data_A1A3D # _chem_comp.id A1A3D _chem_comp.name "1-[(1r,3r)-3-(methylcarbamoyl)cyclobutyl]-N-[(1-methylpiperidin-4-yl)methyl]-2-(3,4,5-trimethoxyphenyl)-1H-1,3-benzimidazole-6-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C30 H39 N5 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-08-23 _chem_comp.pdbx_modified_date 2024-11-22 _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 549.661 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1A3D _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 9D8Z _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? # 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 A1A3D C28 C1 C 0 1 Y N N N N N 0.977 -3.994 5.987 -3.741 1.913 -0.885 C28 A1A3D 1 A1A3D C27 C2 C 0 1 Y N N N N N -0.422 -3.906 5.862 -3.133 1.404 0.265 C27 A1A3D 2 A1A3D C26 C3 C 0 1 Y N N N N N -1.149 -4.101 4.563 -1.667 1.233 0.312 C26 A1A3D 3 A1A3D C25 C4 C 0 1 N N N N N N -0.247 -7.684 3.534 -2.705 -1.662 0.803 C25 A1A3D 4 A1A3D C23 C5 C 0 1 N N N N N N 4.798 -8.582 3.817 -3.497 -6.020 -0.408 C23 A1A3D 5 A1A3D C21 C6 C 0 1 N N N N N N 2.356 -8.142 3.671 -3.189 -3.626 -0.746 C21 A1A3D 6 A1A3D C18 C7 C 0 1 N N N N N N 0.096 -6.159 3.757 -1.613 -1.245 -0.197 C18 A1A3D 7 A1A3D C16 C8 C 0 1 Y N N N N N -1.893 -5.003 2.578 0.346 0.318 0.236 C16 A1A3D 8 A1A3D C15 C9 C 0 1 Y N N N N N -2.665 -3.871 2.949 0.450 1.694 0.523 C15 A1A3D 9 A1A3D C14 C10 C 0 1 Y N N N N N -3.704 -3.460 2.082 1.714 2.269 0.711 C14 A1A3D 10 A1A3D C12 C11 C 0 1 Y N N N N N -3.220 -5.279 0.519 2.737 0.131 0.334 C12 A1A3D 11 A1A3D C11 C12 C 0 1 N N N N N N -3.817 -5.844 -4.077 8.868 -0.926 0.592 C11 A1A3D 12 A1A3D C02 C13 C 0 1 N N N N N N -3.497 -6.119 -0.724 3.960 -0.689 0.236 C02 A1A3D 13 A1A3D C04 C14 C 0 1 N N N N N N -5.123 -7.217 -2.435 6.383 -0.936 0.322 C04 A1A3D 14 A1A3D C05 C15 C 0 1 N N N N N N -5.176 -6.491 -3.828 7.609 -0.055 0.570 C05 A1A3D 15 A1A3D C06 C16 C 0 1 N N N N N N -5.504 -7.448 -4.992 7.732 0.979 -0.553 C06 A1A3D 16 A1A3D C07 C17 C 0 1 N N N N N N -4.454 -7.452 -6.026 8.994 1.817 -0.332 C07 A1A3D 17 A1A3D C09 C18 C 0 1 N N N N N N -3.333 -6.143 -7.634 10.334 0.259 -1.612 C09 A1A3D 18 A1A3D C10 C19 C 0 1 N N N N N N -3.700 -5.202 -5.542 10.097 -0.033 0.780 C10 A1A3D 19 A1A3D C13 C20 C 0 1 Y N N N N N -3.983 -4.163 0.927 2.835 1.500 0.618 C13 A1A3D 20 A1A3D C19 C21 C 0 1 N N N N N N 1.071 -6.363 2.514 -2.724 -1.174 -1.259 C19 A1A3D 21 A1A3D C20 C22 C 0 1 N N N N N N 1.122 -7.865 2.845 -3.497 -2.191 -0.404 C20 A1A3D 22 A1A3D C29 C23 C 0 1 Y N N N N N 1.647 -3.882 7.222 -5.114 2.073 -0.926 C29 A1A3D 23 A1A3D C31 C24 C 0 1 N N N N N N 3.737 -3.982 6.045 -4.849 2.912 -3.136 C31 A1A3D 24 A1A3D C32 C25 C 0 1 Y N N N N N 0.939 -3.757 8.419 -5.891 1.723 0.174 C32 A1A3D 25 A1A3D C34 C26 C 0 1 N N N N N N 1.620 -2.313 10.123 -8.008 0.777 -0.352 C34 A1A3D 26 A1A3D C35 C27 C 0 1 Y N N N N N -0.469 -3.666 8.321 -5.288 1.211 1.319 C35 A1A3D 27 A1A3D C37 C28 C 0 1 N N N N N N -2.490 -3.410 9.413 -6.122 -0.519 2.722 C37 A1A3D 28 A1A3D C38 C29 C 0 1 Y N N N N N -1.132 -3.784 7.074 -3.914 1.059 1.370 C38 A1A3D 29 A1A3D C40 C30 C 0 1 Y N N N N N -2.196 -5.682 1.367 1.487 -0.457 0.143 C40 A1A3D 30 A1A3D N03 N1 N 0 1 N N N N N N -4.790 -6.338 -1.276 5.169 -0.121 0.419 N03 A1A3D 31 A1A3D N08 N2 N 0 1 N N N N N N -4.311 -6.071 -6.594 10.170 0.938 -0.319 N08 A1A3D 32 A1A3D N17 N3 N 0 1 Y N N N N N -0.953 -5.162 3.629 -1.005 0.053 0.106 N17 A1A3D 33 A1A3D N22 N4 N 0 1 N N N N N N 3.579 -8.331 3.030 -3.796 -4.625 -0.075 N22 A1A3D 34 A1A3D N39 N5 N 0 1 Y N N N N N -2.213 -3.346 4.191 -0.802 2.190 0.553 N39 A1A3D 35 A1A3D O01 O1 O 0 1 N N N N N N -2.535 -6.759 -1.168 3.877 -1.877 -0.011 O01 A1A3D 36 A1A3D O24 O2 O 0 1 N N N N N N 2.326 -8.149 4.892 -2.394 -3.882 -1.626 O24 A1A3D 37 A1A3D O30 O3 O 0 1 N N N N N N 3.036 -3.984 7.284 -5.706 2.573 -2.044 O30 A1A3D 38 A1A3D O33 O4 O 0 1 N N N N N N 1.621 -3.628 9.588 -7.240 1.881 0.131 O33 A1A3D 39 A1A3D O36 O5 O 0 1 N N N N N N -1.146 -3.556 9.498 -6.049 0.870 2.394 O36 A1A3D 40 A1A3D H281 H1 H 0 0 N N N N N N 1.565 -4.155 5.095 -3.139 2.185 -1.739 H281 A1A3D 41 A1A3D H251 H2 H 0 0 N N N N N N -1.111 -7.862 2.877 -2.388 -2.443 1.494 H251 A1A3D 42 A1A3D H252 H3 H 0 0 N N N N N N -0.366 -8.262 4.462 -3.182 -0.821 1.305 H252 A1A3D 43 A1A3D H231 H4 H 0 0 N N N N N N 5.655 -8.704 3.138 -4.078 -6.680 0.235 H231 A1A3D 44 A1A3D H233 H5 H 0 0 N N N N N N 4.982 -7.731 4.489 -3.754 -6.208 -1.450 H233 A1A3D 45 A1A3D H232 H6 H 0 0 N N N N N N 4.668 -9.498 4.412 -2.434 -6.209 -0.257 H232 A1A3D 46 A1A3D H181 H7 H 0 0 N N N N N N 0.681 -6.030 4.680 -0.875 -2.023 -0.388 H181 A1A3D 47 A1A3D H141 H8 H 0 0 N N N N N N -4.287 -2.584 2.327 1.800 3.322 0.931 H141 A1A3D 48 A1A3D H112 H9 H 0 0 N N N N N N -3.036 -6.610 -3.965 8.805 -1.636 1.416 H112 A1A3D 49 A1A3D H111 H10 H 0 0 N N N N N N -3.662 -5.051 -3.331 8.952 -1.468 -0.350 H111 A1A3D 50 A1A3D H041 H11 H 0 0 N N N N N N -6.108 -7.669 -2.248 6.446 -1.375 -0.674 H041 A1A3D 51 A1A3D H042 H12 H 0 0 N N N N N N -4.362 -8.009 -2.492 6.348 -1.730 1.067 H042 A1A3D 52 A1A3D H051 H13 H 0 0 N N N N N N -5.946 -5.706 -3.784 7.503 0.456 1.527 H051 A1A3D 53 A1A3D H061 H14 H 0 0 N N N N N N -6.452 -7.133 -5.452 7.799 0.467 -1.513 H061 A1A3D 54 A1A3D H062 H15 H 0 0 N N N N N N -5.611 -8.467 -4.592 6.857 1.629 -0.547 H062 A1A3D 55 A1A3D H071 H16 H 0 0 N N N N N N -4.731 -8.152 -6.828 9.092 2.544 -1.137 H071 A1A3D 56 A1A3D H072 H17 H 0 0 N N N N N N -3.499 -7.766 -5.579 8.920 2.339 0.622 H072 A1A3D 57 A1A3D H093 H18 H 0 0 N N N N N N -3.197 -5.147 -8.080 10.460 1.002 -2.399 H093 