data_P9Q # _chem_comp.id P9Q _chem_comp.name "(1~{S},2~{R},3~{R},4~{R},5~{R})-5-(8-azanyloctylamino)-4-(hydroxymethyl)cyclohexane-1,2,3-triol" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C15 H32 N2 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-04-20 _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 304.426 _chem_comp.one_letter_code ? _chem_comp.three_letter_code P9Q _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 6YQA _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_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 P9Q C7 C1 C 0 1 N N N N N N -15.653 -21.394 -11.069 -0.216 -0.128 -0.180 C7 P9Q 1 P9Q O1 O1 O 0 1 N N N N N N -12.805 -20.298 -14.453 5.661 1.423 -0.103 O1 P9Q 2 P9Q C10 C2 C 0 1 N N N N N N -16.894 -22.285 -10.991 -1.499 0.353 0.500 C10 P9Q 3 P9Q "C1'" C3 C 0 1 N N N N N N -13.226 -19.668 -10.138 2.579 -1.425 0.451 "C1'" P9Q 4 P9Q "C2'" C4 C 0 1 N N S N N N -13.055 -18.516 -11.143 3.884 -1.886 -0.201 "C2'" P9Q 5 P9Q "C3'" C5 C 0 1 N N R N N N -13.452 -18.957 -12.567 4.998 -0.890 0.127 "C3'" P9Q 6 P9Q "C4'" C6 C 0 1 N N R N N N -12.493 -20.028 -13.058 4.621 0.492 -0.410 "C4'" P9Q 7 P9Q "C5'" C7 C 0 1 N N R N N N -12.700 -21.279 -12.219 3.316 0.953 0.243 "C5'" P9Q 8 P9Q "C6'" C8 C 0 1 N N N N N N -11.471 -22.139 -12.347 2.938 2.336 -0.293 "C6'" P9Q 9 P9Q "O2'" O2 O 0 1 N N N N N N -13.817 -17.393 -10.681 4.237 -3.177 0.299 "O2'" P9Q 10 P9Q "O3'" O3 O 0 1 N N N N N N -13.548 -17.932 -13.555 6.217 -1.321 -0.483 "O3'" P9Q 11 P9Q "O6'" O4 O 0 1 N N N N N N -11.507 -23.330 -11.497 3.922 3.289 0.113 "O6'" P9Q 12 P9Q "C7'" C9 C 0 1 N N R N N N -13.127 -21.115 -10.714 2.202 -0.043 -0.085 "C7'" P9Q 13 P9Q N1 N1 N 0 1 N N N N N N -14.393 -21.895 -10.423 0.949 0.400 0.542 N1 P9Q 14 P9Q C11 C10 C 0 1 N N N N N N -17.970 -21.773 -11.987 -2.713 -0.197 -0.251 C11 P9Q 15 P9Q C12 C11 C 0 1 N N N N N N -19.425 -22.233 -11.748 -3.996 0.284 0.429 C12 P9Q 16 P9Q C13 C12 C 0 1 N N N N N N -20.400 -21.912 -12.894 -5.209 -0.266 -0.322 C13 P9Q 17 P9Q C14 C13 C 0 1 N N N N N N -21.879 -22.101 -12.507 -6.492 0.215 0.358 C14 P9Q 18 P9Q H71 H1 H 0 1 N N N N N N -15.433 -21.229 -12.134 -0.186 -1.218 -0.170 H71 P9Q 19 P9Q H7 H2 H 0 1 N N N N N N -15.907 -20.435 -10.594 -0.197 0.226 -1.211 H7 P9Q 20 P9Q H1 H3 H 0 1 N N N N N N -12.218 -20.967 -14.786 6.519 1.193 -0.485 H1 P9Q 21 P9Q H101 H4 H 0 0 N N N N N N -17.300 -22.258 -9.969 -1.519 -0.001 1.531 H101 P9Q 22 P9Q H10 H5 H 0 1 N N N N N N -16.619 -23.318 -11.249 -1.529 1.443 0.490 H10 P9Q 23 P9Q "H1'1" H6 H 0 0 N N N N N N -12.446 -19.560 -9.370 1.786 -2.134 0.218 "H1'1" P9Q 24 P9Q "H2'" H7 H 0 1 N N N N N N -11.989 -18.244 -11.162 3.751 -1.939 -1.282 "H2'" P9Q 25 P9Q "H3'" H8 H 0 1 N N N N N N -14.440 -19.434 -12.481 5.131 -0.837 1.207 "H3'" P9Q 26 P9Q "H4'" H9 H 0 1 N N N N N N -11.456 -19.676 -12.952 4.487 0.439 -1.490 "H4'" P9Q 27 P9Q "H5'" H10 H 0 1 N N N N N N -13.518 -21.837 -12.699 3.449 1.007 1.324 "H5'" P9Q 28 P9Q "H6'2" H11 H 0 0 N N N N N N -11.377 -22.461 -13.395 2.892 2.303 -1.382 "H6'2" P9Q 29 P9Q "H6'1" H12 H 0 0 N N N N N N -10.593 -21.537 -12.068 1.965 2.626 0.103 "H6'1" P9Q 30 P9Q "HO2'" H13 H 0 0 N N N N N N -13.538 -17.160 -9.804 5.056 -3.533 -0.072 "HO2'" P9Q 31 P9Q "HO3'" H14 H 0 0 N N N N N N -14.146 -17.258 -13.255 6.517 -2.192 -0.189 "HO3'" P9Q 32 P9Q "HO6'" H15 H 0 0 N N N N N N -10.709 -23.831 -11.620 3.747 4.190 -0.192 "HO6'" P9Q 33 P9Q "H7'" H16 H 0 1 N N N N N N -12.332 -21.606 -10.133 2.069 -0.096 -1.165 "H7'" P9Q 34 P9Q HN1 H17 H 0 1 N N N N N N -14.535 -21.886 -9.433 0.911 1.407 0.602 HN1 P9Q 35 P9Q H111 H19 H 0 0 N N N N N N -17.677 -22.109 -12.993 -2.693 0.157 -1.282 H111 P9Q 36 P9Q H11 H20 H 0 1 N N N N N N -17.960 -20.674 -11.950 -2.683 -1.287 -0.241 H11 P9Q 37 P9Q H121 H21 H 0 0 N N N N N N -19.794 -21.740 -10.837 -4.015 -0.070 1.460 H121 P9Q 38 P9Q H12 H22 H 0 1 N N N N N N -19.419 -23.323 -11.599 -4.025 1.374 0.419 H12 P9Q 39 P9Q H131 H23 H 0 0 N N N N N N -20.173 -22.576 -13.741 -5.190 0.088 -1.353 H131 P9Q 40 P9Q H13 H24 H 0 1 N N N N N N -20.250 -20.865 -13.197 -5.179 -1.356 -0.312 H13 P9Q 41 P9Q H14 H25 H 0 1 N N N N N N -22.690 -21.783 -13.179 -6.512 -0.139 1.389 H14 P9Q 42 P9Q H141 H26 H 0 0 N N N N N N -22.209 -22.972 -11.921 -6.522 1.305 0.348 H141 P9Q 43 P9Q H4 H33 H 0 1 N N N N N N -14.217 -19.561 -9.672 2.713 -1.372 1.532 H4 P9Q 44 P9Q C1 C14 C 0 1 N N N N N N ? ? ? -7.706 -0.335 -0.394 C1 P9Q 45 P9Q C2 C15 C 0 1 N N N N N N ? ? ? -8.989 0.146 0.287 C2 P9Q 46 P9Q N2 N2 N 0 1 N N N N N N ? ? ? -10.154 -0.382 -0.435 N2 P9Q 47 P9Q H2 H27 H 0 1 N N N N N N ? ? ? -7.686 0.019 -1.424 H2 P9Q 48 P9Q H3 H28 H 0 1 N N N N N N ? ? ? -7.676 -1.425 -0.383 H3 P9Q 49 P9Q H5 H29 H 0 1 N N N N N N ? ? ? -9.008 -0.208 1.317 H5 P9Q 50 P9Q H6 H30 H 0 1 N N N N N N ? ? ? -9.019 1.236 0.276 H6 P9Q 51 P9Q H8 H31 H 0 1 N N N N N N ? ? ? -11.014 -0.078 -0.004 H8 P9Q 52 P9Q H9 H32 H 0 1 N N N N N N ? ? ? -10.125 -0.121 -1.409 H9 P9Q 53 # 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 P9Q O1 "C4'" SING N N 1 P9Q "O3'" "C3'" SING N N 2 P9Q "C4'" "C3'" SING N N 3 P9Q "C4'" "C5'" SING N N 4 P9Q C13 C14 SING N N 5 P9Q C13 C12 SING N N 6 P9Q "C3'" "C2'" SING N N 7 P9Q "C6'" "C5'" SING N N 8 P9Q "C6'" "O6'" SING N N 9 P9Q "C5'" "C7'" SING N N 10 P9Q C11 C12 SING N N 11 P9Q C11 C10 SING N N 12 P9Q "C2'" "O2'" SING N N 13 P9Q "C2'" "C1'" SING N N 14 P9Q C7 C10 SING N N 15 P9Q C7 N1 SING N N 16 P9Q "C7'" N1 SING N N 17 P9Q "C7'" "C1'" SING N N 18 P9Q C7 H71 SING N N 19 P9Q C7 H7 SING N N 20 P9Q O1 H1 SING N N 21 P9Q C10 H101 SING N N 22 P9Q C10 H10 SING N N 23 P9Q "C1'" "H1'1" SING N N 24 P9Q "C2'" "H2'" SING N N 25 P9Q "C3'" "H3'" SING N N 26 P9Q "C4'" "H4'" SING N N 27 P9Q "C5'" "H5'" SING N N 28 P9Q "C6'" "H6'2" SING N N 29 P9Q "C6'" "H6'1" SING N N 30 P9Q "O2'" "HO2'" SING N N 31 P9Q "O3'" "HO3'" SING N N 32 P9Q "O6'" "HO6'" SING N N 33 P9Q "C7'" "H7'" SING N N 34 P9Q N1 HN1 SING N N 35 P9Q C11 H111 SING N N 36 P9Q C11 H11 SING N N 37 P9Q C12 H121 SING N N 38 P9Q C12 H12 SING N N 39 P9Q C13 H131 SING N N 40 P9Q C13 H13 SING N N 41 P9Q C14 H14 SING N N 42 P9Q C14 H141 SING N N 43 P9Q "C1'" H4 SING N N 44 P9Q C14 C1 SING N N 45 P9Q C1 C2 SING N N 46 P9Q C2 N2 SING N N 47 P9Q C1 H2 SING N N 48 P9Q C1 H3 SING N N 49 P9Q C2 H5 SING N N 50 P9Q C2 H6 SING N N 51 P9Q N2 H8 SING N N 52 P9Q N2 H9 SING N N 53 # 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 P9Q InChI InChI 1.03 "InChI=1S/C15H32N2O4/c16-7-5-3-1-2-4-6-8-17-12-9-13(19)15(21)14(20)11(12)10-18/h11-15,17-21H,1-10,16H2/t11-,12+,13-,14+,15+/m0/s1" P9Q InChIKey InChI 1.03 HEJOCOWXPPQFHY-XPABHHOTSA-N P9Q SMILES_CANONICAL CACTVS 3.385 "NCCCCCCCCN[C@@H]1C[C@H](O)[C@@H](O)[C@H](O)[C@H]1CO" P9Q SMILES CACTVS 3.385 "NCCCCCCCCN[CH]1C[CH](O)[CH](O)[CH](O)[CH]1CO" P9Q SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C1[C@H]([C@@H]([C@H]([C@@H]([C@H]1O)O)O)CO)NCCCCCCCCN" P9Q SMILES "OpenEye OEToolkits" 2.0.7 "C1C(C(C(C(C1O)O)O)CO)NCCCCCCCCN" # _pdbx_chem_comp_identifier.comp_id P9Q _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~{S},2~{R},3~{R},4~{R},5~{R})-5-(8-azanyloctylamino)-4-(hydroxymethyl)cyclohexane-1,2,3-triol" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site P9Q "Create component" 2020-04-20 PDBE P9Q "Initial release" 2021-02-24 RCSB P9Q "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id P9Q _pdbx_chem_comp_pcm.modified_residue_id ASP _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 "C1'" _pdbx_chem_comp_pcm.modified_residue_id_linking_atom OD1 _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #