data_A1JW0 # _chem_comp.id A1JW0 _chem_comp.name "~{N}-[3-[1-[[4-[5-[(2-ethylpyrazol-3-yl)methyl]-3-phenyl-pyridin-2-yl]phenyl]methyl]piperidin-4-yl]-2-oxidanylidene-1~{H}-benzimidazol-5-yl]propanamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C39 H41 N7 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-12-17 _chem_comp.pdbx_modified_date 2026-09-11 _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 639.789 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1JW0 _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 9TMY _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm Y # 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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1JW0 C10 C1 C 0 1 Y N N N N N 12.268 -16.334 16.120 -0.605 0.204 -1.567 C10 A1JW0 1 A1JW0 C13 C2 C 0 1 Y N N N N N 11.825 -13.760 18.943 -3.914 0.187 0.213 C13 A1JW0 2 A1JW0 C15 C3 C 0 1 Y N N N N N 12.128 -14.204 21.259 -5.089 1.828 1.337 C15 A1JW0 3 A1JW0 C17 C4 C 0 1 N N N N N N 12.346 -12.428 23.069 -7.505 1.601 1.965 C17 A1JW0 4 A1JW0 C20 C5 C 0 1 Y N N N N N 12.610 -8.696 23.168 -8.894 4.188 -0.273 C20 A1JW0 5 A1JW0 C24 C6 C 0 1 N N N N N N 15.670 -11.527 21.940 -10.911 0.588 1.187 C24 A1JW0 6 A1JW0 C26 C7 C 0 1 Y N N N N N 11.816 -12.380 19.150 -5.049 -0.638 0.165 C26 A1JW0 7 A1JW0 C28 C8 C 0 1 Y N N N N N 10.828 -10.239 18.152 -5.460 -3.097 0.185 C28 A1JW0 8 A1JW0 C02 C9 C 0 1 N N N N N N 11.193 -23.093 14.457 5.401 -1.470 2.301 C02 A1JW0 9 A1JW0 C04 C10 C 0 1 N N N N N N 9.977 -20.806 13.667 4.669 -0.831 -0.006 C04 A1JW0 10 A1JW0 C05 C11 C 0 1 N N N N N N 10.924 -20.156 12.787 3.376 -0.143 0.440 C05 A1JW0 11 A1JW0 C06 C12 C 0 1 N N N N N N 10.739 -18.636 12.752 2.371 -0.158 -0.714 C06 A1JW0 12 A1JW0 C08 C13 C 0 1 N N N N N N 10.877 -16.829 13.974 1.034 -1.604 -2.121 C08 A1JW0 13 A1JW0 C09 C14 C 0 1 Y N N N N N 11.188 -16.036 15.303 -0.263 -1.136 -1.515 C09 A1JW0 14 A1JW0 C11 C15 C 0 1 Y N N N N N 12.465 -15.584 17.294 -1.789 0.639 -1.008 C11 A1JW0 15 A1JW0 C12 C16 C 0 1 Y N N N N N 11.616 -14.522 17.625 -2.642 -0.274 -0.390 C12 A1JW0 16 A1JW0 C16 C17 C 0 1 Y N N N N N 12.146 -12.849 21.559 -6.245 1.068 1.333 C16 A1JW0 17 A1JW0 C18 C18 C 0 1 Y N N N N N 12.724 -10.940 23.147 -8.240 2.463 0.971 C18 A1JW0 18 A1JW0 C19 C19 C 0 1 Y N N N N N 11.848 -9.878 23.090 -8.003 3.772 0.721 C19 A1JW0 19 A1JW0 C23 C20 C 0 1 N N N N N N 15.160 -11.236 23.353 -9.831 0.724 0.112 C23 A1JW0 20 A1JW0 C25 C21 C 0 1 Y N N N N N 11.994 -11.924 20.484 -6.237 -0.183 0.739 C25 A1JW0 21 A1JW0 C27 C22 C 0 1 Y