data_D6D # _chem_comp.id D6D _chem_comp.name "(1S,2S,3S,4R,5R)-2-amino-4-[(2S)-2-(hydroxymethyl)pyrrolidin-1-yl]-6,8-dioxabicyclo[3.2.1]octan-3-ol" _chem_comp.type NON-POLYMER _chem_comp.pdbx_type HETAIN _chem_comp.formula "C11 H20 N2 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2017-10-20 _chem_comp.pdbx_modified_date 2020-04-17 _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 244.287 _chem_comp.one_letter_code ? _chem_comp.three_letter_code D6D _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 5QB8 _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 D6D O3 O1 O 0 1 N N N -4.853 1.749 6.705 -1.913 1.985 0.927 O3 D6D 1 D6D C4 C1 C 0 1 N N R -3.140 2.073 10.525 0.249 -0.593 -0.798 C4 D6D 2 D6D C5 C2 C 0 1 N N S -2.470 2.983 9.427 1.233 -1.414 0.042 C5 D6D 3 D6D C6 C3 C 0 1 N N S -1.009 3.224 9.798 1.562 -0.648 1.329 C6 D6D 4 D6D N1 N1 N 0 1 N N N -0.282 3.780 8.614 0.369 -0.583 2.183 N1 D6D 5 D6D C7 C4 C 0 1 N N S -0.352 1.919 10.241 2.005 0.775 0.951 C7 D6D 6 D6D C8 C5 C 0 1 N N N -0.376 1.716 11.750 2.994 0.661 -0.233 C8 D6D 7 D6D C9 C6 C 0 1 N N R -2.209 0.831 10.754 0.806 0.829 -0.966 C9 D6D 8 D6D C10 C7 C 0 1 N N N -5.603 1.451 7.871 -1.748 1.814 -0.482 C10 D6D 9 D6D C2 C8 C 0 1 N N S -4.731 0.767 8.914 -1.995 0.350 -0.852 C2 D6D 10 D6D C1 C9 C 0 1 N N N -5.343 -0.536 9.432 -3.395 -0.095 -0.377 C1 D6D 11 D6D N N2 N 0 1 N N N -4.557 1.595 10.181 -1.053 -0.535 -0.120 N D6D 12 D6D C3 C10 C 0 1 N N N -5.272 0.858 11.294 -1.718 -1.863 -0.130 C3 D6D 13 D6D C C11 C 0 1 N N N -6.156 -0.127 10.624 -3.213 -1.552 0.098 C D6D 14 D6D O O2 O 0 1 N N N -1.557 0.938 11.996 2.171 0.728 -1.412 O D6D 15 D6D O1 O3 O 0 1 N N N -1.179 0.823 9.790 0.863 1.431 0.346 O1 D6D 16 D6D O2 O4 O 0 1 N N N -3.176 4.214 9.514 2.432 -1.631 -0.704 O2 D6D 17 D6D H1 H1 H 0 1 N N N -5.414 2.175 6.067 -1.771 2.891 1.232 H1 D6D 18 D6D H2 H2 H 0 1 N N N -3.182 2.646 11.463 0.130 -1.056 -1.778 H2 D6D 19 D6D H3 H3 H 0 1 N N N -2.555 2.514 8.436 0.783 -2.374 0.294 H3 D6D 20 D6D H4 H4 H 0 1 N N N -0.964 3.946 10.626 2.368 -1.154 1.859 H4 D6D 21 D6D H5 H5 H 0 1 N N N 0.676 3.939 8.855 0.562 -0.083 3.037 H5 D6D 22 D6D H6 H6 H 0 1 N N N -0.332 3.129 7.857 -0.408 -0.169 1.689 H6 D6D 23 D6D H8 H8 H 0 1 N N N 0.675 1.848 9.853 2.421 1.322 1.796 H8 D6D 24 D6D H9 H9 H 0 1 N N N 0.522 1.174 12.082 3.701 1.490 -0.217 H9 D6D 25 D6D H10 H10 H 0 1 N N N -0.434 2.683 12.270 3.524 -0.291 -0.194 H10 D6D 26 D6D H11 H11 H 0 1 N N N -2.814 -0.086 10.698 0.203 1.413 -1.661 H11 D6D 27 D6D H12 H12 H 0 1 N N N -6.002 2.386 8.292 -2.460 2.448 -1.011 H12 D6D 28 D6D H13 H13 H 0 1 N N N -6.436 0.784 7.604 -0.733 2.094 -0.765 H13 D6D 29 D6D H14 H14 H 0 1 N N N -3.743 0.555 8.480 -1.895 0.208 -1.928 H14 D6D 30 D6D H15 H15 H 0 1 N N N -5.983 -0.996 8.665 -3.733 0.532 0.447 H15 D6D 31 D6D H16 H16 H 0 1 N N N -4.555 -1.245 9.725 -4.106 -0.053 -1.203 H16 D6D 32 D6D H18 H18 H 0 1 N N N -4.546 0.343 11.941 -1.574 -2.354 -1.092 H18 D6D 33 D6D H19 H19 H 0 1 N N N -5.868 1.559 11.897 -1.331 -2.488 0.676 H19 D6D 34 D6D H20 H20 H 0 1 N N N -7.106 0.335 10.317 -3.461 -1.639 1.155 H20 D6D 35 D6D H21 H21 H 0 1 N N N -6.361 -0.987 11.279 -3.834 -2.224 -0.495 H21 D6D 36 D6D H22 H22 H 0 1 N N N -4.087 4.074 9.285 3.102 -2.143 -0.231 H22 D6D 37 # # 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 D6D O3 C10 SING N N 1 D6D C10 C2 SING N N 2 D6D N1 C6 SING N N 3 D6D C2 C1 SING N N 4 D6D C2 N SING N N 5 D6D C5 O2 SING N N 6 D6D C5 C6 SING N N 7 D6D C5 C4 SING N N 8 D6D C1 C SING N N 9 D6D O1 C7 SING N N 10 D6D O1 C9 SING N N 11 D6D C6 C7 SING N N 12 D6D N C4 SING N N 13 D6D N C3 SING N N 14 D6D C7 C8 SING N N 15 D6D C4 C9 SING N N 16 D6D C C3 SING N N 17 D6D C9 O SING N N 18 D6D C8 O SING N N 19 D6D O3 H1 SING N N 20 D6D C4 H2 SING N N 21 D6D C5 H3 SING N N 22 D6D C6 H4 SING N N 23 D6D N1 H5 SING N N 24 D6D N1 H6 SING N N 25 D6D C7 H8 SING N N 26 D6D C8 H9 SING N N 27 D6D C8 H10 SING N N 28 D6D C9 H11 SING N N 29 D6D C10 H12 SING N N 30 D6D C10 H13 SING N N 31 D6D C2 H14 SING N N 32 D6D C1 H15 SING N N 33 D6D C1 H16 SING N N 34 D6D C3 H18 SING N N 35 D6D C3 H19 SING N N 36 D6D C H20 SING N N 37 D6D C H21 SING N N 38 D6D O2 H22 SING N N 39 # # 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 D6D SMILES ACDLabs 12.01 "OCC3CCCN3C1C2OCC(C(C1O)N)O2" D6D InChI InChI 1.03 "InChI=1S/C11H20N2O4/c12-8-7-5-16-11(17-7)9(10(8)15)13-3-1-2-6(13)4-14/h6-11,14-15H,1-5,12H2/t6-,7+,8+,9+,10-,11+/m0/s1" D6D InChIKey InChI 1.03 NMTUCAAUKBQRDV-ZESFFYIMSA-N D6D SMILES_CANONICAL CACTVS 3.385 "N[C@H]1[C@H](O)[C@H]([C@@H]2OC[C@H]1O2)N3CCC[C@H]3CO" D6D SMILES CACTVS 3.385 "N[CH]1[CH](O)[CH]([CH]2OC[CH]1O2)N3CCC[CH]3CO" D6D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C1C[C@H](N(C1)[C@@H]2[C@H]([C@@H]([C@H]3CO[C@@H]2O3)N)O)CO" D6D SMILES "OpenEye OEToolkits" 2.0.6 "C1CC(N(C1)C2C(C(C3COC2O3)N)O)CO" # # 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 D6D "SYSTEMATIC NAME" ACDLabs 12.01 "(1S,2S,3S,4R,5R)-2-amino-4-[(2S)-2-(hydroxymethyl)pyrrolidin-1-yl]-6,8-dioxabicyclo[3.2.1]octan-3-ol (non-preferred name)" D6D "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "(1~{S},2~{S},3~{S},4~{R},5~{R})-2-azanyl-4-[(2~{S})-2-(hydroxymethyl)pyrrolidin-1-yl]-6,8-dioxabicyclo[3.2.1]octan-3-ol" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site D6D "Create component" 2017-10-20 RCSB D6D "Initial release" 2020-04-22 RCSB ##