data_V9T # _chem_comp.id V9T _chem_comp.name "4-[[(3S)-3-cyclopropyl-2-azaspiro[3.3]heptan-2-yl]methyl]-N-[[(3R)-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-2-oxidanyl-benzamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H38 N6 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-05-03 _chem_comp.pdbx_modified_date 2021-10-15 _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 506.640 _chem_comp.one_letter_code ? _chem_comp.three_letter_code V9T _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 7OEJ _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # # 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 V9T C10 C1 C 0 1 N N N -11.577 18.938 -11.579 4.643 -0.664 -0.080 C10 V9T 1 V9T C15 C2 C 0 1 Y N N -14.497 22.554 -13.506 -1.499 -1.435 0.585 C15 V9T 2 V9T C17 C3 C 0 1 Y N N -15.665 24.043 -15.089 -3.062 0.306 1.131 C17 V9T 3 V9T C21 C4 C 0 1 N N S -20.132 23.806 -16.312 -7.421 0.958 0.293 C21 V9T 4 V9T C22 C5 C 0 1 N N N -20.956 22.679 -16.776 -7.371 2.472 0.076 C22 V9T 5 V9T C24 C6 C 0 1 N N N -20.828 21.908 -18.112 -6.781 3.328 1.198 C24 V9T 6 V9T C26 C7 C 0 1 N N N -21.202 25.870 -15.099 -9.441 -0.214 -0.996 C26 V9T 7 V9T C28 C8 C 0 1 N N N -21.280 24.068 -13.854 -8.104 0.827 -2.282 C28 V9T 8 V9T C01 C9 C 0 1 N N N -7.764 13.810 -14.107 10.005 2.909 0.039 C01 V9T 9 V9T C03 C10 C 0 1 Y N N -9.201 14.467 -11.999 9.196 0.604 -0.323 C03 V9T 10 V9T C04 C11 C 0 1 Y N N -9.529 15.805 -12.449 7.893 1.038 -0.102 C04 V9T 11 V9T C05 C12 C 0 1 Y N N -10.219 16.721 -11.616 6.866 0.102 -0.174 C05 V9T 12 V9T C07 C13 C 0 1 N N N -9.786 18.713 -13.248 5.162 1.564 -0.878 C07 V9T 13 V9T C08 C14 C 0 1 N N N -9.306 20.178 -12.888 3.758 2.059 -0.520 C08 V9T 14 V9T C09 C15 C 0 1 N N N -10.383 21.068 -12.273 2.770 0.894 -0.626 C09 V9T 15 V9T C11 C16 C 0 1 N N R -11.089 20.362 -11.091 3.224 -0.236 0.301 C11 V9T 16 V9T C12 C17 C 0 1 N N N -12.293 21.191 -10.567 2.275 -1.428 0.157 C12 V9T 17 V9T C14 C18 C 0 1 N N N -13.416 22.375 -12.530 -0.114 -1.876 0.334 C14 V9T 18 V9T C16 C19 C 0 1 Y N N -14.669 23.758 -14.150 -1.765 -0.100 0.898 C16 V9T 19 V9T C18 C20 C 0 1 Y N N -16.595 23.043 -15.440 -4.103 -0.604 1.057 C18 V9T 20 V9T C19 C21 C 0 1 N N N -17.702 23.306 -16.375 -5.516 -0.148 1.314 C19 V9T 21 V9T C23 C22 C 0 1 N N N -22.051 22.756 -17.832 -8.289 3.340 0.939 C23 V9T 22 V9T C25 C23 C 0 1 N N N -20.432 24.533 -15.050 -7.972 0.189 -0.902 C25 V9T 23 V9T C27 C24 C 0 1 N N N -22.229 25.277 -14.102 -9.267 -0.152 -2.525 C27 V9T 24 V9T C29 C25 C 0 1 N N N -18.984 24.443 -14.666 -6.877 -0.821 -0.581 C29 V9T 25 V9T C30 C26 C 0 1 Y N N -16.474 21.819 -14.807 -3.854 -1.926 0.743 C30 V9T 26 V9T C31 C27 C 0 1 Y N N -15.461 21.548 -13.873 -2.556 -2.352 0.505 C31 V9T 27 V9T C36 C28 C 0 1 Y N N -10.209 15.055 -10.009 8.412 -1.538 -0.652 C36 V9T 28 V9T N02 N1 N 0 1 N N N -8.514 13.534 -12.823 10.255 1.497 -0.259 N02 V9T 29 V9T N06 N2 N 0 1 N N N -10.535 18.040 -12.111 5.550 0.484 0.038 N06 V9T 30 V9T N13 N3 N 0 1 N N N -13.350 21.358 -11.525 0.899 -0.990 0.406 N13 V9T 31 V9T N20 N4 N 0 1 N N N -18.923 23.215 -15.586 -6.128 0.285 0.051 N20 V9T 32 V9T N35 N5 N 0 1 Y N N -10.561 16.317 -10.353 7.165 -1.166 -0.449 N35 V9T 33 V9T N37 N6 N 0 1 Y N N -9.566 14.120 -10.737 9.412 -0.682 -0.594 N37 V9T 34 V9T O32 O1 O 0 1 N N N -15.348 20.309 -13.263 -2.311 -3.650 0.196 O32 V9T 35 V9T O33 O2 O 0 1 N N N -12.499 23.213 -12.543 0.114 -3.039 0.062 O33 V9T 36 V9T O34 O3 O 0 1 N N N -10.195 20.207 -10.022 3.211 0.223 1.654 O34 V9T 37 V9T H1 H1 H 0 1 N N N -12.324 19.093 -12.372 4.974 -1.459 0.588 H1 V9T 38 V9T H2 H2 H 0 1 N N N -12.050 18.434 -10.723 4.649 -1.027 -1.108 H2 V9T 39 V9T H3 H3 H 0 1 N N N -15.722 25.022 -15.542 -3.266 1.338 1.373 H3 V9T 40 V9T H4 H4 H 0 1 N N N -19.832 24.481 -17.128 -7.885 0.682 1.240 H4 V9T 41 V9T H5 H5 H 0 1 N N N -21.237 22.003 -15.955 -7.192 2.794 -0.950 H5 V9T 42 V9T H6 H6 H 0 1 N N N -20.909 20.811 -18.125 -6.428 2.812 2.092 H6 V9T 43 V9T H7 H7 H 0 1 N N N -20.095 22.230 -18.866 -6.214 4.213 0.911 H7 V9T 44 V9T H8 H8 H 0 1 N N N -20.639 26.732 -14.712 -9.645 -1.216 -0.618 H8 V9T 45 V9T H9 H9 H 0 1 N N N -21.619 26.118 -16.086 -10.127 0.537 -0.603 H9 V9T 46 V9T H10 H10 H 0 1 N N N -21.753 23.084 -13.988 -8.411 1.873 -2.253 H10 V9T 47 V9T H11 H11 H 0 1 N N N -20.755 24.094 -12.888 -7.242 0.656 -2.928 H11 V9T 48 V9T H12 H12 H 0 1 N N N -7.346 12.870 -14.497 9.352 3.332 -0.724 H12 V9T 49 V9T H13 H13 H 0 1 N N N -8.453 14.241 -14.848 9.528 2.996 1.015 H13 V9T 50 V9T H14 H14 H 0 1 N N N -6.947 14.520 -13.909 10.951 3.451 0.048 H14 V9T 51 V9T H15 H15 H 0 1 N N N -9.241 16.112 -13.444 7.684 2.075 0.119 H15 V9T 52 V9T H16 H16 H 0 1 N N N -10.451 18.767 -14.123 5.165 1.191 -1.902 H16 V9T 53 V9T H17 H17 H 0 1 N N N -8.903 18.105 -13.495 5.870 2.388 -0.790 H17 V9T 54 V9T H18 H18 