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 
# 
