data_VMF # _chem_comp.id VMF _chem_comp.name "(2~{R},3~{R},4~{S},5~{R})-2,5-bis(hydroxymethyl)pyrrolidine-3,4-diol" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C6 H13 N O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-07-28 _chem_comp.pdbx_modified_date 2024-04-05 _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 163.172 _chem_comp.one_letter_code ? _chem_comp.three_letter_code VMF _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 8K7F _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBJ # 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 VMF CAA C1 C 0 1 N N R N N N -26.786 18.421 -4.269 -1.116 0.207 -0.533 CAA VMF 1 VMF CAB C2 C 0 1 N N S N N N -27.767 19.462 -3.729 -0.655 -1.271 -0.474 CAB VMF 2 VMF CAC C3 C 0 1 N N N N N N -25.421 19.042 -4.478 -2.503 0.358 0.095 CAC VMF 3 VMF CAD C4 C 0 1 N N R N N N -28.781 18.511 -3.112 0.888 -1.120 -0.537 CAD VMF 4 VMF CAE C5 C 0 1 N N R N N N -27.856 17.561 -2.329 1.144 0.172 0.266 CAE VMF 5 VMF CAF C6 C 0 1 N N N N N N -28.505 16.193 -2.123 2.262 0.982 -0.393 CAF VMF 6 VMF NAG N1 N 0 1 N N N N N N -26.676 17.405 -3.200 -0.110 0.948 0.257 NAG VMF 7 VMF OAH O1 O 0 1 N N N N N N -27.126 20.246 -2.716 -1.060 -1.885 0.751 OAH VMF 8 VMF OAI O2 O 0 1 N N N N N N -29.680 19.211 -2.233 1.530 -2.236 0.083 OAI VMF 9 VMF OAJ O3 O 0 1 N N N N N N -24.541 18.032 -5.011 -2.958 1.702 -0.073 OAJ VMF 10 VMF OAK O4 O 0 1 N N N N N N -29.651 16.308 -1.289 2.572 2.116 0.419 OAK VMF 11 VMF H1 H1 H 0 1 N N N N N N -27.163 17.981 -5.204 -1.125 0.561 -1.564 H1 VMF 12 VMF H2 H2 H 0 1 N N N N N N -28.208 20.066 -4.536 -1.028 -1.830 -1.332 H2 VMF 13 VMF H3 H3 H 0 1 N N N N N N -25.028 19.409 -3.518 -3.199 -0.325 -0.392 H3 VMF 14 VMF H4 H4 H 0 1 N N N N N N -25.498 19.880 -5.187 -2.447 0.123 1.158 H4 VMF 15 VMF H5 H5 H 0 1 N N N N N N -29.321 17.959 -3.895 1.223 -1.006 -1.568 H5 VMF 16 VMF H6 H6 H 0 1 N N N N N N -27.581 18.007 -1.361 1.421 -0.077 1.291 H6 VMF 17 VMF H7 H7 H 0 1 N N N N N N -28.806 15.784 -3.099 3.149 0.357 -0.498 H7 VMF 18 VMF H8 H8 H 0 1 N N N N N N -27.779 15.515 -1.650 1.936 1.318 -1.377 H8 VMF 19 VMF H9 H9 H 0 1 N N N N N N -26.663 16.488 -3.599 0.039 1.871 -0.122 H9 VMF 20 VMF H11 H11 H 0 1 N N N N N N -27.737 20.892 -2.381 -0.794 -2.811 0.833 H11 VMF 21 VMF H12 H12 H 0 1 N N N N N N -30.302 18.597 -1.861 1.338 -3.085 -0.339 H12 VMF 22 VMF H13 H13 H 0 1 N N N N N N -23.678 18.404 -5.149 -3.833 1.870 0.303 H13 VMF 23 VMF H14 H14 H 0 1 N N N N N N -30.044 15.451 -1.170 3.274 2.676 0.062 H14 VMF 24 # 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 VMF OAJ CAC SING N N 1 VMF CAC CAA SING N N 2 VMF CAA CAB SING N N 3 VMF CAA NAG SING N N 4 VMF CAB CAD SING N N 5 VMF CAB OAH SING N N 6 VMF NAG CAE SING N N 7 VMF CAD CAE SING N N 8 VMF CAD OAI SING N N 9 VMF CAE CAF SING N N 10 VMF CAF OAK SING N N 11 VMF CAA H1 SING N N 12 VMF CAB H2 SING N N 13 VMF CAC H3 SING N N 14 VMF CAC H4 SING N N 15 VMF CAD H5 SING N N 16 VMF CAE H6 SING N N 17 VMF CAF H7 SING N N 18 VMF CAF H8 SING N N 19 VMF NAG H9 SING N N 20 VMF OAH H11 SING N N 21 VMF OAI H12 SING N N 22 VMF OAJ H13 SING N N 23 VMF OAK H14 SING N N 24 # 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 VMF InChI InChI 1.06 "InChI=1S/C6H13NO4/c8-1-3-5(10)6(11)4(2-9)7-3/h3-11H,1-2H2/t3-,4-,5-,6+/m1/s1" VMF InChIKey InChI 1.06 PFYHYHZGDNWFIF-KAZBKCHUSA-N VMF SMILES_CANONICAL CACTVS 3.385 "OC[C@H]1N[C@H](CO)[C@@H](O)[C@H]1O" VMF SMILES CACTVS 3.385 "OC[CH]1N[CH](CO)[CH](O)[CH]1O" VMF SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C([C@@H]1[C@H]([C@H]([C@H](N1)CO)O)O)O" VMF SMILES "OpenEye OEToolkits" 2.0.7 "C(C1C(C(C(N1)CO)O)O)O" # _pdbx_chem_comp_identifier.comp_id VMF _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~{R},3~{R},4~{S},5~{R})-2,5-bis(hydroxymethyl)pyrrolidine-3,4-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 VMF "Create component" 2023-07-28 PDBJ VMF "Initial release" 2024-04-10 RCSB #