data_XHR
# 
_chem_comp.id                                    XHR 
_chem_comp.name                                  "(1R,2R,3R,4S)-4-[8-(azanyldiazenyl)octylamino]-3-(hydroxymethyl)cyclopentane-1,2-diol" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C14 H30 N4 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-11-02 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        302.413 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XHR 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   Y 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        8R1M 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_chem_comp.pdbx_pcm                              Y 
# 
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_n_terminal_atom_flag 
_chem_comp_atom.pdbx_backbone_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 
XHR C4  C1  C 0 1 N N N N N N 16.075 -16.982 -81.526 3.629  -0.335 -0.162 C4  XHR 1  
XHR C14 C2  C 0 1 N N N N N N 13.532 -21.377 -75.080 -4.521 1.926  0.247  C14 XHR 2  
XHR C5  C3  C 0 1 N N N N N N 15.442 -18.310 -81.927 2.335  0.243  0.415  C5  XHR 3  
XHR C6  C4  C 0 1 N N N N N N 14.152 -18.662 -81.183 1.138  -0.322 -0.353 C6  XHR 4  
XHR C11 C5  C 0 1 N N R N N N 10.594 -22.710 -77.065 -5.781 -1.538 -0.152 C11 XHR 5  
XHR C7  C6  C 0 1 N N N N N N 14.362 -19.452 -79.887 -0.156 0.255  0.223  C7  XHR 6  
XHR C8  C7  C 0 1 N N N N N N 13.077 -19.675 -79.111 -1.353 -0.309 -0.545 C8  XHR 7  
XHR C9  C8  C 0 1 N N S N N N 12.008 -20.710 -77.116 -3.769 -0.275 -0.706 C9  XHR 8  
XHR C10 C9  C 0 1 N N N N N N 10.697 -21.295 -77.670 -4.236 -1.598 -0.064 C10 XHR 9  
XHR C12 C10 C 0 1 N N R N N N 11.894 -22.931 -76.286 -6.082 -0.045 0.131  C12 XHR 10 
XHR C13 C11 C 0 1 N N R N N N 12.202 -21.505 -75.801 -4.943 0.712  -0.582 C13 XHR 11 
XHR C3  C12 C 0 1 N N N N N N 17.466 -16.690 -82.079 4.826  0.230  0.607  C3  XHR 12 
XHR N4  N5  N 0 1 N N N N N N 13.207 -20.597 -77.979 -2.596 0.245  0.009  N4  XHR 13 
XHR O1  O1  O 0 1 N N N N N N 10.388 -23.804 -77.955 -6.381 -2.373 0.840  O1  XHR 14 
XHR O2  O2  O 0 1 N N N N N N 11.727 -23.866 -75.222 -7.348 0.322  -0.420 O2  XHR 15 
XHR O3  O3  O 0 1 N N N N N N 13.606 -20.204 -74.293 -5.579 2.887  0.257  O3  XHR 16 
XHR H1  H1  H 0 1 N N N N N N 16.142 -16.963 -80.428 3.616  -1.421 -0.067 H1  XHR 17 
XHR H2  H2  H 0 1 N N N N N N 15.406 -16.178 -81.866 3.711  -0.062 -1.214 H2  XHR 18 
XHR H3  H3  H 0 1 N N N N N N 13.665 -22.251 -74.425 -4.306 1.612  1.269  H3  XHR 19 
XHR H4  H4  H 0 1 N N N N N N 14.339 -21.353 -75.828 -3.628 2.373  -0.190 H4  XHR 20 
XHR H5  H5  H 0 1 N N N N N N 15.215 -18.269 -83.003 2.252  -0.030 1.467  H5  XHR 21 
XHR H6  H6  H 0 1 N N N N N N 16.174 -19.108 -81.737 2.348  1.328  0.321  H6  XHR 22 
XHR H7  H7  H 0 1 N N N N N N 13.632 -17.725 -80.934 1.220  -0.049 -1.405 H7  XHR 23 
XHR H8  H8  H 0 1 N N N N N N 13.522 -19.264 -81.854 1.125  -1.408 -0.259 H8  XHR 24 
XHR H9  H9  H 0 1 N N N N N N 9.773  -22.692 -76.333 -6.122 -1.819 -1.149 H9  XHR 25 
XHR H10 H10 H 0 1 N N N N N N 14.793 -20.432 -80.140 -0.239 -0.017 1.276  H10 XHR 26 
XHR H11 H11 H 0 1 N N N N N N 15.065 -18.897 -79.248 -0.144 1.341  0.129  H11 XHR 27 
XHR H12 H12 H 0 1 N N N N N N 12.734 -18.703 -78.726 -1.271 -0.036 -1.597 H12 XHR 28 
XHR H13 H13 H 0 1 N N N N N N 12.324 -20.082 -79.802 -1.366 -1.395 -0.451 H13 XHR 29 
XHR H14 H14 H 0 1 N N N N N N 11.762 -19.685 -76.802 -3.525 -0.436 -1.756 H14 XHR 30 
XHR H15 H15 H 0 1 N N N N N N 9.839  -20.680 -77.360 -3.915 -1.651 0.976  H15 XHR 31 
XHR H16 H16 H 0 1 N N N N N N 10.732 -21.347 -78.768 -3.854 -2.451 -0.626 H16 XHR 32 
XHR H17 H17 H 0 1 N N N N N N 12.684 -23.260 -76.978 -6.059 0.152  1.202  H17 XHR 33 
XHR H18 H18 H 0 1 N N N N N N 11.405 -21.204 -75.106 -5.268 1.031  -1.572 H18 XHR 34 
XHR H19 H19 H 0 1 N N N N N N 18.139 -17.520 -82.340 4.839  1.316  0.513  H19 XHR 35 
XHR H20 H20 H 0 1 N N N N N N 17.612 -15.863 -82.789 4.743  -0.043 1.659  H20 XHR 36 
XHR H22 H22 H 0 1 N N N N N N 13.413 -21.506 -78.342 -2.664 0.062  0.998  H22 XHR 37 
XHR H24 H24 H 0 1 N N N N N N 10.343 -24.613 -77.458 -6.222 -3.317 0.709  H24 XHR 38 
XHR H25 H25 H 0 1 N N N N N N 12.552 -23.976 -74.764 -8.096 -0.166 -0.049 H25 XHR 39 
XHR H26 H26 H 0 1 N N N N N N 14.451 -20.164 -73.861 -5.380 3.685  0.766  H26 XHR 40 
XHR C2  C13 C 0 1 N N N N N N ?      ?       ?       6.120  -0.348 0.030  C2  XHR 41 
XHR C1  C14 C 0 1 N N N N N N ?      ?       ?       7.317  0.217  0.799  C1  XHR 42 
XHR N1  N6  N 0 1 N N N N N N ?      ?       ?       8.556  -0.336 0.247  N1  XHR 43 
XHR N2  N7  N 0 1 N N N N N N ?      ?       ?       9.415  0.421  -0.228 N2  XHR 44 
XHR N3  N8  N 0 1 N N N N N N ?      ?       ?       10.601 -0.107 -0.756 N3  XHR 45 
XHR H21 H21 H 0 1 N N N N N N ?      ?       ?       6.107  -1.434 0.124  H21 XHR 46 
XHR H23 H23 H 0 1 N N N N N N ?      ?       ?       6.202  -0.075 -1.022 H23 XHR 47 
XHR H27 H27 H 0 1 N N N N N N ?      ?       ?       7.330  1.303  0.705  H27 XHR 48 
XHR H28 H28 H 0 1 N N N N N N ?      ?       ?       7.234  -0.056 1.851  H28 XHR 49 
XHR H29 H29 H 0 1 N N N N N N ?      ?       ?       10.749 -1.066 -0.750 H29 XHR 50 
XHR H30 H30 H 0 1 N N N N N N ?      ?       ?       11.273 0.486  -1.128 H30 XHR 51 
# 
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 
XHR C3  C4  SING N N 1  
XHR C5  C4  SING N N 2  
XHR C5  C6  SING N N 3  
XHR C6  C7  SING N N 4  
XHR C7  C8  SING N N 5  
XHR C8  N4  SING N N 6  
XHR N4  C9  SING N N 7  
XHR O1  C11 SING N N 8  
XHR C10 C9  SING N N 9  
XHR C10 C11 SING N N 10 
XHR C9  C13 SING N N 11 
XHR C11 C12 SING N N 12 
XHR C12 C13 SING N N 13 
XHR C12 O2  SING N N 14 
