data_VPH
# 
_chem_comp.id                                    VPH 
_chem_comp.name                                  "methyl (2~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxane-2-carboxylate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C8 H14 O6" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-03-24 
_chem_comp.pdbx_modified_date                    2023-09-08 
_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                        206.193 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     VPH 
_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        8OJI 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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 
VPH "C5'" C1  C 0 1 N N R 24.467 40.618 32.579 -1.572 -0.634 0.493  "C5'" VPH 1  
VPH "C4'" C2  C 0 1 N N R 23.774 40.271 31.270 -1.992 0.769  0.047  "C4'" VPH 2  
VPH "C3'" C3  C 0 1 N N R 23.443 38.787 31.259 -0.983 1.790  0.582  "C3'" VPH 3  
VPH "C2'" C4  C 0 1 N N N 22.653 38.417 32.497 0.417  1.417  0.084  "C2'" VPH 4  
VPH "C1'" C5  C 0 1 N N R 23.388 38.869 33.760 0.744  -0.011 0.528  "C1'" VPH 5  
VPH "O5'" O1  O 0 1 N N N 23.621 40.277 33.687 -0.250 -0.905 0.023  "O5'" VPH 6  
VPH "C6'" C6  C 0 1 N N N 24.828 42.074 32.708 -2.541 -1.665 -0.087 "C6'" VPH 7  
VPH "O6'" O2  O 0 1 N N N 25.849 42.223 33.681 -2.218 -2.961 0.421  "O6'" VPH 8  
VPH "O4'" O3  O 0 1 N N N 22.582 41.024 31.155 -2.022 0.828  -1.380 "O4'" VPH 9  
VPH "O3'" O4  O 0 1 N N N 22.693 38.443 30.100 -1.327 3.095  0.110  "O3'" VPH 10 
VPH C7    C7  C 0 1 N N N 22.628 38.506 35.028 2.095  -0.407 -0.008 C7    VPH 11 
VPH O8    O5  O 0 1 N N N 22.205 39.593 35.656 3.198  0.233  0.412  O8    VPH 12 
VPH C9    C8  C 0 1 N N N 20.925 39.478 36.318 4.466  -0.201 -0.147 C9    VPH 13 
VPH O7    O6  O 0 1 N N N 22.440 37.382 35.400 2.187  -1.300 -0.817 O7    VPH 14 
VPH H1    H1  H 0 1 N N N 25.394 40.028 32.639 -1.589 -0.690 1.581  H1    VPH 15 
VPH H2    H2  H 0 1 N N N 24.453 40.494 30.434 -2.983 0.995  0.442  H2    VPH 16 
VPH H3    H3  H 0 1 N N N 24.387 38.223 31.269 -0.997 1.780  1.672  H3    VPH 17 
VPH H4    H4  H 0 1 N N N 21.669 38.906 32.457 0.444  1.475  -1.004 H4    VPH 18 
VPH H5    H5  H 0 1 N N N 22.519 37.326 32.528 1.149  2.106  0.505  H5    VPH 19 
VPH H6    H6  H 0 1 N N N 24.356 38.347 33.788 0.757  -0.059 1.617  H6    VPH 20 
VPH H7    H7  H 0 1 N N N 25.187 42.450 31.739 -3.561 -1.407 0.198  H7    VPH 21 
VPH H8    H8  H 0 1 N N N 23.941 42.646 33.017 -2.459 -1.670 -1.174 H8    VPH 22 
VPH H9    H9  H 0 1 N N N 26.077 43.141 33.763 -2.794 -3.666 0.094  H9    VPH 23 
VPH H10   H10 H 0 1 N N N 22.790 41.951 31.162 -2.281 1.691  -1.733 H10   VPH 24 
VPH H11   H11 H 0 1 N N N 22.497 37.513 30.113 -0.728 3.792  0.411  H11   VPH 25 
VPH H12   H12 H 0 1 N N N 20.675 40.433 36.803 4.448  -0.074 -1.230 H12   VPH 26 
VPH H13   H13 H 0 1 N N N 20.150 39.229 35.578 5.273  0.397  0.275  H13   VPH 27 
VPH H14   H14 H 0 1 N N N 20.975 38.684 37.077 4.628  -1.252 0.093  H14   VPH 28 
# 
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 
VPH "O3'" "C3'" SING N N 1  
VPH "O4'" "C4'" SING N N 2  
VPH "C3'" "C4'" SING N N 3  
VPH "C3'" "C2'" SING N N 4  
VPH "C4'" "C5'" SING N N 5  
VPH "C2'" "C1'" SING N N 6  
VPH "C5'" "C6'" SING N N 7  
VPH "C5'" "O5'" SING N N 8  
VPH "C6'" "O6'" SING N N 9  
VPH "O5'" "C1'" SING N N 10 
VPH "C1'" C7    SING N N 11 
VPH C7    O7    DOUB N N 12 
VPH C7    O8    SING N N 13 
VPH O8    C9    SING N N 14 
VPH "C5'" H1    SING N N 15 
VPH "C4'" H2    SING N N 16 
VPH "C3'" H3    SING N N 17 
VPH "C2'" H4    SING N N 18 
VPH "C2'" H5    SING N N 19 
VPH "C1'" H6    SING N N 20 
VPH "C6'" H7    SING N N 21 
VPH "C6'" H8    SING N N 22 
VPH "O6'" H9    SING N N 23 
VPH "O4'" H10   SING N N 24 
VPH "O3'" H11   SING N N 25 
VPH C9    H12   SING N N 26 
VPH C9    H13   SING N N 27 
VPH C9    H14   SING N N 28 
# 
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 
VPH InChI            InChI                1.06  "InChI=1S/C8H14O6/c1-13-8(12)5-2-4(10)7(11)6(3-9)14-5/h4-7,9-11H,2-3H2,1H3/t4-,5-,6-,7-/m1/s1" 
VPH InChIKey         InChI                1.06  GCROCZNWGKBWPY-DBRKOABJSA-N                                                                    
VPH SMILES_CANONICAL CACTVS               3.385 "COC(=O)[C@H]1C[C@@H](O)[C@@H](O)[C@@H](CO)O1"                                                 
VPH SMILES           CACTVS               3.385 "COC(=O)[CH]1C[CH](O)[CH](O)[CH](CO)O1"                                                        
VPH SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "COC(=O)[C@H]1C[C@H]([C@H]([C@H](O1)CO)O)O"                                                    
VPH SMILES           "OpenEye OEToolkits" 2.0.7 "COC(=O)C1CC(C(C(O1)CO)O)O"                                                                    
# 
_pdbx_chem_comp_identifier.comp_id           VPH 
_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        "methyl (2~{R},4~{R},5~{R},6~{R})-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxane-2-carboxylate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
VPH "Create component" 2023-03-24 PDBE 
VPH "Initial release"  2023-09-13 RCSB 
# 