N N N N N 11.655 -11.352 17.980 -4.986 -1.969 -0.484 C27 A1JW0 22 A1JW0 C29 C23 C 0 1 Y N N N N N 10.692 -9.315 17.108 -5.395 -4.334 -0.422 C29 A1JW0 23 A1JW0 C30 C24 C 0 1 Y N N N N N 11.378 -9.487 15.908 -4.861 -4.457 -1.692 C30 A1JW0 24 A1JW0 C31 C25 C 0 1 Y N N N N N 12.200 -10.606 15.744 -4.389 -3.342 -2.361 C31 A1JW0 25 A1JW0 C32 C26 C 0 1 Y N N N N N 12.342 -11.529 16.788 -4.454 -2.099 -1.766 C32 A1JW0 26 A1JW0 C33 C27 C 0 1 Y N N N N N 10.530 -14.239 16.819 -2.292 -1.623 -0.339 C33 A1JW0 27 A1JW0 C34 C28 C 0 1 Y N N N N N 10.334 -14.986 15.653 -1.108 -2.047 -0.906 C34 A1JW0 28 A1JW0 C35 C29 C 0 1 N N N N N N 9.953 -18.685 15.024 3.316 -2.211 -1.587 C35 A1JW0 29 A1JW0 C36 C30 C 0 1 N N N N N N 9.959 -20.247 15.011 4.349 -2.259 -0.458 C36 A1JW0 30 A1JW0 C37 C31 C 0 1 Y N N N N N 9.051 -23.265 13.535 6.883 -0.299 1.130 C37 A1JW0 31 A1JW0 C38 C32 C 0 1 Y N N N N N 7.789 -23.051 12.965 7.610 0.426 0.199 C38 A1JW0 32 A1JW0 C39 C33 C 0 1 Y N N N N N 6.954 -24.166 12.729 8.884 0.874 0.517 C39 A1JW0 33 A1JW0 C41 C34 C 0 1 N N N N N N 4.466 -24.785 12.468 8.989 2.432 -1.280 C41 A1JW0 34 A1JW0 C42 C35 C 0 1 N N N N N N 3.186 -24.434 11.688 9.767 3.130 -2.365 C42 A1JW0 35 A1JW0 C43 C36 C 0 1 N N N N N N 1.929 -25.209 12.116 8.819 3.999 -3.194 C43 A1JW0 36 A1JW0 C45 C37 C 0 1 Y N N N N N 7.395 -25.480 13.041 9.430 0.597 1.765 C45 A1JW0 37 A1JW0 C46 C38 C 0 1 Y N N N N N 8.658 -25.678 13.607 8.708 -0.126 2.694 C46 A1JW0 38 A1JW0 C47 C39 C 0 1 Y N N N N N 9.487 -24.559 13.857 7.433 -0.573 2.384 C47 A1JW0 39 A1JW0 N03 N1 N 0 1 N N N N N N 10.094 -22.306 13.926 5.613 -0.872 1.113 N03 A1JW0 40 A1JW0 N07 N2 N 0 1 N N N N N N 10.878 -18.064 14.072 2.098 -1.545 -1.109 N07 A1JW0 41 A1JW0 N14 N3 N 0 1 Y N N N N N 11.951 -14.581 19.997 -3.977 1.380 0.789 N14 A1JW0 42 A1JW0 N21 N4 N 0 1 Y N N N N N 13.906 -9.053 23.253 -9.643 3.168 -0.605 N21 A1JW0 43 A1JW0 N22 N5 N 0 1 Y N N N N N 13.944 -10.438 23.257 -9.251 2.068 0.169 N22 A1JW0 44 A1JW0 N40 N6 N 0 1 N N N N N N 5.635 -23.980 12.119 9.621 1.607 -0.421 N40 A1JW0 45 A1JW0 N48 N7 N 0 1 N N N N N N 10.832 -24.483 14.432 6.479 -1.305 3.091 N48 A1JW0 46 A1JW0 O01 O1 O 0 1 N N N N N N 12.228 -22.717 14.878 4.387 -2.066 2.614 O01 A1JW0 47 A1JW0 O44 O2 O 0 1 N N N N N N 4.502 -25.662 13.293 7.793 2.612 -1.179 O44 A1JW0 48 A1JW0 H101 H1 H 0 0 N N N N N N 12.949 -17.131 15.859 0.059 0.910 -2.043 H101 A1JW0 49 A1JW0 H151 H2 H 0 0 N N N N N N 12.256 -14.940 22.039 -5.097 2.805 1.796 H151 A1JW0 50 A1JW0 H171 H3 H 0 0 N N N N N N 13.150 -13.033 23.514 -8.142 0.768 2.264 H171 A1JW0 51 A1JW0 H172 H4 H 0 0 N N N N N N 11.411 -12.597 23.623 -7.249 2.196 2.842 H172 A1JW0 52 A1JW0 H201 H5 H 0 0 N N N N N N 12.225 -7.687 23.161 -8.957 5.182 -0.692 H201 A1JW0 53 A1JW0 H241 H6 H 0 0 N N N N N N 16.589 -12.129 21.998 -11.281 -0.437 1.204 H241 A1JW0 54 A1JW0 H242 H7 H 0 0 N N N N N N 14.903 -12.082 21.380 -10.488 0.838 2.160 H242 A1JW0 55 A1JW0 H243 H8 H 0 0 N N N N N N 15.885 -10.579 21.426 -11.734 1.267 0.963 H243 A1JW0 56 A1JW0 H281 H9 H 0 0 N N N N N N 10.298 -10.092 19.082 -5.874 -3.003 1.178 H281 A1JW0 57 A1JW0 H041 H10 H 0 0 N N N N N N 8.976 -20.646 13.239 5.110 -0.277 -0.835 H041 A1JW0 58 A1JW0 H051 H11 H 0 0 N N N N N N 11.943 -20.380 13.137 2.957 -0.676 1.294 H051 A1JW0 59 A1JW0 H052 H12 H 0 0 N N N N N N 10.790 -20.552 11.769 3.591 0.887 0.724 H052 A1JW0 60 A1JW0 H061 H13 H 0 0 N N N N N N 11.499 -18.197 12.088 1.444 0.319 -0.395 H061 A1JW0 61 A1JW0 H062 H14 H 0 0 N N N N N N 9.736 -18.405 12.364 2.786 0.387 -1.563 H062 A1JW0 62 A1JW0 H081 H15 H 0 0 N N N N N N 9.883 -16.519 13.620 0.923 -2.630 -2.471 H081 A1JW0 63 A1JW0 H082 H16 H 0 0 N N N N N N 11.635 -16.549 13.228 1.296 -0.961 -2.961 H082 A1JW0 64 A1JW0 H111 H17 H 0 0 N N N N N N 13.286 -15.832 17.951 -2.054 1.685 -1.050 H111 A1JW0 65 A1JW0 H191 H18 H 0 0 N N N N N N 10.773 -9.940 23.002 -7.258 4.386 1.205 H191 A1JW0 66 A1JW0 H231 H19 H 0 0 N N N N N N 15.924 -10.679 23.915 -9.050 -0.016 0.286 H231 A1JW0 67 A1JW0 H232 H20 H 0 0 N N N N N N 14.942 -12.182 23.870 -10.274 0.561 -0.871 H232 A1JW0 68 A1JW0 H251 H21 H 0 0 N N N N N N 12.014 -10.863 20.687 -7.129 -0.792 0.720 H251 A1JW0 69 A1JW0 H291 H22 H 0 0 N N N N N N 10.047 -8.458 17.235 -5.762 -5.209 0.095 H291 A1JW0 70 A1JW0 H301 H23 H 0 0 N N N N N N 11.276 -8.764 15.113 -4.811 -5.428 -2.164 H301 A1JW0 71 A1JW0 H311 H24 H 0 0 N N N N N N 12.725 -10.759 14.813 -3.973 -3.444 -3.352 H311 A1JW0 72 A1JW0 H321 H25 H 0 0 N N N N N N 12.990 -12.384 16.664 -4.085 -1.229 -2.289 H321 A1JW0 73 A1JW0 H331 H26 H 0 0 N N N N N N 9.841 -13.451 17.086 -2.949 -2.335 0.139 H331 A1JW0 74 A1JW0 H341 H27 H 0 0 N N N N N N 9.502 -14.746 15.007 -0.836 -3.092 -0.868 H341 A1JW0 75 A1JW0 H351 H28 H 0 0 N N N N N N 10.225 -18.349 16.036 3.726 -1.657 -2.431 H351 A1JW0 76 A1JW0 H352 H29 H 0 0 N N N N N N 8.935 -18.344 14.786 3.075 -3.227 -1.901 H352 A1JW0 77 A1JW0 H361 H30 H 0 0 N N N N N N 10.852 -20.598 15.548 5.259 -2.739 -0.817 H361 A1JW0 78 A1JW0 H362 H31 H 0 0 N N N N N N 9.056 -20.605 15.527 3.945 -2.824 0.381 H362 A1JW0 79 A1JW0 H381 H32 H 0 0 N N N N N N 