data_18Y
#
_chem_comp.id 18Y
_chem_comp.name "Trioxacarcin A analogue, bound form"
_chem_comp.type non-polymer
_chem_comp.pdbx_type HETAIN
_chem_comp.formula "C33 H40 O14"
_chem_comp.mon_nstd_parent_comp_id ?
_chem_comp.pdbx_synonyms
"(1S,2R,3aS,4S,13aS)-2-(dimethoxymethyl)-1,12-dihydroxy-7-methoxy-1,5-dimethyl-11-oxo-1,2,3a,4,8,9,10,11-octahydro-13aH-2,4-epoxyfuro[3,2-b]naphtho[2,3-h]chromen-13a-yl 4-C-acetyl-2,6-dideoxy-alpha-L-xylo-hexopyranoside"
_chem_comp.pdbx_formal_charge 0
_chem_comp.pdbx_initial_date 2012-11-08
_chem_comp.pdbx_modified_date 2021-03-03
_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 660.662
_chem_comp.one_letter_code ?
_chem_comp.three_letter_code 18Y
_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 4HP7
_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
18Y C3 C3 C 0 1 N N N N N N 5.187 7.107 3.972 -6.798 -2.080 -1.365 C3 18Y 1
18Y C5 C5 C 0 1 Y N N N N N 8.903 2.748 6.282 -3.113 1.331 2.166 C5 18Y 2
18Y O1 O1 O 0 1 N N N N N N 7.513 9.024 5.804 -3.645 -2.690 -2.745 O1 18Y 3
18Y "C7'" "C7'" C 0 1 N N N N N N 17.047 8.436 8.489 4.998 -3.039 0.788 "C7'" 18Y 4
18Y "O7'" "O7'" O 0 1 N N N N N N 17.187 7.458 9.267 5.142 -1.841 0.847 "O7'" 18Y 5
18Y "C8'" "C8'" C 0 1 N N N N N N 18.057 9.448 8.206 6.203 -3.939 0.687 "C8'" 18Y 6
18Y C1 C1 C 0 1 N N N N N N 6.929 8.067 5.312 -4.416 -2.448 -1.840 C1 18Y 7
18Y C2 C2 C 0 1 N N N N N N 5.690 8.260 4.479 -5.758 -3.141 -1.748 C2 18Y 8
18Y C4 C4 C 0 1 N N N N N N 5.664 5.759 3.988 -6.482 -1.542 0.028 C4 18Y 9
18Y C6 C6 C 0 1 Y N N N N N 9.986 2.523 7.116 -1.841 1.808 2.252 C6 18Y 10
18Y C7 C7 C 0 1 Y N N N N N 10.692 3.586 7.652 -0.840 1.380 1.378 C7 18Y 11
18Y O8 O8 O 0 1 N N N N N N 10.762 5.999 8.027 -0.177 0.014 -0.449 O8 18Y 12
18Y C8 C8 C 0 1 Y N N N N N 10.164 4.901 7.384 -1.127 0.453 0.402 C8 18Y 13
18Y O9 O9 O 0 1 N N N N N N 9.216 7.510 6.810 -1.821 -1.430 -1.573 O9 18Y 14
18Y C9 C9 C 0 1 Y N N N N N 8.581 6.490 6.286 -2.767 -0.993 -0.707 C9 18Y 15
18Y O10 O10 O 0 1 N N N N N N 6.678 3.238 4.520 -5.719 0.310 1.931 O10 18Y 16
18Y C19 C19 C 0 1 Y N N N N N 7.316 4.326 5.166 -4.757 -0.116 1.069 C19 18Y 17
18Y O11 O11 O 0 1 N N N N N N 11.612 3.097 9.859 0.640 3.175 0.766 O11 18Y 18
18Y C11 C11 C 0 1 N N S N N N 11.863 3.377 8.439 0.539 1.953 1.527 C11 18Y 19
18Y O12 O12 O 0 1 N N N N N N 13.388 4.431 9.843 2.598 2.045 0.516 O12 18Y 20
18Y C12 C12 C 0 1 N N S N N N 12.749 4.602 8.623 1.605 1.022 0.900 C12 18Y 21
18Y O13 O13 O 0 1 N N N N N N 12.499 7.041 9.136 2.025 -0.285 -1.120 O13 18Y 22
18Y C13 C13 C 0 1 N N S N N N 11.877 5.845 8.978 1.095 0.609 -0.506 C13 18Y 23
18Y O14 O14 O 0 1 N N N N N N 11.836 6.443 11.409 1.857 1.906 -2.441 O14 18Y 24
18Y C14 C14 C 0 1 N N S N N N 11.364 5.407 10.512 1.060 1.962 -1.257 C14 18Y 25
18Y C15 C15 C 0 1 N N R N N N 12.160 4.186 10.693 1.686 2.936 -0.212 C15 18Y 26
18Y C25 C25 C 0 1 N N N N N N 12.595 3.796 11.976 2.331 4.197 -0.790 C25 18Y 27
18Y "O1'" "O1'" O 0 1 N N N N N N 13.638 7.156 7.141 2.585 -1.446 0.825 "O1'" 18Y 28
18Y "C1'" "C1'" C 0 1 N N S N N N 12.802 7.807 7.989 2.083 -1.574 -0.507 "C1'" 18Y 29
18Y "C2'" "C2'" C 0 1 N N N N N N 13.307 9.080 8.477 3.013 -2.483 -1.316 "C2'" 18Y 30
18Y "O3'" "O3'" O 0 1 N N N N N N 14.788 8.586 10.024 4.042 -4.673 -1.328 "O3'" 18Y 31
18Y "C3'" "C3'" C 0 1 N N R N N N 14.702 9.144 8.826 3.118 -3.843 -0.620 "C3'" 18Y 32
18Y "O4'" "O4'" O 0 1 N N N N N N 15.653 9.324 6.726 3.646 -4.889 1.497 "O4'" 18Y 33
18Y "C4'" "C4'" C 0 1 N N S N N N 15.797 8.346 7.813 3.614 -3.633 0.815 "C4'" 18Y 34
18Y "C5'" "C5'" C 0 1 N N S N N N 14.984 7.215 7.513 2.660 -2.681 1.541 "C5'" 18Y 35
18Y "C6'" "C6'" C 0 1 N N N N N N 15.874 6.461 6.317 1.269 -3.312 1.618 "C6'" 18Y 36
18Y C20 C20 C 0 1 Y N N N N N 7.490 6.664 5.440 -4.077 -1.472 -0.795 C20 18Y 37
18Y C21 C21 C 0 1 Y N N N N N 6.863 5.595 4.884 -5.068 -1.027 0.104 C21 18Y 38
18Y C18 C18 C 0 1 N N N N N N 10.424 1.104 7.362 -1.505 2.822 3.315 C18 18Y 39
18Y C22 C22 C 0 1 Y N N N N N 9.129 5.120 6.611 -2.440 -0.052 0.287 C22 18Y 40
18Y C23 C23 C 0 1 Y N N N N N 8.439 4.074 6.026 -3.444 0.391 1.180 C23 18Y 41
18Y C24 C24 C 0 1 N N N N N N 5.736 2.569 5.373 -6.475 1.459 1.543 C24 18Y 42
18Y O26 O26 O 0 1 N N N N N N 11.426 3.420 12.669 1.341 4.967 -1.475 O26 18Y 43
18Y C27 C27 C 0 1 N N N N N N 11.604 3.489 14.049 1.880 5.960 -2.350 C27 18Y 44
18Y C28 C28 C 0 1 N N N N N N 14.685 2.361 12.067 3.848 5.944 -0.163 C28 18Y 45
18Y C17 C17 C 0 1 N N N N N N 9.861 5.210 10.776 -0.378 2.366 -1.584 C17 18Y 46
18Y O16 O16 O 0 1 N N N N N N 13.332 2.634 12.084 2.891 4.975 0.270 O16 18Y 47
18Y H3A H3A H 0 1 N N N N N N 5.073 7.326 2.900 -6.768 -1.264 -2.086 H3A 18Y 48
18Y H3B H3B H 0 1 N N N N N N 4.194 7.033 4.439 -7.792 -2.529 -1.364 H3B 18Y 49
18Y H5 H5 H 0 1 N N N N N N 8.403 1.910 5.819 -3.868 1.678 2.858 H5 18Y 50
18Y "H81'" "H81'" H 0 0 N N N N N N 18.969 9.227 8.780 7.109 -3.333 0.681 "H81'" 18Y 51
18Y "H82'" "H82'" H 0 0 N N N N N N 18.290 9.443 7.131 6.223 -4.615 1.541 "H82'" 18Y 52
18Y "H83'" "H83'" H 0 0 N N N N N N 17.674 10.438 8.493 6.147 -4.518 -0.235 "H83'" 18Y 53
18Y H2B H2B H 0 1 N N N N N N 5.936 8.929 3.641 -5.723 -3.918 -0.984 H2B 18Y 54
18Y H2A H2A H 0 1 N N N N N N 4.918 8.728 5.108 -6.015 -3.580 -2.712 H2A 18Y 55
18Y H4A H4A H 0 1 N N N N N N 4.859 5.102 4.348 -7.171 -0.730 0.262 H4A 18Y 56
18Y H4B H4B H 0 1 N N N N N N 5.943 5.469 2.964 -6.611 -2.340 0.758 H4B 18Y 57
18Y H9 H9 H 0 1 N N N N N N 8.766 8.315 6.582 -1.342 -2.213 -1.270 H9 18Y 58
18Y H11 H11 H 0 1 N N N N N N 12.468 2.566 8.007 0.762 2.130 2.579 H11 18Y 59
18Y H12 H12 H 0 1 N N N N N N 13.412 4.786 7.765 1.954 0.207 1.534 H12 18Y 60
18Y H1 H1 H 0 1 N N N N N N 11.569 6.239 12.298 1.868 2.730 -2.947 H1 18Y 61
18Y H16 H16 H 0 1 N N N N N N 13.096 4.632 12.486 3.119 3.915 -1.489 H16 18Y 62
18Y "H1'" "H1'" H 0 1 N N N N N N 11.858 8.011 7.462 1.084 -2.010 -0.479 "H1'" 18Y 63
18Y "H2'" "H2'" H 0 1 N N N N N N 13.127 9.830 7.693 2.609 -2.617 -2.319 "H2'" 18Y 64
18Y H2 H2 H 0 1 N N N N N N 12.729 9.343 9.375 4.002 -2.028 -1.378 H2 18Y 65
18Y HO3 HO3 H 0 1 N N N N N N 15.589 8.079 10.081 3.793 -4.841 -2.247 HO3 18Y 66
18Y "H3'" "H3'" H 0 1 N N N N N N 15.021 10.196 8.857 2.138 -4.320 -0.602 "H3'" 18Y 67
18Y "H4'" "H4'" H 0 1 N N N N N N 16.190 10.085 6.911 3.949 -4.830 2.413 "H4'" 18Y 68
18Y "H5'" "H5'" H 0 1 N N N N N N 15.090 6.537 8.373 3.031 -2.494 2.549 "H5'" 18Y 69
18Y "H61'" "H61'" H 0 0 N N N N N N 16.942 6.490 6.580 0.898 -3.499 0.610 "H61'" 18Y 70
18Y "H62'" "H62'" H 0 0 N N N N N N 15.548 5.415 6.222 1.327 -4.253 2.165 "H62'" 18Y 71
18Y "H63'" "H63'" H 0 0 N N N N N N 15.718 6.982 5.361 0.590 -2.633 2.135 "H63'" 18Y 72
18Y H61A H61A H 0 0 N N N N N N 11.148 0.804 6.590 -1.184 2.306 4.220 H61A 18Y 73
18Y H63A H63A H 0 0 N N N N N N 10.895 1.032 8.354 -0.703 3.468 2.960 H63A 18Y 74
18Y H62A H62A H 0 0 N N N N N N 9.549 0.438 7.323 -2.387 3.424 3.534 H62A 18Y 75
18Y H111 H111 H 0 0 N N N N N N 5.271 1.736 4.825 -7.207 1.690 2.318 H111 18Y 76
18Y H112 H112 H 0 0 N N N N N N 6.257 2.179 6.260 -5.805 2.307 1.411 H112 18Y 77
18Y H113 H113 H 0 0 N N N N N N 4.958 3.280 5.688 -6.992 1.254 0.605 H113 18Y 78
18Y H62B H62B H 0 0 N N N N N N 10.674 3.190 14.555 1.119 6.261 -3.070 H62B 18Y 79
18Y H63B H63B H 0 0 N N N N N N 12.418 2.812 14.348 2.191 6.827 -1.768 H63B 18Y 80
18Y H61B H61B H 0 0 N N N N N N 11.861 4.520 14.334 2.740 5.550 -2.879 H61B 18Y 81
18Y H63C H63C H 0 0 N N N N N N 14.843 1.279 12.187 4.354 6.368 0.705 H63C 18Y 82
18Y H61C H61C H 0 0 N N N N N N 15.113 2.690 11.109 4.580 5.466 -0.813 H61C 18Y 83
18Y H62C H62C H 0 0 N N N N N N 15.177 2.897 12.892 3.339 6.738 -0.710 H62C 18Y 84
18Y H171 H171 H 0 0 N N N N N N 9.707 4.927 11.828 -0.948 2.463 -0.660 H171 18Y 85
18Y H172 H172 H 0 0 N N N N N N 9.326 6.148 10.567 -0.376 3.320 -2.112 H172 18Y 86
18Y H3 H3 H 0 1 N N N N N N 9.475 4.414 10.122 -0.836 1.603 -2.215 H3 18Y 87
#
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
18Y C3 C4 SING N N 1
18Y C3 C2 SING N N 2
18Y C4 C21 SING N N 3
18Y C2 C1 SING N N 4
18Y O10 C19 SING N N 5
18Y O10 C24 SING N N 6
18Y C21 C19 DOUB Y N 7
18Y C21 C20 SING Y N 8
18Y C19 C23 SING Y N 9
18Y C1 C20 SING N N 10
18Y C1 O1 DOUB N N 11
18Y C20 C9 DOUB Y N 12
18Y C23 C5 DOUB Y N 13
18Y C23 C22 SING Y N 14
18Y C5 C6 SING Y N 15
18Y C9 C22 SING Y N 16
18Y C9 O9 SING N N 17
18Y "C6'" "C5'" SING N N 18
18Y C22 C8 DOUB Y N 19
18Y "O4'" "C4'" SING N N 20
18Y C6 C18 SING N N 21
18Y C6 C7 DOUB Y N 22
18Y "O1'" "C5'" SING N N 23
18Y "O1'" "C1'" SING N N 24
18Y C8 C7 SING Y N 25
18Y C8 O8 SING N N 26
18Y "C5'" "C4'" SING N N 27
18Y C7 C11 SING N N 28
18Y "C4'" "C7'" SING N N 29
18Y "C4'" "C3'" SING N N 30
18Y "C1'" "C2'" SING N N 31
18Y "C1'" O13 SING N N 32
18Y O8 C13 SING N N 33
18Y "C8'" "C7'" SING N N 34
18Y C11 C12 SING N N 35
18Y C11 O11 SING N N 36
18Y "C2'" "C3'" SING N N 37
18Y "C7'" "O7'" DOUB N N 38
18Y C12 C13 SING N N 39
18Y C12 O12 SING N N 40
18Y "C3'" "O3'" SING N N 41
18Y C13 O13 SING N N 42
18Y C13 C14 SING N N 43
18Y O12 C15 SING N N 44
18Y O11 C15 SING N N 45
18Y C14 C15 SING N N 46
18Y C14 C17 SING N N 47
18Y C14 O14 SING N N 48
18Y C15 C25 SING N N 49
18Y C25 O16 SING N N 50
18Y C25 O26 SING N N 51
18Y C28 O16 SING N N 52
18Y O26 C27 SING N N 53
18Y C3 H3A SING N N 54
18Y C3 H3B SING N N 55
18Y C5 H5 SING N N 56
18Y "C8'" "H81'" SING N N 57
18Y "C8'" "H82'" SING N N 58
18Y "C8'" "H83'" SING N N 59
18Y C2 H2B SING N N 60
18Y C2 H2A SING N N 61
18Y C4 H4A SING N N 62
18Y C4 H4B SING N N 63
18Y O9 H9 SING N N 64
18Y C11 H11 SING N N 65
18Y C12 H12 SING N N 66
18Y O14 H1 SING N N 67
18Y C25 H16 SING N N 68
18Y "C1'" "H1'" SING N N 69
18Y "C2'" "H2'" SING N N 70
18Y "C2'" H2 SING N N 71
18Y "O3'" HO3 SING N N 72
18Y "C3'" "H3'" SING N N 73
18Y "O4'" "H4'" SING N N 74
18Y "C5'" "H5'" SING N N 75
18Y "C6'" "H61'" SING N N 76
18Y "C6'" "H62'" SING N N 77
18Y "C6'" "H63'" SING N N 78
18Y C18 H61A SING N N 79
18Y C18 H63A SING N N 80
18Y C18 H62A SING N N 81
18Y C24 H111 SING N N 82
18Y C24 H112 SING N N 83
18Y C24 H113 SING N N 84
18Y C27 H62B SING N N 85
18Y C27 H63B SING N N 86
18Y C27 H61B SING N N 87
18Y C28 H63C SING N N 88
18Y C28 H61C SING N N 89
18Y C28 H62C SING N N 90
18Y C17 H171 SING N N 91
18Y C17 H172 SING N N 92
18Y C17 H3 SING N N 93
#
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
18Y SMILES ACDLabs 12.01 O=C(C)C1(O)C(O)CC(OC1C)OC57Oc2c(c(cc4c2c(O)c3C(=O)CCCc3c4OC)C)C6OC(OC56)(C(OC)OC)C7(O)C
18Y InChI InChI 1.03 InChI=1S/C33H40O14/c1-13-11-17-23(24(37)22-16(25(17)40-5)9-8-10-18(22)35)26-21(13)27-28-32(45-26,30(4,38)33(46-27,47-28)29(41-6)42-7)44-20-12-19(36)31(39,14(2)34)15(3)43-20/h11,15,19-20,27-29,36-39H,8-10,12H2,1-7H3/t15-,19+,20-,27-,28-,30-,31+,32+,33-/m0/s1
18Y InChIKey InChI 1.03 VSONDVKNAFWAKH-UEXNXLFMSA-N
18Y SMILES_CANONICAL CACTVS 3.370 COC(OC)[C@]12O[C@@H]3[C@H](O1)[C@@](O[C@H]4C[C@@H](O)[C@](O)([C@H](C)O4)C(C)=O)(Oc5c3c(C)cc6c(OC)c7CCCC(=O)c7c(O)c56)[C@]2(C)O
18Y SMILES CACTVS 3.370 COC(OC)[C]12O[CH]3[CH](O1)[C](O[CH]4C[CH](O)[C](O)([CH](C)O4)C(C)=O)(Oc5c3c(C)cc6c(OC)c7CCCC(=O)c7c(O)c56)[C]2(C)O
18Y SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 Cc1cc2c(c(c3c(c2OC)CCCC3=O)O)c4c1[C@H]5[C@H]6[C@@](O4)([C@]([C@@](O5)(O6)C(OC)OC)(C)O)O[C@H]7C[C@H]([C@]([C@@H](O7)C)(C(=O)C)O)O
18Y SMILES "OpenEye OEToolkits" 1.7.6 Cc1cc2c(c(c3c(c2OC)CCCC3=O)O)c4c1C5C6C(O4)(C(C(O5)(O6)C(OC)OC)(C)O)OC7CC(C(C(O7)C)(C(=O)C)O)O
#
_pdbx_chem_comp_identifier.comp_id 18Y
_pdbx_chem_comp_identifier.type "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program ACDLabs
_pdbx_chem_comp_identifier.program_version 12.01
_pdbx_chem_comp_identifier.identifier
"(1S,2R,3aS,4S,13aS)-2-(dimethoxymethyl)-1,12-dihydroxy-7-methoxy-1,5-dimethyl-11-oxo-1,2,3a,4,8,9,10,11-octahydro-13aH-2,4-epoxyfuro[3,2-b]naphtho[2,3-h]chromen-13a-yl 4-C-acetyl-2,6-dideoxy-alpha-L-xylo-hexopyranoside"
#
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
18Y 'Create component' 2012-11-08 RCSB
18Y 'Modify name' 2012-11-08 RCSB
18Y 'Initial release' 2013-10-23 RCSB
18Y 'Modify linking type' 2021-03-03 RCSB
18Y 'Modify synonyms' 2021-03-03 RCSB
#
_pdbx_chem_comp_synonyms.ordinal 1
_pdbx_chem_comp_synonyms.comp_id 18Y
_pdbx_chem_comp_synonyms.name
"(1S,2R,3aS,4S,13aS)-2-(dimethoxymethyl)-1,12-dihydroxy-7-methoxy-1,5-dimethyl-11-oxo-1,2,3a,4,8,9,10,11-octahydro-13aH-2,4-epoxyfuro[3,2-b]naphtho[2,3-h]chromen-13a-yl 4-C-acetyl-2,6-dideoxy-alpha-L-xylo-hexopyranoside"
_pdbx_chem_comp_synonyms.provenance PDB
_pdbx_chem_comp_synonyms.type ?
