data_1KD # _chem_comp.id 1KD _chem_comp.name "1-(methanesulfonyl)-1'-(2-methyl-L-alanyl-O-benzyl-D-seryl)-1,2-dihydrospiro[indole-3,4'-piperidine]" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C27 H36 N4 O5 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2021-06-22 _chem_comp.pdbx_modified_date 2021-12-10 _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 528.664 _chem_comp.one_letter_code ? _chem_comp.three_letter_code 1KD _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 7NA8 _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 1KD C28 C1 C 0 1 Y N N 123.900 132.930 89.793 4.888 0.669 -0.756 C28 1KD 1 1KD C26 C2 C 0 1 N N N 124.240 132.947 92.145 3.571 -0.557 0.750 C26 1KD 2 1KD C25 C3 C 0 1 N N N 126.028 135.286 93.393 0.637 -0.159 0.871 C25 1KD 3 1KD C24 C4 C 0 1 N N N 125.887 134.326 92.213 1.527 0.633 -0.092 C24 1KD 4 1KD C11 C5 C 0 1 N N N 127.574 139.101 95.296 -2.359 0.159 -0.411 C11 1KD 5 1KD C10 C6 C 0 1 N N N 125.993 134.681 98.855 -5.186 -4.295 -1.094 C10 1KD 6 1KD C17 C7 C 0 1 Y N N 133.032 138.396 93.595 -6.551 4.690 1.050 C17 1KD 7 1KD C18 C8 C 0 1 Y N N 133.186 138.871 94.886 -6.960 3.619 0.277 C18 1KD 8 1KD C16 C9 C 0 1 Y N N 131.797 138.436 92.972 -5.203 4.938 1.228 C16 1KD 9 1KD C15 C10 C 0 1 Y N N 130.709 138.955 93.646 -4.264 4.114 0.636 C15 1KD 10 1KD C14 C11 C 0 1 Y N N 130.866 139.429 94.937 -4.673 3.043 -0.136 C14 1KD 11 1KD C13 C12 C 0 1 N N N 129.669 139.995 95.679 -3.649 2.145 -0.781 C13 1KD 12 1KD C23 C13 C 0 1 N N N 124.534 134.311 91.616 2.729 -0.220 -0.488 C23 1KD 13 1KD C19 C14 C 0 1 Y N N 132.099 139.392 95.562 -6.021 2.792 -0.310 C19 1KD 14 1KD C21 C15 C 0 1 N N N 124.802 136.755 91.832 1.391 -2.310 -0.226 C21 1KD 15 1KD C22 C16 C 0 1 N N N 123.824 135.591 91.790 2.274 -1.501 -1.181 C22 1KD 16 1KD C02 C17 C 0 1 N N N 126.098 137.867 93.789 -0.985 -1.834 0.124 C02 1KD 17 1KD C03 C18 C 0 1 N N R 126.981 137.728 95.021 -2.092 -0.940 0.619 C03 1KD 18 1KD C05 C19 C 0 1 N N N 126.540 136.338 97.082 -3.860 -2.388 -0.226 C05 1KD 19 1KD C07 C20 C 0 1 N N N 125.623 136.037 98.261 -5.112 -3.203 -0.025 C07 1KD 20 1KD C09 C21 C 0 1 N N N 125.774 137.121 99.325 -6.337 -2.293 -0.139 C09 1KD 21 1KD C29 C22 C 0 1 Y N N 124.487 134.169 90.094 3.656 0.562 -1.386 C29 1KD 22 1KD C30 C23 C 0 1 Y N N 124.903 135.017 89.057 3.455 1.128 -2.630 C30 1KD 23 1KD C31 C24 C 0 1 Y N