data_AGK # _chem_comp.id AGK _chem_comp.name "(3R,4S,5R)-3-(hydroxymethyl)-1,2-diazinane-4,5-diol" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C5 H12 N2 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms AZA-GALACTO-FAGOMINE _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2015-03-17 _chem_comp.pdbx_modified_date 2020-06-17 _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 148.160 _chem_comp.one_letter_code ? _chem_comp.three_letter_code AGK _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 4UFI _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site EBI # # 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 AGK O2 O2 O 0 1 N N N 78.755 88.051 20.493 0.421 1.336 -1.098 O2 AGK 1 AGK C4 C4 C 0 1 N N S 79.074 89.388 20.156 0.339 0.900 0.261 C4 AGK 2 AGK C3 C3 C 0 1 N N R 77.883 90.273 20.485 1.589 0.090 0.615 C3 AGK 3 AGK O1 O1 O 0 1 N N N 77.533 90.140 21.860 2.755 0.881 0.374 O1 AGK 4 AGK C2 C2 C 0 1 N N N 76.699 89.893 19.615 1.635 -1.168 -0.255 C2 AGK 5 AGK N1 N1 N 0 1 N N N 77.160 90.139 18.226 0.408 -1.949 -0.046 N1 AGK 6 AGK C5 C5 C 0 1 N N R 79.417 89.467 18.672 -0.899 0.017 0.441 C5 AGK 7 AGK C6 C6 C 0 1 N N N 80.338 88.339 18.292 -2.149 0.799 0.033 C6 AGK 8 AGK O O O 0 1 N N N 81.125 88.692 17.175 -3.312 0.017 0.311 O AGK 9 AGK N N N 0 1 N N N 78.195 89.232 17.890 -0.771 -1.178 -0.404 N AGK 10 AGK H2 H2 H 0 1 N N N 79.493 87.488 20.291 1.186 1.896 -1.286 H2 AGK 11 AGK H4 H4 H 0 1 N N N 79.942 89.731 20.738 0.268 1.767 0.918 H4 AGK 12 AGK H3 H3 H 0 1 N N N 78.154 91.317 20.269 1.553 -0.194 1.667 H3 AGK 13 AGK H5 H5 H 0 1 N N N 79.868 90.441 18.430 -0.982 -0.284 1.485 H5 AGK 14 AGK H1 H1 H 0 1 N N N 76.788 90.697 22.053 3.586 0.429 0.577 H1 AGK 15 AGK H21C H21C H 0 0 N N N 76.438 88.834 19.756 1.710 -0.882 -1.304 H21C AGK 16 AGK H22C H22C H 0 0 N N N 75.827 90.520 19.851 2.501 -1.770 0.021 H22C AGK 17 AGK HA HA H 0 1 N N N 76.393 90.015 17.596 0.441 -2.818 -0.558 HA AGK 18 AGK H H H 0 1 N N N 77.876 88.301 18.064 -0.757 -0.929 -1.382 H AGK 19 AGK H61C H61C H 0 0 N N N 80.999 88.111 19.141 -2.194 1.731 0.597 H61C AGK 20 AGK H62C H62C H 0 0 N N N 79.738 87.451 18.045 -2.106 1.021 -1.033 H62C AGK 21 AGK HB HB H 0 1 N N N 81.699 87.969 16.950 -4.143 0.452 0.077 HB AGK 22 # # 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 AGK O2 C4 SING N N 1 AGK C4 C3 SING N N 2 AGK C4 C5 SING N N 3 AGK C3 O1 SING N N 4 AGK C3 C2 SING N N 5 AGK C2 N1 SING N N 6 AGK N1 N SING N N 7 AGK C5 C6 SING N N 8 AGK C5 N SING N N 9 AGK C6 O SING N N 10 AGK O2 H2 SING N N 11 AGK C4 H4 SING N N 12 AGK C3 H3 SING N N 13 AGK C5 H5 SING N N 14 AGK O1 H1 SING N N 15 AGK C2 H21C SING N N 16 AGK C2 H22C SING N N 17 AGK N1 HA SING N N 18 AGK N H SING N N 19 AGK C6 H61C SING N N 20 AGK C6 H62C SING N N 21 AGK O HB 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 AGK InChI InChI 1.03 "InChI=1S/C5H12N2O3/c8-2-3-5(10)4(9)1-6-7-3/h3-10H,1-2H2/t3-,4-,5+/m1/s1" AGK InChIKey InChI 1.03 PPPMSBCQTLJPKM-WDCZJNDASA-N AGK SMILES_CANONICAL CACTVS 3.385 "OC[C@H]1NNC[C@@H](O)[C@H]1O" AGK SMILES CACTVS 3.385 "OC[CH]1NNC[CH](O)[CH]1O" AGK SMILES_CANONICAL "OpenEye OEToolkits" 1.7.6 "C1[C@H]([C@H]([C@H](NN1)CO)O)O" AGK SMILES "OpenEye OEToolkits" 1.7.6 "C1C(C(C(NN1)CO)O)O" # _pdbx_chem_comp_identifier.comp_id AGK _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 1.7.6 _pdbx_chem_comp_identifier.identifier "(3R,4S,5R)-3-(hydroxymethyl)-1,2-diazinane-4,5-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 AGK "Create component" 2015-03-17 EBI AGK "Initial release" 2015-03-25 RCSB AGK "Modify synonyms" 2020-06-05 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id AGK _pdbx_chem_comp_synonyms.name AZA-GALACTO-FAGOMINE _pdbx_chem_comp_synonyms.provenance ? _pdbx_chem_comp_synonyms.type ? ##