#
_pdbe_chem_comp_synonyms.comp_id 18Y
_pdbe_chem_comp_synonyms.name
'(1S,2R,3aS,4S,13aS)-2-(dimethoxymethyl)-1,12-dihydroxy-7-methoxy-1,5-dimethyl-11-oxo-1,2,3a,4,8,9,10,11-octahydro-13aH-2,4-epoxyfuro[3,2-b]naphtho[2,3-h]chromen-13a-yl 4-C-acetyl-2,6-dideoxy-alpha-L-xylo-hexopyranoside'
_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
18Y C3 C -7.312 -3.501 1
18Y C5 C -4.886 2.682 2
18Y O1 O -3.394 -4.129 3
18Y "C7'" C 6.209 -4.453 4
18Y "O7'" O 7.720 -4.323 5
18Y "C8'" C 5.577 -5.788 6
18Y C1 C -4.715 -3.422 7
18Y C2 C -5.989 -4.211 8
18Y C4 C -7.360 -1.998 9
18Y C6 C -3.583 3.537 10
18Y C7 C -2.269 2.856 11
18Y O8 O -0.605 0.152 12
18Y C8 C -2.272 1.029 13
18Y O9 O -2.182 -1.871 14
18Y C9 C -3.498 -1.148 15
18Y O10 O -7.477 1.007 16
18Y C19 C -6.133 0.314 17
18Y O11 O 0.316 4.185 18
18Y C11 C -0.922 3.280 19
18Y O12 O 0.534 2.435 20
18Y C12 C -0.487 2.090 21
18Y O13 O 1.078 -0.990 22
18Y C13 C 0.377 1.094 23
18Y O14 O 2.848 2.584 24
18Y C14 C 1.967 2.177 25
18Y C15 C 1.208 3.255 26
18Y C25 C 2.987 4.056 27
18Y "O1'" O 3.841 -1.137 28
18Y "C1'" C 2.640 -2.028 29
18Y "C2'" C 2.819 -3.524 30
18Y "O3'" O 4.400 -5.604 31
18Y "C3'" C 4.201 -4.118 32
18Y "O4'" O 6.810 -2.680 33
18Y "C4'" C 5.399 -3.214 34
18Y "C5'" C 5.219 -1.725 35
18Y "C6'" C 6.405 -0.809 36
18Y C20 C -4.767 -1.920 37
18Y C21 C -6.090 -1.204 38
18Y C18 C -3.662 5.042 39
18Y C22 C -3.521 0.338 40
18Y C23 C -4.846 1.094 41
18Y C24 C -7.576 2.498 42
18Y O26 O 3.419 5.415 43
18Y C27 C 4.982 5.574 44
18Y C28 C 5.681 3.266 45
18Y C17 C 2.701 0.870 46
18Y O16 O 4.208 2.968 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
18Y C3 C4 SINGLE NONE 1
18Y C3 C2 SINGLE NONE 2
18Y C4 C21 SINGLE NONE 3
18Y C2 C1 SINGLE NONE 4
18Y O10 C19 SINGLE NONE 5
18Y O10 C24 SINGLE NONE 6
18Y C21 C19 DOUBLE NONE 7
18Y C21 C20 SINGLE NONE 8
18Y C19 C23 SINGLE NONE 9
18Y C1 C20 SINGLE NONE 10
18Y C1 O1 DOUBLE NONE 11
18Y C20 C9 DOUBLE NONE 12
18Y C23 C5 DOUBLE NONE 13
18Y C23 C22 SINGLE NONE 14
18Y C5 C6 SINGLE NONE 15
18Y C9 C22 SINGLE NONE 16
18Y C9 O9 SINGLE NONE 17
18Y "C5'" "C6'" SINGLE BEGINWEDGE 18
18Y C22 C8 DOUBLE NONE 19
18Y "C4'" "O4'" SINGLE BEGINWEDGE 20
18Y C6 C18 SINGLE NONE 21
18Y C6 C7 DOUBLE NONE 22
18Y "O1'" "C5'" SINGLE NONE 23
18Y "O1'" "C1'" SINGLE NONE 24
18Y C8 C7 SINGLE NONE 25
18Y C8 O8 SINGLE NONE 26
18Y "C5'" "C4'" SINGLE NONE 27
18Y C7 C11 SINGLE NONE 28
18Y "C4'" "C7'" SINGLE NONE 29
18Y "C4'" "C3'" SINGLE NONE 30
18Y "C1'" "C2'" SINGLE NONE 31
18Y "C1'" O13 SINGLE BEGINDASH 32
18Y O8 C13 SINGLE NONE 33
18Y "C8'" "C7'" SINGLE NONE 34
18Y C11 C12 SINGLE NONE 35
18Y C11 O11 SINGLE NONE 36
18Y "C2'" "C3'" SINGLE NONE 37
18Y "C7'" "O7'" DOUBLE NONE 38
18Y C12 C13 SINGLE NONE 39
18Y C12 O12 SINGLE NONE 40
18Y "C3'" "O3'" SINGLE BEGINDASH 41
18Y C13 O13 SINGLE BEGINWEDGE 42
18Y C13 C14 SINGLE NONE 43
18Y O12 C15 SINGLE NONE 44
18Y O11 C15 SINGLE NONE 45
18Y C14 C15 SINGLE NONE 46
18Y C14 C17 SINGLE BEGINDASH 47
18Y C14 O14 SINGLE NONE 48
18Y C15 C25 SINGLE BEGINWEDGE 49
18Y C25 O16 SINGLE NONE 50
18Y C25 O26 SINGLE NONE 51
18Y C28 O16 SINGLE NONE 52
