data_R5K # _chem_comp.id R5K _chem_comp.name "N~1~-{(3R)-1-[2-(5-carbamimidamidopentanamido)ethyl]-1-azaspiro[5.5]undecan-3-yl}-N~2~-(4-chlorophenyl)ethanediamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C26 H40 Cl N7 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-06-20 _chem_comp.pdbx_modified_date 2023-01-06 _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 534.094 _chem_comp.one_letter_code ? _chem_comp.three_letter_code R5K _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 8DCQ _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 R5K CB C1 C 0 1 N N N -2.410 18.461 -4.306 -6.652 -1.432 -0.142 CB R5K 1 R5K CG C2 C 0 1 N N N -1.193 18.907 -5.167 -8.056 -1.632 0.432 CG R5K 2 R5K CD C3 C 0 1 N N N 0.044 19.147 -4.245 -8.652 -2.929 -0.118 CD R5K 3 R5K NE N1 N 0 1 N N N 0.595 17.861 -3.781 -9.996 -3.121 0.432 NE R5K 4 R5K CZ C4 C 0 1 N N N 1.757 17.251 -4.488 -10.733 -4.227 0.078 CZ R5K 5 R5K NH1 N2 N 0 1 N N N 2.235 16.140 -4.088 -10.207 -5.153 -0.791 NH1 R5K 6 R5K NH2 N3 N 0 1 N N N 2.259 17.827 -5.483 -11.929 -4.397 0.567 NH2 R5K 7 R5K C01 C5 C 0 1 N N N -3.698 18.560 -5.178 -6.056 -0.134 0.407 C01 R5K 8 R5K C02 C6 C 0 1 N N N -4.140 17.117 -5.551 -4.673 0.063 -0.158 C02 R5K 9 R5K C05 C7 C 0 1 N N N -5.426 15.502 -7.089 -2.607 1.339 -0.361 C05 R5K 10 R5K C06 C8 C 0 1 N N N -4.177 14.705 -7.613 -2.011 2.636 0.189 C06 R5K 11 R5K C08 C9 C 0 1 N N N -4.071 15.433 -9.633 0.255 1.790 0.121 C08 R5K 12 R5K C09 C10 C 0 1 N N R -3.295 16.257 -10.742 1.607 1.934 -0.583 C09 R5K 13 R5K C12 C11 C 0 1 N N N -3.480 16.390 -13.313 3.556 0.498 -0.855 C12 R5K 14 R5K C13 C12 C 0 1 N N N -4.325 15.994 -14.540 4.497 -0.545 -0.348 C13 R5K 15 R5K C16 C13 C 0 1 Y N N -4.649 16.023 -17.085 6.460 -1.862 -0.607 C16 R5K 16 R5K C17 C14 C 0 1 Y N N -3.879 15.550 -18.319 6.056 -2.860 0.272 C17 R5K 17 R5K C18 C15 C 0 1 Y N N -4.545 15.196 -19.395 6.983 -3.752 0.774 C18 R5K 18 R5K C19 C16 C 0 1 Y N N -6.073 15.255 -19.399 8.312 -3.653 0.403 C19 R5K 19 R5K C21 C17 C 0 1 Y N N -6.744 15.654 -18.337 8.717 -2.660 -0.472 C21 R5K 20 R5K C22 C18 C 0 1 Y N N -5.972 16.069 -17.089 7.794 -1.768 -0.982 C22 R5K 21 R5K C23 C19 C 0 1 N N N -1.908 15.755 -10.766 2.181 3.324 -0.295 C23 R5K 22 R5K C24 C20 C 0 1 N N N -1.540 14.856 -9.663 1.183 4.386 -0.765 C24 R5K 23 R5K C25 C21 C 0 1 N N N -2.144 15.194 -8.335 -0.156 4.171 -0.056 C25 R5K 24 R5K C26 C22 C 0 1 N N N -1.627 13.945 -7.535 0.040 