data_A1J9P # _chem_comp.id A1J9P _chem_comp.name "(1~{R},2~{R},3~{R},4~{S})-4-(dec-9-ynylamino)-3-(hydroxymethyl)cyclopentane-1,2-diol" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C16 H29 N O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2026-06-10 _chem_comp.pdbx_modified_date 2026-09-25 _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 283.406 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1J9P _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 30PV _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm Y _chem_comp.pdbx_comp_type ? # 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 A1J9P C15 C1 C 0 1 N N R N N N 38.207 -23.913 -30.721 5.069 1.583 -0.077 C15 A1J9P 1 A1J9P C16 C2 C 0 1 N N R N N N 39.461 -24.155 -29.855 5.392 0.090 0.180 C16 A1J9P 2 A1J9P O1 O1 O 0 1 N N N N N N 41.097 -21.404 -27.829 4.952 -2.839 0.264 O1 A1J9P 3 A1J9P C1 C3 C 0 1 N N N N N N 41.101 -22.665 -28.532 3.866 -1.911 0.229 C1 A1J9P 4 A1J9P C2 C4 C 0 1 N N R N N N 39.772 -22.758 -29.291 4.279 -0.672 -0.568 C2 A1J9P 5 A1J9P C3 C5 C 0 1 N N S N N N 39.594 -21.914 -30.599 3.090 0.296 -0.692 C3 A1J9P 6 A1J9P N1 N1 N 0 1 N N N N N N 40.813 -21.782 -31.424 1.915 -0.260 -0.009 N1 A1J9P 7 A1J9P C4 C6 C 0 1 N N N N N N 40.616 -20.943 -32.620 0.672 0.283 -0.572 C4 A1J9P 8 A1J9P C5 C7 C 0 1 N N N N N N 41.891 -20.637 -33.399 -0.527 -0.318 0.163 C5 A1J9P 9 A1J9P C6 C8 C 0 1 N N N N N N 41.599 -20.021 -34.780 -1.822 0.248 -0.424 C6 A1J9P 10 A1J9P C7 C9 C 0 1 N N N N N N 42.870 -19.471 -35.433 -3.021 -0.353 0.312 C7 A1J9P 11 A1J9P C8 C10 C 0 1 N N N N N N 42.672 -18.433 -36.537 -4.316 0.213 -0.275 C8 A1J9P 12 A1J9P C9 C11 C 0 1 N N N N N N 41.237 -18.108 -36.941 -5.515 -0.389 0.460 C9 A1J9P 13 A1J9P C10 C12 C 0 1 N N N N N N 40.768 -16.668 -36.838 -6.810 0.177 -0.127 C10 A1J9P 14 A1J9P C14 C13 C 0 1 N N N N N N 38.347 -22.489 -31.303 3.522 1.614 -0.015 C14 A1J9P 15 A1J9P O2 O2 O 0 1 N N N N N N 38.011 -24.954 -31.654 5.637 2.407 0.943 O2 A1J9P 16 A1J9P O3 O3 O 0 1 N N N N N N 39.191 -25.067 -28.795 6.674 -0.243 -0.356 O3 A1J9P 17 A1J9P H1 H1 H 0 1 N N N N N N 37.346 -23.893 -30.036 5.422 1.891 -1.062 H1 A1J9P 18 A1J9P H2 H2 H 0 1 N N N N N N 40.293 -24.500 -30.487 5.355 -0.130 1.247 H2 A1J9P 19 A1J9P H3 H3 H 0 1 N N N N N N 41.908 -21.309 -27.344 4.760 -3.650 0.755 H3 A1J9P 20 A1J9P H4 H4 H 0 1 N N N N N N 41.187 -23.496 -27.817 3.004 -2.378 -0.248 H4 A1J9P 21 A1J9P H5 H5 H 0 1 N N N N N N 41.943 -22.701 -29.239 3.604 -1.618 1.246 H5 A1J9P 22 A1J9P H6 H6 H 0 1 N N N N N N 38.962 -22.481 -28.600 4.628 -0.965 -1.559 H6 A1J9P 23 A1J9P H7 H7 H 0 1 N N N N N N 39.320 -20.901 -30.269 2.861 0.475 -1.743 H7 A1J9P 24 A1J9P H8 H8 H 0 1 N N N N N N 41.098 -22.694 -31.719 1.963 -0.095 0.986 H8 A1J9P 25 A1J9P H10 H10 H 0 1 N N N N N N 40.172 -19.989 -32.300 0.663 1.367 -0.456 H10 A1J9P 26 A1J9P H11 H11 H 0 1 N N N N N N 39.919 -21.464 -33.293 0.612 0.032 -1.631 H11 A1J9P 27 A1J9P H12 H12 H 0 1 N N N N N N 42.452 -21.572 -33.541 -0.519 -1.402 0.047 H12 A1J9P 28 A1J9P H13 H13 H 0 1 N N N N N N 42.499 -19.929 -32.817 -0.468 -0.066 1.222 H13 A1J9P 29 A1J9P H14 H14 H 0 1 N N N N N N 40.876 -19.201 -34.659 -1.831 1.332 -0.307 H14 A1J9P 30 A1J9P H15 H15 H 0 1 N N N N N N 41.169 -20.795 -35.432 -1.882 -0.004 -1.482 H15 A1J9P 31 A1J9P H16 H16 H 0 1 N N N N N N 43.418 -20.320 -35.867 -3.013 -1.437 0.195 H16 A1J9P 32 A1J9P H17 H17 H 0 1 N N N N N N 43.193 -18.800 -37.434 -4.324 1.296 -0.159 H17 A1J9P 33 A1J9P H18 H18 H 0 1 N N N N N N 40.575 -18.712 -36.304 -5.507 -1.472 0.344 H18 A1J9P 34 A1J9P H19 H19 H 0 1 N N N N N N 41.117 -18.415 -37.990 -5.456 -0.137 1.519 H19 A1J9P 35 A1J9P H20 H20 H 0 1 N N N N N N 41.661 -16.073 -36.595 -6.818 1.261 -0.010 H20 A1J9P 36 A1J9P H21 H21 H 0 1 N N N N N N 40.405 -16.393 -37.839 -6.869 -0.075 -1.185 H21 A1J9P 37 A1J9P H23 H23 H 0 1 N N N N N N 38.496 -22.526 -32.392 3.182 1.639 1.021 H23 A1J9P 38 A1J9P H24 H24 H 0 1 N N N N N N 37.457 -21.885 -31.075 3.135 2.471 -0.566 H24 A1J9P 39 A1J9P H25 H25 H 0 1 N N N N N N 37.938 -25.782 -31.194 5.463 3.352 0.827 H25 A1J9P 40 A1J9P H26 H26 H 0 1 N N N N N N 39.979 -25.197 -28.280 7.406 0.250 0.038 H26 A1J9P 41 A1J9P C11 C11 C 0 1 N N N N N N ? ? ? -8.009 -0.424 0.609 C11 A1J9P 42 A1J9P C12 C12 C 0 1 N N N N N N ? ? ? -9.255 0.120 0.044 C12 A1J9P 43 A1J9P C13 C13 C 0 1 N N N N N N ? ? ? -10.248 0.555 -0.406 C13 A1J9P 44 A1J9P H9 H9 H 0 1 N N N N N N 43.478 -19.007 -34.643 -2.962 -0.101 1.371 H9 A1J9P 45 A1J9P H27 H27 H 0 1 N N N N N N 43.140 -17.497 -36.199 -4.375 -0.039 -1.334 H27 A1J9P 46 A1J9P H22 H22 H 0 1 N N N N N N ? ? ? -8.000 -1.508 0.492 H22 A1J9P 47 A1J9P H28 H28 H 0 1 N N N N N N ? ? ? -7.950 -0.172 1.668 H28 A1J9P 48 A1J9P H29 H29 H 0 1 N N N N N N ? ? ? -11.136 0.943 -0.809 H29 A1J9P 49 # 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 A1J9P C9 C10 SING N N 1 A1J9P C9 C8 SING N N 2 A1J9P C8 C7 SING N N 3 A1J9P C7 C6 SING N N 4 A1J9P C6 C5 SING N N 5 A1J9P C5 C4 SING N N 6 A1J9P C4 N1 SING N N 7 A1J9P O2 C15 SING N N 8 A1J9P N1 C3 SING N N 9 A1J9P C14 C15 SING N N 10 A1J9P C14 C3 SING N N 11 A1J9P C15 C16 SING N N 12 A1J9P C3 C2 SING N N 13 A1J9P C16 C2 SING N N 14 A1J9P C16 O3 SING N N 15 A1J9P C2 C1 SING N N 16 A1J9P C1 O1 SING N N 17 A1J9P C15 H1 SING N N 18 A1J9P C16 H2 SING N N 19 A1J9P O1 H3 SING N N 20 A1J9P C1 H4 SING N N 21 A1J9P C1 H5 SING N N 22 A1J9P C2 H6 SING N N 23 A1J9P C3 H7 SING N N 24 A1J9P N1 H8 SING N N 25 A1J9P C4 H10 SING N N 26 A1J9P C4 H11 SING N N 27 A1J9P C5 H12 SING N N 28 A1J9P C5 H13 SING N N 29 A1J9P C6 H14 SING N N 30 A1J9P C6 H15 SING N N 31 A1J9P C7 H16 SING N N 32 A1J9P C8 H17 SING N N 33 A1J9P C9 H18 SING N N 34 A1J9P C9 H19 SING N N 35 A1J9P C10 H20 SING N N 36 A1J9P C10 H21 SING N N 37 A1J9P C14 H23 SING N N 38 A1J9P C14 H24 SING N N 39 A1J9P O2 H25 SING N N 40 A1J9P O3 H26 SING N N 41 A1J9P C10 C11 SING N N 42 A1J9P C11 C12 SING N N 43 A1J9P C12 C13 TRIP N N 44 A1J9P C7 H9 SING N N 45 A1J9P C8 H27 SING N N 46 A1J9P C11 H22 SING N N 47 A1J9P C11 H28 SING N N 48 A1J9P C13 H29 SING N N 49 # 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 A1J9P InChI InChI 1.06 "InChI=1S/C16H29NO3/c1-2-3-4-5-6-7-8-9-10-17-14-11-15(19)16(20)13(14)12-18/h1,13-20H,3-12H2/t13-,14-,15+,16+/m0/s1" A1J9P InChIKey InChI 1.06 LCFZGLHGOFJFLR-CAOSSQGBSA-N A1J9P SMILES_CANONICAL CACTVS 3.385 "OC[C@@H]1[C@@H](O)[C@H](O)C[C@@H]1NCCCCCCCCC#C" A1J9P SMILES CACTVS 3.385 "OC[CH]1[CH](O)[CH](O)C[CH]1NCCCCCCCCC#C" A1J9P SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C#CCCCCCCCCN[C@H]1C[C@H]([C@@H]([C@H]1CO)O)O" A1J9P SMILES "OpenEye OEToolkits" 2.0.7 "C#CCCCCCCCCNC1CC(C(C1CO)O)O" # _pdbx_chem_comp_identifier.comp_id A1J9P _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-(dec-9-ynylamino)-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 A1J9P "Create component" 2026-06-10 PDBE A1J9P "Modify PCM" 2026-06-10 PDBE A1J9P "Initial release" 2026-09-30 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1J9P _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 C14 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom OE2 _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #