data_XAT
#
_chem_comp.id XAT
_chem_comp.name "(3S,5R,6S,3'S,5'R,6'S)-5,6,5',6'-DIEPOXY-5,6,5',6'- TETRAHYDRO-BETA,BETA-CAROTENE-3,3'-DIOL"
_chem_comp.type NON-POLYMER
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C40 H56 O4"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms VIOLAXANTHIN
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2003-12-22
_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 600.870
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code XAT
_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 1RWT
_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
XAT C1 C1 C 0 1 N N N N N N 64.399 24.059 64.736 -12.124 -1.287 0.306 C1 XAT 1
XAT C2 C2 C 0 1 N N N N N N 63.245 24.887 64.132 -13.571 -1.285 -0.189 C2 XAT 2
XAT C3 C3 C 0 1 N N S N N N 63.510 26.367 63.862 -14.322 -0.141 0.501 C3 XAT 3
XAT C4 C4 C 0 1 N N N N N N 64.695 26.554 62.899 -13.878 1.182 -0.123 C4 XAT 4
XAT C5 C5 C 0 1 N N R N N N 65.928 25.779 63.308 -12.365 1.324 -0.052 C5 XAT 5
XAT C6 C6 C 0 1 N N S N N N 65.818 24.548 64.212 -11.493 0.087 0.093 C6 XAT 6
XAT C7 C7 C 0 1 N N N N N N 66.899 23.521 64.223 -10.162 0.087 -0.613 C7 XAT 7
XAT C8 C8 C 0 1 N N N N N N 67.968 23.591 65.020 -9.029 0.087 0.096 C8 XAT 8
XAT C9 C9 C 0 1 N N N N N N 69.034 22.614 65.185 -7.776 0.087 -0.568 C9 XAT 9
XAT C10 C10 C 0 1 N N N N N N 70.000 22.889 66.087 -6.625 0.086 0.153 C10 XAT 10
XAT C11 C11 C 0 1 N N N N N N 71.079 22.029 66.460 -5.383 0.087 -0.506 C11 XAT 11
XAT C12 C12 C 0 1 N N N N N N 72.018 22.353 67.362 -4.226 0.086 0.218 C12 XAT 12
XAT C13 C13 C 0 1 N N N N N N 73.081 21.465 67.858 -2.987 0.087 -0.439 C13 XAT 13
XAT C14 C14 C 0 1 N N N N N N 73.967 21.969 68.745 -1.821 0.086 0.291 C14 XAT 14
XAT C15 C15 C 0 1 N N N N N N 75.055 21.265 69.356 -0.584 0.087 -0.365 C15 XAT 15
XAT C16 C16 C 0 1 N N N N N N 64.150 22.588 64.379 -11.325 -2.338 -0.467 C16 XAT 16
XAT C17 C17 C 0 1 N N N N N N 64.328 24.214 66.257 -12.100 -1.631 1.797 C17 XAT 17
XAT C18 C18 C 0 1 N N N N N N 67.122 26.013 62.420 -11.786 2.467 -0.888 C18 XAT 18
XAT C19 C19 C 0 1 N N N N N N 68.958 21.352 64.376 -7.722 0.089 -2.075 C19 XAT 19
XAT C20 C20 C 0 1 N N N N N N 73.113 20.045 67.340 -2.933 0.089 -1.945 C20 XAT 20
XAT O3 O3 O 0 1 N N N N N N 62.348 26.989 63.330 -15.729 -0.310 0.315 O3 XAT 21
XAT O4 O4 O 0 1 N N N N N N 66.221 25.841 64.722 -11.678 1.033 1.158 O4 XAT 22
XAT C21 C21 C 0 1 N N N N N N 82.932 16.495 78.119 12.124 -1.287 -0.309 C21 XAT 23
XAT C22 C22 C 0 1 N N N N N N 83.802 15.460 78.860 13.571 -1.286 0.186 C22 XAT 24
XAT C23 C23 C 0 1 N N S N N N 85.317 15.438 78.674 14.322 -0.140 -0.501 C23 XAT 25
XAT C24 C24 C 0 1 N N N N N N 86.036 16.595 77.957 13.878 1.181 0.126 C24 XAT 26
XAT C25 C25 C 0 1 N N R N N N 85.208 17.260 76.888 12.365 1.323 0.055 C25 XAT 27
XAT C26 C26 C 0 1 N N S N N N 83.680 17.230 76.931 11.493 0.086 -0.093 C26 XAT 28
XAT C27 C27 C 0 1 N N N N N N 82.942 18.361 76.269 10.162 0.085 0.613 C27 XAT 29
XAT C28 C28 C 0 1 N N N N N N 82.061 18.304 75.221 9.029 0.086 -0.096 C28 XAT 30
XAT C29 C29 C 0 1 N N N N N N 81.418 19.516 74.645 7.776 0.086 0.569 C29 XAT 31
XAT C30 C30 C 0 1 N N N N N N 80.512 19.383 73.652 6.625 0.086 -0.153 C30 XAT 32
XAT C31 C31 C 0 1 N N N N N N 79.754 20.475 73.087 5.383 0.086 0.507 C31 XAT 33
XAT C32 C32 C 0 1 N N N N N N 78.780 20.326 72.176 4.226 0.087 -0.218 C32 XAT 34
XAT C33 C33 C 0 1 N N N N N N 77.920 21.386 71.614 2.987 0.086 0.439 C33 XAT 35
XAT C34 C34 C 0 1 N N N N N N 76.937 21.006 70.770 1.821 0.087 -0.291 C34 XAT 36
XAT C35 C35 C 0 1 N N N N N N 75.931 21.830 70.174 0.584 0.086 0.366 C35 XAT 37
XAT C36 C36 C 0 1 N N N N N N 82.467 17.497 79.146 11.325 -2.340 0.461 C36 XAT 38
XAT C37 C37 C 0 1 N N N N N N 81.748 15.688 77.583 12.100 -1.627 -1.801 C37 XAT 39
XAT C38 C38 C 0 1 N N N N N N 85.958 18.363 76.175 11.786 2.464 0.894 C38 XAT 40
XAT C39 C39 C 0 1 N N N N N N 81.771 20.836 75.250 7.722 0.084 2.075 C39 XAT 41
XAT C40 C40 C 0 1 N N N N N N 78.149 22.803 72.068 2.933 0.084 1.945 C40 XAT 42
XAT O23 O23 O 0 1 N N N N N N 85.948 15.190 79.922 15.729 -0.310 -0.316 O23 XAT 43
XAT O24 O24 O 0 1 N N N N N N 84.435 16.372 76.040 11.678 1.035 -1.155 O24 XAT 44
XAT H21 1H2 H 0 1 N N N N N N 62.890 24.398 63.194 -13.587 -1.135 -1.269 H21 XAT 45
XAT H22 2H2 H 0 1 N N N N N N 62.340 24.784 64.775 -14.044 -2.235 0.058 H22 XAT 46
XAT H3 H3 H 0 1 N N N N N N 63.770 26.849 64.832 -14.089 -0.139 1.565 H3 XAT 47
XAT H41 1H4 H 0 1 N N N N N N 64.398 26.303 61.853 -14.193 1.211 -1.167 H41 XAT 48
XAT H42 2H4 H 0 1 N N N N N N 64.932 27.635 62.769 -14.342 2.008 0.415 H42 XAT 49
XAT H7 H7 H 0 1 N N N N N N 66.908 22.624 63.580 -10.123 0.089 -1.693 H7 XAT 50
XAT H8 H8 H 0 1 N N N N N N 67.970 24.535 65.590 -9.068 0.085 1.175 H8 XAT 51
XAT H10 H10 H 0 1 N N N N N N 69.900 23.884 66.551 -6.663 0.085 1.232 H10 XAT 52
XAT H11 H11 H 0 1 N N N N N N 71.197 21.027 66.012 -5.344 0.089 -1.586 H11 XAT 53
XAT H12 H12 H 0 1 N N N N N N 71.911 23.394 67.710 -4.265 0.085 1.297 H12 XAT 54
XAT H14 H14 H 0 1 N N N N N N 73.789 23.030 68.987 -1.860 0.085 1.370 H14 XAT 55
XAT H15 H15 H 0 1 N N N N N N 75.234 20.190 69.180 -0.545 0.088 -1.445 H15 XAT 56
XAT H161 1H16 H 0 0 N N N N N N 64.983 21.989 64.815 -11.345 -2.100 -1.530 H161 XAT 57
XAT H162 2H16 H 0 0 N N N N N N 63.144 22.228 64.698 -10.294 -2.342 -0.115 H162 XAT 58
XAT H163 3H16 H 0 0 N N N N N N 64.023 22.422 63.283 -11.767 -3.322 -0.306 H163 XAT 59
XAT H171 1H17 H 0 0 N N N N N N 65.161 23.615 66.693 -12.539 -2.617 1.950 H171 XAT 60
XAT H172 2H17 H 0 0 N N N N N N 64.337 25.279 66.586 -11.069 -1.633 2.152 H172 XAT 61
XAT H173 3H17 H 0 0 N N N N N N 63.331 23.941 66.676 -12.673 -0.888 2.351 H173 XAT 62
XAT H181 1H18 H 0 0 N N N N N N 68.030 25.441 62.721 -12.484 3.304 -0.892 H181 XAT 63
XAT H182 2H18 H 0 0 N N N N N N 66.864 25.805 61.355 -10.837 2.787 -0.458 H182 XAT 64
XAT H183 3H18 H 0 0 N N N N N N 67.349 27.102 62.349 -11.624 2.124 -1.910 H183 XAT 65
XAT H191 1H19 H 0 0 N N N N N N 69.774 20.603 64.502 -7.709 1.117 -2.436 H191 XAT 66
XAT H192 2H19 H 0 0 N N N N N N 67.975 20.857 64.559 -6.820 -0.424 -2.406 H192 XAT 67
XAT H193 3H19 H 0 0 N N N N N N 68.864 21.613 63.296 -8.599 -0.424 -2.470 H193 XAT 68
XAT H201 1H20 H 0 0 N N N N N N 73.918 19.372 67.715 -2.920 1.117 -2.307 H201 XAT 69
