data_Y2O # _chem_comp.id Y2O _chem_comp.name "benzyl (2R,3S)-2-(carbamimidamidomethyl)-3-[2-(4-chloro-3-fluoroanilino)(oxo)acetamido]-6-[(methylamino)methyl]-2,3-dihydro-1H-indole-1-carboxylate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H29 Cl F N7 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-12-27 _chem_comp.pdbx_modified_date 2023-03-31 _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 582.026 _chem_comp.one_letter_code ? _chem_comp.three_letter_code Y2O _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 8FM7 _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.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 Y2O C10 C1 C 0 1 Y N N -33.771 -2.645 -78.307 6.769 -1.333 -2.352 C10 Y2O 1 Y2O C13 C2 C 0 1 N N N -28.059 -2.500 -77.627 1.484 3.207 0.401 C13 Y2O 2 Y2O C15 C3 C 0 1 N N N -25.697 -2.826 -78.600 0.399 5.388 0.739 C15 Y2O 3 Y2O C20 C4 C 0 1 N N N -25.844 0.681 -75.910 -2.170 0.551 1.010 C20 Y2O 4 Y2O C21 C5 C 0 1 N N N -25.648 2.191 -75.646 -3.459 0.165 0.363 C21 Y2O 5 Y2O C24 C6 C 0 1 Y N N -24.709 4.991 -75.364 -6.070 -0.081 -0.772 C24 Y2O 6 Y2O C02 C7 C 0 1 N N N -30.740 -1.395 -76.391 3.375 1.239 -1.001 C02 Y2O 7 Y2O C04 C8 C 0 1 N N N -32.125 -0.676 -78.195 5.578 0.800 -1.808 C04 Y2O 8 Y2O C05 C9 C 0 1 Y N N -32.660 -1.996 -78.840 6.705 -0.177 -1.596 C05 Y2O 9 Y2O C06 C10 C 0 1 Y N N -31.999 -2.554 -79.961 7.675 0.082 -0.646 C06 Y2O 10 Y2O C07 C11 C 0 1 Y N N -32.441 -3.730 -80.546 8.709 -0.815 -0.452 C07 Y2O 11 Y2O C08 C12 C 0 1 Y N N -33.554 -4.368 -80.007 8.773 -1.970 -1.208 C08 Y2O 12 Y2O C09 C13 C 0 1 Y N N -34.219 -3.836 -78.897 7.800 -2.232 -2.154 C09 Y2O 13 Y2O C12 C14 C 0 1 N N R -28.225 -1.400 -76.532 1.114 1.815 -0.115 C12 Y2O 14 Y2O C18 C15 C 0 1 N N S -27.177 -1.401 -75.496 0.202 1.097 0.893 C18 Y2O 15 Y2O C23 C16 C 0 1 Y N N -24.198 4.191 -76.336 -5.748 -0.460 0.524 C23 Y2O 16 Y2O C25 C17 C 0 1 Y N N -24.450 6.339 -75.473 -7.243 -0.532 -1.351 C25 Y2O 17 Y2O C27 C18 C 0 1 Y N N -23.766 6.908 -76.522 -8.092 -1.365 -0.639 C27 Y2O 18 Y2O C29 C19 C 0 1 Y N N -23.314 6.099 -77.542 -7.768 -1.747 0.651 C29 Y2O 19 Y2O C30 C20 C 0 1 Y N N -23.563 4.733 -77.454 -6.601 -1.295 1.235 C30 Y2O 20 Y2O C33 C21 C 0 1 Y N N -29.257 -2.049 -74.397 2.186 -0.140 0.618 C33 Y2O 21 Y2O C34 C22 C 0 1 Y N N -27.898 -1.933 -74.150 0.979 -0.135 1.299 C34 Y2O 22 