H 0 1 N N N -8.475 20.100 -12.171 3.757 2.445 0.499 H18 V9T 55 V9T H19 H19 H 0 1 N N N -8.950 20.659 -13.811 3.464 2.849 -1.211 H19 V9T 56 V9T H20 H20 H 0 1 N N N -9.917 21.996 -11.909 1.776 1.231 -0.331 H20 V9T 57 V9T H21 H21 H 0 1 N N N -11.130 21.311 -13.043 2.742 0.532 -1.654 H21 V9T 58 V9T H22 H22 H 0 1 N N N -11.927 22.188 -10.279 2.350 -1.832 -0.853 H22 V9T 59 V9T H23 H23 H 0 1 N N N -12.705 20.682 -9.683 2.547 -2.199 0.878 H23 V9T 60 V9T H24 H24 H 0 1 N N N -13.976 24.550 -13.910 -0.956 0.613 0.958 H24 V9T 61 V9T H25 H25 H 0 1 N N N -17.710 22.556 -17.179 -6.093 -0.973 1.734 H25 V9T 62 V9T H26 H26 H 0 1 N N N -17.603 24.311 -16.812 -5.507 0.684 2.018 H26 V9T 63 V9T H27 H27 H 0 1 N N N -22.207 23.691 -18.390 -8.714 4.233 0.481 H27 V9T 64 V9T H28 H28 H 0 1 N N N -23.022 22.272 -17.649 -8.928 2.832 1.662 H28 V9T 65 V9T H29 H29 H 0 1 N N N -22.405 25.901 -13.213 -8.954 -1.099 -2.966 H29 V9T 66 V9T H30 H30 H 0 1 N N N -23.193 25.006 -14.557 -10.114 0.297 -3.042 H30 V9T 67 V9T H31 H31 H 0 1 N N N -18.798 24.235 -13.602 -7.189 -1.593 0.122 H31 V9T 68 V9T H32 H32 H 0 1 N N N -18.365 25.294 -14.987 -6.388 -1.228 -1.466 H32 V9T 69 V9T H33 H33 H 0 1 N N N -17.186 21.041 -15.040 -4.672 -2.630 0.687 H33 V9T 70 V9T H34 H34 H 0 1 N N N -10.483 14.755 -9.008 8.622 -2.574 -0.873 H34 V9T 71 V9T H35 H35 H 0 1 N N N -9.207 12.858 -13.073 11.161 1.186 -0.410 H35 V9T 72 V9T H36 H36 H 0 1 N N N -14.107 20.706 -11.486 0.718 -0.062 0.623 H36 V9T 73 V9T H38 H38 H 0 1 N N N -14.609 20.315 -12.667 -2.336 -3.840 -0.751 H38 V9T 74 V9T H39 H39 H 0 1 N N N -10.635 19.773 -9.301 2.342 0.511 1.964 H39 V9T 75 # # 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 V9T C24 C23 SING N N 1 V9T C24 C22 SING N N 2 V9T C23 C22 SING N N 3 V9T C22 C21 SING N N 4 V9T C19 N20 SING N N 5 V9T C19 C18 SING N N 6 V9T C21 N20 SING N N 7 V9T C21 C25 SING N N 8 V9T N20 C29 SING N N 9 V9T C18 C17 DOUB Y N 10 V9T C18 C30 SING Y N 11 V9T C26 C25 SING N N 12 V9T C26 C27 SING N N 13 V9T C17 C16 SING Y N 14 V9T C25 C29 SING N N 15 V9T C25 C28 SING N N 16 V9T C30 C31 DOUB Y N 17 V9T C16 C15 DOUB Y N 18 V9T C01 N02 SING N N 19 V9T C27 C28 SING N N 20 V9T C31 C15 SING Y N 21 V9T C31 O32 SING N N 22 V9T C15 C14 SING N N 23 V9T C07 C08 SING N N 24 V9T C07 N06 SING N N 25 V9T C08 C09 SING N N 26 V9T N02 C03 SING N N 27 V9T O33 C14 DOUB N N 28 V9T C14 N13 SING N N 29 V9T C04 C03 DOUB Y N 30 V9T C04 C05 SING Y N 31 V9T C09 C11 SING N N 32 V9T N06 C05 SING N N 33 V9T N06 C10 SING N N 34 V9T C03 N37 SING Y N 35 V9T C05 N35 DOUB Y N 36 V9T C10 C11 SING N N 37 V9T N13 C12 SING N N 38 V9T C11 C12 SING N N 39 V9T C11 O34 SING N N 40 V9T N37 C36 DOUB Y N 41 V9T N35 C36 SING Y N 42 V9T C10 H1 SING N N 43 V9T C10 H2 SING N N 44 V9T C17 H3 SING N N 45 V9T C21 H4 SING N N 46 V9T C22 H5 SING N N 47 V9T C24 H6 SING N N 48 V9T C24 H7 SING N N 49 V9T C26 H8 SING N N 50 V9T C26 H9 SING N N 51 V9T C28 H10 SING N N 52 V9T C28 H11 SING N N 53 V9T C01 H12 SING N N 54 V9T C01 H13 SING N N 55 V9T C01 H14 SING N N 56 V9T C04 H15 SING N N 57 V9T C07 H16 SING N N 58 V9T C07 H17 SING N N 59 V9T C08 H18 SING N N 60 V9T C08 H19 SING N N 61 V9T C09 H20 SING N N 62 V9T C09 H21 SING N N 63 V9T C12 H22 SING N N 64 V9T C12 H23 SING N N 65 V9T C16 H24 SING N N 66 V9T C19 H25 SING N N 67 V9T C19 H26 SING N N 68 V9T C23 H27 SING N N 69 V9T C23 H28 SING N N 70 V9T C27 H29 SING N N 71 V9T C27 H30 SING N N 72 V9T C29 H31 SING N N 73 V9T C29 H32 SING N N 74 V9T C30 H33 SING N N 75 V9T C36 H34 SING N N 76 V9T N02 H35 SING N N 77 V9T N13 H36 SING N N 78 V9T O32 H38 SING N N 79 V9T O34 H39 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 V9T InChI InChI 1.03 "InChI=1S/C28H38N6O3/c1-29-23-13-24(32-18-31-23)33-11-3-10-28(37,17-33)15-30-26(36)21-7-4-19(12-22(21)35)14-34-16-27(8-2-9-27)25(34)20-5-6-20/h4,7,12-13,18,20,25,35,37H,2-3,5-6,8-11,14-17H2,1H3,(H,30,36)(H,29,31,32)/t25-,28+/m0/s1" V9T InChIKey InChI 1.03 JWBZACHWPMPYIU-LBNVMWSVSA-N V9T SMILES_CANONICAL CACTVS 3.385 "CNc1cc(ncn1)N2CCC[C@@](O)(CNC(=O)c3ccc(CN4CC5(CCC5)[C@@H]4C6CC6)cc3O)C2" V9T SMILES CACTVS 3.385 "CNc1cc(ncn1)N2CCC[C](O)(CNC(=O)c3ccc(CN4CC5(CCC5)[CH]4C6CC6)cc3O)C2" V9T SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CNc1cc(ncn1)N2CCC[C@](C2)(CNC(=O)c3ccc(cc3O)CN4CC5([C@@H]4C6CC6)CCC5)O" V9T SMILES "OpenEye OEToolkits" 2.0.7 "CNc1cc(ncn1)N2CCCC(C2)(CNC(=O)c3ccc(cc3O)CN4CC5(C4C6CC6)CCC5)O" # _pdbx_chem_comp_identifier.comp_id V9T _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "4-[[(3~{S})-3-cyclopropyl-2-azaspiro[3.3]heptan-2-yl]methyl]-~{N}-[[(3~{R})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-2-oxidanyl-benzamide" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site V9T "Create component" 2021-05-03 PDBE V9T "Modify name" 2021-10-02 PDBE V9T "Initial release" 2021-10-20 RCSB ##