data_JR0 # _chem_comp.id JR0 _chem_comp.name "N-benzyl-2-{4-[4-(4,5-dimethoxy-1H-indole-2-carbonyl)piperazine-1-carbonyl]piperidin-1-yl}-6-methylpyrimidine-4-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C34 H39 N7 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-08-08 _chem_comp.pdbx_modified_date 2024-04-19 _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 625.717 _chem_comp.one_letter_code ? _chem_comp.three_letter_code JR0 _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 8TQG _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 JR0 C10 C1 C 0 1 Y N N N N N -26.572 10.717 4.703 5.281 -1.417 0.557 C10 JR0 1 JR0 C15 C2 C 0 1 N N N N N N -26.963 8.926 8.202 1.699 -2.648 0.842 C15 JR0 2 JR0 C20 C3 C 0 1 N N N N N N -24.779 9.553 10.940 -0.707 -0.572 -0.667 C20 JR0 3 JR0 C22 C4 C 0 1 N N N N N N -23.302 9.834 11.138 -0.775 0.293 -1.899 C22 JR0 4 JR0 C24 C5 C 0 1 N N N N N N -21.023 9.057 10.937 -1.683 2.200 -0.568 C24 JR0 5 JR0 C26 C6 C 0 1 N N N N N N -21.716 10.595 12.797 -3.228 0.633 -1.582 C26 JR0 6 JR0 C28 C7 C 0 1 Y N N N N N -20.090 8.645 13.331 -4.006 2.551 -0.467 C28 JR0 7 JR0 C01 C8 C 0 1 N N N N N N -24.318 13.237 -1.350 11.212 1.589 -1.424 C01 JR0 8 JR0 C03 C9 C 0 1 Y N N N N N -24.828 12.221 0.699 9.307 0.545 -0.455 C03 JR0 9 JR0 C04 C10 C 0 1 Y N N N N N -24.502 11.373 1.744 8.622 -0.001 0.617 C04 JR0 10 JR0 C06 C11 C 0 1 N N N N N N -23.368 9.326 1.595 8.987 1.077 2.704 C06 JR0 11 JR0 C07 C12 C 0 1 Y N N N N N -25.406 11.202 2.831 7.327 -0.510 0.426 C07 JR0 12 JR0 C08 C13 C 0 1 Y N N N N N -26.602 11.875 2.832 6.739 -0.458 -0.853 C08 JR0 13 JR0 C11 C14 C 0 1 Y N N N N N -25.395 10.441 4.030 6.386 -1.118 1.290 C11 JR0 14 JR0 C12 C15 C 0 1 N N N N N N -27.056 10.062 5.996 4.063 -2.056 1.074 C12 JR0 15 JR0 C16 C16 C 0 1 N N N N N N -26.813 9.730 9.466 0.568 -1.650 1.122 C16 JR0 16 JR0 C18 C17 C 0 1 N N N N N N -24.716 10.595 8.599 1.656 0.021 -0.435 C18 JR0 17 JR0 C19 C18 C 0 1 N N N N N N -24.853 9.733 7.345 2.787 -0.976 -0.715 C19 JR0 18 JR0 C23 C19 C 0 1 N N N N N N -22.493 8.703 10.740 -0.560 1.758 -1.509 C23 JR0 19 JR0 C27 C20 C 0 1 N N N N N N -23.147 10.169 12.532 -2.152 0.144 -2.554 C27 JR0 20 JR0 C30 C21 C 0 1 Y N N N N N -19.585 8.102 15.516 -4.908 4.341 0.669 C30 JR0 21 JR0 C31 C22 C 0 1 N N N N N N -19.692 8.390 17.013 -4.828 5.779 1.112 C31 JR0 22 JR0 C32 C23 C 0 1 Y N N N N N -18.865 7.014 15.048 -5.992 3.554 1.031 C32 JR0 23 JR0 C33 C24 C 0 1 Y N N N N N -18.808 6.810 13.680 -6.028 2.230 0.594 C33 JR0 24 JR0 C35 C25 C 0 1 N N N N N N -18.045 5.665 13.062 -7.166 1.347 0.955 C35 JR0 25 JR0 C38 C26 C 0 1 N N N N N N -16.890 4.780 11.027 -8.312 -0.801 0.882 C38 JR0 26 JR0 C39 C27 C 0 1 Y N N N N N -15.439 5.234 10.933 -8.098 -2.168 0.284 C39 JR0 27 JR0 C40 C28 C 0 1 Y N N N N N -14.691 5.382 12.094 -8.574 -2.450 -0.983 C40 JR0 28 JR0 C41 C29 C 0 1 Y N N N N N -13.369 5.796 12.028 -8.377 -3.704 -1.532 C41 JR0 29 JR0 C42 C30 C 0 1 Y N N N N N -12.801 6.064 10.792 -7.705 -4.675 -0.814 C42 JR0 30 JR0 C43 C31 C 0 1 Y N N N N N -13.553 5.921 9.640 -7.229 -4.392 0.453 C43 JR0 31 JR0 C44 C32 C 0 1 Y N N N N N -14.873 5.504 9.699 -7.420 -3.137 0.999 C44 JR0 32 JR0 C45 C33 C 0 1 Y N N N N N -26.939 12.739 1.754 7.447 0.096 -1.914 C45 JR0 33 JR0 C46 C34 C 0 1 Y N N N N N -26.045 12.910 0.699 8.717 0.591 -1.714 C46 JR0 34 JR0 N09 N1 N 0 1 Y N N N N N -27.294 11.553 3.963 5.485 -1.020 -0.751 N09 JR0 35 JR0 N14 N2 N 0 1 N N N N N N -26.271 9.579 7.108 2.893 -1.899 0.424 N14 JR0 36 JR0 N17 N3 N 0 1 N N N N N N -25.408 9.966 9.714 0.463 -0.728 -0.017 N17 JR0 37 JR0 N25 N4 N 0 1 N N N N N N -20.735 9.518 12.362 -2.979 2.039 -1.240 N25 JR0 38 JR0 N29 N5 N 0 1 Y N N N N N -20.175 8.884 14.631 -3.947 3.815 -0.070 N29 JR0 39 JR0 N34 N6 N 0 1 Y N N N N N -19.416 7.633 12.856 -5.024 1.769 -0.147 N34 JR0 40 JR0 N37 N7 N 0 1 N N N N N N -17.636 5.819 11.693 -7.189 0.069 0.526 N37 JR0 41 JR0 O02 O1 O 0 1 N N N N N N -23.905 12.367 -0.342 10.562 1.039 -0.276 O02 JR0 42 JR0 O05 O2 O 0 1 N N N N N N -23.269 10.712 1.707 9.200 -0.045 1.846 O05 JR0 43 JR0 O13 O3 O 0 1 N N N N N N -28.199 9.806 6.045 4.111 -2.726 2.089 O13 JR0 44 JR0 O21 O4 O 0 1 N N N N N N -25.412 9.037 11.785 -1.706 -1.128 -0.260 O21 JR0 45 JR0 O36 O5 O 0 1 N N N N N N -17.792 4.691 13.681 -8.075 1.777 1.635 O36 JR0 46 JR0 H151 H1 H 0 0 N N N N N N -28.031 8.835 7.954 1.921 -3.213 1.748 H151 JR0 47 JR0 H152 H2 H 0 0 N N N N N N -26.536 7.924 8.356 1.400 -3.331 0.048 H152 JR0 48 JR0 H221 H3 H 0 0 N N N N N N -23.032 10.706 10.524 -0.002 -0.015 -2.603 H221 JR0 49 JR0 H242 H4 H 0 0 N N N N N N -20.411 8.169 10.720 -1.664 1.588 0.334 H242 JR0 50 JR0 H241 H5 H 0 0 N N N N N N -20.756 9.866 10.241 -1.541 3.247 -0.299 H241 JR0 51 JR0 H262 H6 H 0 0 N N N N N N -21.507 11.519 12.238 -4.208 0.542 -2.051 H262 JR0 52 JR0 H261 H7 H 0 0 N N N N N N -21.590 10.782 13.874 -3.201 0.028 -0.676 H261 JR0 53 JR0 H011 H8 H 0 0 N N N N N N -23.540 13.296 -2.126 12.203 1.946 -1.144 H011 JR0 54 JR0 H012 H9 H 0 0 N N N N N N -25.253 12.865 -1.795 11.307 0.820 -2.191 H012 JR0 55 JR0 H013 H10 H 0 0 N N N N N N -24.487 14.237 -0.924 10.623 2.420 -1.813 H013 JR0 56 JR0 H061 H11 H 0 0 N N N N N N -22.360 8.886 1.573 9.378 1.977 2.228 H061 JR0 57 JR0 H062 H12 H 0 0 N N N N N N -23.923 8.927 2.457 7.919 1.198 2.886 H062 JR0 58 JR0 H063 H13 H 0 0 N N N N N N -23.900 9.070 0.667 9.501 0.914 3.651 H063 JR0 59 JR0 H111 H14 H 0 0 N N N N N N -24.613 9.771 4.356 6.522 -1.310 2.344 H111 JR0 60 JR0 H161 H15 H 0 0 N N N N N N -27.334 10.692 9.354 -0.372 -2.188 1.246 H161 JR0 61 JR0 H162 H16 H 0 0 N N N N N N -27.247 9.174 10.310 0.791 -1.090 2.030 H162 JR0 62 JR0 H182 H17 H 0 0 N N N N N N -23.651 10.708 8.849 1.958 0.702 0.361 H182 JR0 63 JR0 H181 H18 H 0 0 N N N N N N -25.155 11.586 8.410 1.434 0.589 -1.338 H181 JR0 64 JR0 H191 H19 H 0 0 N N N N N N -24.376 10.230 6.488 2.563 -1.539 -1.621 H191 JR0 65 JR0 H192 H20 H 0 0 N N N N N N -24.385 8.750 7.506 3.727 -0.438 -0.841 H192 JR0 66 JR0 H231 H21 H 0 0 N N N N N N -22.749 7.830 11.358 0.400 1.863 -1.004 H231 JR0 67 JR0 H232 H22 H 0 0 N N N N N N -22.679 8.470 9.681 -0.571 2.378 -2.405 H232 JR0 68 JR0 H272 H23 H 0 0 N N N N N N -23.387 9.290 13.149 -2.187 0.739 -3.466 H272 JR0 69 JR0 H271 H24 H 0 0 N N N N N N -23.828 10.994 12.788 -2.328 -0.904 -2.795 H271 JR0 70 JR0 H313 H25 H 0 0 N N N N N N -20.301 9.292 17.171 -5.305 6.416 0.367 H313 JR0 71 JR0 H311 H26 H 0 0 N N N N N N -20.165 7.535 17.518 -5.338 5.893 2.069 H311 JR0 72 JR0 H312 H27 H 0 0 N N N N N N -18.686 8.550 17.428 -3.783 6.068 1.222 H312 JR0 73 JR0 H321 H28 H 0 0 N N N N N N -18.363 6.345 15.731 -6.791 3.958 1.635 H321 JR0 74 JR0 H381 H29 H 0 0 N N N N N N -16.953 3.846 11.604 -9.239 -0.377 0.495 H381 JR0 75 JR0 H382 H30 H 0 0 N N N N N N -17.297 4.616 10.018 -8.377 -0.886 1.967 