Y2O C35 C23 C 0 1 Y N N -27.367 -2.239 -72.888 0.666 -1.156 2.176 C35 Y2O 23 Y2O C36 C24 C 0 1 Y N N -28.243 -2.698 -71.856 1.557 -2.193 2.382 C36 Y2O 24 Y2O C37 C25 C 0 1 Y N N -29.627 -2.824 -72.070 2.764 -2.206 1.708 C37 Y2O 25 Y2O C38 C26 C 0 1 N N N -30.465 -3.355 -70.829 3.737 -3.335 1.931 C38 Y2O 26 Y2O C40 C27 C 0 1 N N N -32.647 -3.623 -69.685 4.398 -5.532 1.158 C40 Y2O 27 Y2O C41 C28 C 0 1 Y N N -30.157 -2.500 -73.357 3.081 -1.190 0.832 C41 Y2O 28 Y2O F26 F1 F 0 1 N N N -24.887 7.136 -74.480 -7.561 -0.160 -2.610 F26 Y2O 29 Y2O N11 N1 N 0 1 N N N -29.417 -1.645 -75.769 2.310 0.975 -0.217 N11 Y2O 30 Y2O N14 N2 N 0 1 N N N -26.983 -2.111 -78.562 0.292 4.058 0.408 N14 Y2O 31 Y2O N16 N3 N 0 1 N N N -24.669 -2.336 -79.510 1.562 5.892 1.047 N16 Y2O 32 Y2O N17 N4 N 0 1 N N N -25.438 -3.820 -77.858 -0.719 6.188 0.745 N17 Y2O 33 Y2O N19 N5 N 0 1 N N N -26.978 -0.036 -75.275 -1.063 0.718 0.259 N19 Y2O 34 Y2O N22 N6 N 0 1 N N N -24.476 2.751 -76.372 -4.566 -0.002 1.114 N22 Y2O 35 Y2O N39 N7 N 0 1 N N N -31.879 -2.900 -70.776 3.467 -4.412 0.969 N39 Y2O 36 Y2O O01 O1 O 0 1 N N N -31.757 -1.507 -75.781 3.346 2.181 -1.767 O01 Y2O 37 Y2O O03 O2 O 0 1 N N N -30.779 -0.980 -77.755 4.469 0.458 -0.934 O03 Y2O 38 Y2O O31 O3 O 0 1 N N N -26.373 2.793 -74.911 -3.510 0.001 -0.838 O31 Y2O 39 Y2O O32 O4 O 0 1 N N N -25.083 0.131 -76.607 -2.118 0.715 2.211 O32 Y2O 40 Y2O CL28 CL1 CL 0 0 N N N -23.522 8.685 -76.511 -9.563 -1.930 -1.367 CL28 Y2O 41 Y2O H1 H1 H 0 1 N N N -34.282 -2.235 -77.448 6.011 -1.535 -3.094 H1 Y2O 42 Y2O H2 H2 H 0 1 N N N -29.003 -2.610 -78.181 1.878 3.125 1.415 H2 Y2O 43 Y2O H3 H3 H 0 1 N N N -27.800 -3.456 -77.149 2.241 3.646 -0.248 H3 Y2O 44 Y2O H4 H4 H 0 1 N N N -25.289 4.590 -74.546 -5.409 0.568 -1.327 H4 Y2O 45 Y2O H5 H5 H 0 1 N N N -32.113 0.137 -78.936 5.923 1.808 -1.578 H5 Y2O 46 Y2O H6 H6 H 0 1 N N N -32.752 -0.384 -77.340 5.249 0.757 -2.846 H6 Y2O 47 Y2O H7 H7 H 0 1 N N N -31.133 -2.053 -80.368 7.625 0.984 -0.055 H7 Y2O 48 Y2O H8 H8 H 0 1 N N N -31.931 -4.143 -81.404 9.470 -0.610 0.287 H8 Y2O 49 Y2O H9 H9 H 0 1 N N N -33.909 -5.286 -80.451 9.581 -2.671 -1.057 H9 Y2O 50 Y2O H10 H10 H 0 1 N N N -35.081 -4.345 -78.492 7.850 -3.135 -2.744 H10 Y2O 51 Y2O H11 H11 H 0 1 N N N -28.273 -0.415 -77.020 0.622 1.891 -1.085 H11 Y2O 52 Y2O H12 H12 H 0 1 N N N -26.281 -1.986 -75.750 0.017 1.733 