 0 N N N N N N 55.490 25.769 -18.853 -19.327 4.927 8.315 H2N1 LPE 53
LPE H2N2 2H2N H 0 0 N N N N N N 56.314 24.216 -18.487 -18.899 5.375 6.625 H2N2 LPE 54
LPE H2N3 3H2N H 0 0 N N N N N N 54.667 24.533 -17.843 -17.600 4.984 7.809 H2N3 LPE 55
LPE H3N1 1H3N H 0 0 N N N N N N 56.086 25.042 -14.828 -19.351 6.561 10.024 H3N1 LPE 56
LPE H3N2 2H3N H 0 0 N N N N N N 54.653 25.901 -15.488 -19.604 8.218 9.366 H3N2 LPE 57
LPE H3N3 3H3N H 0 0 N N N N N N 54.954 24.184 -15.927 -20.561 6.837 8.720 H3N3 LPE 58
LPE H131 1H13 H 0 0 N N N N N N 50.830 24.161 -13.513 -12.878 -2.964 8.837 H131 LPE 59
LPE H132 2H13 H 0 0 N N N N N N 49.046 24.285 -13.772 -14.594 -2.822 9.200 H132 LPE 60
LPE H141 1H14 H 0 0 N N N N N N 49.534 26.147 -11.748 -15.078 -4.229 7.141 H141 LPE 61
LPE H142 2H14 H 0 0 N N N N N N 50.966 26.319 -12.807 -13.343 -4.363 6.880 H142 LPE 62
LPE H151 1H15 H 0 0 N N N N N N 48.531 25.992 -14.430 -14.842 -5.408 9.340 H151 LPE 63
LPE H152 2H15 H 0 0 N N N N N N 48.333 27.354 -13.278 -13.092 -5.485 9.114 H152 LPE 64
LPE H161 1H16 H 0 0 N N N N N N 50.628 28.456 -14.928 -15.192 -6.764 7.291 H161 LPE 65
LPE H162 2H16 H 0 0 N N N N N N 50.857 27.866 -15.295 -13.448 -6.841 7.021 H162 LPE 66
LPE H171 1H17 H 0 0 N N N N N N ? ? ? -14.876 -7.922 9.512 H171 LPE 67
LPE H172 2H17 H 0 0 N N N N N N ? ? ? -13.148 -7.987 9.221 H172 LPE 68
LPE H181 1H18 H 0 0 N N N N N N ? ? ? -13.531 -9.354 7.166 H181 LPE 69
LPE H182 2H18 H 0 0 N N N N N N ? ? ? -15.253 -9.369 7.507 H182 LPE 70
LPE H191 1H19 H 0 0 N N N N N N ? ? ? -14.819 -10.541 9.659 H191 LPE 71
LPE H192 2H19 H 0 0 N N N N N N ? ? ? -13.101 -10.588 9.309 H192 LPE 72
LPE H201 1H20 H 0 0 N N N N N N ? ? ? -13.590 -11.947 7.229 H201 LPE 73
LPE H202 2H20 H 0 0 N N N N N N ? ? ? -15.308 -11.904 7.633 H202 LPE 74
LPE H211 1H21 H 0 0 N N N N N N ? ? ? -13.086 -13.094 9.368 H211 LPE 75
LPE H212 2H21 H 0 0 N N N N N N ? ? ? -14.794 -13.052 9.817 H212 LPE 76
LPE H221 1H22 H 0 0 N N N N N N ? ? ? -13.680 -14.462 7.330 H221 LPE 77
LPE H222 2H22 H 0 0 N N N N N N ? ? ? -15.369 -14.404 7.797 H222 LPE 78
LPE H231 1H23 H 0 0 N N N N N N ? ? ? -14.831 -15.567 9.941 H231 LPE 79
LPE H232 2H23 H 0 0 N N N N N N ? ? ? -13.156 -15.708 9.436 H232 LPE 80
LPE H241 1H24 H 0 0 N N N N N N ? ? ? -13.859 -17.074 7.477 H241 LPE 81
LPE H242 2H24 H 0 0 N N N N N N ? ? ? -15.532 -16.983 7.999 H242 LPE 82
LPE H251 1H25 H 0 0 N N N N N N ? ? ? -14.855 -18.133 10.178 H251 LPE 83
LPE H252 2H25 H 0 0 N N N N N N ? ? ? -13.213 -18.240 9.564 H252 LPE 84