N 124.732 134.625 87.726 4.483 1.805 -3.260 C31 1KD 24 1KD C32 C25 C 0 1 Y N N 124.144 133.382 87.423 5.715 1.916 -2.641 C32 1KD 25 1KD C33 C26 C 0 1 Y N N 123.731 132.543 88.457 5.922 1.350 -1.401 C33 1KD 26 1KD C37 C27 C 0 1 N N N 122.152 129.923 90.083 6.018 1.434 2.559 C37 1KD 27 1KD N04 N1 N 0 1 N N N 126.156 137.381 96.155 -3.309 -1.732 0.814 N04 1KD 28 1KD N08 N2 N 0 1 N N N 124.252 136.021 97.785 -5.084 -3.823 1.307 N08 1KD 29 1KD N20 N3 N 0 1 N N N 125.664 136.695 93.051 0.301 -1.449 0.252 N20 1KD 30 1KD N27 N4 N 0 1 N N N 123.554 132.253 91.081 4.887 0.034 0.488 N27 1KD 31 1KD O01 O1 O 0 1 N N N 125.759 138.945 93.433 -1.250 -2.900 -0.389 O01 1KD 32 1KD O06 O2 O 0 1 N N N 127.541 135.730 96.925 -3.349 -2.323 -1.324 O06 1KD 33 1KD O12 O3 O 0 1 N N N 128.786 138.953 95.963 -3.327 1.074 0.108 O12 1KD 34 1KD O35 O4 O 0 1 N N N 120.960 132.018 91.318 7.314 0.076 0.663 O35 1KD 35 1KD O36 O5 O 0 1 N N N 122.198 130.710 92.686 5.958 -1.219 2.278 O36 1KD 36 1KD S34 S1 S 0 1 N N N 122.201 131.245 91.324 6.183 -0.041 1.516 S34 1KD 37 1KD H1 H1 H 0 1 N N N 123.599 133.012 93.036 3.128 -0.113 1.641 H1 1KD 38 1KD H2 H2 H 0 1 N N N 125.174 132.426 92.402 3.656 -1.637 0.867 H2 1KD 39 1KD H3 H3 H 0 1 N N N 125.370 134.942 94.205 1.171 -0.331 1.806 H3 1KD 40 1KD H4 H4 H 0 1 N N N 127.073 135.268 93.736 -0.276 0.402 1.071 H4 1KD 41 1KD H5 H5 H 0 1 N N N 126.124 133.310 92.562 0.956 0.893 -0.984 H5 1KD 42 1KD H6 H6 H 0 1 N N N 126.606 134.624 91.436 1.872 1.544 0.397 H6 1KD 43 1KD H7 H7 H 0 1 N N N 127.740 139.627 94.344 -1.432 0.692 -0.623 H7 1KD 44 1KD H8 H8 H 0 1 N N N 126.880 139.683 95.920 -2.739 -0.289 -1.330 H8 1KD 45 1KD H9 H9 H 0 1 N N N 125.333 134.461 99.707 -4.314 -4.943 -1.013 H9 1KD 46 1KD H10 H10 H 0 1 N N N 125.875 133.901 98.089 -6.092 -4.885 -0.949 H10 1KD 47 1KD H11 H11 H 0 1 N N N 127.038 134.704 99.198 -5.207 -3.836 -2.082 H11 1KD 48 1KD H12 H12 H 0 1 N N N 133.884 137.990 93.069 -7.284 5.336 1.509 H12 1KD 49 1KD H13 H13 H 0 1 N N N 134.154 138.835 95.364 -8.013 3.428 0.134 H13 1KD 50 1KD H14 H14 H 0 1 N N N 131.685 138.064 91.965 -4.883 5.775 1.831 H14 1KD 51 1KD H15 H15 H 0 1 N N N 129.741 138.991 93.168 -3.211 4.308 0.775 H15 1KD 52 1KD H16 H16 H 0 1 N N N 130.002 140.464 96.617 -4.055 1.739 -1.708 H16 1KD 53 1KD H17 H17 H 0 1 N N N 129.166 140.746 95.052 -2.749 2.719 -1.001 H17 1KD 54 1KD H18 H18 