1.759 H12 Y2O 53 Y2O H13 H13 H 0 1 N N N -22.782 6.513 -78.385 -8.431 -2.396 1.204 H13 Y2O 54 Y2O H14 H14 H 0 1 N N N -23.261 4.083 -78.262 -6.350 -1.594 2.242 H14 Y2O 55 Y2O H15 H15 H 0 1 N N N -26.309 -2.129 -72.699 -0.278 -1.144 2.702 H15 Y2O 56 Y2O H16 H16 H 0 1 N N N -27.833 -2.954 -70.890 1.311 -2.990 3.068 H16 Y2O 57 Y2O H17 H17 H 0 1 N N N -30.463 -4.454 -70.863 4.755 -2.970 1.793 H17 Y2O 58 Y2O H18 H18 H 0 1 N N N -29.964 -3.015 -69.910 3.623 -3.717 2.946 H18 Y2O 59 Y2O H19 H19 H 0 1 N N N -33.687 -3.266 -69.670 5.421 -5.183 1.014 H19 Y2O 60 Y2O H20 H20 H 0 1 N N N -32.633 -4.705 -69.883 4.289 -5.930 2.167 H20 Y2O 61 Y2O H21 H21 H 0 1 N N N -32.177 -3.422 -68.711 4.176 -6.315 0.433 H21 Y2O 62 Y2O H22 H22 H 0 1 N N N -31.216 -2.591 -73.551 4.025 -1.206 0.308 H22 Y2O 63 Y2O H23 H23 H 0 1 N N N -27.132 -1.343 -79.185 -0.573 3.684 0.179 H23 Y2O 64 Y2O H24 H24 H 0 1 N N N -23.825 -2.869 -79.444 1.637 6.830 1.281 H24 Y2O 65 Y2O H25 H25 H 0 1 N N N -26.123 -4.152 -77.209 -1.584 5.813 0.516 H25 Y2O 66 Y2O H26 H26 H 0 1 N N N -24.549 -4.273 -77.921 -0.643 7.126 0.978 H26 Y2O 67 Y2O H27 H27 H 0 1 N N N -27.608 0.465 -74.681 -1.104 0.587 -0.701 H27 Y2O 68 Y2O H28 H28 H 0 1 N N N -23.874 2.142 -76.888 -4.543 0.197 2.063 H28 Y2O 69 Y2O H29 H29 H 0 1 N N N -31.899 -1.917 -70.592 2.510 -4.723 1.034 H29 Y2O 70 # 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 Y2O C07 C08 DOUB Y N 1 Y2O C07 C06 SING Y N 2 Y2O C08 C09 SING Y N 3 Y2O C06 C05 DOUB Y N 4 Y2O N16 C15 DOUB N N 5 Y2O C09 C10 DOUB Y N 6 Y2O C05 C10 SING Y N 7 Y2O C05 C04 SING N N 8 Y2O C15 N14 SING N N 9 Y2O C15 N17 SING N N 10 Y2O N14 C13 SING N N 11 Y2O C04 O03 SING N N 12 Y2O O03 C02 SING N N 13 Y2O C13 C12 SING N N 14 Y2O C29 C30 DOUB Y N 15 Y2O C29 C27 SING Y N 16 Y2O C30 C23 SING Y N 17 Y2O O32 C20 DOUB N N 18 Y2O C12 N11 SING N N 19 Y2O C12 C18 SING N N 20 Y2O C27 CL28 SING N N 21 Y2O C27 C25 DOUB Y N 22 Y2O C02 O01 DOUB N N 23 Y2O C02 N11 SING N N 24 Y2O N22 C23 SING N N 25 Y2O N22 C21 SING N N 26 Y2O C23 C24 DOUB Y N 27 Y2O C20 C21 SING N N 28 Y2O C20 N19 SING N N 29 Y2O N11 C33 SING N N 30 Y2O C21 O31 DOUB N N 31 Y2O C18 N19 SING N N 32 Y2O C18 C34 SING N N 33 Y2O C25 C24 SING Y N 34 Y2O C25 F26 SING N N 35 Y2O C33 C34 DOUB Y N 36 Y2O C33 C41 SING Y N 37 Y2O C34 C35 SING Y N 38 Y2O C41 C37 DOUB Y N 39 Y2O C35 C36 DOUB Y N 40 