LPE H261 1H26 H 0 0 N N N N N N ? ? ? -14.024 -19.590 7.626 H261 LPE 85
LPE H262 2H26 H 0 0 N N N N N N ? ? ? -15.650 -19.553 8.286 H262 LPE 86
LPE H271 1H27 H 0 0 N N N N N N ? ? ? -14.854 -20.747 10.321 H271 LPE 87
LPE H272 2H27 H 0 0 N N N N N N ? ? ? -13.233 -20.842 9.656 H272 LPE 88
LPE H281 1H28 H 0 0 N N N N N N ? ? ? -14.541 -22.948 9.341 H281 LPE 89
LPE H282 2H28 H 0 0 N N N N N N ? ? ? -14.054 -22.267 7.787 H282 LPE 90
LPE H283 3H28 H 0 0 N N N N N N ? ? ? -15.725 -22.073 8.356 H283 LPE 91
#
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
LPE C1 O1 SING N N 1
LPE C1 C2 SING N N 2
LPE C1 H11 SING N N 3
LPE C1 H12 SING N N 4
LPE O1 C11 SING N N 5
LPE C2 O2H SING N N 6
LPE C2 C3 SING N N 7
LPE C2 H21 SING N N 8
LPE O2H HO21 SING N N 9
LPE C3 O3 SING N N 10
LPE C3 H31 SING N N 11
LPE C3 H32 SING N N 12
LPE C11 C12 SING N N 13
LPE C11 H111 SING N N 14
LPE C11 H112 SING N N 15
LPE C12 C13 SING N N 16
LPE C12 H121 SING N N 17
LPE C12 H122 SING N N 18
LPE O3 P SING N N 19
LPE P O31 DOUB N N 20
LPE P O32 SING N N 21
LPE P O33 SING N N 22
LPE O32 HO31 SING N N 23
LPE O33 C31 SING N N 24
LPE C31 C32 SING N N 25
LPE C31 H311 SING N N 26
LPE C31 H312 SING N N 27
LPE C32 N SING N N 28
LPE C32 H321 SING N N 29
LPE C32 H322 SING N N 30
LPE N C1N SING N N 31
LPE N C2N SING N N 32
LPE N C3N SING N N 33
LPE C1N H1N1 SING N N 34
LPE C1N H1N2 SING N N 35
LPE C1N H1N3 SING N N 36
LPE C2N H2N1 SING N N 37
LPE C2N H2N2 SING N N 38
LPE C2N H2N3 SING N N 39
LPE C3N H3N1 SING N N 40
LPE C3N H3N2 SING N N 41
LPE C3N H3N3 SING N N 42
LPE C13 C14 SING N N 43
LPE C13 H131 SING N N 44
LPE C13 H132 SING N N 45
LPE C14 C15 SING N N 46
LPE C14 H141 SING N N 47
LPE C14 H142 SING N N 48
LPE C15 C16 SING N N 49
LPE C15 H151 SING N N 50
LPE C15 H152 SING N N 51
LPE C16 C17 SING N N 52
LPE C16 H161 SING N N 53
LPE C16 H162 SING N N 54
LPE C17 C18 SING N N 55
LPE C17 H171 SING N N 56
LPE C17 H172 SING N N 57
LPE C18 C19 SING N N 58
LPE C18 H181 SING N N 59
LPE C18 H182 SING N N 60
LPE C19 C20 SING N N 61
LPE C19 H191 SING N N 62
LPE C19 H192 SING N N 63
LPE C20 C21 SING N N 64
LPE C20 H201 SING N N 65
LPE C20 H202 SING N N 66
LPE C21 C22 SING N N 67
LPE C21 H211 SING N N 68
LPE C21 H212 SING N N 69
LPE C22 C23 SING N N 70
LPE C22 H221 SING N N 71
LPE C22 H222 SING N N 72
LPE C23 C24 SING N N 73
LPE C23 H231 SING N N 74
LPE C23 H232 SING N N 75
LPE C24 C25 SING N N 76
LPE C24 H241 SING N N 77
LPE C24 H242 SING N N 78
LPE C25 C26 SING N N 79
LPE C25 H251 SING N N 80
LPE C25 H252 SING N N 81
LPE C26 C27 SING N N 82
LPE C26 H261 SING N N 83
