data_SY7 # _chem_comp.id SY7 _chem_comp.name "2-methoxy-4-[[(4~{S},5~{S})-2,4,5-tris(2-methoxypyridin-4-yl)imidazolidin-1-yl]methyl]pyridine" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H30 N6 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-03-13 _chem_comp.pdbx_modified_date 2020-05-29 _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 514.576 _chem_comp.one_letter_code ? _chem_comp.three_letter_code SY7 _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 5R0B _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.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 SY7 O3 O1 O 0 1 N N N 32.704 15.016 49.380 -1.528 -5.268 -1.195 O3 SY7 1 SY7 C4 C1 C 0 1 N N N 32.018 10.588 44.517 0.703 -1.508 -1.122 C4 SY7 2 SY7 C5 C2 C 0 1 N N S 33.351 12.316 43.584 0.476 0.902 -1.376 C5 SY7 3 SY7 C6 C3 C 0 1 Y N N 34.810 11.887 43.686 1.978 0.839 -1.479 C6 SY7 4 SY7 N1 N1 N 0 1 Y N N 37.397 11.155 44.304 4.706 0.719 -1.673 N1 SY7 5 SY7 C7 C4 C 0 1 Y N N 35.797 12.818 43.916 2.592 0.002 -2.401 C7 SY7 6 SY7 C8 C5 C 0 1 Y N N 37.037 12.406 44.216 3.970 -0.033 -2.470 C8 SY7 7 SY7 N2 N2 N 0 1 N N N 33.053 13.361 43.051 0.061 1.179 0.023 N2 SY7 8 SY7 C9 C6 C 0 1 Y N N 36.492 10.272 44.022 4.159 1.532 -0.786 C9 SY7 9 SY7 C10 C7 C 0 1 N N N 36.135 7.915 44.138 6.365 2.149 -0.158 C10 SY7 10 SY7 C11 C8 C 0 1 Y N N 35.181 10.575 43.708 2.778 1.618 -0.661 C11 SY7 11 SY7 C12 C9 C 0 1 N N S 32.393 13.998 44.185 -1.329 0.672 0.104 C12 SY7 12 SY7 N3 N3 N 0 1 Y N N 30.429 17.495 42.846 -4.079 3.834 -0.568 N3 SY7 13 SY7 C13 C10 C 0 1 Y N N 31.691 15.210 43.730 -2.307 1.794 -0.133 C13 SY7 14 SY7 C14 C11 C 0 1 Y N N 32.311 16.425 43.821 -2.015 2.813 -1.029 C14 SY7 15 SY7 C15 C12 C 0 1 Y N N 31.629 17.535 43.410 -2.933 3.826 -1.222 C15 SY7 16 SY7 N4 N4 N 0 1 Y N N 32.916 13.010 49.001 -2.381 -4.173 0.660 N4 SY7 17 SY7 C24 C13 C 0 1 N N N 31.805 16.101 49.638 -1.880 -6.493 -0.548 C24 SY7 18 SY7 C23 C14 C 0 1 Y N N 32.343 14.073 48.502 -1.808 -4.119 -0.531 C23 SY7 19 SY7 C22 C15 C 0 1 Y N N 32.718 11.887 48.345 -2.670 -3.080 1.340 C22 SY7 20 SY7 C21 C16 C 0 1 Y N N 32.020 11.798 47.185 -2.381 -1.831 0.827 C21 SY7 21 SY7 C25 C17 C 0 1 Y N N 31.594 14.086 47.312 -1.490 -2.896 -1.108 C25 SY7 22 SY7 C20 C18 C 0 1 Y N N 31.575 12.931 46.543 -1.780 -1.731 -0.420 C20 SY7 23 SY7 C19 C19 C 0 1 N N S 31.497 13.019 44.983 -1.451 -0.384 -1.011 C19 SY7 24 SY7 C18 C20 C 0 1 Y N N 30.454 15.147 43.152 -3.518 1.831 0.537 C18 SY7 25 SY7 C16 C21 C 0 1 Y N N 29.900 16.310 42.706 -4.394 2.881 0.292 C16 SY7 26 SY7 O2 O2 O 0 1 N N N 28.834 16.126 41.962 -5.583 2.929 0.943 O2 SY7 27 SY7 C17 C22 C 0 1 N N N 28.225 17.259 41.423 -6.440 4.034 0.649 C17 SY7 28 SY7 O1 O3 O 0 1 N N N 37.012 9.041 44.118 4.953 2.287 0.014 O1 SY7 29 SY7 N N5 N 0 1 N N N 32.090 11.944 44.181 -0.123 -0.425 -1.669 N SY7 30 SY7 C3 C23 C 0 1 Y N N 31.431 9.743 43.491 1.101 -1.171 0.292 C3 SY7 31 SY7 C2 C24 C 0 1 Y N N 30.535 10.166 42.541 2.283 -0.500 0.554 C2 SY7 32 SY7 C26 C25 C 0 1 Y N N 31.470 8.444 43.799 0.288 -1.521 1.362 C26 SY7 33 SY7 C27 C26 C 0 1 Y N N 30.543 7.626 43.298 0.682 -1.197 2.644 C27 SY7 34 SY7 N5 N6 N 0 1 Y N N 29.607 7.994 42.457 1.818 -0.562 2.863 N5 SY7 35 SY7 C1 C27 C 0 1 Y N N 29.652 9.238 42.042 2.614 -0.202 1.870 C1 SY7 36 SY7 O O4 O 0 1 N N N 28.881 9.561 40.996 3.773 0.450 2.140 O SY7 37 SY7 C C28 C 0 1 N N N 28.055 8.580 40.483 4.065 0.711 3.514 C SY7 38 SY7 H4 H1 H 0 1 N N N 31.411 10.492 45.430 0.134 -2.438 -1.127 H4 SY7 39 SY7 H5 H2 H 0 1 N N N 33.039 10.229 44.716 1.598 -1.627 -1.732 H5 SY7 40 SY7 H6 H3 H 0 1 N N N 33.174 11.715 42.680 0.079 1.660 -2.052 H6 SY7 41 SY7 H7 H4 H 0 1 N N N 35.574 13.873 43.855 1.997 -0.617 -3.057 H7 SY7 42 SY7 H8 H5 H 0 1 N N N 37.788 13.160 44.397 4.452 -0.683 -3.185 H8 SY7 43 SY7 H30 H6 H 0 1 N N N 33.857 13.872 42.747 0.659 0.699 0.679 H30 SY7 44 SY7 H11 H8 H 0 1 N N N 36.726 6.991 44.220 6.635 2.421 -1.179 H11 SY7 45 SY7 H9 H9 H 0 1 N N N 35.457 7.994 45.000 6.882 2.806 0.541 H9 SY7 46 SY7 H10 H10 H 0 1 N N N 35.546 7.892 43.209 6.655 1.116 0.031 H10 SY7 47 SY7 H12 H11 H 0 1 N N N 34.469 9.794 43.486 2.334 2.284 0.064 H12 SY7 48 SY7 H14 H12 H 0 1 N N N 33.182 14.325 44.878 -1.508 0.214 1.077 H14 SY7 49 SY7 H15 H13 H 0 1 N N N 33.316 16.505 44.209 -1.079 2.815 -1.568 H15 SY7 50 SY7 H16 H14 H 0 1 N N N 32.093 18.500 43.552 -2.711 4.621 -1.918 H16 SY7 51 SY7 H25 H15 H 0 1 N N N 32.253 16.781 50.378 -1.603 -7.333 -1.185 H25 SY7 52 SY7 H24 H16 H 0 1 N N N 31.615 16.650 48.704 -1.350 -6.567 0.402 H24 SY7 53 SY7 H26 H17 H 0 1 N N N 30.856 15.706 50.030 -2.954 -6.513 -0.367 H26 SY7 54 SY7 H23 H18 H 0 1 N N N 33.137 10.980 48.755 -3.137 -3.163 2.310 H23 SY7 55 SY7 H22 H19 H 0 1 N N N 31.811 10.827 46.761 -2.622 -0.941 1.390 H22 SY7 56 SY7 H27 H20 H 0 1 N N N 31.050 14.968 47.006 -1.021 -2.856 -2.080 H27 SY7 57 SY7 H21 H21 H 0 1 N N N 30.448 13.174 44.689 -2.219 -0.090 -1.727 H21 SY7 58 SY7 H20 H22 H 0 1 N N N 29.933 14.207 43.052 -3.777 1.054 1.241 H20 SY7 59 SY7 H18 H23 H 0 1 N N N 27.351 16.958 40.827 -5.931 4.965 0.899 H18 SY7 60 SY7 H19 H24 H 0 1 N N N 27.902 17.924 42.237 -6.687 4.029 -0.413 H19 SY7 61 SY7 H17 H25 H 0 1 N N N 28.942 17.790 40.780 -7.355 3.951 1.235 H17 SY7 62 SY7 H3 H27 H 0 1 N N N 30.524 11.190 42.198 2.940 -0.213 -0.254 H3 SY7 63 SY7 H28 H28 H 0 1 N N N 32.244 8.060 44.447 -0.643 -2.041 1.191 H28 SY7 64 SY7 H29 H29 H 0 1 N N N 30.565 6.591 43.606 0.053 -1.467 3.480 H29 SY7 65 SY7 H1 H30 H 0 1 N N N 27.486 8.986 39.634 3.275 1.328 3.943 H1 SY7 66 SY7 H2 H31 H 0 1 N N N 28.664 7.729 40.143 4.125 -0.232 4.058 H2 SY7 67 SY7 H H32 H 0 1 N N N 27.358 8.243 41.264 5.017 1.235 3.590 H SY7 68 # # 