XAT H202 2H20 H 0 0 N N N N N N 72.122 19.566 67.520 -2.031 -0.425 -2.277 H202 XAT 70
XAT H203 3H20 H 0 0 N N N N N N 73.139 20.061 66.225 -3.810 -0.424 -2.341 H203 XAT 71
XAT HO3 HO3 H 0 1 N N N N N N 62.512 27.909 63.162 -16.266 0.381 0.727 HO3 XAT 72
XAT H221 1H22 H 0 0 N N N N N N 83.586 15.541 79.950 13.587 -1.138 1.266 H221 XAT 73
XAT H222 2H22 H 0 0 N N N N N N 83.408 14.443 78.626 14.044 -2.236 -0.063 H222 XAT 74
XAT H23 H23 H 0 1 N N N N N N 85.429 14.615 77.930 14.089 -0.136 -1.566 H23 XAT 75
XAT H241 1H24 H 0 0 N N N N N N 86.400 17.347 78.694 14.193 1.208 1.169 H241 XAT 76
XAT H242 2H24 H 0 0 N N N N N N 87.011 16.252 77.540 14.342 2.008 -0.410 H242 XAT 77
XAT H27 H27 H 0 1 N N N N N N 83.067 19.403 76.607 10.123 0.084 1.693 H27 XAT 78
XAT H28 H28 H 0 1 N N N N N N 81.870 17.285 74.842 9.068 0.088 -1.175 H28 XAT 79
XAT H30 H30 H 0 1 N N N N N N 80.387 18.348 73.290 6.663 0.088 -1.232 H30 XAT 80
XAT H31 H31 H 0 1 N N N N N N 79.936 21.522 73.379 5.344 0.084 1.586 H31 XAT 81
XAT H32 H32 H 0 1 N N N N N N 78.680 19.270 71.871 4.265 0.088 -1.297 H32 XAT 82
XAT H34 H34 H 0 1 N N N N N N 76.957 19.925 70.547 1.860 0.088 -1.370 H34 XAT 83
XAT H35 H35 H 0 1 N N N N N N 75.829 22.914 70.347 0.545 0.085 1.445 H35 XAT 84
XAT H361 1H36 H 0 0 N N N N N N 81.837 18.245 78.610 11.345 -2.105 1.525 H361 XAT 85
XAT H362 2H36 H 0 0 N N N N N N 81.945 17.026 80.012 10.293 -2.343 0.109 H362 XAT 86
XAT H363 3H36 H 0 0 N N N N N N 83.305 17.958 79.718 11.767 -3.323 0.298 H363 XAT 87
XAT H371 1H37 H 0 0 N N N N N N 81.118 16.436 77.047 12.539 -2.613 -1.956 H371 XAT 88
XAT H372 2H37 H 0 0 N N N N N N 82.040 14.810 76.960 11.069 -1.629 -2.156 H372 XAT 89
XAT H373 3H37 H 0 0 N N N N N N 81.201 15.109 78.363 12.673 -0.883 -2.353 H373 XAT 90
XAT H381 1H38 H 0 0 N N N N N N 85.345 18.855 75.384 12.484 3.301 0.900 H381 XAT 91
XAT H382 2H38 H 0 0 N N N N N N 86.353 19.112 76.899 10.837 2.786 0.464 H382 XAT 92
XAT H383 3H38 H 0 0 N N N N N N 86.922 17.988 75.759 11.624 2.118 1.915 H383 XAT 93
XAT H391 1H39 H 0 0 N N N N N N 81.289 21.744 74.818 7.709 1.111 2.439 H391 XAT 94
XAT H392 2H39 H 0 0 N N N N N N 81.578 20.802 76.347 6.820 -0.430 2.405 H392 XAT 95
XAT H393 3H39 H 0 0 N N N N N N 82.878 20.963 75.236 8.599 -0.431 2.469 H393 XAT 96
XAT H401 1H40 H 0 0 N N N N N N 77.499 23.603 71.643 2.921 1.111 2.310 H401 XAT 97
XAT H402 2H40 H 0 0 N N N N N N 78.094 22.842 73.181 2.031 -0.430 2.276 H402 XAT 98
XAT H403 3H40 H 0 0 N N N N N N 79.217 23.072 71.897 3.810 -0.430 2.340 H403 XAT 99
XAT H1 H1 H 0 1 N N N N N N 86.890 15.176 79.806 16.266 0.382 -0.726 H1 XAT 100
#
loop_
_chem_comp_bond.comp_id
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_aromatic_flag
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_ordinal
XAT C1 C2 SING N N 1
XAT C1 C6 SING N N 2
XAT C1 C16 SING N N 3
XAT C1 C17 SING N N 4
XAT C2 C3 SING N N 5
XAT C2 H21 SING N N 6
XAT C2 H22 SING N N 7
XAT C3 C4 SING N N 8
XAT C3 O3 SING N N 9
XAT C3 H3 SING N N 10
XAT C4 C5 SING N N 11
XAT C4 H41 SING N N 12
XAT C4 H42 SING N N 13
XAT C5 C6 SING N N 14
XAT C5 C18 SING N N 15
XAT C5 O4 SING N N 16
XAT C6 C7 SING N N 17
XAT C6 O4 SING N N 18
XAT C7 C8 DOUB N E 19
XAT C7 H7 SING N N 20
XAT C8 C9 SING N N 21
XAT C8 H8 SING N N 22
XAT C9 C10 DOUB N E 23
XAT C9 C19 SING N N 24
XAT C10 C11 SING N N 25
XAT C10 H10 SING N N 26
XAT C11 C12 DOUB N E 27
XAT C11 H11 SING N N 28
XAT C12 C13 SING N N 29
XAT C12 H12 SING N N 30
XAT C13 C14 DOUB N E 31
XAT C13 C20 SING N N 32
XAT C14 C15 SING N N 33
XAT C14 H14 SING N N 34
XAT C15 C35 DOUB N E 35
XAT C15 H15 SING N N 36
XAT C16 H161 SING N N 37
XAT C16 H162 SING N N 38
XAT C16 H163 SING N N 39
XAT C17 H171 SING N N 40
XAT C17 H172 SING N N 41
XAT C17 H173 SING N N 42
XAT C18 H181 SING N N 43
XAT C18 H182 SING N N 44
XAT C18 H183 SING N N 45
XAT C19 H191 SING N N 46
XAT C19 H192 SING N N 47
XAT C19 H193 SING N N 48
XAT C20 H201 SING N N 49
XAT C20 H202 SING N N 50
XAT C20 H203 SING N N 51
XAT O3 HO3 SING N N 52
XAT C21 C22 SING N N 53
XAT C21 C26 SING N N 54
XAT C21 C36 SING N N 55
XAT C21 C37 SING N N 56
XAT C22 C23 SING N N 57
XAT C22 H221 SING N N 58
XAT C22 H222 SING N N 59
XAT C23 C24 SING N N 60
XAT C23 O23 SING N N 61
XAT C23 H23 SING N N 62
XAT C24 C25 SING N N 63
XAT C24 H241 SING N N 64
XAT C24 H242 SING N N 65
XAT C25 C26 SING N N 66
XAT C25 C38 SING N N 67
XAT C25 O24 SING N N 68
XAT C26 C27 SING N N 69
XAT C26 O24 SING N N 70
XAT C27 C28 DOUB N E 71
XAT C27 H27 SING N N 72
XAT C28 C29 SING N N 73
XAT C28 H28 SING N N 74
XAT C29 C30 DOUB N E 75
XAT C29 C39 SING N N 76
XAT C30 C31 SING N N 77
XAT C30 H30 SING N N 78
XAT C31 C32 DOUB N E 79
XAT C31 H31 SING N N 80
XAT C32 C33 SING N N 81
XAT C32 H32 SING N N 82
XAT C33 C34 DOUB N E 83
XAT C33 C40 SING N N 84
XAT C34 C35 SING N N 85
XAT C34 H34 SING N N 86
XAT C35 H35 SING N N 87
XAT C36 H361 SING N N 88
XAT C36 H362 SING N N 89
XAT C36 H363 SING N N 90
XAT C37 H371 SING N N 91
XAT C37 H372 SING N N 92
XAT C37 H373 SING N N 93
XAT C38 H381 SING N N 94
XAT C38 H382 SING N N 95
XAT C38 H383 SING N N 96
XAT C39 H391 SING N N 97
XAT C39 H392 SING N N 98
XAT C39 H393 SING N N 99
XAT C40 H401 SING N N 100
XAT C40 H402 SING N N 101
XAT C40 H403 SING N N 102
XAT O23 H1 SING N N 103
#
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
XAT SMILES ACDLabs 10.04 OC1CC(C)(C)C2(OC2(C)C1)/C=C/C(=C/C=C/C(=C/C=C/C=C(/C=C/C=C(/C=C/C34OC4(C)CC(O)CC3(C)C)C)C)C)C
XAT InChI InChI 1.03 InChI=1S/C40H56O4/c1-29(17-13-19-31(3)21-23-39-35(5,6)25-33(41)27-37(39,9)43-39)15-11-12-16-30(2)18-14-20-32(4)22-24-40-36(7,8)26-34(42)28-38(40,10)44-40/h11-24,33-34,41-42H,25-28H2,1-10H3/b12-11+,17-13+,18-14+,23-21+,24-22+,29-15+,30-16+,31-19+,32-20+/t33-,34-,37+,38+,39-,40-/m0/s1
XAT InChIKey InChI 1.03 SZCBXWMUOPQSOX-WVJDLNGLSA-N
XAT SMILES_CANONICAL CACTVS 3.385 CC(=C\C=C\C=C(C)\C=C\C=C(C)\C=C\[C@@]12O[C@]1(C)C[C@@H](O)CC2(C)C)/C=C/C=C(C)/C=C/[C@@]34O[C@]3(C)C[C@@H](O)CC4(C)C
XAT SMILES CACTVS 3.385 CC(=CC=CC=C(C)C=CC=C(C)C=C[C]12O[C]1(C)C[CH](O)CC2(C)C)C=CC=C(C)C=C[C]34O[C]3(C)C[CH](O)CC4(C)C
XAT SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 C/C(=C\C=C\C=C(\C=C\C=C(\C=C\[C@@]12O[C@@]1(C[C@H](CC2(C)C)O)C)/C)/C)/C=C/C=C(/C=C/[C@@]34O[C@@]3(C[C@H](CC4(C)C)O)C)\C
XAT SMILES "OpenEye OEToolkits" 1.7.5 CC(=CC=CC=C(C)C=CC=C(C)C=CC12C(CC(CC1(O2)C)O)(C)C)C=CC=C(C)C=CC34C(CC(CC3(O4)C)O)(C)C
#
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
XAT "SYSTEMATIC NAME" ACDLabs 10.04 "(3S,3'S,5R,5'R,6S,6'S)-5,5',6,6'-tetrahydro-5,6:5',6'-diepoxy-beta,beta-carotene-3,3'-diol"
XAT "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 (1R,3S,6S)-6-[(1E,3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1R,3S,6S)-3-hydroxy-1,5,5-trimethyl-7-oxabicyclo[4.1.0]heptan-6-yl]-3,7,12,16-tetramethyl-octadeca-1,3,5,7,9,11,13,15,17-nonaenyl]-1,5,5-trimethyl-7-oxabicyclo[4.1.0]heptan-3-ol
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
XAT 'Create component' 2003-12-22 PDBJ
XAT 'Modify descriptor' 2011-06-04 RCSB
XAT 'Modify descriptor' 2012-01-05 RCSB
XAT 'Modify coordinates' 2012-01-05 RCSB
XAT 'Modify synonyms' 2020-06-05 PDBE
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id XAT
_pdbx_chem_comp_synonyms.name VIOLAXANTHIN
_pdbx_chem_comp_synonyms.provenance ?
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_drugbank_details.comp_id XAT
_pdbe_chem_comp_drugbank_details.drugbank_id DB03460
_pdbe_chem_comp_drugbank_details.type 'small molecule'
_pdbe_chem_comp_drugbank_details.name Violaxanthin
_pdbe_chem_comp_drugbank_details.description ?
_pdbe_chem_comp_drugbank_details.cas_number 126-29-4
_pdbe_chem_comp_drugbank_details.mechanism_of_action ?
#
loop_
_pdbe_chem_comp_synonyms.comp_id
_pdbe_chem_comp_synonyms.name
_pdbe_chem_comp_synonyms.provenance
_pdbe_chem_comp_synonyms.type
XAT VIOLAXANTHIN wwPDB ?
XAT all-trans-violaxanthin DrugBank ?
XAT trans-violaxanthin DrugBank ?
XAT 'zeaxanthin diepoxide' DrugBank ?
#
_pdbe_chem_comp_drugbank_classification.comp_id XAT
_pdbe_chem_comp_drugbank_classification.drugbank_id DB03460
_pdbe_chem_comp_drugbank_classification.parent Xanthophylls
_pdbe_chem_comp_drugbank_classification.kingdom 'Organic compounds'
_pdbe_chem_comp_drugbank_classification.class 'Prenol lipids'
_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 xanthophylls. These are carotenoids containing an oxygenated carotene backbone. Carotenes are characterized by the presence of two end-groups (mostly cyclohexene rings, but also cyclopentene rings or acyclic groups) linked by a long branched alkyl chain. Carotenes belonging form a subgroup of the carotenoids family. Xanthophylls arise by oxygenation of the carotene backbone.'
#
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
XAT C1 C 5.598 -5.454 1
XAT C2 C 4.299 -6.204 2
XAT C3 C 4.299 -7.704 3
XAT C4 C 5.598 -8.454 4
XAT C5 C 6.897 -7.704 5
XAT C6 C 6.897 -6.204 6
XAT C7 C 7.647 -4.905 7
XAT C8 C 9.147 -4.905 8
XAT C9 C 9.897 -3.606 9
XAT C10 C 11.397 -3.606 10
XAT C11 C 12.147 -2.307 11
XAT C12 C 13.647 -2.307 12
XAT C13 C 14.397 -1.008 13
XAT C14 C 15.897 -1.008 14
XAT C15 C 16.647 0.291 15
XAT C16 C 4.299 -4.704 16
XAT C17 C 5.598 -3.954 17
XAT C18 C 6.897 -9.204 18
XAT C19 C 9.147 -2.307 19
XAT C20 C 13.647 0.291 20
XAT O3 O 3.000 -8.454 21
XAT O4 O 8.197 -6.954 22
XAT C21 C 28.647 5.487 23
XAT C22 C 30.147 5.487 24
XAT C23 C 30.897 6.786 25
XAT C24 C 30.147 8.085 26
XAT C25 C 28.647 8.085 27
XAT C26 C 27.897 6.786 28
XAT C27 C 27.147 5.487 29
XAT C28 C 25.647 5.487 30
XAT C29 C 24.897 4.188 31