XHR C13 C14 SING N N 15 
XHR C14 O3  SING N N 16 
XHR C4  H1  SING N N 17 
XHR C4  H2  SING N N 18 
XHR C14 H3  SING N N 19 
XHR C14 H4  SING N N 20 
XHR C5  H5  SING N N 21 
XHR C5  H6  SING N N 22 
XHR C6  H7  SING N N 23 
XHR C6  H8  SING N N 24 
XHR C11 H9  SING N N 25 
XHR C7  H10 SING N N 26 
XHR C7  H11 SING N N 27 
XHR C8  H12 SING N N 28 
XHR C8  H13 SING N N 29 
XHR C9  H14 SING N N 30 
XHR C10 H15 SING N N 31 
XHR C10 H16 SING N N 32 
XHR C12 H17 SING N N 33 
XHR C13 H18 SING N N 34 
XHR C3  H19 SING N N 35 
XHR C3  H20 SING N N 36 
XHR N4  H22 SING N N 37 
XHR O1  H24 SING N N 38 
XHR O2  H25 SING N N 39 
XHR O3  H26 SING N N 40 
XHR C3  C2  SING N N 41 
XHR C2  C1  SING N N 42 
XHR C1  N1  SING N N 43 
XHR N1  N2  DOUB N N 44 
XHR N2  N3  SING N N 45 
XHR C2  H21 SING N N 46 
XHR C2  H23 SING N N 47 
XHR C1  H27 SING N N 48 
XHR C1  H28 SING N N 49 
XHR N3  H29 SING N N 50 
XHR N3  H30 SING N N 51 
# 
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 
XHR InChI            InChI                1.06  "InChI=1S/C14H30N4O3/c15-18-17-8-6-4-2-1-3-5-7-16-12-9-13(20)14(21)11(12)10-19/h11-14,16,19-21H,1-10H2,(H2,15,17)/t11-,12-,13+,14+/m0/s1" 
XHR InChIKey         InChI                1.06  FSGISNCKTQXBRQ-IGQOVBAYSA-N                                                                                                               
XHR SMILES_CANONICAL CACTVS               3.385 "NN=NCCCCCCCCN[C@H]1C[C@@H](O)[C@H](O)[C@H]1CO"                                                                                           
XHR SMILES           CACTVS               3.385 "NN=NCCCCCCCCN[CH]1C[CH](O)[CH](O)[CH]1CO"                                                                                                
XHR SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1[C@@H]([C@@H]([C@H]([C@@H]1O)O)CO)NCCCCCCCCN=NN"                                                                                       
XHR SMILES           "OpenEye OEToolkits" 2.0.7 "C1C(C(C(C1O)O)CO)NCCCCCCCCN=NN"                                                                                                          
# 
_pdbx_chem_comp_identifier.comp_id           XHR 
_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        "(1~{R},2~{R},3~{R},4~{S})-4-[8-(azanyldiazenyl)octylamino]-3-(hydroxymethyl)cyclopentane-1,2-diol" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
XHR "Create component" 2023-11-02 PDBE 
XHR "Modify atom id"   2024-09-24 PDBE 
XHR "Initial release"  2024-10-02 RCSB 
XHR "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            XHR 
_pdbx_chem_comp_pcm.modified_residue_id                GLU 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C10 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OE1 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