LPE C26 H262 SING N N 84
LPE C27 C28 SING N N 85
LPE C27 H271 SING N N 86
LPE C27 H272 SING N N 87
LPE C28 H281 SING N N 88
LPE C28 H282 SING N N 89
LPE C28 H283 SING N N 90
#
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
LPE SMILES ACDLabs 10.04 O=P(OCC(O)COCCCCCCCCCCCCCCCCCC)(OCC[N+](C)(C)C)O
LPE SMILES_CANONICAL CACTVS 3.341 CCCCCCCCCCCCCCCCCCOC[C@@H](O)CO[P@](O)(=O)OCC[N+](C)(C)C
LPE SMILES CACTVS 3.341 CCCCCCCCCCCCCCCCCCOC[CH](O)CO[P](O)(=O)OCC[N+](C)(C)C
LPE SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 CCCCCCCCCCCCCCCCCCOC[C@H](CO[P@@](=O)(O)OCC[N+](C)(C)C)O
LPE SMILES "OpenEye OEToolkits" 1.5.0 CCCCCCCCCCCCCCCCCCOCC(COP(=O)(O)OCC[N+](C)(C)C)O
LPE InChI InChI 1.03 InChI=1S/C26H56NO6P/c1-5-6-7-8-9-10-11-12-13-14-15-16-17-18-19-20-22-31-24-26(28)25-33-34(29,30)32-23-21-27(2,3)4/h26,28H,5-25H2,1-4H3/p+1/t26-/m1/s1
LPE InChIKey InChI 1.03 XKBJVQHMEXMFDZ-AREMUKBSSA-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
LPE "SYSTEMATIC NAME" ACDLabs 10.04 "(4S,7R)-4,7-dihydroxy-N,N,N-trimethyl-3,5,9-trioxa-4-phosphaheptacosan-1-aminium 4-oxide"
LPE "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 2-[hydroxy-[(2R)-2-hydroxy-3-octadecoxy-propoxy]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
LPE 'Create component' 2002-03-29 RCSB
LPE 'Modify descriptor' 2011-06-04 RCSB
LPE 'Modify synonyms' 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id LPE
_pdbx_chem_comp_synonyms.name LPC-ETHER
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_details.comp_id LPE
_pdbe_chem_comp_drugbank_details.drugbank_id DB03633
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Lpc-Ether
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number ?
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
_pdbe_chem_comp_synonyms.comp_id LPE
_pdbe_chem_comp_synonyms.name LPC-ETHER
_pdbe_chem_comp_synonyms.provenance wwPDB
_pdbe_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_classification.comp_id LPE
_pdbe_chem_comp_drugbank_classification.drugbank_id DB03633
_pdbe_chem_comp_drugbank_classification.parent Monoalkylglycerophosphocholines
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class Glycerophospholipids
_pdbe_chem_comp_drugbank_classification.superclass 'Lipids and lipid-like molecules'
_pdbe_chem_comp_drugbank_classification.description
'This compound belongs to the class of organic compounds known as monoalkylglycerophosphocholines. These are compounds containing glycerophosphocholine moiety attached to an fatty acyl chain through an ether bond.'
