data_A1D5N # _chem_comp.id A1D5N _chem_comp.name "(3~{S})-5-methyl-3-[[1-pentan-3-yl-2-(thiophen-2-ylmethyl)benzimidazol-5-yl]carbonylamino]hexanoic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C25 H33 N3 O3 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms CMF019 _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-01-24 _chem_comp.pdbx_modified_date 2024-03-15 _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 455.613 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1D5N _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 8XZI _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBC # 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 A1D5N C08 C1 C 0 1 N N N N N N 85.352 121.070 111.074 3.419 2.001 0.693 C08 A1D5N 1 A1D5N C09 C2 C 0 1 N N N N N N 84.223 122.068 110.837 4.521 1.291 1.482 C09 A1D5N 2 A1D5N C10 C3 C 0 1 N N N N N N 85.325 120.611 112.530 4.052 2.989 -0.289 C10 A1D5N 3 A1D5N C11 C4 C 0 1 Y N N N N N 87.118 122.771 111.362 1.274 0.811 0.048 C11 A1D5N 4 A1D5N C12 C5 C 0 1 Y N N N N N 87.552 121.245 109.892 3.114 0.117 -0.955 C12 A1D5N 5 A1D5N C13 C6 C 0 1 N N S N N N 89.497 128.771 113.589 -5.115 -0.303 0.171 C13 A1D5N 6 A1D5N C14 C7 C 0 1 N N N N N N 89.000 130.030 112.882 -5.446 -1.515 1.044 C14 A1D5N 7 A1D5N C15 C8 C 0 1 N N N N N N 89.225 129.927 111.375 -6.876 -1.976 0.754 C15 A1D5N 8 A1D5N C16 C9 C 0 1 Y N N N N N 88.364 123.022 110.819 0.973 -0.235 -0.845 C16 A1D5N 9 A1D5N C17 C10 C 0 1 N N N N N N 87.417 120.014 109.001 4.560 -0.009 -1.360 C17 A1D5N 10 A1D5N C18 C11 C 0 1 Y N N N N N 86.526 123.713 112.462 0.263 1.406 0.792 C18 A1D5N 11 A1D5N C19 C12 C 0 1 N N N N N N 89.253 128.911 115.089 -6.021 0.867 0.558 C19 A1D5N 12 A1D5N C20 C13 C 0 1 Y N N N N N 88.646 125.168 112.350 -1.345 -0.059 -0.223 C20 A1D5N 13 A1D5N C21 C14 C 0 1 Y N N N N N 89.202 124.256 111.295 -0.345 -0.667 -0.977 C21 A1D5N 14 A1D5N C22 C15 C 0 1 N N N N N N 82.963 121.312 110.431 5.235 2.301 2.383 C22 A1D5N 15 A1D5N C23 C16 C 0 1 N N N N N N 86.552 119.755 112.835 2.955 3.837 -0.937 C23 A1D5N 16 A1D5N C24 C17 C 0 1 Y N N N N N 87.315 124.898 112.931 -1.027 0.980 0.661 C24 A1D5N 17 A1D5N C25 C18 C 0 1 N N N N N N 89.443 126.372 112.832 -2.745 -0.511 -0.356 C25 A1D5N 18 A1D5N C26 C19 C 0 1 N N N N N N 90.620 129.375 111.089 -6.966 -2.481 -0.688 C26 A1D5N 19 A1D5N C27 C20 C 0 1 N N N N N N 89.089 131.312 110.749 -7.252 -3.106 1.715 C27 A1D5N 20 A1D5N C28 C21 C 0 1 Y N N N N N 86.999 120.461 107.607 5.154 -1.240 -0.726 C28 A1D5N 21 A1D5N C29 C22 C 0 1 N N N N N N 90.197 129.957 115.674 -5.780 2.021 -0.382 C29 A1D5N 22 A1D5N C30 C23 C 0 1 Y N N N N N 87.861 121.012 106.582 5.244 -2.437 -1.307 C30 A1D5N 23 A1D5N C31 C24 C 0 1 Y N N N N N 86.970 121.330 105.300 5.830 -3.421 -0.528 C31 A1D5N 24 A1D5N C32 C25 C 0 1 Y N N N N N 85.601 120.964 105.594 6.216 -3.022 0.685 C32 A1D5N 25 A1D5N N05 N1 N 0 1 Y N N N N N 86.634 121.687 110.789 2.634 1.011 -0.048 N05 A1D5N 26 A1D5N N06 N2 N 0 1 Y N N N N N 88.615 122.084 109.926 2.144 -0.612 -1.423 N06 A1D5N 27 A1D5N N07 N3 N 0 1 N N N N N N 88.759 127.617 113.115 -3.714 0.076 0.374 N07 A1D5N 28 A1D5N O02 O1 O 0 1 N N N N N N 90.610 