data_YRT # _chem_comp.id YRT _chem_comp.name "7-[(1~{S})-1-[2-(aminomethyl)-6-oxidanylidene-5-oxa-7-azaspiro[3.4]octan-7-yl]ethyl]-3-[3-fluoranyl-4-(oxetan-3-ylsulfonylamino)phenyl]-1~{H}-indole-2-carboxylic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C27 H29 F N4 O7 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-20 _chem_comp.pdbx_modified_date 2024-07-05 _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 572.605 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YRT _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 8PGV _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 YRT C10 C1 C 0 1 Y N N N N N -21.634 -13.243 7.803 -2.763 0.527 -1.051 C10 YRT 1 YRT C11 C2 C 0 1 Y N N N N N -21.173 -13.410 6.631 -4.032 0.915 -0.683 C11 YRT 2 YRT N13 N1 N 0 1 N N N N N N -19.565 -12.567 4.676 -5.613 1.551 1.024 N13 YRT 3 YRT O16 O1 O 0 1 N N N N N N -18.355 -14.331 3.003 -6.688 1.261 -1.140 O16 YRT 4 YRT C17 C3 C 0 1 N N N N N N -16.929 -13.991 5.044 -6.823 -0.852 0.484 C17 YRT 5 YRT C18 C4 C 0 1 N N N N N N -16.194 -12.903 4.769 -7.892 -1.655 -0.282 C18 YRT 6 YRT C21 C5 C 0 1 Y N N N N N -19.849 -11.403 6.823 -3.339 1.009 1.625 C21 YRT 7 YRT C24 C6 C 0 1 Y N N N N N -22.249 -10.667 10.367 0.483 0.675 -1.261 C24 YRT 8 YRT C25 C7 C 0 1 N N N N N N -22.408 -9.451 9.714 0.230 1.989 -1.853 C25 YRT 9 YRT C31 C8 C 0 1 N N N N N N -25.441 -13.413 14.872 5.393 -0.243 -0.973 C31 YRT 10 YRT C34 C9 C 0 1 N N N N N N -28.791 -13.584 15.253 7.443 1.833 0.914 C34 YRT 11 YRT C35 C10 C 0 1 N N N N N N -29.248 -14.767 16.179 8.235 3.037 0.403 C35 YRT 12 YRT C37 C11 C 0 1 N N N N N N -27.764 -12.870 15.848 5.969 1.831 0.468 C37 YRT 13 YRT C39 C12 C 0 1 N N N N N N -25.611 -11.435 13.433 4.914 -1.476 0.898 C39 YRT 14 YRT C01 C13 C 0 1 N N N N N N -22.644 -12.469 15.835 4.372 -3.701 -1.167 C01 YRT 15 YRT C02 C14 C 0 1 N N S N N N -23.196 -12.101 14.411 3.780 -2.291 -1.172 C02 YRT 16 YRT C03 C15 C 0 1 Y N N N N N -22.640 -12.873 13.332 2.414 -2.316 -0.536 C03 YRT 17 YRT C04 C16 C 0 1 Y N N N N N -22.359 -14.178 13.417 2.027 -3.399 0.221 C04 YRT 18 YRT C05 C17 C 0 1 Y N N N N N -21.720 -14.954 12.142 0.771 -3.436 0.814 C05 YRT 19 YRT C06 C18 C 0 1 Y N N N N N -21.484 -14.321 10.988 -0.101 -2.397 0.655 C06 YRT 20 YRT C07 C19 C 0 1 Y N N N N N -21.803 -12.883 10.804 0.271 -1.288 -0.109 C07 YRT 21 YRT C08 C20 C 0 1 Y N N N N N -21.699 -11.979 9.773 -0.407 -0.038 -0.475 C08 YRT 22 YRT C09 C21 C 0 1 Y N N N N N -21.248 -12.122 8.589 -1.770 0.377 -0.081 C09 YRT 23 YRT C12 C22 C 0 1 Y N N N N N -20.242 -12.476 6.084 -4.326 1.158 0.654 C12 YRT 24 YRT C20 C23 C 0 1 N N N N N N -16.873 -13.620 6.428 -5.802 -1.555 -0.431 C20 YRT 25 YRT C23 C24 C 0 1 Y N N N N N -20.329 -11.207 8.036 -2.066 0.621 1.262 C23 YRT 26 YRT C29 C25 C 0 1 Y N N N N N -22.391 -12.169 12.003 1.541 -1.245 -0.712 C29 YRT 27 YRT C32 C26 C 0 1 N N N N N N -26.998 -13.071 14.535 6.129 0.328 0.243 C32 YRT 28 YRT C33 C27 C 0 1 N N N N N N -27.920 -13.894 14.121 7.627 0.566 0.058 C33 YRT 29 YRT F22 F1 F 0 1 N N N N N N -18.960 -10.475 6.291 -3.628 1.246 2.924 F22 YRT 30 YRT N28 N2 N 0 1 Y N N N N N -22.590 -10.878 11.682 1.646 -0.058 -1.400 N28 YRT 31 YRT N30 N3 N 0 1 N N N N N N -24.710 -12.384 14.368 4.655 -1.391 -0.416 N30 YRT 32 YRT N36 N4 N 0 1 N N N N N N -30.840 -15.358 15.345 9.587 3.013 0.976 N36 YRT 33 YRT O15 O2 O 0 1 N N N N N N -19.456 -15.331 4.635 -8.044 1.480 0.919 O15 YRT 34 YRT O19 O3 O 0 1 N N N N N N -16.192 -12.568 6.157 -6.818 -2.563 -0.601 O19 YRT 35 YRT O26 O4 O 0 1 N N N N N N -22.609 -9.384 8.477 -0.837 2.544 -1.670 O26 YRT 36 YRT O27 O5 O 0 1 N N N N N N -22.534 -8.360 10.522 1.180 2.585 -2.604 O27 YRT 37 YRT O38 O6 O 0 1 N N N N N N -26.913 -11.911 13.608 5.749 -0.528 1.347 O38 YRT 38 YRT O40 O7 O 0 1 N N N N N N -25.170 -10.514 12.714 4.436 -2.333 1.614 O40 YRT 39 YRT S14 S1 S 0 1 N N N N N N -18.534 -14.088 4.369 -6.928 0.940 0.224 S14 YRT 40 YRT H101 H1 H 0 0 N N N N N N -22.329 -13.963 8.209 -2.537 0.335 -2.090 H101 YRT 41 YRT H111 H2 H 0 0 N N N N N N -21.487 -14.262 6.046 -4.800 1.031 -1.433 H111 YRT 42 YRT H131 H3 H 0 0 N N N N N N -20.288 -12.542 3.986 -5.738 2.182 1.750 H131 YRT 43 YRT H171 H4 H 0 0 N N N N N N -16.413 -14.942 4.844 -6.735 -1.127 1.535 H171 YRT 44 YRT H181 H5 H 0 0 N N N N N N -15.198 -13.124 4.357 -8.660 -2.089 0.358 H181 YRT 45 YRT H182 H6 H 0 0 N N N N N N -16.701 -12.167 4.128 -8.300 -1.133 -1.147 H182 YRT 46 YRT H312 H7 H 0 0 N N N N N N -25.294 -13.489 15.959 4.703 0.493 -1.386 H312 YRT 47 YRT H311 H8 H 0 0 N N N N N N -25.147 -14.360 14.395 6.102 -0.575 -1.731 H311 YRT 48 YRT H341 H9 H 0 0 N N N N N N -29.651 -12.962 14.962 7.575 1.662 1.982 H341 YRT 49 YRT H351 H10 H 0 0 N N N N N N -28.493 -15.566 16.203 8.301 