18Y O26 C27 SINGLE NONE 53
#
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
18Y MurckoScaffold S1 scaffold 'O=C1CCCc2cc3ccc4c(c3cc21)O[C@@]1(O[C@H]2CCCCO2)CC2O[C@@H]4[C@@H]1O2' InChI=1S/C24H24O6/c25-18-5-3-4-13-10-14-7-8-15-21(17(14)11-16(13)18)30-24(29-19-6-1-2-9-26-19)12-20-27-22(15)23(24)28-20/h7-8,10-11,19-20,22-23H,1-6,9,12H2/t19-,20?,22-,23-,24-/m0/s1 SGVWRQSASLZEFG-GCSFFUMHSA-N
18Y furanose F1 fragment OC1CCCO1 InChI=1S/C4H8O2/c5-4-2-1-3-6-4/h4-5H,1-3H2 JNODDICFTDYODH-UHFFFAOYSA-N
18Y napthalene F2 fragment c1ccc2ccccc2c1 InChI=1S/C10H8/c1-2-6-10-8-4-3-7-9(10)5-1/h1-8H UFWIBTONFRDIAS-UHFFFAOYSA-N
18Y phenyl F3 fragment c1ccccc1 InChI=1S/C6H6/c1-2-4-6-5-3-1/h1-6H UHOVQNZJYSORNB-UHFFFAOYSA-N
18Y pyranose F4 fragment OC1CCCCO1 InChI=1S/C5H10O2/c6-5-3-1-2-4-7-5/h5-6H,1-4H2 CELWCAITJAEQNL-UHFFFAOYSA-N
18Y ribose F5 fragment OCC1OCC(O)C1O InChI=1S/C5H10O4/c6-1-4-5(8)3(7)2-9-4/h3-8H,1-2H2 KZVAAIRBJJYZOW-UHFFFAOYSA-N
18Y tocol F6 fragment c1ccc2c(c1)CCCO2 InChI=1S/C9H10O/c1-2-6-9-8(4-1)5-3-7-10-9/h1-2,4,6H,3,5,7H2 VZWXIQHBIQLMPN-UHFFFAOYSA-N
18Y Z959151866 F7 fragment 'O[C@@H]1CCOc2ccccc21' InChI=1S/C9H10O2/c10-8-5-6-11-9-4-2-1-3-7(8)9/h1-4,8,10H,5-6H2/t8-/m1/s1 MGSHXMOLUWTMGP-MRVPVSSYSA-N
18Y Z335245116 F8 fragment CC(O)c1ccc2ccccc2c1 InChI=1S/C12H12O/c1-9(13)11-7-6-10-4-2-3-5-12(10)8-11/h2-9,13H,1H3 AXRKCRWZRKETCK-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
18Y C3 S1 1
18Y C5 S1 1
18Y O1 S1 1
18Y C1 S1 1
18Y C2 S1 1
18Y C4 S1 1
18Y C6 S1 1
18Y C7 S1 1
18Y O8 S1 1
18Y C8 S1 1
18Y C9 S1 1
18Y C19 S1 1
18Y O11 S1 1
18Y C11 S1 1
18Y O12 S1 1
18Y C12 S1 1
18Y O13 S1 1
18Y C13 S1 1
18Y C14 S1 1
18Y C15 S1 1
18Y "O1'" S1 1
18Y "C1'" S1 1
18Y "C2'" S1 1
18Y "C3'" S1 1
18Y "C4'" S1 1
18Y "C5'" S1 1
18Y C20 S1 1
18Y C21 S1 1
18Y C22 S1 1
18Y C23 S1 1
18Y C13 F1 1
18Y C12 F1 1
18Y O12 F1 1
18Y C15 F1 1
18Y C14 F1 1
18Y O11 F1 1
18Y C6 F2 1
18Y C7 F2 1
18Y C8 F2 1
18Y C22 F2 1
18Y C23 F2 1
18Y C5 F2 1
18Y C19 F2 1
18Y C21 F2 1
18Y C20 F2 1
18Y C9 F2 1
18Y C5 F3 1
18Y C23 F3 1
18Y C22 F3 1
18Y C8 F3 1
18Y C7 F3 1
18Y C6 F3 1
18Y C9 F3 2
18Y C20 F3 2
18Y C21 F3 2
18Y C19 F3 2
18Y C23 F3 2
18Y C22 F3 2
18Y C12 F4 1
18Y C11 F4 1
18Y O11 F4 1
18Y C15 F4 1
18Y C14 F4 1
18Y C13 F4 1
18Y O12 F4 1
18Y "C4'" F4 2
18Y "C5'" F4 2
18Y "O1'" F4 2
18Y "C1'" F4 2
18Y "C2'" F4 2
18Y "C3'" F4 2
18Y O13 F4 2
18Y C13 F5 1
18Y C14 F5 1
18Y C15 F5 1
18Y O12 F5 1
18Y C12 F5 1
18Y C25 F5 1
18Y O16 F5 1
18Y O14 F5 1
18Y O8 F5 1
18Y C13 F5 2
18Y C14 F5 2
18Y C15 F5 2
18Y O12 F5 2
18Y C12 F5 2
18Y C25 F5 2
18Y O16 F5 2
18Y O14 F5 2
18Y O13 F5 2
18Y C13 F5 3
18Y C14 F5 3
18Y C15 F5 3
18Y O12 F5 3
18Y C12 F5 3
18Y C25 F5 3
18Y O26 F5 3
18Y O14 F5 3
18Y O8 F5 3
18Y C13 F5 4
18Y C14 F5 4
18Y C15 F5 4
18Y O12 F5 4
18Y C12 F5 4
18Y C25 F5 4
18Y O26 F5 4
18Y O14 F5 4
18Y O13 F5 4
18Y C14 F5 5
18Y C13 F5 5
18Y C12 F5 5
18Y O12 F5 5
18Y C15 F5 5
18Y C11 F5 5
18Y O11 F5 5
18Y O8 F5 5
18Y O14 F5 5
18Y C14 F5 6
18Y C13 F5 6
18Y C12 F5 6
18Y O12 F5 6
18Y C15 F5 6
18Y C11 F5 6
18Y O11 F5 6
18Y O13 F5 6
18Y O14 F5 6
18Y C5 F6 1
18Y C23 F6 1
18Y C22 F6 1