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 SY7 C O SING N N 1 SY7 O C1 SING N N 2 SY7 C17 O2 SING N N 3 SY7 O2 C16 SING N N 4 SY7 C1 N5 DOUB Y N 5 SY7 C1 C2 SING Y N 6 SY7 N5 C27 SING Y N 7 SY7 C2 C3 DOUB Y N 8 SY7 C16 N3 DOUB Y N 9 SY7 C16 C18 SING Y N 10 SY7 N3 C15 SING Y N 11 SY7 N2 C5 SING N N 12 SY7 N2 C12 SING N N 13 SY7 C18 C13 DOUB Y N 14 SY7 C27 C26 DOUB Y N 15 SY7 C15 C14 DOUB Y N 16 SY7 C3 C26 SING Y N 17 SY7 C3 C4 SING N N 18 SY7 C5 C6 SING N N 19 SY7 C5 N SING N N 20 SY7 C6 C11 DOUB Y N 21 SY7 C6 C7 SING Y N 22 SY7 C11 C9 SING Y N 23 SY7 C13 C14 SING Y N 24 SY7 C13 C12 SING N N 25 SY7 C7 C8 DOUB Y N 26 SY7 C9 O1 SING N N 27 SY7 C9 N1 DOUB Y N 28 SY7 O1 C10 SING N N 29 SY7 N C4 SING N N 30 SY7 N C19 SING N N 31 SY7 C12 C19 SING N N 32 SY7 C8 N1 SING Y N 33 SY7 C19 C20 SING N N 34 SY7 C20 C21 DOUB Y N 35 SY7 C20 C25 SING Y N 36 SY7 C21 C22 SING Y N 37 SY7 C25 C23 DOUB Y N 38 SY7 C22 N4 DOUB Y N 39 SY7 C23 N4 SING Y N 40 SY7 C23 O3 SING N N 41 SY7 O3 C24 SING N N 42 SY7 C4 H4 SING N N 43 SY7 C4 H5 SING N N 44 SY7 C5 H6 SING N N 45 SY7 C7 H7 SING N N 46 SY7 C8 H8 SING N N 47 SY7 N2 H30 SING N N 48 SY7 C10 H11 SING N N 49 SY7 C10 H9 SING N N 50 SY7 C10 H10 SING N N 51 SY7 C11 H12 SING N N 52 SY7 C12 H14 SING N N 53 SY7 C14 H15 SING N N 54 SY7 C15 H16 SING N N 55 SY7 C24 H25 SING N N 56 SY7 C24 H24 SING N N 57 SY7 C24 H26 SING N N 58 SY7 C22 H23 SING N N 59 SY7 C21 H22 SING N N 60 SY7 C25 H27 SING N N 61 SY7 C19 H21 SING N N 62 SY7 C18 H20 SING N N 63 SY7 C17 H18 SING N N 64 SY7 C17 H19 SING N N 65 SY7 C17 H17 SING N N 66 SY7 C2 H3 SING N N 67 SY7 C26 H28 SING N N 68 SY7 C27 H29 SING N N 69 SY7 C H1 SING N N 70 SY7 C H2 SING N N 71 SY7 C H SING N N 72 # # 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 SY7 InChI InChI 1.03 "InChI=1S/C28H30N6O4/c1-35-22-13-18(5-9-29-22)17-34-27(20-7-11-31-24(15-20)37-3)26(19-6-10-30-23(14-19)36-2)33-28(34)21-8-12-32-25(16-21)38-4/h5-16,26-28,33H,17H2,1-4H3/t26-,27-,28-/m0/s1" SY7 InChIKey InChI 1.03 ARYKHOLWXLNZJK-KCHLEUMXSA-N SY7 SMILES_CANONICAL CACTVS 3.385 "COc1cc(CN2[C@H](N[C@H]([C@@H]2c3ccnc(OC)c3)c4ccnc(OC)c4)c5ccnc(OC)c5)ccn1" SY7 SMILES CACTVS 3.385 "COc1cc(CN2[CH](N[CH]([CH]2c3ccnc(OC)c3)c4ccnc(OC)c4)c5ccnc(OC)c5)ccn1" SY7 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "COc1cc(ccn1)CN2[C@H]([C@@H](NC2c3ccnc(c3)OC)c4ccnc(c4)OC)c5ccnc(c5)OC" SY7 SMILES "OpenEye OEToolkits" 2.0.6 "COc1cc(ccn1)CN2C(C(NC2c3ccnc(c3)OC)c4ccnc(c4)OC)c5ccnc(c5)OC" # _pdbx_chem_comp_identifier.comp_id SY7 _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.6 _pdbx_chem_comp_identifier.identifier "2-methoxy-4-[[(4~{S},5~{S})-2,4,5-tris(2-methoxypyridin-4-yl)imidazolidin-1-yl]methyl]pyridine" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site SY7 "Create component" 2020-03-13 RCSB SY7 "Initial release" 2020-06-03 RCSB ##