2.995 -0.684 H351 YRT 50 YRT H352 H11 H 0 0 N N N N N N -29.443 -14.416 17.203 7.731 3.957 0.701 H352 YRT 51 YRT H372 H12 H 0 0 N N N N N N -28.005 -11.824 16.088 5.270 2.082 1.265 H372 YRT 52 YRT H371 H13 H 0 0 N N N N N N -27.312 -13.353 16.727 5.789 2.393 -0.449 H371 YRT 53 YRT H012 H14 H 0 0 N N N N N N -23.124 -11.830 16.591 5.360 -3.682 -1.627 H012 YRT 54 YRT H011 H15 H 0 0 N N N N N N -22.865 -13.524 16.052 4.457 -4.056 -0.139 H011 YRT 55 YRT H013 H16 H 0 0 N N N N N N -21.556 -12.310 15.859 3.722 -4.371 -1.730 H013 YRT 56 YRT H021 H17 H 0 0 N N N N N N -23.029 -11.028 14.238 3.696 -1.936 -2.200 H021 YRT 57 YRT H041 H18 H 0 0 N N N N N N -22.557 -14.715 14.333 2.705 -4.228 0.355 H041 YRT 58 YRT H051 H19 H 0 0 N N N N N N -21.480 -16.004 12.228 0.482 -4.292 1.405 H051 YRT 59 YRT H061 H20 H 0 0 N N N N N N -21.049 -14.871 10.167 -1.076 -2.433 1.119 H061 YRT 60 YRT H202 H21 H 0 0 N N N N N N -17.858 -13.408 6.870 -5.572 -1.002 -1.342 H202 YRT 61 YRT H201 H22 H 0 0 N N N N N N -16.337 -14.344 7.059 -4.913 -1.908 0.091 H201 YRT 62 YRT H231 H23 H 0 0 N N N N N N -20.018 -10.344 8.606 -1.300 0.506 2.014 H231 YRT 63 YRT H331 H24 H 0 0 N N N N N N -27.592 -14.944 14.093 7.913 0.773 -0.973 H331 YRT 64 YRT H332 H25 H 0 0 N N N N N N -28.350 -13.618 13.147 8.252 -0.192 0.529 H332 YRT 65 YRT H281 H26 H 0 0 N N N N N N -22.934 -10.177 12.306 2.422 0.223 -1.908 H281 YRT 66 YRT H362 H27 H 0 0 N N N N N N -31.223 -16.124 15.862 10.132 3.799 0.654 H362 YRT 67 YRT H1 H28 H 0 1 N N N N N N -31.502 -14.608 15.321 9.552 2.987 1.985 H1 YRT 68 YRT H2 H30 H 0 1 N N N N N N -22.783 -7.606 10.000 0.922 3.449 -2.952 H2 YRT 69 # 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 YRT C10 C11 DOUB Y N 1 YRT C10 C09 SING Y N 2 YRT C11 C12 SING Y N 3 YRT N13 C12 SING N N 4 YRT N13 S14 SING N N 5 YRT O16 S14 DOUB N N 6 YRT C17 C18 SING N N 7 YRT C17 C20 SING N N 8 YRT C17 S14 SING N N 9 YRT C18 O19 SING N N 10 YRT C21 C12 DOUB Y N 11 YRT C21 C23 SING Y N 12 YRT C21 F22 SING N N 13 YRT C24 C25 SING N N 14 YRT C24 C08 DOUB Y N 15 YRT C24 N28 SING Y N 16 YRT C25 O26 DOUB N N 17 YRT C25 O27 SING N N 18 YRT C31 C32 SING N N 19 YRT C31 N30 SING N N 20 YRT C34 C35 SING N N 21 YRT C34 C37 SING N N 22 YRT C34 C33 SING N N 23 YRT C37 C32 SING N N 24 YRT C39 N30 SING N N 25 YRT C39 O38 SING N N 26 YRT C39 O40 DOUB N N 27 YRT C01 C02 SING N N 28 YRT C02 