H382 JR0 76 JR0 H401 H31 H 0 0 N N N N N N -15.141 5.174 13.053 -9.099 -1.691 -1.544 H401 JR0 77 JR0 H411 H32 H 0 0 N N N N N N -12.787 5.909 12.931 -8.749 -3.924 -2.521 H411 JR0 78 JR0 H421 H33 H 0 0 N N N N N N -11.772 6.384 10.729 -7.551 -5.654 -1.242 H421 JR0 79 JR0 H431 H34 H 0 0 N N N N N N -13.105 6.137 8.681 -6.703 -5.151 1.014 H431 JR0 80 JR0 H441 H35 H 0 0 N N N N N N -15.452 5.391 8.795 -7.044 -2.915 1.987 H441 JR0 81 JR0 H451 H36 H 0 0 N N N N N N -27.885 13.261 1.753 7.001 0.138 -2.897 H451 JR0 82 JR0 H461 H37 H 0 0 N N N N N N -26.291 13.573 -0.117 9.260 1.020 -2.543 H461 JR0 83 JR0 H091 H38 H 0 0 N N N N N N -28.204 11.893 4.199 4.850 -1.119 -1.478 H091 JR0 84 JR0 H371 H39 H 0 0 N N N N N N -17.871 6.655 11.197 -6.463 -0.273 -0.017 H371 JR0 85 # 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 JR0 O02 C01 SING N N 1 JR0 C03 O02 SING N N 2 JR0 C04 C03 DOUB Y N 3 JR0 C06 O05 SING N N 4 JR0 O05 C04 SING N N 5 JR0 C07 C04 SING Y N 6 JR0 C08 C07 DOUB Y N 7 JR0 C10 N09 SING Y N 8 JR0 C11 C10 DOUB Y N 9 JR0 C12 C10 SING N N 10 JR0 O13 C12 DOUB N N 11 JR0 N14 C12 SING N N 12 JR0 C15 N14 SING N N 13 JR0 C16 C15 SING N N 14 JR0 N17 C16 SING N N 15 JR0 C19 C18 SING N N 16 JR0 C18 N17 SING N N 17 JR0 C20 N17 SING N N 18 JR0 O21 C20 DOUB N N 19 JR0 C22 C20 SING N N 20 JR0 C23 C22 SING N N 21 JR0 C24 C23 SING N N 22 JR0 N25 C24 SING N N 23 JR0 C27 C26 SING N N 24 JR0 C26 N25 SING N N 25 JR0 C28 N25 SING N N 26 JR0 N29 C28 DOUB Y N 27 JR0 C30 N29 SING Y N 28 JR0 C31 C30 SING N N 29 JR0 C32 C30 DOUB Y N 30 JR0 C33 C32 SING Y N 31 JR0 N34 C33 DOUB Y N 32 JR0 C35 C33 SING N N 33 JR0 O36 C35 DOUB N N 34 JR0 N37 C35 SING N N 35 JR0 C38 N37 SING N N 36 JR0 C39 C38 SING N N 37 JR0 C40 C39 DOUB Y N 38 JR0 C41 C40 SING Y N 39 JR0 C42 C41 DOUB Y N 40 JR0 C43 C42 SING Y N 41 JR0 C44 C43 DOUB Y N 42 JR0 N09 C08 SING Y N 43 JR0 C45 C08 SING Y N 44 JR0 C46 C45 DOUB Y N 45 JR0 C03 C46 SING Y N 46 JR0 C07 C11 SING Y N 47 JR0 N14 C19 SING N N 48 JR0 C22 C27 SING N N 49 JR0 C28 N34 SING Y N 50 JR0 C39 C44 SING Y N 51 JR0 C15 H151 SING N N 52 JR0 C15 H152 SING N N 53 JR0 C22 H221 SING N N 54 JR0 C24 H242 SING N N 55 JR0 C24 H241 SING N N 56 JR0 C26 H262 SING N N 57 JR0 C26 H261 SING N N 58 JR0 C01 H011 SING N N 59 JR0 C01 H012 SING N N 60 JR0 C01 H013 SING N N 61 JR0 C06 H061 SING N N 62 JR0 C06 H062 SING N N 63 JR0 C06 H063 SING N N 64 JR0 C11 H111 SING N N 65 JR0 C16 H161 SING N N 66 JR0 C16 H162 SING N N 67 JR0 C18 H182 SING N N 68 JR0 C18 H181 SING N N 69 JR0 C19 H191 SING N N 70 JR0 C19 H192 SING N N 71 JR0 C23 H231 SING N N 72 JR0 C23 H232 SING N N 73 JR0 C27 H272 SING N N 74 JR0 C27 H271 SING N N 75 JR0 C31 H313 SING N N 76 JR0 C31 H311 SING N N 77 JR0 C31 H312 SING N N 78 JR0 C32 H321 SING N N 79 JR0 C38 H381 SING N N 80 JR0 C38 H382 SING N N 81 JR0 C40 H401 SING N N 82 JR0 C41 H411 SING N N 83 JR0 C42 H421 SING N N 84 JR0 C43 H431 SING N N 85 JR0 C44 H441 SING N N 86 JR0 C45 H451 SING N N 87 JR0 C46 H461 SING N N 88 JR0 N09 H091 SING N N 89 JR0 N37 H371 SING N N 90 # 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 JR0 SMILES ACDLabs 12.01 "O=C(C1CCN(CC1)c1nc(C)cc(n1)C(=O)NCc1ccccc1)N1CCN(CC1)C(=O)c1cc2c(OC)c(OC)ccc2[NH]1" JR0 InChI InChI 1.06 "InChI=1S/C34H39N7O5/c1-22-19-27(31(42)35-21-23-7-5-4-6-8-23)38-34(36-22)41-13-11-24(12-14-41)32(43)39-15-17-40(18-16-39)33(44)28-20-25-26(37-28)9-10-29(45-2)30(25)46-3/h4-10,19-20,24,37H,11-18,21H2,1-3H3,(H,35,42)" JR0 InChIKey InChI 1.06 PJHZEAWAAMNJHJ-UHFFFAOYSA-N JR0 SMILES_CANONICAL CACTVS 3.385 "COc1ccc2[nH]c(cc2c1OC)C(=O)N3CCN(CC3)C(=O)C4CCN(CC4)c5nc(C)cc(n5)C(=O)NCc6ccccc6" JR0 SMILES CACTVS 3.385 "COc1ccc2[nH]c(cc2c1OC)C(=O)N3CCN(CC3)C(=O)C4CCN(CC4)c5nc(C)cc(n5)C(=O)NCc6ccccc6" JR0 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1cc(nc(n1)N2CCC(CC2)C(=O)N3CCN(CC3)C(=O)c4cc5c([nH]4)ccc(c5OC)OC)C(=O)NCc6ccccc6" JR0 SMILES "OpenEye OEToolkits" 2.0.7 "Cc1cc(nc(n1)N2CCC(CC2)C(=O)N3CCN(CC3)C(=O)c4cc5c([nH]4)ccc(c5OC)OC)C(=O)NCc6ccccc6" # 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 JR0 "SYSTEMATIC NAME" ACDLabs 12.01 "N-benzyl-2-{4-[4-(4,5-dimethoxy-1H-indole-2-carbonyl)piperazine-1-carbonyl]piperidin-1-yl}-6-methylpyrimidine-4-carboxamide" JR0 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-[4-[4-[(4,5-dimethoxy-1~{H}-indol-2-yl)carbonyl]piperazin-1-yl]carbonylpiperidin-1-yl]-6-methyl-~{N}-(phenylmethyl)pyrimidine-4-carboxamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site JR0 "Create component" 2023-08-08 RCSB JR0 "Initial release" 2024-04-24 RCSB #