H 0 1 N N N 132.211 139.767 96.569 -6.341 1.955 -0.913 H18 1KD 55 1KD H19 H19 H 0 1 N N N 125.442 136.718 90.938 0.974 -3.169 -0.752 H19 1KD 56 1KD H20 H20 H 0 1 N N N 124.236 137.698 91.839 1.984 -2.653 0.622 H20 1KD 57 1KD H21 H21 H 0 1 N N N 123.130 135.735 90.949 1.706 -1.248 -2.076 H21 1KD 58 1KD H22 H22 H 0 1 N N N 123.257 135.563 92.732 3.147 -2.093 -1.459 H22 1KD 59 1KD H23 H23 H 0 1 N N N 127.776 136.987 94.849 -1.798 -0.487 1.566 H23 1KD 60 1KD H24 H24 H 0 1 N N N 125.110 136.898 100.173 -6.357 -1.834 -1.127 H24 1KD 61 1KD H25 H25 H 0 1 N N N 126.817 137.150 99.674 -7.242 -2.883 0.006 H25 1KD 62 1KD H26 H26 H 0 1 N N N 125.504 138.097 98.895 -6.283 -1.515 0.623 H26 1KD 63 1KD H27 H27 H 0 1 N N N 125.355 135.971 89.286 2.493 1.040 -3.112 H27 1KD 64 1KD H28 H28 H 0 1 N N N 125.052 135.278 86.927 4.325 2.245 -4.233 H28 1KD 65 1KD H29 H29 H 0 1 N N N 124.014 133.080 86.394 6.518 2.444 -3.133 H29 1KD 66 1KD H30 H30 H 0 1 N N N 123.278 131.590 88.227 6.886 1.441 -0.923 H30 1KD 67 1KD H31 H31 H 0 1 N N N 121.272 129.286 90.259 5.070 1.395 3.096 H31 1KD 68 1KD H32 H32 H 0 1 N N N 122.089 130.366 89.078 6.840 1.466 3.275 H32 1KD 69 1KD H33 H33 H 0 1 N N N 123.066 129.315 90.159 6.046 2.326 1.934 H33 1KD 70 1KD H34 H34 H 0 1 N N N 125.298 137.874 96.303 -3.718 -1.785 1.692 H34 1KD 71 1KD H35 H35 H 0 1 N N N 123.636 135.824 98.548 -4.284 -4.429 1.407 H35 1KD 72 1KD H36 H36 H 0 1 N N N 124.024 136.913 97.394 -5.100 -3.121 2.032 H36 1KD 73 # # 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 1KD C32 C31 DOUB Y N 1 1KD C32 C33 SING Y N 2 1KD C31 C30 SING Y N 3 1KD C33 C28 DOUB Y N 4 1KD C30 C29 DOUB Y N 5 1KD C28 C29 SING Y N 6 1KD C28 N27 SING N N 7 1KD C37 S34 SING N N 8 1KD C29 C23 SING N N 9 1KD N27 S34 SING N N 10 1KD N27 C26 SING N N 11 1KD O35 S34 DOUB N N 12 1KD S34 O36 DOUB N N 13 1KD C23 C22 SING N N 14 1KD C23 C26 SING N N 15 1KD C23 C24 SING N N 16 1KD C22 C21 SING N N 17 1KD C21 N20 SING N N 18 1KD C24 C25 SING N N 19 1KD C16 C17 DOUB Y N 20 1KD C16 C15 SING Y N 21 1KD N20 C25 SING N N 22 1KD N20 C02 SING N N 23 1KD O01 C02 DOUB N N 24 1KD C17 C18 SING Y N 25 1KD C15 C14 DOUB Y N 26 1KD C02 C03 SING N N 27 1KD C18 C19 DOUB Y N 28 1KD C14 C19 SING Y N 29 1KD C14 C13 SING N N 30 1KD C03 C11 SING N N 31 1KD C03 N04 SING N N 32 1KD C11 O12 SING N N 33 1KD C13 O12 SING N N 34 1KD N04 C05 SING N N 35 