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 
# 
