data_UDK # _chem_comp.id UDK _chem_comp.name "(R)-N-((3-hydroxy-1-(6-(methylamino)pyrimidin-4-yl)piperidin-3-yl)methyl)-4-((4-methylpiperidin-1-yl)methyl)benzamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C25 H36 N6 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "~{N}-[[(3~{R})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-4-[(4-methylpiperidin-1-yl)methyl]benzamide" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-02-10 _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 452.592 _chem_comp.one_letter_code ? _chem_comp.three_letter_code UDK _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 7NHH _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 UDK C10 C1 C 0 1 Y N N -16.333 23.754 -13.904 3.751 -0.472 1.120 C10 UDK 1 UDK C13 C2 C 0 1 N N N -13.620 22.147 -11.935 0.501 -0.703 -0.749 C13 UDK 2 UDK C15 C3 C 0 1 N N N -12.392 20.931 -10.153 -1.634 0.445 -0.503 C15 UDK 3 UDK C17 C4 C 0 1 N N N -10.456 20.894 -11.712 -2.118 1.086 1.865 C17 UDK 4 UDK C20 C5 C 0 1 N N N -11.818 18.816 -11.321 -3.738 1.673 0.057 C20 UDK 5 UDK C22 C6 C 0 1 Y N N -10.381 16.771 -11.573 -5.751 0.472 -0.144 C22 UDK 6 UDK C24 C7 C 0 1 Y N N -10.251 15.147 -9.914 -7.480 1.673 -1.080 C24 UDK 7 UDK C26 C8 C 0 1 Y N N -9.395 14.698 -12.027 -7.903 -0.511 -0.479 C26 UDK 8 UDK C28 C9 C 0 1 N N N -7.767 14.309 -13.921 -8.323 -2.855 0.176 C28 UDK 9 UDK C01 C10 C 0 1 N N N -22.488 24.489 -13.183 9.759 2.108 -1.125 C01 UDK 10 UDK C02 C11 C 0 1 N N N -21.489 24.545 -14.328 8.916 1.230 -0.198 C02 UDK 11 UDK C03 C12 C 0 1 N N N -21.358 23.163 -14.964 9.134 -0.244 -0.552 C03 UDK 12 UDK C04 C13 C 0 1 N N N -20.073 23.061 -15.796 8.243 -1.114 0.338 C04 UDK 13 UDK C06 C14 C 0 1 N N N -17.892 23.183 -15.790 5.943 -1.652 0.866 C06 UDK 14 UDK C07 C15 C 0 1 Y N N -16.759 22.813 -14.819 4.518 -1.403 0.443 C07 UDK 15 UDK C08 C16 C 0 1 Y N N -16.138 21.573 -14.810 3.982 -2.108 -0.621 C08 UDK 16 UDK C09 C17 C 0 1 Y N N -15.119 21.309 -13.886 2.678 -1.885 -1.013 C09 UDK 17 UDK C11 C18 C 0 1 Y N N -15.334 23.518 -13.001 2.445 -0.240 0.738 C11 UDK 18 UDK C12 C19 C 0 1 Y N N -14.720 22.294 -12.986 1.899 -0.947 -0.335 C12 UDK 19 UDK C16 C20 C 0 1 N N R -11.247 20.082 -10.680 -2.255 1.513 0.400 C16 UDK 20 UDK C18 C21 C 0 1 N N N -9.432 20.077 -12.506 -2.892 -0.217 2.083 C18 UDK 21 UDK C19 C22 C 0 1 N N N -10.011 18.777 -13.053 -4.357 -0.007 1.690 C19 UDK 22 UDK C29 C23 C 0 1 Y N N -9.766 15.931 -12.444 -6.590 -0.633 -0.033 C29 UDK 23 UDK C32 C24 C 0 1 N N N -19.115 24.772 -14.879 6.593 0.653 0.511 C32 UDK 24 UDK C33 C25 C 0 1 N N N -20.146 25.006 -13.780 7.435 1.575 -0.373 C33 UDK 25 UDK N05 N1 N 0 1 N N N -19.007 23.475 -15.126 6.836 -0.746 0.133 N05 UDK 26 UDK N14 N2 N 0 1 N N N -13.461 20.947 -11.135 -0.248 0.204 -0.092 N14 UDK 27 UDK N21 N3 N 0 1 N N N -10.774 18.092 -12.027 -4.434 0.399 0.281 N21 UDK 28 UDK N23 N4 N 0 1 Y N N -10.626 16.387 -10.324 -6.231 1.597 -0.669 N23 UDK 29 UDK N25 N5 N 0 1 Y N N -9.636 14.304 -10.780 -8.306 0.650 -0.992 N25 UDK 30 UDK N27 N6 N 0 1 N N N -8.738 13.807 -12.962 -8.778 -1.583 -0.390 N27 UDK 31 UDK O30 O1 O 0 1 N N N -10.454 19.719 -9.585 -1.582 2.757 0.201 O30 UDK 32 UDK O31 O2 O 0 1 N N N -12.890 23.067 -11.750 0.028 -1.320 -1.683 O31 UDK 33 UDK H1 H1 H 0 1 N N N -16.811 24.722 -13.901 4.173 0.071 1.953 H1 UDK 34 UDK H2 H2 H 0 1 N N N -12.039 21.958 -9.976 -2.204 -0.480 -0.418 H2 UDK 35 UDK H3 H3 H 0 1 N N N -12.764 20.504 -9.210 -1.651 0.789 -1.537 H3 UDK 36 UDK H4 H4 H 0 1 N N N -9.921 21.696 -11.183 -1.066 0.929 2.102 H4 UDK 37 UDK H5 H5 H 0 1 N N N -11.170 21.336 -12.423 -2.525 1.864 2.510 H5 UDK 38 UDK H6 H6 H 0 1 N N N -12.610 19.095 -12.032 -4.176 2.443 0.691 H6 UDK 39 UDK H7 H7 H 0 1 N N N -12.240 18.171 -10.536 -3.839 1.962 -0.989 H7 UDK 40 UDK H8 H8 H 0 1 N N N -10.443 14.833 -8.899 -7.839 2.601 -1.501 H8 UDK 41 UDK H9 H9 H 0 1 N N N -7.390 13.476 -14.532 -9.144 -3.572 0.163 H9 UDK 42 UDK H10 H10 H 0 1 N N N -8.247 15.054 -14.573 -7.494 -3.241 -0.417 H10 UDK 43 UDK H11 H11 H 0 1 N N N -6.929 14.777 -13.383 -7.994 -2.698 1.203 H11 UDK 44 UDK H12 H12 H 0 1 N N N -22.580 25.486 -12.727 9.599 3.157 -0.876 H12 UDK 45 UDK H13 H13 H 0 1 N N N -23.468 24.170 -13.567 10.814 1.862 -0.999 H13 UDK 46 UDK H14 H14 H 0 1 N N N -22.139 23.771 -12.427 9.465 1.931 -2.160 H14 UDK 47 UDK H15 H15 H 0 1 N N N -21.840 25.262 -15.085 9.211 1.405 0.837 H15 UDK 48 UDK H16 H16 H 0 1 N N N -22.225 22.984 -15.617 8.877 -0.409 -1.598 H16 UDK 49 UDK H17 H17 H 0 1 N N N -21.334 22.402 -14.170 10.179 -0.507 -0.388 H17 UDK 50 UDK H18 H18 H 0 1 N N N -20.186 23.679 -16.699 8.385 -2.163 0.079 H18 UDK 51 UDK H19 H19 H 0 1 N N N -19.922 22.011 -16.087 8.510 -0.958 1.383 H19 UDK 52 UDK H20 H20 H 0 1 N N N -18.084 22.333 -16.461 6.040 -1.472 1.936 H20 UDK 53 UDK H21 H21 H 0 1 N N N -17.587 24.057 -16.384 6.212 -2.685 0.645 H21 UDK 54 UDK H22 H22 H 0 1 N N N -16.440 20.812 -15.514 4.586 -2.833 -1.145 H22 UDK 55 UDK H23 H23 H 0 1 N N N -14.642 20.340 -13.871 2.262 -2.435 -1.844 H23 UDK 56 UDK H24 H24 H 0 1 N N N -15.032 24.289 -12.307 1.847 0.484 1.270 H24 UDK 57 UDK H25 H25 H 0 1 N N N -8.587 19.835 -11.845 -2.460 -1.005 1.466 H25 UDK 58 UDK H26 H26 H 0 1 N N N -9.075 20.685 -13.350 -2.834 -0.504 3.132 H26 UDK 59 UDK H27 H27 H 0 1 N N N -10.670 19.004 -13.904 -4.907 -0.937 1.831 H27 UDK 60 UDK H28 H28 H 0 1 N N N -9.189 18.127 -13.388 -4.792 0.771 2.317 H28 UDK 61 UDK H29 H29 H 0 1 N N N -9.575 16.244 -13.460 -6.232 -1.561 0.388 H29 UDK 62 UDK H30 H30 H 0 1 N N N -18.140 25.164 -14.554 6.868 0.800 1.555 H30 UDK 63 UDK H31 H31 H 0 1 N N N -19.433 25.293 -15.794 5.537 0.886 0.377 H31 UDK 64 UDK H32 H32 H 0 1 N N N -19.883 24.424 -12.884 7.266 2.612 -0.082 H32 UDK 65 UDK H33 H33 H 0 1 N N N -20.189 26.075 -13.523 7.150 1.439 -1.417 H33 UDK 66 UDK H35 H35 H 0 1 N N N -14.066 20.160 -11.256 0.129 0.697 0.654 H35 UDK 67 UDK H36 H36 H 0 1 N N N -9.463 13.369 -13.494 -9.691 -1.490 -0.703 H36 UDK 68 UDK H37 H37 H 0 1 N N N -10.975 19.219 -8.968 -0.637 2.730 0.403 H37 UDK 69 # # 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 UDK C04 N05 SING N N 1 UDK C04 C03 SING N N 2 UDK C06 N05 SING N N 3 UDK C06 C07 SING N N 4 UDK N05 C32 SING N N 5 UDK C03 C02 SING N N 6 UDK C32 C33 SING N N 7 UDK C07 C08 DOUB Y N 8 UDK C07 C10 SING Y N 9 UDK C08 C09 SING Y N 10 UDK C02 C33 SING N N 11 UDK C02 C01 SING N N 12 UDK C28 N27 SING N N 13 UDK C10 C11 DOUB Y N 14 UDK C09 C12 DOUB Y N 15 UDK C19 C18 SING N N 16 UDK C19 N21 SING N N 17 UDK C11 C12 SING Y N 18 UDK C12 C13 SING N N 19 UDK N27 C26 SING N N 20 UDK C18 C17 SING N N 21 UDK C29 C26 DOUB Y N 22 UDK C29 C22 SING Y N 23 UDK C26 N25 SING Y N 24 UDK N21 C22 SING N N 25 UDK N21 C20 SING N N 26 UDK C13 O31 DOUB N N 27 UDK C13 N14 SING N N 28 UDK C17 C16 SING N N 29 UDK C22 N23 DOUB Y N 30 UDK C20 C16 SING N N 31 UDK N14 C15 SING N N 32 UDK N25 C24 DOUB Y N 33 UDK C16 C15 SING N N 34 UDK C16 O30 SING N N 35 UDK N23 C24 SING Y N 36 UDK C10 H1 SING N N 37 UDK C15 H2 SING N N 38 UDK C15 H3 SING N N 39 UDK C17 H4 SING N N 40 UDK C17 H5 SING N N 41 UDK C20 H6 SING N N 42 UDK C20 H7 SING N N 43 UDK C24 H8 SING N N 44 UDK C28 H9 SING N N 45 UDK C28 H10 SING N N 46 UDK C28 H11 SING N N 47 UDK C01 H12 SING N N 48 UDK C01 H13 SING N N 49 UDK C01 H14 SING N N 50 UDK C02 H15 SING N N 51 UDK C03 H16 SING N N 52 UDK C03 H17 SING N N 53 UDK C04 H18 SING N N 54 UDK C04 H19 SING N N 55 UDK C06 H20 SING N N 56 UDK C06 H21 SING N N 57 UDK C08 H22 SING N N 58 UDK C09 H23 SING N N 59 UDK C11 H24 SING N N 60 UDK C18 H25 SING N N 61 UDK C18 H26 SING N N 62 UDK C19 H27 SING N N 63 UDK C19 H28 SING N N 64 UDK C29 H29 SING N N 65 UDK C32 H30 SING N N 66 UDK C32 H31 SING N N 67 UDK C33 H32 SING N N 68 UDK C33 H33 SING N N 69 UDK N14 H35 SING N N 70 UDK N27 H36 SING N N 71 UDK O30 H37 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 UDK InChI InChI 1.03 "InChI=1S/C25H36N6O2/c1-19-8-12-30(13-9-19)15-20-4-6-21(7-5-20)24(32)27-16-25(33)10-3-11-31(17-25)23-14-22(26-2)28-18-29-23/h4-7,14,18-19,33H,3,8-13,15-17H2,1-2H3,(H,27,32)(H,26,28,29)/t25-/m1/s1" UDK InChIKey InChI 1.03 WWAIRFCQIINAHC-RUZDIDTESA-N UDK SMILES_CANONICAL CACTVS 3.385 "CNc1cc(ncn1)N2CCC[C@@](O)(CNC(=O)c3ccc(CN4CCC(C)CC4)cc3)C2" UDK SMILES CACTVS 3.385 "CNc1cc(ncn1)N2CCC[C](O)(CNC(=O)c3ccc(CN4CCC(C)CC4)cc3)C2" UDK SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC1CCN(CC1)Cc2ccc(cc2)C(=O)NC[C@@]3(CCCN(C3)c4cc(ncn4)NC)O" UDK SMILES "OpenEye OEToolkits" 2.0.7 "CC1CCN(CC1)Cc2ccc(cc2)C(=O)NCC3(CCCN(C3)c4cc(ncn4)NC)O" # _pdbx_chem_comp_identifier.comp_id UDK _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 "~{N}-[[(3~{R})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-4-[(4-methylpiperidin-1-yl)methyl]benzamide" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id UDK _pdbx_chem_comp_synonyms.name "~{N}-[[(3~{R})-1-[6-(methylamino)pyrimidin-4-yl]-3-oxidanyl-piperidin-3-yl]methyl]-4-[(4-methylpiperidin-1-yl)methyl]benzamide" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site UDK "Create component" 2021-02-10 PDBE UDK "Modify synonyms" 2021-02-11 PDBE UDK "Initial release" 2021-10-20 RCSB ##