1KD O06 C05 DOUB N N 36 1KD C05 C07 SING N N 37 1KD N08 C07 SING N N 38 1KD C07 C10 SING N N 39 1KD C07 C09 SING N N 40 1KD C26 H1 SING N N 41 1KD C26 H2 SING N N 42 1KD C25 H3 SING N N 43 1KD C25 H4 SING N N 44 1KD C24 H5 SING N N 45 1KD C24 H6 SING N N 46 1KD C11 H7 SING N N 47 1KD C11 H8 SING N N 48 1KD C10 H9 SING N N 49 1KD C10 H10 SING N N 50 1KD C10 H11 SING N N 51 1KD C17 H12 SING N N 52 1KD C18 H13 SING N N 53 1KD C16 H14 SING N N 54 1KD C15 H15 SING N N 55 1KD C13 H16 SING N N 56 1KD C13 H17 SING N N 57 1KD C19 H18 SING N N 58 1KD C21 H19 SING N N 59 1KD C21 H20 SING N N 60 1KD C22 H21 SING N N 61 1KD C22 H22 SING N N 62 1KD C03 H23 SING N N 63 1KD C09 H24 SING N N 64 1KD C09 H25 SING N N 65 1KD C09 H26 SING N N 66 1KD C30 H27 SING N N 67 1KD C31 H28 SING N N 68 1KD C32 H29 SING N N 69 1KD C33 H30 SING N N 70 1KD C37 H31 SING N N 71 1KD C37 H32 SING N N 72 1KD C37 H33 SING N N 73 1KD N04 H34 SING N N 74 1KD N08 H35 SING N N 75 1KD N08 H36 SING N N 76 # # 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 1KD SMILES ACDLabs 12.01 "CC(C)(N)C(=O)NC(COCc1ccccc1)C(=O)N1CCC2(CC1)CN(c1ccccc12)S(C)(=O)=O" 1KD InChI InChI 1.03 "InChI=1S/C27H36N4O5S/c1-26(2,28)25(33)29-22(18-36-17-20-9-5-4-6-10-20)24(32)30-15-13-27(14-16-30)19-31(37(3,34)35)23-12-8-7-11-21(23)27/h4-12,22H,13-19,28H2,1-3H3,(H,29,33)/t22-/m1/s1" 1KD InChIKey InChI 1.03 UMUPQWIGCOZEOY-JOCHJYFZSA-N 1KD SMILES_CANONICAL CACTVS 3.385 "CC(C)(N)C(=O)N[C@H](COCc1ccccc1)C(=O)N2CCC3(CC2)CN(c4ccccc34)[S](C)(=O)=O" 1KD SMILES CACTVS 3.385 "CC(C)(N)C(=O)N[CH](COCc1ccccc1)C(=O)N2CCC3(CC2)CN(c4ccccc34)[S](C)(=O)=O" 1KD SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C)(C(=O)N[C@H](COCc1ccccc1)C(=O)N2CCC3(CC2)CN(c4c3cccc4)S(=O)(=O)C)N" 1KD SMILES "OpenEye OEToolkits" 2.0.7 "CC(C)(C(=O)NC(COCc1ccccc1)C(=O)N2CCC3(CC2)CN(c4c3cccc4)S(=O)(=O)C)N" # # 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 1KD "SYSTEMATIC NAME" ACDLabs 12.01 "1-(methanesulfonyl)-1'-(2-methyl-L-alanyl-O-benzyl-D-seryl)-1,2-dihydrospiro[indole-3,4'-piperidine]" 1KD "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-azanyl-2-methyl-~{N}-[(2~{R})-1-(1-methylsulfonylspiro[2~{H}-indole-3,4'-piperidine]-1'-yl)-1-oxidanylidene-3-phenylmethoxy-propan-2-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 1KD "Create component" 2021-06-22 RCSB 1KD "Initial release" 2021-12-15 RCSB ##