C03 SING N N 29 YRT C02 N30 SING N N 30 YRT C03 C04 DOUB Y N 31 YRT C03 C29 SING Y N 32 YRT C04 C05 SING Y N 33 YRT C05 C06 DOUB Y N 34 YRT C06 C07 SING Y N 35 YRT C07 C08 SING Y N 36 YRT C07 C29 DOUB Y N 37 YRT C08 C09 SING N N 38 YRT C09 C23 DOUB Y N 39 YRT C20 O19 SING N N 40 YRT C29 N28 SING Y N 41 YRT C32 C33 SING N N 42 YRT C32 O38 SING N N 43 YRT O15 S14 DOUB N N 44 YRT C35 N36 SING N N 45 YRT C10 H101 SING N N 46 YRT C11 H111 SING N N 47 YRT N13 H131 SING N N 48 YRT C17 H171 SING N N 49 YRT C18 H181 SING N N 50 YRT C18 H182 SING N N 51 YRT C31 H312 SING N N 52 YRT C31 H311 SING N N 53 YRT C34 H341 SING N N 54 YRT C35 H351 SING N N 55 YRT C35 H352 SING N N 56 YRT C37 H372 SING N N 57 YRT C37 H371 SING N N 58 YRT C01 H012 SING N N 59 YRT C01 H011 SING N N 60 YRT C01 H013 SING N N 61 YRT C02 H021 SING N N 62 YRT C04 H041 SING N N 63 YRT C05 H051 SING N N 64 YRT C06 H061 SING N N 65 YRT C20 H202 SING N N 66 YRT C20 H201 SING N N 67 YRT C23 H231 SING N N 68 YRT C33 H331 SING N N 69 YRT C33 H332 SING N N 70 YRT N28 H281 SING N N 71 YRT N36 H362 SING N N 72 YRT N36 H1 SING N N 73 YRT O27 H2 SING N N 74 # 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 YRT InChI InChI 1.06 "InChI=1S/C27H29FN4O7S/c1-14(32-13-27(39-26(32)35)8-15(9-27)10-29)18-3-2-4-19-22(24(25(33)34)30-23(18)19)16-5-6-21(20(28)7-16)31-40(36,37)17-11-38-12-17/h2-7,14-15,17,30-31H,8-13,29H2,1H3,(H,33,34)/t14-,15-,27-/m0/s1" YRT InChIKey InChI 1.06 KKGZRIXMGYCVFQ-LKLRLBKWSA-N YRT SMILES_CANONICAL CACTVS 3.385 "C[C@H](N1C[C@@]2(C[C@H](CN)C2)OC1=O)c3cccc4c3[nH]c(C(O)=O)c4c5ccc(N[S](=O)(=O)C6COC6)c(F)c5" YRT SMILES CACTVS 3.385 "C[CH](N1C[C]2(C[CH](CN)C2)OC1=O)c3cccc4c3[nH]c(C(O)=O)c4c5ccc(N[S](=O)(=O)C6COC6)c(F)c5" YRT SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H](c1cccc2c1[nH]c(c2c3ccc(c(c3)F)NS(=O)(=O)C4COC4)C(=O)O)N5CC6(CC(C6)CN)OC5=O" YRT SMILES "OpenEye OEToolkits" 2.0.7 "CC(c1cccc2c1[nH]c(c2c3ccc(c(c3)F)NS(=O)(=O)C4COC4)C(=O)O)N5CC6(CC(C6)CN)OC5=O" # _pdbx_chem_comp_identifier.comp_id YRT _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 "7-[(1~{S})-1-[2-(aminomethyl)-6-oxidanylidene-5-oxa-7-azaspiro[3.4]octan-7-yl]ethyl]-3-[3-fluoranyl-4-(oxetan-3-ylsulfonylamino)phenyl]-1~{H}-indole-2-carboxylic 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 YRT "Create component" 2023-06-20 PDBE YRT "Initial release" 2024-07-10 RCSB #