126.281 112.987 -3.023 -1.413 -1.122 O02 A1D5N 29 A1D5N O03 O2 O 0 1 N N N N N N 89.733 130.954 116.286 -6.469 3.163 -0.232 O03 A1D5N 30 A1D5N O04 O3 O 0 1 N N N N N N 91.441 129.822 115.545 -4.967 1.918 -1.269 O04 A1D5N 31 A1D5N S01 S1 S 0 1 Y N N N N N 85.562 120.409 107.042 5.843 -1.315 0.891 S01 A1D5N 32 A1D5N H081 H1 H 0 0 N N N N N N 85.201 120.198 110.421 2.768 2.539 1.382 H081 A1D5N 33 A1D5N H092 H2 H 0 0 N N N N N N 84.509 122.764 110.035 4.079 0.505 2.096 H092 A1D5N 34 A1D5N H091 H3 H 0 0 N N N N N N 84.031 122.633 111.761 5.238 0.851 0.790 H091 A1D5N 35 A1D5N H101 H4 H 0 0 N N N N N N 85.323 121.492 113.189 4.745 3.639 0.246 H101 A1D5N 36 A1D5N H102 H5 H 0 0 N N N N N N 84.415 120.019 112.708 4.591 2.440 -1.061 H102 A1D5N 37 A1D5N H131 H6 H 0 0 N N N N N N 90.574 128.645 113.402 -5.275 -0.555 -0.877 H131 A1D5N 38 A1D5N H141 H7 H 0 0 N N N N N N 89.547 130.902 113.270 -4.751 -2.324 0.821 H141 A1D5N 39 A1D5N H142 H8 H 0 0 N N N N N N 87.925 130.154 113.079 -5.359 -1.240 2.095 H142 A1D5N 40 A1D5N H151 H9 H 0 0 N N N N N N 88.471 129.255 110.939 -7.562 -1.140 0.890 H151 A1D5N 41 A1D5N H172 H10 H 0 0 N N N N N N 86.655 119.338 109.417 4.628 -0.091 -2.445 H172 A1D5N 42 A1D5N H171 H11 H 0 0 N N N N N N 88.382 119.489 108.947 5.109 0.872 -1.028 H171 A1D5N 43 A1D5N H181 H12 H 0 0 N N N N N N 85.552 123.510 112.882 0.498 2.208 1.476 H181 A1D5N 44 A1D5N H192 H13 H 0 0 N N N N N N 88.212 129.222 115.262 -7.064 0.557 0.492 H192 A1D5N 45 A1D5N H191 H14 H 0 0 N N N N N N 89.432 127.943 115.579 -5.798 1.178 1.579 H191 A1D5N 46 A1D5N H211 H15 H 0 0 N N N N N N 90.174 124.450 110.867 -0.590 -1.469 -1.658 H211 A1D5N 47 A1D5N H221 H16 H 0 0 N N N N N N 82.145 122.027 110.259 5.763 3.027 1.766 H221 A1D5N 48 A1D5N H222 H17 H 0 0 N N N N N N 83.156 120.747 109.507 4.502 2.816 3.004 H222 A1D5N 49 A1D5N H223 H18 H 0 0 N N N N N N 82.678 120.616 111.234 5.949 1.778 3.020 H223 A1D5N 50 A1D5N H231 H19 H 0 0 N N N N N N 86.521 119.431 113.886 2.218 3.182 -1.402 H231 A1D5N 51 A1D5N H232 H20 H 0 0 N N N N N N 86.555 118.872 112.179 2.470 4.447 -0.176 H232 A1D5N 52 A1D5N H233 H21 H 0 0 N N N N N N 87.463 120.345 112.660 3.397 4.484 -1.695 H233 A1D5N 53 A1D5N H241 H22 H 0 0 N N N N N N 86.912 125.552 113.690 -1.808 1.446 1.243 H241 A1D5N 54 A1D5N H263 H23 H 0 0 N N N N N N 90.719 128.377 111.540 -7.997 -2.756 -0.912 H263 A1D5N 55 A1D5N H261 H24 H 0 0 N N N N N N 90.770 129.303 110.002 -6.643 -1.695 -1.369 H261 A1D5N 56 A1D5N H262 H25 H 0 0 N N N N N N 91.376 130.048 111.519 -6.324 -3.354 -0.808 H262 A1D5N 57 A1D5N H271 H26 H 0 0 N N N N N N 88.085 131.711 110.954 -7.187 -2.746 2.742 H271 A1D5N 58 A1D5N H273 H27 H 0 0 N N N N N N 89.845 131.985 111.179 -8.271 -3.435 1.508 H273 A1D5N 59 A1D5N H272 H28 H 0 0 N N N N N N 89.239 131.239 109.662 -6.566 -3.942 1.579 H272 A1D5N 60 A1D5N H301 H29 H 0 0 N N N N N N 88.924 121.179 106.671 4.886 -2.625 -2.308 H301 A1D5N 61 A1D5N H311 H30 H 0 0 N N N N N N 87.327 121.748 104.370 5.960 -4.435 -0.875 H311 A1D5N 62 A1D5N H321 H31 H 0 0 N N N N N N 84.758 121.060 104.926 6.689 -3.649 1.425 H321 A1D5N 63 A1D5N H071 H32 H 0 0 N N N N N N 87.770 127.681 112.982 -3.485 0.750 