4.311 1.455 C26 R5K 25 R5K C27 C23 C 0 1 N N N -0.798 14.357 -6.291 0.571 5.711 1.773 C27 R5K 26 R5K C28 C24 C 0 1 N N N 0.355 15.260 -6.714 -0.433 6.759 1.289 C28 R5K 27 R5K C29 C25 C 0 1 N N N -0.010 16.378 -7.666 -0.630 6.619 -0.222 C29 R5K 28 R5K C30 C26 C 0 1 N N N -1.534 16.537 -7.814 -1.161 5.219 -0.539 C30 R5K 29 R5K N04 N4 N 0 1 N N N -5.012 16.893 -6.730 -3.952 1.147 0.189 N04 R5K 30 R5K N07 N5 N 0 1 N N N -3.464 15.453 -8.405 -0.664 2.828 -0.362 N07 R5K 31 R5K N10 N6 N 0 1 N N N -3.974 15.966 -11.986 2.529 0.910 -0.086 N10 R5K 32 R5K N15 N7 N 0 1 N N N -3.879 16.400 -15.892 5.524 -0.957 -1.116 N15 R5K 33 R5K O03 O1 O 0 1 N N N -3.770 16.203 -4.891 -4.210 -0.754 -0.925 O03 R5K 34 R5K O11 O2 O 0 1 N N N -2.472 17.016 -13.454 3.718 0.976 -1.959 O11 R5K 35 R5K O14 O3 O 0 1 N N N -5.318 15.376 -14.363 4.336 -1.023 0.757 O14 R5K 36 R5K CL20 CL1 CL 0 0 N N N -6.934 14.764 -20.878 9.474 -4.777 1.037 CL20 R5K 37 R5K H1 H1 H 0 1 N N N -2.505 19.118 -3.429 -6.019 -2.272 0.144 H1 R5K 38 R5K H2 H2 H 0 1 N N N -2.267 17.423 -3.972 -6.709 -1.374 -1.229 H2 R5K 39 R5K H3 H3 H 0 1 N N N -0.956 18.122 -5.900 -7.999 -1.690 1.519 H3 R5K 40 R5K H4 H4 H 0 1 N N N -1.441 19.839 -5.696 -8.689 -0.791 0.145 H4 R5K 41 R5K H5 H5 H 0 1 N N N 0.817 19.690 -4.809 -8.709 -2.871 -1.205 H5 R5K 42 R5K H6 H6 H 0 1 N N N -0.263 19.745 -3.374 -8.019 -3.769 0.169 H6 R5K 43 R5K H7 H7 H 0 1 N N N 0.190 17.398 -2.993 -10.367 -2.467 1.045 H7 R5K 44 R5K H8 H8 H 0 1 N N N 1.831 15.677 -3.299 -9.317 -5.026 -1.155 H8 R5K 45 R5K H9 H9 H 0 1 N N N 3.015 15.731 -4.563 -10.726 -5.933 -1.041 H9 R5K 46 R5K H10 H10 H 0 1 N N N 1.789 18.683 -5.697 -12.299 -3.743 1.181 H10 R5K 47 R5K H11 H11 H 0 1 N N N -3.486 19.133 -6.093 -6.689 0.706 0.121 H11 R5K 48 R5K H12 H12 H 0 1 N N N -4.496 19.059 -4.609 -6.000 -0.192 1.495 H12 R5K 49 R5K H13 H13 H 0 1 N N N -6.194 15.539 -7.875 -2.664 1.396 -1.448 H13 R5K 50 R5K H14 H14 H 0 1 N N N -5.835 15.000 -6.200 -1.975 0.498 -0.074 H14 R5K 51 R5K H15 H15 H 0 1 N N N -4.519 13.816 -8.163 -2.644 3.476 -0.098 H15 R5K 52 R5K H16 H16 H 0 1 N N N -3.561 14.392 -6.757 -1.955 2.578 1.276 H16 R5K 53 R5K H17 H17 H 0 1 N N N -5.080 15.857 -9.528 -0.163 0.806 -0.094 H17 R5K 54 R5K H18 H18 H 0 1 N N N -4.146 14.387 -9.966 0.393 1.899 1.197 H18 R5K 55 R5K H19 H19 H 0 1 N N N -3.328 17.330 -10.500 1.472 1.811 -1.658 H19 R5K 56 R5K H20 H20 H 0 1 N N N -2.800 15.507 -18.306 5.019 -2.937 0.562 