A1A3D 58 A1A3D H092 H19 H 0 0 N N N N N N -2.377 -6.491 -7.215 11.212 -0.385 -1.575 H092 A1A3D 59 A1A3D H091 H20 H 0 0 N N N N N N -3.672 -6.847 -8.408 9.450 -0.344 -1.820 H091 A1A3D 60 A1A3D H101 H21 H 0 0 N N N N N N -2.636 -5.054 -5.779 10.018 0.498 1.729 H101 A1A3D 61 A1A3D H102 H22 H 0 0 N N N N N N -4.214 -4.230 -5.544 10.996 -0.648 0.781 H102 A1A3D 62 A1A3D H131 H23 H 0 0 N N N N N N -4.814 -3.848 0.314 3.806 1.949 0.765 H131 A1A3D 63 A1A3D H191 H24 H 0 0 N N N N N N 2.037 -5.845 2.605 -3.207 -0.199 -1.321 H191 A1A3D 64 A1A3D H192 H25 H 0 0 N N N N N N 0.619 -6.128 1.539 -2.422 -1.561 -2.232 H192 A1A3D 65 A1A3D H201 H26 H 0 0 N N N N N N 1.058 -8.496 1.946 -4.567 -1.990 -0.346 H201 A1A3D 66 A1A3D H311 H27 H 0 0 N N N N N N 4.817 -4.067 6.234 -4.309 2.024 -3.463 H311 A1A3D 67 A1A3D H313 H28 H 0 0 N N N N N N 3.404 -4.834 5.434 -5.447 3.299 -3.961 H313 A1A3D 68 A1A3D H312 H29 H 0 0 N N N N N N 3.532 -3.044 5.509 -4.137 3.673 -2.816 H312 A1A3D 69 A1A3D H341 H30 H 0 0 N N N N N N 2.191 -2.299 11.063 -9.067 1.035 -0.335 H341 A1A3D 70 A1A3D H342 H31 H 0 0 N N N N N N 2.084 -1.624 9.402 -7.707 0.545 -1.374 H342 A1A3D 71 A1A3D H343 H32 H 0 0 N N N N N N 0.584 -1.997 10.318 -7.835 -0.092 0.283 H343 A1A3D 72 A1A3D H372 H33 H 0 0 N N N N N N -2.916 -3.333 10.424 -7.018 -0.705 3.314 H372 A1A3D 73 A1A3D H371 H34 H 0 0 N N N N N N -2.724 -2.497 8.846 -6.163 -1.107 1.806 H371 A1A3D 74 A1A3D H373 H35 H 0 0 N N N N N N -2.922 -4.282 8.899 -5.241 -0.803 3.298 H373 A1A3D 75 A1A3D H381 H36 H 0 0 N N N N N N -2.212 -3.780 7.051 -3.446 0.665 2.260 H381 A1A3D 76 A1A3D H401 H37 H 0 0 N N N N N N -1.607 -6.545 1.095 1.411 -1.512 -0.076 H401 A1A3D 77 A1A3D H031 H38 H 0 0 N N N N N N -5.552 -5.855 -0.844 5.235 0.826 0.616 H031 A1A3D 78 A1A3D H221 H40 H 0 0 N N N N N N 3.629 -8.296 2.032 -4.432 -4.420 0.628 H221 A1A3D 79 # 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 A1A3D C09 N08 SING N N 1 A1A3D N08 C07 SING N N 2 A1A3D N08 C10 SING N N 3 A1A3D C07 C06 SING N N 4 A1A3D C10 C11 SING N N 5 A1A3D C06 C05 SING N N 6 A1A3D C11 C05 SING N N 7 A1A3D C05 C04 SING N N 8 A1A3D C04 N03 SING N N 9 A1A3D N03 C02 SING N N 10 A1A3D O01 C02 DOUB N N 11 A1A3D C02 C12 SING N N 12 A1A3D C12 C13 DOUB Y N 13 A1A3D C12 C40 SING Y N 14 A1A3D C13 C14 SING Y N 15 A1A3D C40 C16 DOUB Y N 16 A1A3D C14 C15 DOUB Y N 17 A1A3D C19 C20 SING N N 18 A1A3D C19 C18 SING N N 19 A1A3D C16 C15 SING Y N 20 A1A3D C16 N17 SING Y N 21 A1A3D C20 C25 SING N N 22 A1A3D C20 C21 SING N N 23 A1A3D C15 N39 SING Y N 24 A1A3D N22 C21 SING N N 25 A1A3D N22 C23 SING N N 26 A1A3D C25 C18 SING N N 27 A1A3D N17 C18 SING N N 28 A1A3D N17 C26 SING Y N 29 A1A3D C21 O24 DOUB N N 30 A1A3D N39 C26 DOUB Y N 31 A1A3D C26 C27 SING N N 32 A1A3D C27 C28 DOUB Y N 33 A1A3D C27 C38 SING Y N 34 