1.033 H071 A1D5N 64 A1D5N H1 H33 H 0 1 N N N N N N 90.448 131.503 116.585 -6.280 3.875 -0.859 H1 A1D5N 65 # 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 A1D5N C31 C32 DOUB Y N 1 A1D5N C31 C30 SING Y N 2 A1D5N C32 S01 SING Y N 3 A1D5N C30 C28 DOUB Y N 4 A1D5N S01 C28 SING Y N 5 A1D5N C28 C17 SING N N 6 A1D5N C17 C12 SING N N 7 A1D5N C12 N06 DOUB Y N 8 A1D5N C12 N05 SING Y N 9 A1D5N N06 C16 SING Y N 10 A1D5N C22 C09 SING N N 11 A1D5N C27 C15 SING N N 12 A1D5N N05 C08 SING N N 13 A1D5N N05 C11 SING Y N 14 A1D5N C16 C21 DOUB Y N 15 A1D5N C16 C11 SING Y N 16 A1D5N C09 C08 SING N N 17 A1D5N C08 C10 SING N N 18 A1D5N C26 C15 SING N N 19 A1D5N C21 C20 SING Y N 20 A1D5N C11 C18 DOUB Y N 21 A1D5N C15 C14 SING N N 22 A1D5N C20 C25 SING N N 23 A1D5N C20 C24 DOUB Y N 24 A1D5N C18 C24 SING Y N 25 A1D5N C10 C23 SING N N 26 A1D5N C25 O02 DOUB N N 27 A1D5N C25 N07 SING N N 28 A1D5N C14 C13 SING N N 29 A1D5N N07 C13 SING N N 30 A1D5N C13 C19 SING N N 31 A1D5N C19 C29 SING N N 32 A1D5N O04 C29 DOUB N N 33 A1D5N C29 O03 SING N N 34 A1D5N C08 H081 SING N N 35 A1D5N C09 H092 SING N N 36 A1D5N C09 H091 SING N N 37 A1D5N C10 H101 SING N N 38 A1D5N C10 H102 SING N N 39 A1D5N C13 H131 SING N N 40 A1D5N C14 H141 SING N N 41 A1D5N C14 H142 SING N N 42 A1D5N C15 H151 SING N N 43 A1D5N C17 H172 SING N N 44 A1D5N C17 H171 SING N N 45 A1D5N C18 H181 SING N N 46 A1D5N C19 H192 SING N N 47 A1D5N C19 H191 SING N N 48 A1D5N C21 H211 SING N N 49 A1D5N C22 H221 SING N N 50 A1D5N C22 H222 SING N N 51 A1D5N C22 H223 SING N N 52 A1D5N C23 H231 SING N N 53 A1D5N C23 H232 SING N N 54 A1D5N C23 H233 SING N N 55 A1D5N C24 H241 SING N N 56 A1D5N C26 H263 SING N N 57 A1D5N C26 H261 SING N N 58 A1D5N C26 H262 SING N N 59 A1D5N C27 H271 SING N N 60 A1D5N C27 H273 SING N N 61 A1D5N C27 H272 SING N N 62 A1D5N C30 H301 SING N N 63 A1D5N C31 H311 SING N N 64 A1D5N C32 H321 SING N N 65 A1D5N N07 H071 SING N N 66 A1D5N O03 H1 SING N N 67 # 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 A1D5N InChI InChI 1.06 "InChI=1S/C25H33N3O3S/c1-5-19(6-2)28-22-10-9-17(25(31)26-18(12-16(3)4)14-24(29)30)13-21(22)27-23(28)15-20-8-7-11-32-20/h7-11,13,16,18-19H,5-6,12,14-15H2,1-4H3,(H,26,31)(H,29,30)/t18-/m0/s1" A1D5N InChIKey InChI 1.06 VCQKKZXFASLXAH-SFHVURJKSA-N A1D5N SMILES_CANONICAL CACTVS 3.385 "CCC(CC)n1c(Cc2sccc2)nc3cc(ccc13)C(=O)N[C@@H](CC(C)C)CC(O)=O" A1D5N SMILES CACTVS 3.385 "CCC(CC)n1c(Cc2sccc2)nc3cc(ccc13)C(=O)N[CH](CC(C)C)CC(O)=O" A1D5N SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCC(CC)n1c2ccc(cc2nc1Cc3cccs3)C(=O)N[C@@H](CC(C)C)CC(=O)O" A1D5N SMILES "OpenEye OEToolkits" 2.0.7 "CCC(CC)n1c2ccc(cc2nc1Cc3cccs3)C(=O)NC(CC(C)C)CC(=O)O" # _pdbx_chem_comp_identifier.comp_id A1D5N _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 "(3~{S})-5-methyl-3-[[1-pentan-3-yl-2-(thiophen-2-ylmethyl)benzimidazol-5-yl]carbonylamino]hexanoic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1D5N "Create component" 2024-01-24 PDBC A1D5N "Initial release" 2024-03-20 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1D5N _pdbx_chem_comp_synonyms.name CMF019 _pdbx_chem_comp_synonyms.provenance PUBCHEM _pdbx_chem_comp_synonyms.type ? #