H20 R5K 57 R5K H21 H21 H 0 1 N N N -4.014 14.864 -20.275 6.669 -4.528 1.457 H21 R5K 58 R5K H22 H22 H 0 1 N N N -7.823 15.687 -18.350 9.756 -2.585 -0.759 H22 R5K 59 R5K H23 H23 H 0 1 N N N -6.504 16.400 -16.209 8.111 -0.994 -1.664 H23 R5K 60 R5K H24 H24 H 0 1 N N N -1.761 15.210 -11.710 2.351 3.433 0.776 H24 R5K 61 R5K H25 H25 H 0 1 N N N -1.233 16.623 -10.735 3.123 3.447 -0.830 H25 R5K 62 R5K H26 H26 H 0 1 N N N -1.859 13.838 -9.933 1.567 5.378 -0.524 H26 R5K 63 R5K H27 H27 H 0 1 N N N -0.446 14.880 -9.555 1.042 4.302 -1.842 H27 R5K 64 R5K H28 H28 H 0 1 N N N -2.492 13.351 -7.205 -0.914 4.162 1.961 H28 R5K 65 R5K H29 H29 H 0 1 N N N -0.995 13.335 -8.197 0.755 3.564 1.800 H29 R5K 66 R5K H30 H30 H 0 1 N N N -1.445 14.897 -5.584 0.711 5.811 2.849 H30 R5K 67 R5K H31 H31 H 0 1 N N N -0.396 13.456 -5.805 1.525 5.861 1.267 H31 R5K 68 R5K H32 H32 H 0 1 N N N 1.115 14.633 -7.203 -1.386 6.610 1.795 H32 R5K 69 R5K H33 H33 H 0 1 N N N 0.782 15.713 -5.807 -0.054 7.756 1.515 H33 R5K 70 R5K H34 H34 H 0 1 N N N 0.421 16.158 -8.654 -1.345 7.366 -0.566 H34 R5K 71 R5K H35 H35 H 0 1 N N N 0.410 17.320 -7.284 0.324 6.769 -0.728 H35 R5K 72 R5K H36 H36 H 0 1 N N N -1.752 17.342 -8.531 -1.302 5.119 -1.615 H36 R5K 73 R5K H37 H37 H 0 1 N N N -1.974 16.786 -6.837 -2.114 5.069 -0.032 H37 R5K 74 R5K H38 H38 H 0 1 N N N -5.321 17.668 -7.281 -4.322 1.801 0.802 H38 R5K 75 R5K H40 H40 H 0 1 N N N -4.828 15.447 -11.946 2.400 0.529 0.797 H40 R5K 76 R5K H41 H41 H 0 1 N N N -3.042 16.938 -15.995 5.615 -0.626 -2.023 H41 R5K 77 # 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 R5K CL20 C19 SING N N 1 R5K C19 C18 DOUB Y N 2 R5K C19 C21 SING Y N 3 R5K C18 C17 SING Y N 4 R5K C21 C22 DOUB Y N 5 R5K C17 C16 DOUB Y N 6 R5K C22 C16 SING Y N 7 R5K C16 N15 SING N N 8 R5K N15 C13 SING N N 9 R5K C13 O14 DOUB N N 10 R5K C13 C12 SING N N 11 R5K O11 C12 DOUB N N 12 R5K C12 N10 SING N N 13 R5K N10 C09 SING N N 14 R5K C23 C09 SING N N 15 R5K C23 C24 SING N N 16 R5K C09 C08 SING N N 17 R5K C24 C25 SING N N 18 R5K C08 N07 SING N N 19 R5K N07 C25 SING N N 20 R5K N07 C06 SING N N 21 R5K C25 C30 SING N N 22 R5K C25 C26 SING N N 23 R5K C30 C29 SING N N 24 R5K C29 C28 SING N N 25 R5K C06 C05 SING N N 26 R5K C26 C27 SING N N 27 R5K C05 N04 SING N N 28 R5K N04 C02 SING N N 29 R5K C28 C27 SING N N 30 R5K C02 C01 SING N N 31 R5K C02 O03 DOUB N N 32 R5K NH2 CZ DOUB N N 33 R5K C01 CB SING N N 34 R5K CG CB SING N N 35 R5K CG CD