A1A3D C28 C29 SING Y N 35 A1A3D C31 O30 SING N N 36 A1A3D C38 C35 DOUB Y N 37 A1A3D C29 O30 SING N N 38 A1A3D C29 C32 DOUB Y N 39 A1A3D C35 C32 SING Y N 40 A1A3D C35 O36 SING N N 41 A1A3D C32 O33 SING N N 42 A1A3D C37 O36 SING N N 43 A1A3D O33 C34 SING N N 44 A1A3D C28 H281 SING N N 45 A1A3D C25 H251 SING N N 46 A1A3D C25 H252 SING N N 47 A1A3D C23 H231 SING N N 48 A1A3D C23 H233 SING N N 49 A1A3D C23 H232 SING N N 50 A1A3D C18 H181 SING N N 51 A1A3D C14 H141 SING N N 52 A1A3D C11 H112 SING N N 53 A1A3D C11 H111 SING N N 54 A1A3D C04 H041 SING N N 55 A1A3D C04 H042 SING N N 56 A1A3D C05 H051 SING N N 57 A1A3D C06 H061 SING N N 58 A1A3D C06 H062 SING N N 59 A1A3D C07 H071 SING N N 60 A1A3D C07 H072 SING N N 61 A1A3D C09 H093 SING N N 62 A1A3D C09 H092 SING N N 63 A1A3D C09 H091 SING N N 64 A1A3D C10 H101 SING N N 65 A1A3D C10 H102 SING N N 66 A1A3D C13 H131 SING N N 67 A1A3D C19 H191 SING N N 68 A1A3D C19 H192 SING N N 69 A1A3D C20 H201 SING N N 70 A1A3D C31 H311 SING N N 71 A1A3D C31 H313 SING N N 72 A1A3D C31 H312 SING N N 73 A1A3D C34 H341 SING N N 74 A1A3D C34 H342 SING N N 75 A1A3D C34 H343 SING N N 76 A1A3D C37 H372 SING N N 77 A1A3D C37 H371 SING N N 78 A1A3D C37 H373 SING N N 79 A1A3D C38 H381 SING N N 80 A1A3D C40 H401 SING N N 81 A1A3D N03 H031 SING N N 82 A1A3D N22 H221 SING N N 83 # 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 A1A3D SMILES ACDLabs 14.52 "CN1CCC(CNC(=O)c2ccc3nc(c4cc(OC)c(OC)c(OC)c4)n(C4CC(C4)C(=O)NC)c3c2)CC1" A1A3D InChI InChI 1.06 "InChI=1S/C30H39N5O5/c1-31-29(36)21-12-22(13-21)35-24-14-19(30(37)32-17-18-8-10-34(2)11-9-18)6-7-23(24)33-28(35)20-15-25(38-3)27(40-5)26(16-20)39-4/h6-7,14-16,18,21-22H,8-13,17H2,1-5H3,(H,31,36)(H,32,37)/t21-,22-" A1A3D InChIKey InChI 1.06 UIZVBBVWCDAVED-HZCBDIJESA-N A1A3D SMILES_CANONICAL CACTVS 3.385 "CNC(=O)[C@H]1C[C@@H](C1)n2c3cc(ccc3nc2c4cc(OC)c(OC)c(OC)c4)C(=O)NCC5CCN(C)CC5" A1A3D SMILES CACTVS 3.385 "CNC(=O)[CH]1C[CH](C1)n2c3cc(ccc3nc2c4cc(OC)c(OC)c(OC)c4)C(=O)NCC5CCN(C)CC5" A1A3D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CNC(=O)C1CC(C1)n2c3cc(ccc3nc2c4cc(c(c(c4)OC)OC)OC)C(=O)NCC5CCN(CC5)C" A1A3D SMILES "OpenEye OEToolkits" 2.0.7 "CNC(=O)C1CC(C1)n2c3cc(ccc3nc2c4cc(c(c(c4)OC)OC)OC)C(=O)NCC5CCN(CC5)C" # 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 A1A3D "SYSTEMATIC NAME" ACDLabs 14.52 "1-[(1r,3r)-3-(methylcarbamoyl)cyclobutyl]-N-[(1-methylpiperidin-4-yl)methyl]-2-(3,4,5-trimethoxyphenyl)-1H-1,3-benzimidazole-6-carboxamide" A1A3D "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "3-[3-(methylcarbamoyl)cyclobutyl]-~{N}-[(1-methylpiperidin-4-yl)methyl]-2-(3,4,5-trimethoxyphenyl)benzimidazole-5-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 A1A3D "Create component" 2024-08-23 RCSB A1A3D "Initial release" 2024-11-27 RCSB #