18Y C8 F6 1
18Y C7 F6 1
18Y C6 F6 1
18Y C11 F6 1
18Y C12 F6 1
18Y C13 F6 1
18Y O8 F6 1
18Y O11 F7 1
18Y C11 F7 1
18Y C12 F7 1
18Y C13 F7 1
18Y O8 F7 1
18Y C8 F7 1
18Y C22 F7 1
18Y C23 F7 1
18Y C5 F7 1
18Y C6 F7 1
18Y C7 F7 1
18Y C12 F8 1
18Y C11 F8 1
18Y O11 F8 1
18Y C7 F8 1
18Y C6 F8 1
18Y C5 F8 1
18Y C23 F8 1
18Y C19 F8 1
18Y C21 F8 1
18Y C20 F8 1
18Y C9 F8 1
18Y C22 F8 1
18Y C8 F8 1
#
_pdbe_chem_comp_rdkit_properties.comp_id 18Y
_pdbe_chem_comp_rdkit_properties.exactmw 660.242
_pdbe_chem_comp_rdkit_properties.amw 660.669
_pdbe_chem_comp_rdkit_properties.lipinskiHBA 14
_pdbe_chem_comp_rdkit_properties.lipinskiHBD 4
_pdbe_chem_comp_rdkit_properties.NumRotatableBonds 18
_pdbe_chem_comp_rdkit_properties.NumHBD 4
_pdbe_chem_comp_rdkit_properties.NumHBA 14
_pdbe_chem_comp_rdkit_properties.NumHeavyAtoms 47
_pdbe_chem_comp_rdkit_properties.NumAtoms 87
_pdbe_chem_comp_rdkit_properties.NumHeteroatoms 14
_pdbe_chem_comp_rdkit_properties.NumAmideBonds 0
_pdbe_chem_comp_rdkit_properties.FractionCSP3 0.636
_pdbe_chem_comp_rdkit_properties.NumRings 7
_pdbe_chem_comp_rdkit_properties.NumAromaticRings 2
_pdbe_chem_comp_rdkit_properties.NumAliphaticRings 5
_pdbe_chem_comp_rdkit_properties.NumSaturatedRings 3
_pdbe_chem_comp_rdkit_properties.NumHeterocycles 4
_pdbe_chem_comp_rdkit_properties.NumAromaticHeterocycles 0
_pdbe_chem_comp_rdkit_properties.NumSaturatedHeterocycles 3
_pdbe_chem_comp_rdkit_properties.NumAliphaticHeterocycles 4
_pdbe_chem_comp_rdkit_properties.NumSpiroAtoms 0
_pdbe_chem_comp_rdkit_properties.NumBridgeheadAtoms 2
_pdbe_chem_comp_rdkit_properties.NumAtomStereoCenters 9
_pdbe_chem_comp_rdkit_properties.NumUnspecifiedAtomStereoCenters 0
_pdbe_chem_comp_rdkit_properties.labuteASA 326.431
_pdbe_chem_comp_rdkit_properties.tpsa 188.900
_pdbe_chem_comp_rdkit_properties.CrippenClogP -0.196
_pdbe_chem_comp_rdkit_properties.CrippenMR 153.964
_pdbe_chem_comp_rdkit_properties.chi0v 22.215
_pdbe_chem_comp_rdkit_properties.chi1v 12.241
_pdbe_chem_comp_rdkit_properties.chi2v 7.512
_pdbe_chem_comp_rdkit_properties.chi3v 7.512
_pdbe_chem_comp_rdkit_properties.chi4v 5.378
_pdbe_chem_comp_rdkit_properties.chi0n 62.215
_pdbe_chem_comp_rdkit_properties.chi1n 31.874
_pdbe_chem_comp_rdkit_properties.chi2n 7.512
_pdbe_chem_comp_rdkit_properties.chi3n 7.512
_pdbe_chem_comp_rdkit_properties.chi4n 5.378
_pdbe_chem_comp_rdkit_properties.hallKierAlpha -2.920
_pdbe_chem_comp_rdkit_properties.kappa1 10.082
_pdbe_chem_comp_rdkit_properties.kappa2 10.538
_pdbe_chem_comp_rdkit_properties.kappa3 3.869
_pdbe_chem_comp_rdkit_properties.Phi 2.261
#
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
18Y UniChem PDBe 18Y
18Y UniChem ZINC ZINC000098207933
18Y UniChem PubChem 71741437
#
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
18Y C3 5.011 -5.192 0.479 ETKDGv3 1
18Y C5 4.336 0.882 -0.394 ETKDGv3 2
18Y O1 1.779 -4.633 1.903 ETKDGv3 3
18Y "C7'" -5.789 -2.264 -0.863 ETKDGv3 4
18Y "O7'" -6.165 -1.629 0.112 ETKDGv3 5
18Y "C8'" -6.800 -3.137 -1.558 ETKDGv3 6
18Y C1 2.937 -4.310 1.521 ETKDGv3 7
18Y C2 4.030 -5.329 1.637 ETKDGv3 8
18Y C4 5.639 -3.798 0.465 ETKDGv3 9
18Y C6 3.319 1.943 -0.564 ETKDGv3 10
18Y C7 2.011 1.635 -0.397 ETKDGv3 11
18Y O8 0.281 0.027 0.357 ETKDGv3 12
18Y C8 1.633 0.301 0.140 ETKDGv3 13
18Y O9 1.114 -2.179 1.735 ETKDGv3 14
18Y C9 2.300 -1.957 1.028 ETKDGv3 15
18Y O10 6.261 -1.249 -0.475 ETKDGv3 16
18Y C19 4.959 -1.468 -0.011 ETKDGv3 17
18Y O11 0.645 3.417 0.472 ETKDGv3 18
18Y C11 0.911 2.637 -0.667 ETKDGv3 19
18Y O12 -1.267 3.068 -0.665 ETKDGv3 20
18Y C12 -0.436 2.006 -0.969 ETKDGv3 21
18Y O13 -1.980 0.267 -0.223 ETKDGv3 22
18Y C13 -0.786 0.960 0.116 ETKDGv3 23
18Y O14 -2.411 1.819 1.708 ETKDGv3 24
18Y C14 -1.053 1.909 1.331 ETKDGv3 25
18Y C15 -0.760 3.271 0.623 ETKDGv3 26
18Y C25 -1.362 4.550 1.248 ETKDGv3 27
18Y "O1'" -2.749 -0.500 -2.288 ETKDGv3 28
18Y "C1'" -1.801 -0.703 -1.251 ETKDGv3 29
18Y "C2'" -1.907 -2.126 -0.673 ETKDGv3 30
18Y "O3'" -3.629 -1.678 0.945 ETKDGv3 31
18Y "C3'" -3.339 -2.432 -0.207 ETKDGv3 32
18Y "O4'" -4.093 -2.969 -2.443 ETKDGv3 33
18Y "C4'" -4.343 -2.108 -1.353 ETKDGv3 34
18Y "C5'" -4.085 -0.646 -1.827 ETKDGv3 35
18Y "C6'" -5.021 -0.238 -2.971 ETKDGv3 36
18Y C20 3.227 -2.947 0.980 ETKDGv3 37
18Y C21 4.597 -2.694 0.421 ETKDGv3 38
18Y C18 3.776 3.303 -1.023 ETKDGv3 39
18Y C22 2.583 -0.631 0.395 ETKDGv3 40
18Y C23 3.983 -0.354 -0.006 ETKDGv3 41
18Y C24 6.560 -1.211 -1.867 ETKDGv3 42
18Y O26 -2.781 4.484 1.204 ETKDGv3 43
18Y C27 -3.301 5.397 0.263 ETKDGv3 44
18Y C28 -1.189 5.945 3.090 ETKDGv3 45
18Y C17 -0.147 1.631 2.559 ETKDGv3 46
18Y O16 -0.933 4.650 2.591 ETKDGv3 47
18Y H3A 5.813 -5.954 0.586 ETKDGv3 48
18Y H3B 4.487 -5.378 -0.485 ETKDGv3 49
18Y H5 5.366 1.110 -0.637 ETKDGv3 50
18Y "H81'" -7.728 -2.554 -1.739 ETKDGv3 51
18Y "H82'" -7.043 -4.005 -0.910 ETKDGv3 52
18Y "H83'" -6.445 -3.509 -2.539 ETKDGv3 53
18Y H2B 4.559 -5.189 2.604 ETKDGv3 54
18Y H2A 3.596 -6.353 1.623 ETKDGv3 55
18Y H4A 6.310 -3.746 -0.419 ETKDGv3 56
18Y H4B 6.264 -3.665 1.375 ETKDGv3 57
18Y H9 0.546 -1.439 2.119 ETKDGv3 58
18Y H11 1.177 3.304 -1.517 ETKDGv3 59
18Y H12 -0.545 1.669 -2.021 ETKDGv3 60
18Y H1 -2.542 2.339 2.542 ETKDGv3 61
18Y H16 -0.936 5.402 0.654 ETKDGv3 62
18Y "H1'" -0.799 -0.638 -1.734 ETKDGv3 63
18Y "H2'" -1.198 -2.247 0.173 ETKDGv3 64
18Y H2 -1.612 -2.858 -1.457 ETKDGv3 65
18Y HO3 -3.142 -2.102 1.699 ETKDGv3 66
18Y "H3'" -3.410 -3.517 0.043 ETKDGv3 67
18Y "H4'" -4.141 -3.906 -2.117 ETKDGv3 68
18Y "H5'" -4.287 0.064 -0.992 ETKDGv3 69
18Y "H61'" -6.081 -0.251 -2.641 ETKDGv3 70
18Y "H62'" -4.780 0.796 -3.298 ETKDGv3 71
18Y "H63'" -4.901 -0.917 -3.841 ETKDGv3 72
18Y H61A 3.554 3.428 -2.103 ETKDGv3 73
18Y H63A 4.869 3.428 -0.872 ETKDGv3 74
18Y H62A 3.268 4.101 -0.441 ETKDGv3 75
18Y H111 6.311 -2.186 -2.336 ETKDGv3 76
18Y H112 7.643 -1.013 -2.002 ETKDGv3 77
18Y H113 5.982 -0.408 -2.370 ETKDGv3 78
18Y H62B -3.074 6.445 0.560 ETKDGv3 79
18Y H63B -2.911 5.190 -0.758 ETKDGv3 80
18Y H61B -4.404 5.285 0.233 ETKDGv3 81
18Y H63C -2.276 6.177 3.077 ETKDGv3 82
18Y H61C -0.618 6.715 2.525 ETKDGv3 83
18Y H62C -0.852 5.989 4.145 ETKDGv3 84
18Y H171 0.931 1.721 2.319 ETKDGv3 85
18Y H172 -0.366 2.340 3.382 ETKDGv3 86
18Y H3 -0.344 0.609 2.943 ETKDGv3 87
#