#
loop_
_pdbe_chem_comp_drugbank_targets.comp_id
_pdbe_chem_comp_drugbank_targets.drugbank_id
_pdbe_chem_comp_drugbank_targets.name
_pdbe_chem_comp_drugbank_targets.organism
_pdbe_chem_comp_drugbank_targets.uniprot_id
_pdbe_chem_comp_drugbank_targets.pharmacologically_active
_pdbe_chem_comp_drugbank_targets.ordinal
LPE DB03633 'Ganglioside GM2 activator' Humans P17900 unknown 1
LPE DB03633 'Phospholipase A2' Humans P04054 unknown 2
#
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
LPE C1 C 14.691 -0.708 1
LPE O1 O 15.990 0.042 2
LPE C2 C 13.392 0.042 3
LPE O2H O 13.392 1.542 4
LPE C3 C 12.093 -0.708 5
LPE C11 C 17.290 -0.708 6
LPE C12 C 18.588 0.042 7
LPE O3 O 10.794 0.042 8
LPE P P 9.495 -0.708 9
LPE O31 O 8.745 0.591 10
LPE O32 O 10.245 -2.007 11
LPE O33 O 8.196 -1.458 12
LPE C31 C 6.897 -0.708 13
LPE C32 C 5.598 -1.458 14
LPE N N 4.299 -0.708 15
LPE C1N C 3.000 0.042 16
LPE C2N C 3.549 -2.007 17
LPE C3N C 5.049 0.591 18
LPE C13 C 19.887 -0.708 19
LPE C14 C 21.187 0.042 20
LPE C15 C 22.486 -0.708 21
LPE C16 C 23.785 0.042 22
LPE C17 C 25.084 -0.708 23
LPE C18 C 26.383 0.042 24
LPE C19 C 27.682 -0.708 25
LPE C20 C 28.981 0.042 26
LPE C21 C 30.280 -0.708 27
LPE C22 C 31.579 0.042 28
LPE C23 C 32.878 -0.708 29
LPE C24 C 34.177 0.042 30
LPE C25 C 35.476 -0.708 31
LPE C26 C 36.775 0.042 32
LPE C27 C 38.074 -0.708 33
LPE C28 C 39.373 0.042 34
#
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
LPE C1 O1 SINGLE NONE 1
LPE C1 C2 SINGLE NONE 2
LPE O1 C11 SINGLE NONE 3
LPE C2 O2H SINGLE BEGINDASH 4
LPE C2 C3 SINGLE NONE 5
LPE C3 O3 SINGLE NONE 6
LPE C11 C12 SINGLE NONE 7
LPE C12 C13 SINGLE NONE 8
LPE O3 P SINGLE NONE 9
LPE P O31 DOUBLE NONE 10
LPE P O32 SINGLE BEGINDASH 11
LPE P O33 SINGLE NONE 12
LPE O33 C31 SINGLE NONE 13
LPE C31 C32 SINGLE NONE 14
LPE C32 N SINGLE NONE 15
LPE N C1N SINGLE NONE 16
LPE N C2N SINGLE NONE 17
LPE N C3N SINGLE NONE 18
LPE C13 C14 SINGLE NONE 19
LPE C14 C15 SINGLE NONE 20
LPE C15 C16 SINGLE NONE 21
LPE C16 C17 SINGLE NONE 22
LPE C17 C18 SINGLE NONE 23
LPE C18 C19 SINGLE NONE 24
LPE C19 C20 SINGLE NONE 25
LPE C20 C21 SINGLE NONE 26
LPE C21 C22 SINGLE NONE 27
LPE C22 C23 SINGLE NONE 28
LPE C23 C24 SINGLE NONE 29
LPE C24 C25 SINGLE NONE 30
LPE C25 C26 SINGLE NONE 31
LPE C26 C27 SINGLE NONE 32
LPE C27 C28 SINGLE NONE 33
#
_pdbe_chem_comp_substructure.comp_id LPE
_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
LPE O3 F1 1
LPE P F1 1
LPE O31 F1 1
LPE O32 F1 1
LPE O33 F1 1
#
_pdbe_chem_comp_rdkit_properties.comp_id LPE
_pdbe_chem_comp_rdkit_properties.exactmw 510.392
_pdbe_chem_comp_rdkit_properties.amw 510.717
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 7
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 32
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 6
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 34
_pdbe_chem_comp_rdkit_properties.NumAtoms 91
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 8
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 1
_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 2
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 290.568
_pdbe_chem_comp_rdkit_properties.tpsa 85.220
_pdbe_chem_comp_rdkit_properties.CrippenClogP 6.465
_pdbe_chem_comp_rdkit_properties.CrippenMR 141.000
_pdbe_chem_comp_rdkit_properties.chi0v 17.238
_pdbe_chem_comp_rdkit_properties.chi1v 9.106
_pdbe_chem_comp_rdkit_properties.chi2v 2.434
_pdbe_chem_comp_rdkit_properties.chi3v 2.434
_pdbe_chem_comp_rdkit_properties.chi4v 1.227
_pdbe_chem_comp_rdkit_properties.chi0n 73.344
_pdbe_chem_comp_rdkit_properties.chi1n 35.962
_pdbe_chem_comp_rdkit_properties.chi2n 1.804
_pdbe_chem_comp_rdkit_properties.chi3n 1.804
_pdbe_chem_comp_rdkit_properties.chi4n 0.842
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -0.010
_pdbe_chem_comp_rdkit_properties.kappa1 4.568
_pdbe_chem_comp_rdkit_properties.kappa2 22.208
_pdbe_chem_comp_rdkit_properties.kappa3 26.592
_pdbe_chem_comp_rdkit_properties.Phi 2.984
#
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
LPE UniChem DrugBank DB03633
LPE UniChem PDBe LPE
LPE UniChem ZINC ZINC000008860508
LPE UniChem SureChEMBL SCHEMBL11889677
LPE UniChem BRENDA 120901
LPE UniChem BRENDA 130085
LPE UniChem BRENDA 96957
LPE UniChem BRENDA 97530
LPE UniChem 'Probes And Drugs' PD006751
LPE UniChem Nikkaji J481.548C
LPE UniChem PubChem 446876
LPE UniChem Nikkaji J2.152.979F
#
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
LPE C1 -3.784 -2.021 -2.075 ETKDGv3 1
LPE O1 -2.373 -1.977 -2.094 ETKDGv3 2
LPE C2 -4.335 -0.602 -2.277 ETKDGv3 3
LPE O2H -3.862 -0.052 -3.482 ETKDGv3 4
LPE C3 -5.869 -0.585 -2.237 ETKDGv3 5
LPE C11 -1.857 -3.279 -1.908 ETKDGv3 6
LPE C12 -0.329 -3.235 -1.958 ETKDGv3 7
LPE O3 -6.321 0.738 -2.394 ETKDGv3 8
LPE P -8.025 0.767 -2.269 ETKDGv3 9
LPE O31 -8.582 1.456 -3.494 ETKDGv3 10
LPE O32 -8.689 -0.792 -2.179 ETKDGv3 11
LPE O33 -8.484 1.660 -0.891 ETKDGv3 12
LPE C31 -7.884 1.075 0.240 ETKDGv3 13
LPE C32 -8.370 1.784 1.522 ETKDGv3 14
LPE N -9.734 1.400 2.004 ETKDGv3 15
LPE C1N -9.763 -0.010 2.467 ETKDGv3 16
LPE C2N -10.070 2.270 3.158 ETKDGv3 17
LPE C3N -10.763 1.599 0.956 ETKDGv3 18
LPE C13 0.182 -2.827 -3.350 ETKDGv3 19
LPE C14 1.724 -2.799 -3.427 ETKDGv3 20
LPE C15 2.319 -1.379 -3.388 ETKDGv3 21
LPE C16 2.140 -0.639 -2.049 ETKDGv3 22
LPE C17 2.825 -1.306 -0.839 ETKDGv3 23