SING N N 36 R5K CZ NH1 SING N N 37 R5K CZ NE SING N N 38 R5K CD NE SING N N 39 R5K CB H1 SING N N 40 R5K CB H2 SING N N 41 R5K CG H3 SING N N 42 R5K CG H4 SING N N 43 R5K CD H5 SING N N 44 R5K CD H6 SING N N 45 R5K NE H7 SING N N 46 R5K NH1 H8 SING N N 47 R5K NH1 H9 SING N N 48 R5K NH2 H10 SING N N 49 R5K C01 H11 SING N N 50 R5K C01 H12 SING N N 51 R5K C05 H13 SING N N 52 R5K C05 H14 SING N N 53 R5K C06 H15 SING N N 54 R5K C06 H16 SING N N 55 R5K C08 H17 SING N N 56 R5K C08 H18 SING N N 57 R5K C09 H19 SING N N 58 R5K C17 H20 SING N N 59 R5K C18 H21 SING N N 60 R5K C21 H22 SING N N 61 R5K C22 H23 SING N N 62 R5K C23 H24 SING N N 63 R5K C23 H25 SING N N 64 R5K C24 H26 SING N N 65 R5K C24 H27 SING N N 66 R5K C26 H28 SING N N 67 R5K C26 H29 SING N N 68 R5K C27 H30 SING N N 69 R5K C27 H31 SING N N 70 R5K C28 H32 SING N N 71 R5K C28 H33 SING N N 72 R5K C29 H34 SING N N 73 R5K C29 H35 SING N N 74 R5K C30 H36 SING N N 75 R5K C30 H37 SING N N 76 R5K N04 H38 SING N N 77 R5K N10 H40 SING N N 78 R5K N15 H41 SING N N 79 # 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 R5K SMILES ACDLabs 12.01 "Clc1ccc(cc1)NC(=O)C(=O)NC1CCC2(CCCCC2)N(C1)CCNC(=O)CCCCNC(=N)N" R5K InChI InChI 1.06 "InChI=1S/C26H40ClN7O3/c27-19-7-9-20(10-8-19)32-23(36)24(37)33-21-11-14-26(12-3-1-4-13-26)34(18-21)17-16-30-22(35)6-2-5-15-31-25(28)29/h7-10,21H,1-6,11-18H2,(H,30,35)(H,32,36)(H,33,37)(H4,28,29,31)/t21-/m1/s1" R5K InChIKey InChI 1.06 CGZSMDJLUHVSDB-OAQYLSRUSA-N R5K SMILES_CANONICAL CACTVS 3.385 "NC(=N)NCCCCC(=O)NCCN1C[C@@H](CCC12CCCCC2)NC(=O)C(=O)Nc3ccc(Cl)cc3" R5K SMILES CACTVS 3.385 "NC(=N)NCCCCC(=O)NCCN1C[CH](CCC12CCCCC2)NC(=O)C(=O)Nc3ccc(Cl)cc3" R5K SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(\N)/NCCCCC(=O)NCCN1C[C@@H](CCC12CCCCC2)NC(=O)C(=O)Nc3ccc(cc3)Cl" R5K SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(ccc1NC(=O)C(=O)NC2CCC3(CCCCC3)N(C2)CCNC(=O)CCCCNC(=N)N)Cl" # 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 R5K "SYSTEMATIC NAME" ACDLabs 12.01 "N~1~-{(3R)-1-[2-(5-carbamimidamidopentanamido)ethyl]-1-azaspiro[5.5]undecan-3-yl}-N~2~-(4-chlorophenyl)ethanediamide" R5K "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "~{N}'-[(3~{R})-1-[2-(5-carbamimidamidopentanoylamino)ethyl]-1-azaspiro[5.5]undecan-3-yl]-~{N}-(4-chlorophenyl)ethanediamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site R5K "Create component" 2022-06-20 RCSB R5K "Initial release" 2023-01-11 RCSB #