Y2O C37 C36 SING Y N 41 Y2O C37 C38 SING N N 42 Y2O C38 N39 SING N N 43 Y2O N39 C40 SING N N 44 Y2O C10 H1 SING N N 45 Y2O C13 H2 SING N N 46 Y2O C13 H3 SING N N 47 Y2O C24 H4 SING N N 48 Y2O C04 H5 SING N N 49 Y2O C04 H6 SING N N 50 Y2O C06 H7 SING N N 51 Y2O C07 H8 SING N N 52 Y2O C08 H9 SING N N 53 Y2O C09 H10 SING N N 54 Y2O C12 H11 SING N N 55 Y2O C18 H12 SING N N 56 Y2O C29 H13 SING N N 57 Y2O C30 H14 SING N N 58 Y2O C35 H15 SING N N 59 Y2O C36 H16 SING N N 60 Y2O C38 H17 SING N N 61 Y2O C38 H18 SING N N 62 Y2O C40 H19 SING N N 63 Y2O C40 H20 SING N N 64 Y2O C40 H21 SING N N 65 Y2O C41 H22 SING N N 66 Y2O N14 H23 SING N N 67 Y2O N16 H24 SING N N 68 Y2O N17 H25 SING N N 69 Y2O N17 H26 SING N N 70 Y2O N19 H27 SING N N 71 Y2O N22 H28 SING N N 72 Y2O N39 H29 SING N N 73 # 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 Y2O SMILES ACDLabs 12.01 "Clc1ccc(cc1F)NC(=O)C(=O)NC1c2ccc(cc2N(C1CNC(=N)N)C(=O)OCc1ccccc1)CNC" Y2O InChI InChI 1.06 "InChI=1S/C28H29ClFN7O4/c1-33-13-17-7-9-19-22(11-17)37(28(40)41-15-16-5-3-2-4-6-16)23(14-34-27(31)32)24(19)36-26(39)25(38)35-18-8-10-20(29)21(30)12-18/h2-12,23-24,33H,13-15H2,1H3,(H,35,38)(H,36,39)(H4,31,32,34)/t23-,24+/m1/s1" Y2O InChIKey InChI 1.06 JMHDRQIIOQZAQE-RPWUZVMVSA-N Y2O SMILES_CANONICAL CACTVS 3.385 "CNCc1ccc2[C@H](NC(=O)C(=O)Nc3ccc(Cl)c(F)c3)[C@@H](CNC(N)=N)N(C(=O)OCc4ccccc4)c2c1" Y2O SMILES CACTVS 3.385 "CNCc1ccc2[CH](NC(=O)C(=O)Nc3ccc(Cl)c(F)c3)[CH](CNC(N)=N)N(C(=O)OCc4ccccc4)c2c1" Y2O SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(/N)\NC[C@@H]1[C@H](c2ccc(cc2N1C(=O)OCc3ccccc3)CNC)NC(=O)C(=O)Nc4ccc(c(c4)F)Cl" Y2O SMILES "OpenEye OEToolkits" 2.0.7 "CNCc1ccc2c(c1)N(C(C2NC(=O)C(=O)Nc3ccc(c(c3)F)Cl)CNC(=N)N)C(=O)OCc4ccccc4" # 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 Y2O "SYSTEMATIC NAME" ACDLabs 12.01 "benzyl (2R,3S)-2-(carbamimidamidomethyl)-3-[2-(4-chloro-3-fluoroanilino)(oxo)acetamido]-6-[(methylamino)methyl]-2,3-dihydro-1H-indole-1-carboxylate" Y2O "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "(phenylmethyl) (2~{R},3~{S})-2-(carbamimidamidomethyl)-3-[[2-[(4-chloranyl-3-fluoranyl-phenyl)amino]-2-oxidanylidene-ethanoyl]amino]-6-(methylaminomethyl)-2,3-dihydroindole-1-carboxylate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site Y2O "Create component" 2022-12-27 RCSB Y2O "Initial release" 2023-04-05 RCSB #