XAT C30 C 23.397 4.188 32
XAT C31 C 22.647 2.889 33
XAT C32 C 21.147 2.889 34
XAT C33 C 20.397 1.590 35
XAT C34 C 18.897 1.590 36
XAT C35 C 18.147 0.291 37
XAT C36 C 29.397 4.188 38
XAT C37 C 28.387 4.010 39
XAT C38 C 29.397 9.384 40
XAT C39 C 25.647 2.889 41
XAT C40 C 21.147 0.291 42
XAT O23 O 32.397 6.786 43
XAT O24 O 27.146 8.086 44
#
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
XAT C1 C2 SINGLE NONE 1
XAT C1 C6 SINGLE NONE 2
XAT C1 C16 SINGLE NONE 3
XAT C1 C17 SINGLE NONE 4
XAT C2 C3 SINGLE NONE 5
XAT C3 C4 SINGLE NONE 6
XAT C3 O3 SINGLE BEGINWEDGE 7
XAT C4 C5 SINGLE NONE 8
XAT C5 C6 SINGLE NONE 9
XAT C5 C18 SINGLE BEGINWEDGE 10
XAT C5 O4 SINGLE NONE 11
XAT C6 C7 SINGLE BEGINWEDGE 12
XAT C6 O4 SINGLE NONE 13
XAT C7 C8 DOUBLE NONE 14
XAT C8 C9 SINGLE ENDDOWNRIGHT 15
XAT C9 C10 DOUBLE NONE 16
XAT C9 C19 SINGLE ENDDOWNRIGHT 17
XAT C10 C11 SINGLE ENDDOWNRIGHT 18
XAT C11 C12 DOUBLE NONE 19
XAT C12 C13 SINGLE ENDDOWNRIGHT 20
XAT C13 C14 DOUBLE NONE 21
XAT C13 C20 SINGLE ENDDOWNRIGHT 22
XAT C14 C15 SINGLE ENDDOWNRIGHT 23
XAT C15 C35 DOUBLE NONE 24
XAT C21 C22 SINGLE NONE 25
XAT C21 C26 SINGLE NONE 26
XAT C21 C36 SINGLE NONE 27
XAT C21 C37 SINGLE NONE 28
XAT C22 C23 SINGLE NONE 29
XAT C23 C24 SINGLE NONE 30
XAT C23 O23 SINGLE BEGINWEDGE 31
XAT C24 C25 SINGLE NONE 32
XAT C25 C26 SINGLE NONE 33
XAT C25 C38 SINGLE BEGINWEDGE 34
XAT C25 O24 SINGLE NONE 35
XAT C26 C27 SINGLE BEGINWEDGE 36
XAT C26 O24 SINGLE NONE 37
XAT C27 C28 DOUBLE NONE 38
XAT C28 C29 SINGLE ENDUPRIGHT 39
XAT C29 C30 DOUBLE NONE 40
XAT C29 C39 SINGLE ENDUPRIGHT 41
XAT C30 C31 SINGLE ENDUPRIGHT 42
XAT C31 C32 DOUBLE NONE 43
XAT C32 C33 SINGLE ENDUPRIGHT 44
XAT C33 C34 DOUBLE NONE 45
XAT C33 C40 SINGLE ENDUPRIGHT 46
XAT C34 C35 SINGLE ENDUPRIGHT 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
XAT MurckoScaffold S1 scaffold 'C(=C/C=C/C=C/C=C/C=C/[C@]12CCCCC1O2)\C=C\C=C\C=C\C=C\[C@]12CCCCC1O2' InChI=1S/C30H36O2/c1(3-5-7-9-11-13-17-23-29-25-19-15-21-27(29)31-29)2-4-6-8-10-12-14-18-24-30-26-20-16-22-28(30)32-30/h1-14,17-18,23-24,27-28H,15-16,19-22,25-26H2/b2-1+,5-3+,6-4+,9-7+,10-8+,13-11+,14-12+,23-17+,24-18+/t27?,28?,29-,30-/m0/s1 PTYKCKNTRUBTMB-OGEJUXMASA-N
XAT cyclohexane F1 fragment C1CCCCC1 InChI=1S/C6H12/c1-2-4-6-5-3-1/h1-6H2 XDTMQSROBMDMFD-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
XAT C1 S1 1
XAT C2 S1 1
XAT C3 S1 1
XAT C4 S1 1
XAT C5 S1 1
XAT C6 S1 1
XAT C7 S1 1
XAT C8 S1 1
XAT C9 S1 1
XAT C10 S1 1
XAT C11 S1 1
XAT C12 S1 1
XAT C13 S1 1
XAT C14 S1 1
XAT C15 S1 1
XAT O4 S1 1
XAT C21 S1 1
XAT C22 S1 1
XAT C23 S1 1
XAT C24 S1 1
XAT C25 S1 1
XAT C26 S1 1
XAT C27 S1 1
XAT C28 S1 1
XAT C29 S1 1
XAT C30 S1 1
XAT C31 S1 1
XAT C32 S1 1
XAT C33 S1 1
XAT C34 S1 1
XAT C35 S1 1
XAT O24 S1 1
XAT C1 F1 1
XAT C2 F1 1
XAT C3 F1 1
XAT C4 F1 1
XAT C5 F1 1
XAT C6 F1 1
XAT C21 F1 2
XAT C22 F1 2
XAT C23 F1 2
XAT C24 F1 2
XAT C25 F1 2
XAT C26 F1 2
#
_pdbe_chem_comp_rdkit_properties.comp_id XAT
_pdbe_chem_comp_rdkit_properties.exactmw 600.418
_pdbe_chem_comp_rdkit_properties.amw 600.884
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 4
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 2
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 22
_pdbe_chem_comp_rdkit_properties.NumHBD 2
_pdbe_chem_comp_rdkit_properties.NumHBA 4
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 44
_pdbe_chem_comp_rdkit_properties.NumAtoms 100
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 4
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.550
_pdbe_chem_comp_rdkit_properties.NumRings 4
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 0
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 4
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 4
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 2
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 0
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 6
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 345.409
_pdbe_chem_comp_rdkit_properties.tpsa 65.520
_pdbe_chem_comp_rdkit_properties.CrippenClogP 8.970
_pdbe_chem_comp_rdkit_properties.CrippenMR 183.214
_pdbe_chem_comp_rdkit_properties.chi0v 21.633
_pdbe_chem_comp_rdkit_properties.chi1v 11.475
_pdbe_chem_comp_rdkit_properties.chi2v 5.673
_pdbe_chem_comp_rdkit_properties.chi3v 5.673
_pdbe_chem_comp_rdkit_properties.chi4v 3.556
_pdbe_chem_comp_rdkit_properties.chi0n 77.633
_pdbe_chem_comp_rdkit_properties.chi1n 39.291
_pdbe_chem_comp_rdkit_properties.chi2n 5.673
_pdbe_chem_comp_rdkit_properties.chi3n 5.673
_pdbe_chem_comp_rdkit_properties.chi4n 3.556
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.500
_pdbe_chem_comp_rdkit_properties.kappa1 6.739
_pdbe_chem_comp_rdkit_properties.kappa2 12.361
_pdbe_chem_comp_rdkit_properties.kappa3 6.843
_pdbe_chem_comp_rdkit_properties.Phi 1.893
#
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
XAT UniChem DrugBank DB03460
XAT UniChem PDBe XAT
XAT UniChem 'KEGG LIGAND' C08614
XAT UniChem HMDB HMDB0003101
XAT UniChem BRENDA 125435
XAT UniChem 'Probes And Drugs' PD016204
XAT UniChem Rhea 35288
XAT UniChem ChEBI 35288
XAT UniChem ZINC ZINC000008221270
XAT UniChem fdasrs 51C926029A
XAT UniChem SureChEMBL SCHEMBL97720
XAT UniChem 'PubChem TPHARMA' 85856865
XAT UniChem PubChem 448438
XAT UniChem NMRShiftDB 60021285
XAT UniChem ACTor 126-29-4
XAT UniChem Nikkaji J387.832E
XAT UniChem Nikkaji J661.001C
XAT UniChem Nikkaji J8.626F
XAT UniChem LipidMaps LMPR01070282
XAT UniChem MetaboLights MTBLC35288
XAT UniChem BRENDA 3412
#
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
XAT C1 -12.623 -0.482 0.856 ETKDGv3 1
XAT C2 -13.582 -1.012 -0.250 ETKDGv3 2
XAT C3 -14.015 0.065 -1.248 ETKDGv3 3
XAT C4 -12.796 0.569 -2.032 ETKDGv3 4
XAT C5 -11.629 1.001 -1.132 ETKDGv3 5
XAT C6 -11.529 0.480 0.274 ETKDGv3 6
XAT C7 -10.237 0.649 1.029 ETKDGv3 7
XAT C8 -9.157 -0.073 0.712 ETKDGv3 8
XAT C9 -7.865 0.040 1.431 ETKDGv3 9
XAT C10 -6.737 -0.242 0.751 ETKDGv3 10
XAT C11 -5.374 -0.102 1.310 ETKDGv3 11
XAT C12 -4.303 -0.465 0.594 ETKDGv3 12
XAT C13 -2.910 -0.325 1.089 ETKDGv3 13
XAT C14 -1.930 -0.164 0.179 ETKDGv3 14
XAT C15 -0.508 0.063 0.521 ETKDGv3 15
XAT C16 -11.949 -1.714 1.506 ETKDGv3 16
XAT C17 -13.430 0.247 1.957 ETKDGv3 17
XAT C18 -10.411 1.639 -1.811 ETKDGv3 18
XAT C19 -7.832 0.471 2.880 ETKDGv3 19
XAT C20 -2.617 -0.354 2.572 ETKDGv3 20