7.461 -22.054 12.711 7.186 0.641 -0.771 H381 A1JW0 80 A1JW0 H421 H33 H 0 0 N N N N N N 3.368 -24.641 10.623 10.535 3.758 -1.915 H421 A1JW0 81 A1JW0 H422 H34 H 0 0 N N N N N N 2.987 -23.361 11.824 10.236 2.387 -3.011 H422 A1JW0 82 A1JW0 H431 H35 H 0 0 N N N N N N 1.074 -24.889 11.503 8.050 3.371 -3.644 H431 A1JW0 83 A1JW0 H432 H36 H 0 0 N N N N N N 2.097 -26.287 11.975 8.349 4.742 -2.549 H432 A1JW0 84 A1JW0 H433 H37 H 0 0 N N N N N N 1.717 -25.006 13.176 9.381 4.504 -3.979 H433 A1JW0 85 A1JW0 H451 H38 H 0 0 N N N N N N 6.754 -26.326 12.841 10.422 0.947 2.008 H451 A1JW0 86 A1JW0 H461 H39 H 0 0 N N N N N N 8.997 -26.674 13.851 9.136 -0.340 3.662 H461 A1JW0 87 A1JW0 H401 H41 H 0 0 N N N N N N 5.529 -23.265 11.428 10.587 1.521 -0.454 H401 A1JW0 88 A1JW0 H481 H42 H 0 0 N N N N N N 11.391 -25.250 14.746 6.575 -1.638 3.997 H481 A1JW0 89 # 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 A1JW0 C02 O01 DOUB N N 1 A1JW0 N03 C02 SING N N 2 A1JW0 C05 C04 SING N N 3 A1JW0 C06 C05 SING N N 4 A1JW0 N07 C06 SING N N 5 A1JW0 C09 C08 SING N N 6 A1JW0 C10 C09 DOUB Y N 7 A1JW0 C11 C10 SING Y N 8 A1JW0 C12 C11 DOUB Y N 9 A1JW0 N14 C13 DOUB Y N 10 A1JW0 C15 N14 SING Y N 11 A1JW0 C16 C15 DOUB Y N 12 A1JW0 C18 C17 SING N N 13 A1JW0 C19 C18 DOUB Y N 14 A1JW0 C20 C19 SING Y N 15 A1JW0 N21 C20 DOUB Y N 16 A1JW0 N22 N21 SING Y N 17 A1JW0 C23 N22 SING N N 18 A1JW0 C24 C23 SING N N 19 A1JW0 C17 C16 SING N N 20 A1JW0 C25 C16 SING Y N 21 A1JW0 C26 C25 DOUB Y N 22 A1JW0 C27 C26 SING N N 23 A1JW0 C28 C27 DOUB Y N 24 A1JW0 C29 C28 SING Y N 25 A1JW0 C30 C29 DOUB Y N 26 A1JW0 C31 C30 SING Y N 27 A1JW0 C32 C31 DOUB Y N 28 A1JW0 C13 C12 SING N N 29 A1JW0 C33 C12 SING Y N 30 A1JW0 C34 C33 DOUB Y N 31 A1JW0 C08 N07 SING N N 32 A1JW0 C35 N07 SING N N 33 A1JW0 C36 C35 SING N N 34 A1JW0 C04 N03 SING N N 35 A1JW0 C37 N03 SING N N 36 A1JW0 C38 C37 DOUB Y N 37 A1JW0 C39 C38 SING Y N 38 A1JW0 C41 N40 SING N N 39 A1JW0 C43 C42 SING N N 40 A1JW0 C42 C41 SING N N 41 A1JW0 O44 C41 DOUB N N 42 A1JW0 N40 C39 SING N N 43 A1JW0 C45 C39 DOUB Y N 44 A1JW0 C46 C45 SING Y N 45 A1JW0 C47 C46 DOUB Y N 46 A1JW0 N48 C47 SING N N 47 A1JW0 C02 N48 SING N N 48 A1JW0 C04 C36 SING N N 49 A1JW0 C09 C34 SING Y N 50 A1JW0 C13 C26 SING Y N 51 A1JW0 C18 N22 SING Y N 52 A1JW0 C27 C32 SING Y N 53 A1JW0 C37 C47 SING Y N 54 A1JW0 C10 H101 SING N N 55 A1JW0 C15 H151 SING N N 56 A1JW0 C17 H171 SING N N 57 A1JW0 C17 H172 SING N N 58 A1JW0 C20 H201 SING N N 59 A1JW0 C24 H241 SING N N 60 A1JW0 C24 H242 SING N N 61 A1JW0 C24 H243 SING N N 62 A1JW0 C28 H281 SING N