data_A1L8S # _chem_comp.id A1L8S _chem_comp.name "acyclic D-threoninol nucleic acid " _chem_comp.type "DNA linking" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C4 H12 N O5 P" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "[(2~{S},3~{S})-2-azanyl-3-oxidanyl-butyl] dihydrogen phosphate" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-03-27 _chem_comp.pdbx_modified_date 2026-03-20 _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 185.116 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1L8S _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 9U3I _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ _chem_comp.pdbx_pcm ? # 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 A1L8S OP3 O1 O 0 1 N Y N N N N 10.797 -7.186 -2.412 -3.220 -1.182 -0.149 OP3 A1L8S 1 A1L8S P P1 P 0 1 N N N N N N 10.904 -5.757 -2.857 -2.183 0.047 -0.068 P A1L8S 2 A1L8S OP2 O2 O 0 1 N N N N N N 11.285 -5.655 -4.312 -2.378 0.823 1.329 OP2 A1L8S 3 A1L8S "O5'" O3 O 0 1 N N N N N N 11.983 -4.969 -1.909 -0.677 -0.515 -0.163 "O5'" A1L8S 4 A1L8S "C5'" C1 C 0 1 N N N N N N 13.258 -5.515 -1.802 0.469 0.337 -0.225 "C5'" A1L8S 5 A1L8S "C4'" C2 C 0 1 N N S N N N 14.155 -4.485 -1.156 1.736 -0.517 -0.308 "C4'" A1L8S 6 A1L8S "N4'" N1 N 0 1 N N N N N N 15.452 -5.092 -1.136 1.890 -1.287 0.933 "N4'" A1L8S 7 A1L8S "C3'" C3 C 0 1 N N S N N N 13.556 -4.085 0.272 2.952 0.392 -0.499 "C3'" A1L8S 8 A1L8S "O3'" O4 O 0 1 N N N N N N 13.743 -5.214 1.137 3.055 1.289 0.608 "O3'" A1L8S 9 A1L8S "C2'" C4 C 0 1 N N N N N N 14.133 -2.708 0.815 4.218 -0.462 -0.583 "C2'" A1L8S 10 A1L8S H2 H2 H 0 1 N N N N N N 10.590 -5.221 -4.792 -2.230 0.272 2.109 H2 A1L8S 11 A1L8S H3 H3 H 0 1 N N N N N N 13.224 -6.423 -1.181 0.401 0.974 -1.106 H3 A1L8S 12 A1L8S H4 H4 H 0 1 N N N N N N 13.640 -5.769 -2.802 0.508 0.959 0.670 H4 A1L8S 13 A1L8S H5 H5 H 0 1 N N N N N N 14.171 -3.581 -1.782 1.657 -1.201 -1.153 H5 A1L8S 14 A1L8S H6 H6 H 0 1 N N N N N N 16.108 -4.464 -0.718 1.965 -0.675 1.732 H6 A1L8S 15 A1L8S H7 H7 H 0 1 N Y N N N N 15.416 -5.938 -0.604 1.131 -1.941 1.049 H7 A1L8S 16 A1L8S H9 H9 H 0 1 N N N N N N 12.476 -3.936 0.125 2.837 0.963 -1.420 H9 A1L8S 17 A1L8S H10 H10 H 0 1 N N N N N N 13.398 -5.014 1.999 3.159 0.849 1.463 H10 A1L8S 18 A1L8S H11 H11 H 0 1 N N N N N N 13.688 -2.485 1.796 4.140 -1.147 -1.428 H11 A1L8S 19 A1L8S H12 H12 H 0 1 N N N N N N 15.226 -2.783 0.917 5.085 0.185 -0.719 H12 A1L8S 20 A1L8S H13 H13 H 0 1 N N N N N N 13.885 -1.903 0.108 4.333 -1.034 0.338 H13 A1L8S 21 A1L8S OP1 OP1 O 0 1 N N N N N N 9.592 -5.175 -2.561 -2.434 0.979 -1.190 OP1 A1L8S 22 A1L8S H1 H1 H 0 1 N N N N N N 9.929 -7.345 -2.061 -4.148 -0.917 -0.098 H1 A1L8S 23 # 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 A1L8S OP2 P SING N N 1 A1L8S P OP3 SING N N 2 A1L8S P "O5'" SING N N 3 A1L8S "O5'" "C5'" SING N N 4 A1L8S "C5'" "C4'" SING N N 5 A1L8S "C4'" "N4'" SING N N 6 A1L8S "C4'" "C3'" SING N N 7 A1L8S "C3'" "C2'" SING N N 8 A1L8S "C3'" "O3'" SING N N 9 A1L8S OP2 H2 SING N N 10 A1L8S "C5'" H3 SING N N 11 A1L8S "C5'" H4 SING N N 12 A1L8S "C4'" H5 SING N N 13 A1L8S "N4'" H6 SING N N 14 A1L8S "N4'" H7 SING N N 15 A1L8S "C3'" H9 SING N N 16 A1L8S "O3'" H10 SING N N 17 A1L8S "C2'" H11 SING N N 18 A1L8S "C2'" H12 SING N N 19 A1L8S "C2'" H13 SING N N 20 A1L8S P OP1 DOUB N N 21 A1L8S OP3 H1 SING N N 22 # 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 A1L8S InChI InChI 1.06 "InChI=1S/C4H12NO5P/c1-3(6)4(5)2-10-11(7,8)9/h3-4,6H,2,5H2,1H3,(H2,7,8,9)/t3-,4-/m0/s1" A1L8S InChIKey InChI 1.06 FUMMRDYMVGSHMU-IMJSIDKUSA-N A1L8S SMILES_CANONICAL CACTVS 3.385 "C[C@H](O)[C@@H](N)CO[P](O)(O)=O" A1L8S SMILES CACTVS 3.385 "C[CH](O)[CH](N)CO[P](O)(O)=O" A1L8S SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H]([C@H](COP(=O)(O)O)N)O" A1L8S SMILES "OpenEye OEToolkits" 2.0.7 "CC(C(COP(=O)(O)O)N)O" # _pdbx_chem_comp_identifier.comp_id A1L8S _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 "[(2~{S},3~{S})-2-azanyl-3-oxidanyl-butyl] dihydrogen phosphate" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1L8S _pdbx_chem_comp_synonyms.name "[(2~{S},3~{S})-2-azanyl-3-oxidanyl-butyl] dihydrogen phosphate" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1L8S "Create component" 2025-03-27 PDBJ A1L8S "Initial release" 2026-03-25 RCSB #