LPE C18 4.347 -1.511 -0.980 ETKDGv3 24
LPE C19 5.155 -0.227 -1.255 ETKDGv3 25
LPE C20 4.994 0.881 -0.196 ETKDGv3 26
LPE C21 5.372 0.469 1.240 ETKDGv3 27
LPE C22 6.815 -0.047 1.411 ETKDGv3 28
LPE C23 7.915 0.940 0.974 ETKDGv3 29
LPE C24 7.890 2.302 1.696 ETKDGv3 30
LPE C25 7.991 2.228 3.233 ETKDGv3 31
LPE C26 9.236 1.500 3.769 ETKDGv3 32
LPE C27 10.548 2.187 3.366 ETKDGv3 33
LPE C28 11.745 1.532 4.049 ETKDGv3 34
LPE H11 -4.169 -2.677 -2.890 ETKDGv3 35
LPE H12 -4.147 -2.406 -1.094 ETKDGv3 36
LPE H21 -3.963 0.032 -1.442 ETKDGv3 37
LPE HO21 -4.193 -0.624 -4.224 ETKDGv3 38
LPE H31 -6.258 -1.227 -3.061 ETKDGv3 39
LPE H32 -6.197 -0.997 -1.255 ETKDGv3 40
LPE H111 -2.224 -3.975 -2.697 ETKDGv3 41
LPE H112 -2.155 -3.675 -0.910 ETKDGv3 42
LPE H121 0.031 -2.523 -1.187 ETKDGv3 43
LPE H122 0.063 -4.244 -1.704 ETKDGv3 44
LPE HO31 -9.649 -0.647 -1.981 ETKDGv3 45
LPE H311 -8.079 -0.016 0.301 ETKDGv3 46
LPE H312 -6.781 1.219 0.184 ETKDGv3 47
LPE H321 -7.621 1.581 2.322 ETKDGv3 48
LPE H322 -8.322 2.882 1.335 ETKDGv3 49
LPE H1N1 -10.727 -0.244 2.973 ETKDGv3 50
LPE H1N2 -9.674 -0.725 1.623 ETKDGv3 51
LPE H1N3 -8.941 -0.213 3.189 ETKDGv3 52
LPE H2N1 -9.326 2.153 3.978 ETKDGv3 53
LPE H2N2 -11.073 2.024 3.575 ETKDGv3 54
LPE H2N3 -10.087 3.343 2.860 ETKDGv3 55
LPE H3N1 -11.787 1.453 1.368 ETKDGv3 56
LPE H3N2 -10.706 2.627 0.533 ETKDGv3 57
LPE H3N3 -10.646 0.868 0.128 ETKDGv3 58
LPE H131 -0.243 -1.842 -3.641 ETKDGv3 59
LPE H132 -0.193 -3.572 -4.086 ETKDGv3 60
LPE H141 2.186 -3.442 -2.648 ETKDGv3 61
LPE H142 2.023 -3.246 -4.400 ETKDGv3 62
LPE H151 3.398 -1.433 -3.642 ETKDGv3 63
LPE H152 1.848 -0.771 -4.191 ETKDGv3 64
LPE H161 2.528 0.395 -2.164 ETKDGv3 65
LPE H162 1.057 -0.527 -1.834 ETKDGv3 66
LPE H171 2.620 -0.693 0.064 ETKDGv3 67
LPE H172 2.358 -2.293 -0.644 ETKDGv3 68
LPE H181 4.545 -2.238 -1.796 ETKDGv3 69
LPE H182 4.726 -1.991 -0.054 ETKDGv3 70
LPE H191 4.865 0.184 -2.245 ETKDGv3 71
LPE H192 6.228 -0.497 -1.345 ETKDGv3 72
LPE H201 3.943 1.240 -0.195 ETKDGv3 73
LPE H202 5.608 1.754 -0.501 ETKDGv3 74
LPE H211 4.671 -0.316 1.594 ETKDGv3 75
LPE H212 5.211 1.338 1.912 ETKDGv3 76
LPE H221 6.969 -0.320 2.476 ETKDGv3 77
LPE H222 6.938 -0.990 0.839 ETKDGv3 78
LPE H231 8.904 0.461 1.128 ETKDGv3 79
LPE H232 7.836 1.118 -0.119 ETKDGv3 80
LPE H241 8.721 2.926 1.304 ETKDGv3 81
LPE H242 6.958 2.842 1.429 ETKDGv3 82
LPE H251 7.984 3.266 3.634 ETKDGv3 83
LPE H252 7.084 1.732 3.639 ETKDGv3 84
LPE H261 9.165 1.486 4.879 ETKDGv3 85
LPE H262 9.240 0.442 3.431 ETKDGv3 86
LPE H271 10.693 2.116 2.267 ETKDGv3 87
LPE H272 10.515 3.261 3.651 ETKDGv3 88
LPE H281 11.809 0.459 3.768 ETKDGv3 89
LPE H282 11.654 1.617 5.153 ETKDGv3 90
LPE H283 12.679 2.040 3.731 ETKDGv3 91
#