XAT O3 -14.953 -0.486 -2.135 ETKDGv3 21
XAT O4 -12.065 1.759 -0.032 ETKDGv3 22
XAT C21 12.459 0.819 -0.593 ETKDGv3 23
XAT C22 13.813 0.693 0.168 ETKDGv3 24
XAT C23 14.338 -0.747 0.291 ETKDGv3 25
XAT C24 13.360 -1.613 1.085 ETKDGv3 26
XAT C25 11.912 -1.504 0.581 ETKDGv3 27
XAT C26 11.450 -0.304 -0.195 ETKDGv3 28
XAT C27 10.154 -0.432 -0.957 ETKDGv3 29
XAT C28 9.071 0.280 -0.627 ETKDGv3 30
XAT C29 7.778 0.167 -1.346 ETKDGv3 31
XAT C30 6.649 0.447 -0.665 ETKDGv3 32
XAT C31 5.287 0.307 -1.224 ETKDGv3 33
XAT C32 4.216 0.670 -0.508 ETKDGv3 34
XAT C33 2.822 0.530 -1.003 ETKDGv3 35
XAT C34 1.842 0.368 -0.093 ETKDGv3 36
XAT C35 0.421 0.142 -0.435 ETKDGv3 37
XAT C36 11.851 2.199 -0.258 ETKDGv3 38
XAT C37 12.699 0.765 -2.122 ETKDGv3 39
XAT C38 11.042 -2.765 0.666 ETKDGv3 40
XAT C39 7.743 -0.260 -2.796 ETKDGv3 41
XAT C40 2.529 0.560 -2.485 ETKDGv3 42
XAT O23 14.573 -1.322 -0.967 ETKDGv3 43
XAT O24 11.262 -0.411 1.199 ETKDGv3 44
XAT H21 -14.487 -1.460 0.217 ETKDGv3 45
XAT H22 -13.086 -1.828 -0.823 ETKDGv3 46
XAT H3 -14.486 0.912 -0.698 ETKDGv3 47
XAT H41 -13.105 1.430 -2.662 ETKDGv3 48
XAT H42 -12.434 -0.235 -2.710 ETKDGv3 49
XAT H7 -10.217 1.353 1.851 ETKDGv3 50
XAT H8 -9.214 -0.737 -0.144 ETKDGv3 51
XAT H10 -6.821 -0.568 -0.281 ETKDGv3 52
XAT H11 -5.239 0.340 2.287 ETKDGv3 53
XAT H12 -4.450 -0.836 -0.415 ETKDGv3 54
XAT H14 -2.192 -0.171 -0.874 ETKDGv3 55
XAT H15 -0.210 0.186 1.555 ETKDGv3 56
XAT H161 -11.290 -2.229 0.775 ETKDGv3 57
XAT H162 -11.336 -1.422 2.385 ETKDGv3 58
XAT H163 -12.714 -2.441 1.857 ETKDGv3 59
XAT H171 -14.170 -0.440 2.423 ETKDGv3 60
XAT H172 -13.983 1.118 1.550 ETKDGv3 61
XAT H173 -12.751 0.616 2.755 ETKDGv3 62
XAT H181 -9.784 0.843 -2.263 ETKDGv3 63
XAT H182 -9.795 2.225 -1.097 ETKDGv3 64
XAT H183 -10.746 2.328 -2.614 ETKDGv3 65
XAT H191 -7.137 -0.170 3.463 ETKDGv3 66
XAT H192 -8.825 0.356 3.360 ETKDGv3 67
XAT H193 -7.512 1.531 2.950 ETKDGv3 68
XAT H201 -3.460 -0.793 3.144 ETKDGv3 69
XAT H202 -2.425 0.676 2.938 ETKDGv3 70
XAT H203 -1.738 -0.998 2.784 ETKDGv3 71
XAT HO3 -15.388 0.275 -2.602 ETKDGv3 72
XAT H221 13.699 1.092 1.201 ETKDGv3 73
XAT H222 14.590 1.324 -0.318 ETKDGv3 74
XAT H23 15.297 -0.722 0.860 ETKDGv3 75
XAT H241 13.397 -1.324 2.158 ETKDGv3 76
XAT H242 13.697 -2.671 1.025 ETKDGv3 77
XAT H27 10.121 -1.152 -1.764 ETKDGv3 78
XAT H28 9.122 0.934 0.237 ETKDGv3 79
XAT H30 6.733 0.772 0.367 ETKDGv3 80
XAT H31 5.151 -0.134 -2.201 ETKDGv3 81
XAT H32 4.363 1.040 0.502 ETKDGv3 82
XAT H34 2.104 0.376 0.960 ETKDGv3 83
XAT H35 0.122 0.019 -1.468 ETKDGv3 84
XAT H361 10.928 2.388 -0.845 ETKDGv3 85
XAT H362 12.574 3.010 -0.493 ETKDGv3 86
XAT H363 11.594 2.265 0.821 ETKDGv3 87
XAT H371 12.966 -0.258 -2.456 ETKDGv3 88
XAT H372 11.781 1.054 -2.677 ETKDGv3 89
XAT H373 13.508 1.464 -2.423 ETKDGv3 90
XAT H381 9.957 -2.528 0.665 ETKDGv3 91
XAT H382 11.267 -3.315 1.604 ETKDGv3 92
XAT H383 11.268 -3.423 -0.198 ETKDGv3 93
XAT H391 8.736 -0.146 -3.276 ETKDGv3 94
XAT H392 7.049 0.382 -3.377 ETKDGv3 95
XAT H393 7.423 -1.321 -2.868 ETKDGv3 96
XAT H401 1.650 1.203 -2.698 ETKDGv3 97
XAT H402 3.371 0.999 -3.058 ETKDGv3 98
XAT H403 2.337 -0.471 -2.852 ETKDGv3 99
XAT H1 15.375 -0.873 -1.342 ETKDGv3 100
#