N 63 A1JW0 C04 H041 SING N N 64 A1JW0 C05 H051 SING N N 65 A1JW0 C05 H052 SING N N 66 A1JW0 C06 H061 SING N N 67 A1JW0 C06 H062 SING N N 68 A1JW0 C08 H081 SING N N 69 A1JW0 C08 H082 SING N N 70 A1JW0 C11 H111 SING N N 71 A1JW0 C19 H191 SING N N 72 A1JW0 C23 H231 SING N N 73 A1JW0 C23 H232 SING N N 74 A1JW0 C25 H251 SING N N 75 A1JW0 C29 H291 SING N N 76 A1JW0 C30 H301 SING N N 77 A1JW0 C31 H311 SING N N 78 A1JW0 C32 H321 SING N N 79 A1JW0 C33 H331 SING N N 80 A1JW0 C34 H341 SING N N 81 A1JW0 C35 H351 SING N N 82 A1JW0 C35 H352 SING N N 83 A1JW0 C36 H361 SING N N 84 A1JW0 C36 H362 SING N N 85 A1JW0 C38 H381 SING N N 86 A1JW0 C42 H421 SING N N 87 A1JW0 C42 H422 SING N N 88 A1JW0 C43 H431 SING N N 89 A1JW0 C43 H432 SING N N 90 A1JW0 C43 H433 SING N N 91 A1JW0 C45 H451 SING N N 92 A1JW0 C46 H461 SING N N 93 A1JW0 N40 H401 SING N N 94 A1JW0 N48 H481 SING N N 95 # 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 A1JW0 InChI InChI 1.06 "InChI=1S/C39H41N7O2/c1-3-37(47)42-31-14-15-35-36(24-31)46(39(48)43-35)32-17-20-44(21-18-32)26-27-10-12-30(13-11-27)38-34(29-8-6-5-7-9-29)23-28(25-40-38)22-33-16-19-41-45(33)4-2/h5-16,19,23-25,32H,3-4,17-18,20-22,26H2,1-2H3,(H,42,47)(H,43,48)" A1JW0 InChIKey InChI 1.06 ZTAMGSGRBQCISS-UHFFFAOYSA-N A1JW0 SMILES_CANONICAL CACTVS 3.385 "CCn1nccc1Cc2cnc(c3ccc(CN4CCC(CC4)N5C(=O)Nc6ccc(NC(=O)CC)cc56)cc3)c(c2)c7ccccc7" A1JW0 SMILES CACTVS 3.385 "CCn1nccc1Cc2cnc(c3ccc(CN4CCC(CC4)N5C(=O)Nc6ccc(NC(=O)CC)cc56)cc3)c(c2)c7ccccc7" A1JW0 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCC(=O)Nc1ccc2c(c1)N(C(=O)N2)C3CCN(CC3)Cc4ccc(cc4)c5c(cc(cn5)Cc6ccnn6CC)c7ccccc7" A1JW0 SMILES "OpenEye OEToolkits" 2.0.7 "CCC(=O)Nc1ccc2c(c1)N(C(=O)N2)C3CCN(CC3)Cc4ccc(cc4)c5c(cc(cn5)Cc6ccnn6CC)c7ccccc7" # _pdbx_chem_comp_identifier.comp_id A1JW0 _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-[1-[[4-[5-[(2-ethylpyrazol-3-yl)methyl]-3-phenyl-pyridin-2-yl]phenyl]methyl]piperidin-4-yl]-2-oxidanylidene-1~{H}-benzimidazol-5-yl]propanamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1JW0 "Create component" 2025-12-17 PDBE A1JW0 "Modify PCM" 2025-12-18 PDBE A1JW0 "Initial release" 2026-09-16 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1JW0 _pdbx_chem_comp_pcm.modified_residue_id CYS _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Covalent chemical modification" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _pdbx_chem_comp_pcm.polypeptide_position "Any position" _pdbx_chem_comp_pcm.comp_id_linking_atom C43 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #