data_R6R
# 
_chem_comp.id                                    R6R 
_chem_comp.name                                  "3-nitro-~{N}-[2-[2-oxidanylidene-2-[4-(phenylcarbonyl)piperazin-1-yl]ethyl]indazol-5-yl]benzamide" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C27 H24 N6 O5" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    2 
_chem_comp.pdbx_initial_date                     2022-11-23 
_chem_comp.pdbx_modified_date                    2024-01-26 
_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                        512.517 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     R6R 
_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        8BR7 
_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.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 
R6R N1  N1  N 0 1 N N N N N N 27.476 21.743 4.609  4.370   -0.655 -0.218 N1  R6R 1  
R6R C5  C1  C 0 1 N N N N N N 29.668 20.675 4.373  6.307   0.778  0.168  C5  R6R 2  
R6R C6  C2  C 0 1 N N N N N N 28.179 20.548 4.076  5.259   0.326  -0.856 C6  R6R 3  
R6R C7  C3  C 0 1 N N N N N N 31.492 22.031 3.555  8.233   -0.604 0.776  C7  R6R 4  
R6R C10 C4  C 0 1 Y N N N N N 33.287 23.841 3.508  10.061  -0.107 -0.842 C10 R6R 5  
R6R C13 C5  C 0 1 Y N N N N N 32.146 25.069 1.282  9.808   2.612  -0.355 C13 R6R 6  
R6R C15 C6  C 0 1 N N N N N N 26.346 21.560 5.294  3.036   -0.465 -0.204 C15 R6R 7  
R6R C20 C7  C 0 1 Y N N N N N 22.376 20.111 6.310  -1.408  -1.029 -0.137 C20 R6R 8  
R6R C21 C8  C 0 1 Y N N N N N 20.975 20.188 6.279  -2.748  -1.241 -0.525 C21 R6R 9  
R6R C22 C9  C 0 1 Y N N N N N 20.259 19.951 7.461  -3.673  -0.266 -0.300 C22 R6R 10 
R6R C24 C10 C 0 1 Y N N N N N 22.314 19.593 8.670  -2.058  1.212  0.704  C24 R6R 11 
R6R C26 C11 C 0 1 N N N N N N 18.076 19.888 6.543  -6.009  0.037  0.042  C26 R6R 12 
R6R C11 C12 C 0 1 Y N N N N N 33.873 24.989 2.968  10.871  0.792  -1.503 C11 R6R 13 
R6R C12 C13 C 0 1 Y N N N N N 33.302 25.603 1.854  10.746  2.149  -1.261 C12 R6R 14 
R6R C14 C14 C 0 1 Y N N N N N 31.566 23.921 1.824  8.987   1.723  0.308  C14 R6R 15 
R6R C9  C15 C 0 1 Y N N N N N 32.130 23.300 2.939  9.109   0.354  0.069  C9  R6R 16 
R6R O8  O1  O 0 1 N N N N N N 32.196 21.081 3.901  8.717   -1.564 1.346  O8  R6R 17 
R6R N4  N2  N 0 1 N N N N N N 30.174 21.933 3.764  6.899   -0.415 0.791  N4  R6R 18 
R6R C3  C16 C 0 1 N N N N N N 29.218 23.031 3.387  6.010   -1.403 1.427  C3  R6R 19 
R6R C2  C17 C 0 1 N N N N N N 28.036 23.106 4.372  4.962   -1.850 0.400  C2  R6R 20 
R6R O28 O2  O 0 1 N N N N N N 25.716 22.513 5.756  2.558   0.522  -0.721 O28 R6R 21 
R6R C16 C18 C 0 1 N N N N N N 25.854 20.124 5.485  2.137   -1.480 0.455  C16 R6R 22 
R6R N17 N3  N 0 1 Y N N N N N 24.504 20.077 6.064  0.743   -1.048 0.336  N17 R6R 23 
R6R N18 N4  N 0 1 Y N N N N N 24.334 19.816 7.252  0.247   0.190  0.761  N18 R6R 24 
R6R C27 C19 C 0 1 Y N N N N N 23.346 20.270 5.409  -0.246  -1.775 -0.203 C27 R6R 25 
R6R C19 C20 C 0 1 Y N N N N N 23.028 19.821 7.501  -1.047  0.246  0.502  C19 R6R 26 
R6R C23 C21 C 0 1 Y N N N N N 20.931 19.668 8.650  -3.327  0.948  0.309  C23 R6R 27 
R6R N25 N5  N 0 1 N N N N N N 18.934 19.989 7.563  -5.001  -0.483 -0.687 N25 R6R 28 
R6R O29 O3  O 0 1 N N N N N N 18.367 19.814 5.351  -5.770  0.611  1.087  O29 R6R 29 
R6R C31 C22 C 0 1 Y N N N N N 16.633 19.960 6.989  -7.404  -0.090 -0.429 C31 R6R 30 
R6R C30 C23 C 0 1 Y N N N N N 16.290 19.434 8.226  -8.449  0.448  0.324  C30 R6R 31 
R6R C35 C24 C 0 1 Y N N N N N 15.676 20.561 6.193  -7.681  -0.743 -1.631 C35 R6R 32 
R6R C34 C25 C 0 1 Y N N N N N 14.356 20.621 6.638  -8.986  -0.858 -2.065 C34 R6R 33 
R6R C33 C26 C 0 1 Y N N N N N 14.007 20.092 7.873  -10.018 -0.327 -1.312 C33 R6R 34 
R6R C32 C27 C 0 1 Y N N N N N 14.980 19.496 8.672  -9.750  0.326  -0.122 C32 R6R 35 
R6R N36 N6  N 2 1 N N N N N N 14.659 18.961 9.847  -10.860 0.895  0.675  N36 R6R 36 
R6R O38 O4  O 0 1 N N N N N N 15.663 18.444 10.708 -12.008 0.788  0.283  O38 R6R 37 
R6R O37 O5  O 0 1 N N N N N N 13.302 18.838 10.221 -10.625 1.470  1.723  O37 R6R 38 
R6R H1  H1  H 0 1 N N N N N N 30.205 19.815 3.945  7.084   1.353  -0.334 H1  R6R 39 
R6R H2  H2  H 0 1 N N N N N N 29.827 20.701 5.461  5.831   1.393  0.931  H2  R6R 40 
R6R H3  H3  H 0 1 N N N N N N 28.024 20.483 2.989  5.756   -0.133 -1.711 H3  R6R 41 
R6R H4  H4  H 0 1 N N N N N N 27.783 19.642 4.557  4.676   1.186  -1.187 H4  R6R 42 
R6R H5  H5  H 0 1 N N N N N N 33.731 23.368 4.371  10.160  -1.166 -1.032 H5  R6R 43 
R6R H6  H6  H 0 1 N N N N N N 31.701 25.544 0.420  9.715   3.672  -0.171 H6  R6R 44 
R6R H7  H7  H 0 1 N N N N N N 20.458 20.426 5.361  -3.038  -2.168 -0.996 H7  R6R 45 
R6R H8  H8  H 0 1 N N N N N N 22.833 19.359 9.588  -1.820  2.156  1.171  H8  R6R 46 
R6R H9  H9  H 0 1 N N N N N N 34.767 25.400 3.413  11.606  0.437  -2.211 H9  R6R 47 
R6R H10 H10 H 0 1 N N N N N N 33.753 26.490 1.434  11.382  2.849  -1.781 H10 R6R 48 
R6R H11 H11 H 0 1 N N N N N N 30.673 23.510 1.377  8.256   2.086  1.015  H11 R6R 49 
R6R H12 H12 H 0 1 N N N N N N 29.754 23.992 3.396  6.594   -2.264 1.754  H12 R6R 50 
R6R H13 H13 H 0 1 N N N N N N 28.830 22.837 2.376  5.512   -0.949 2.284  H13 R6R 51 
R6R H14 H14 H 0 1 N N N N N N 28.385 23.527 5.327  4.184   -2.428 0.899  H14 R6R 52 
R6R H15 H15 H 0 1 N N N N N N 27.252 23.753 3.951  5.439   -2.460 -0.367 H15 R6R 53 
R6R H16 H16 H 0 1 N N N N N N 25.839 19.621 4.507  2.261   -2.447 -0.034 H16 R6R 54 
R6R H17 H17 H 0 1 N N N N N N 26.547 19.598 6.157  2.402   -1.570 1.508  H17 R6R 55 
R6R H18 H18 H 0 1 N N N N N N 23.225 20.507 4.362  -0.151  -2.769 -0.617 H18 R6R 56 
R6R H19 H19 H 0 1 N N N N N N 20.371 19.507 9.559  -4.092  1.694  0.468  H19 R6R 57 
R6R H20 H20 H 0 1 N N N N N N 18.547 20.102 8.478  -5.196  -1.007 -1.479 H20 R6R 58 
R6R H21 H21 H 0 1 N N N N N N 17.047 18.974 8.844  -8.241  0.957  1.253  H21 R6R 59 
R6R H22 H22 H 0 1 N N N N N N 15.948 20.980 5.236  -6.877  -1.157 -2.220 H22 R6R 60 
R6R H23 H23 H 0 1 N N N N N N 13.601 21.082 6.018  -9.202  -1.363 -2.995 H23 R6R 61 
R6R H24 H24 H 0 1 N N N N N N 12.983 20.142 8.214  -11.037 -0.419 -1.656 H24 R6R 62 
# 
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 
R6R C13 C14 DOUB Y N 1  
R6R C13 C12 SING Y N 2  
R6R C14 C9  SING Y N 3  
R6R C12 C11 DOUB Y N 4  
R6R C9  C10 DOUB Y N 5  
R6R C9  C7  SING N N 6  
R6R C11 C10 SING Y N 7  
R6R C3  N4  SING N N 8  
R6R C3  C2  SING N N 9  
R6R C7  N4  SING N N 10 
R6R C7  O8  DOUB N N 11 
R6R N4  C5  SING N N 12 
R6R C6  C5  SING N N 13 
R6R C6  N1  SING N N 14 
R6R C2  N1  SING N N 15 
R6R N1  C15 SING N N 16 
R6R C15 C16 SING N N 17 
R6R C15 O28 DOUB N N 18 
R6R O29 C26 DOUB N N 19 
R6R C27 N17 SING Y N 20 
R6R C27 C20 DOUB Y N 21 
R6R C16 N17 SING N N 22 
R6R N17 N18 SING Y N 23 
R6R C35 C34 DOUB Y N 24 
R6R C35 C31 SING Y N 25 
R6R C21 C20 SING Y N 26 
R6R C21 C22 DOUB Y N 27 
R6R C20 C19 SING Y N 28 
R6R C26 C31 SING N N 29 
R6R C26 N25 SING N N 30 
R6R C34 C33 SING Y N 31 
R6R C31 C30 DOUB Y N 32 
R6R N18 C19 DOUB Y N 33 
R6R C22 N25 SING N N 34 
R6R C22 C23 SING Y N 35 
R6R C19 C24 SING Y N 36 
R6R C33 C32 DOUB Y N 37 
R6R C30 C32 SING Y N 38 
R6R C23 C24 DOUB Y N 39 
R6R C32 N36 SING N N 40 
R6R N36 O37 DOUB N N 41 
R6R N36 O38 DOUB N N 42 
R6R C5  H1  SING N N 43 
R6R C5  H2  SING N N 44 
R6R C6  H3  SING N N 45 
R6R C6  H4  SING N N 46 
R6R C10 H5  SING N N 47 
R6R C13 H6  SING N N 48 
R6R C21 H7  SING N N 49 
R6R C24 H8  SING N N 50 
R6R C11 H9  SING N N 51 
R6R C12 H10 SING N N 52 
R6R C14 H11 SING N N 53 
R6R C3  H12 SING N N 54 
R6R C3  H13 SING N N 55 
R6R C2  H14 SING N N 56 
R6R C2  H15 SING N N 57 
R6R C16 H16 SING N N 58 
R6R C16 H17 SING N N 59 
R6R C27 H18 SING N N 60 
R6R C23 H19 SING N N 61 
R6R N25 H20 SING N N 62 
R6R C30 H21 SING N N 63 
R6R C35 H22 SING N N 64 
R6R C34 H23 SING N N 65 
R6R C33 H24 SING N N 66 
# 
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 
R6R InChI            InChI                1.06    "InChI=1S/C27H24N6O5/c34-25(30-11-13-31(14-12-30)27(36)19-5-2-1-3-6-19)18-32-17-21-15-22(9-10-24(21)29-32)28-26(35)20-7-4-8-23(16-20)33(37)38/h1-10,15-17H,11-14,18H2,(H,28,35)" 
R6R InChIKey         InChI                1.06    TUROMDAKFFLACO-UHFFFAOYSA-N                                                                                                                                                      
R6R SMILES_CANONICAL CACTVS               3.385   "O=C(Cn1cc2cc(NC(=O)c3cccc(c3)[N](=O)=O)ccc2n1)N4CCN(CC4)C(=O)c5ccccc5"                                                                                                          
R6R SMILES           CACTVS               3.385   "O=C(Cn1cc2cc(NC(=O)c3cccc(c3)[N](=O)=O)ccc2n1)N4CCN(CC4)C(=O)c5ccccc5"                                                                                                          
R6R SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "c1ccc(cc1)C(=O)N2CCN(CC2)C(=O)Cn3cc4cc(ccc4n3)NC(=O)c5cccc(c5)N(=O)=O"                                                                                                          
R6R SMILES           "OpenEye OEToolkits" 3.1.0.0 "c1ccc(cc1)C(=O)N2CCN(CC2)C(=O)Cn3cc4cc(ccc4n3)NC(=O)c5cccc(c5)N(=O)=O"                                                                                                          
# 
_pdbx_chem_comp_identifier.comp_id           R6R 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   3.1.0.0 
_pdbx_chem_comp_identifier.identifier        "3-nitro-~{N}-[2-[2-oxidanylidene-2-[4-(phenylcarbonyl)piperazin-1-yl]ethyl]indazol-5-yl]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 
R6R "Create component" 2022-11-23 PDBE 
R6R "Initial release"  2024-01-31 RCSB 
# 
