data_GP0
#

_chem_comp.id                                   GP0
_chem_comp.name                                 "5-fluoro-1-[3-C-(hydroxymethyl)-beta-D-glucopyranosyl]pyrimidine-2,4(1H,3H)-dione"
_chem_comp.type                                 D-saccharide
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C11 H15 F N2 O8"
_chem_comp.mon_nstd_parent_comp_id              ?
_chem_comp.pdbx_synonyms                        
;5-fluoro-1-[3-C-(hydroxymethyl)-beta-D-glucosyl]pyrimidine-2,4(1H,3H)-dione;
5-fluoro-1-[3-C-(hydroxymethyl)-D-glucosyl]pyrimidine-2,4(1H,3H)-dione;
5-fluoro-1-[3-C-(hydroxymethyl)-glucosyl]pyrimidine-2,4(1H,3H)-dione
;

_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2011-08-10
_chem_comp.pdbx_modified_date                   2020-07-17
_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                       322.244
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    GP0
_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       3SYM
_chem_comp.pdbx_subcomponent_list               ?
_chem_comp.pdbx_processing_site                 RCSB
#   #
loop_
_pdbx_chem_comp_synonyms.ordinal
_pdbx_chem_comp_synonyms.comp_id
_pdbx_chem_comp_synonyms.name
_pdbx_chem_comp_synonyms.provenance
_pdbx_chem_comp_synonyms.type
1  GP0  "5-fluoro-1-[3-C-(hydroxymethyl)-beta-D-glucosyl]pyrimidine-2,4(1H,3H)-dione"  PDB  ?  
2  GP0  "5-fluoro-1-[3-C-(hydroxymethyl)-D-glucosyl]pyrimidine-2,4(1H,3H)-dione"       PDB  ?  
3  GP0  "5-fluoro-1-[3-C-(hydroxymethyl)-glucosyl]pyrimidine-2,4(1H,3H)-dione"         PDB  ?  
#   #
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
GP0  C1A    C1      C  0  1  N  N  N  35.464  23.659  28.598   2.275  -0.367  -1.119  C1A    GP0   1  
GP0  F1     F1      F  0  1  N  N  N  37.578  24.399  29.264   4.478  -0.658  -1.868  F1     GP0   2  
GP0  N1     N1      N  0  1  N  N  N  34.075  23.573  28.828   1.405   0.010  -0.129  N1     GP0   3  
GP0  C2A    C2      C  0  1  N  N  N  36.262  24.346  29.497   3.606  -0.291  -0.904  C2A    GP0   4  
GP0  C3A    C3      C  0  1  N  N  N  35.695  24.958  30.627   4.076   0.181   0.348  C3A    GP0   5  
GP0  O3A    O3      O  0  1  N  N  N  36.375  25.597  31.427   5.271   0.259   0.566  O3A    GP0   6  
GP0  N4     N4      N  0  1  N  N  N  34.321  24.874  30.857   3.186   0.541   1.295  N4     GP0   7  
GP0  C5A    C5      C  0  1  N  N  N  33.509  24.180  29.963   1.865   0.456   1.054  C5A    GP0   8  
GP0  O5A    O5      O  0  1  N  N  N  32.302  24.105  30.187   1.076   0.785   1.918  O5A    GP0   9  
GP0  C1     "C1'"   C  0  1  N  N  R  33.197  22.860  27.881  -0.039  -0.073  -0.361  C1     GP0  10  
GP0  C2     "C2'"   C  0  1  N  N  R  33.531  23.194  26.396  -0.649  -1.113   0.582  C2     GP0  11  
GP0  O2     "O2'"   O  0  1  N  N  N  33.698  24.601  26.191  -0.096  -2.399   0.297  O2     GP0  12  
GP0  C3     "C3'"   C  0  1  N  N  S  32.455  22.614  25.447  -2.167  -1.151   0.376  C3     GP0  13  
GP0  O3     "O3'"   O  0  1  N  N  N  32.924  22.557  24.109  -2.753  -2.066   1.304  O3     GP0  14  
GP0  C4     "C4'"   C  0  1  N  N  R  32.198  21.138  25.837  -2.737   0.252   0.608  C4     GP0  15  
GP0  O4     "O4'"   O  0  1  N  N  N  31.079  20.652  25.095  -4.142   0.245   0.347  O4     GP0  16  
GP0  C5     "C5'"   C  0  1  N  N  R  32.040  20.899  27.362  -2.047   1.239  -0.336  C5     GP0  17  
GP0  O5     "O5'"   O  0  1  N  N  N  33.173  21.413  28.089  -0.636   1.202  -0.113  O5     GP0  18  
GP0  C6     "C6'"   C  0  1  N  N  N  31.996  19.432  27.746  -2.569   2.652  -0.068  C6     GP0  19  
GP0  O6     "O6'"   O  0  1  N  N  N  33.146  18.747  27.264  -2.012   3.555  -1.026  O6     GP0  20  
GP0  "C7'"  "C7'"   C  0  1  N  N  N  31.186  23.519  25.478  -2.477  -1.601  -1.053  "C7'"  GP0  21  
GP0  H1A    H1      H  0  1  N  N  N  35.902  23.193  27.728   1.898  -0.728  -2.064  H1A    GP0  22  
GP0  HN4    HN4     H  0  1  N  N  N  33.920  25.311  31.662   3.500   0.865   2.154  HN4    GP0  23  
GP0  H1     "H1'"   H  0  1  N  N  N  32.185  23.233  28.096  -0.225  -0.367  -1.394  H1     GP0  24  
GP0  H2     "H2'"   H  0  1  N  N  N  34.493  22.717  26.158  -0.428  -0.842   1.615  H2     GP0  25  
GP0  HO2    "HO2'"  H  0  1  N  Y  N  33.900  24.767  25.278   0.864  -2.447   0.403  HO2    GP0  26  
GP0  HO3    "HO3'"  H  0  1  N  Y  N  32.245  22.198  23.550  -3.714  -2.140   1.229  HO3    GP0  27  
GP0  H4     "H4'"   H  0  1  N  N  N  33.098  20.564  25.573  -2.560   0.550   1.642  H4     GP0  28  
GP0  HO4    "HO4'"  H  0  1  N  Y  N  30.913  19.746  25.328  -4.571   1.102   0.475  HO4    GP0  29  
GP0  H5     "H5'"   H  0  1  N  N  N  31.094  21.402  27.610  -2.259   0.962  -1.369  H5     GP0  30  
GP0  H61    "H6'"   H  0  1  N  N  N  31.963  19.350  28.842  -3.655   2.659  -0.151  H61    GP0  31  
GP0  H62    "H6'A"  H  0  1  N  N  N  31.097  18.974  27.308  -2.278   2.962   0.935  H62    GP0  32  
GP0  HO6    "HO6'"  H  0  1  N  Y  N  33.098  17.832  27.515  -2.300   4.471  -0.916  HO6    GP0  33  
GP0  "H7'"  "H7'"   H  0  1  N  N  N  30.904  23.720  26.522  -2.143  -2.629  -1.191  "H7'"  GP0  34  
GP0  "O7'"  "O7'"   O  0  1  N  N  N  30.109  22.853  24.813  -3.886  -1.524  -1.281  "O7'"  GP0  35  
GP0  H14    H14     H  0  1  N  N  N  31.401  24.469  24.967  -1.959  -0.952  -1.759  H14    GP0  36  
GP0  H15    H15     H  0  1  N  N  N  29.335  23.404  24.832  -4.156  -1.796  -2.169  H15    GP0  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
GP0  C1A    N1     SING  N  N   1  
GP0  C1A    C2A    DOUB  N  N   2  
GP0  C1A    H1A    SING  N  N   3  
GP0  F1     C2A    SING  N  N   4  
GP0  N1     C5A    SING  N  N   5  
GP0  N1     C1     SING  N  N   6  
GP0  C2A    C3A    SING  N  N   7  
GP0  C3A    O3A    DOUB  N  N   8  
GP0  C3A    N4     SING  N  N   9  
GP0  N4     C5A    SING  N  N  10  
GP0  N4     HN4    SING  N  N  11  
GP0  C5A    O5A    DOUB  N  N  12  
GP0  C1     C2     SING  N  N  13  
GP0  C1     O5     SING  N  N  14  
GP0  C1     H1     SING  N  N  15  
GP0  C2     O2     SING  N  N  16  
GP0  C2     C3     SING  N  N  17  
GP0  C2     H2     SING  N  N  18  
GP0  O2     HO2    SING  N  N  19  
GP0  C3     O3     SING  N  N  20  
GP0  C3     C4     SING  N  N  21  
GP0  C3     "C7'"  SING  N  N  22  
GP0  O3     HO3    SING  N  N  23  
GP0  C4     O4     SING  N  N  24  
GP0  C4     C5     SING  N  N  25  
GP0  C4     H4     SING  N  N  26  
GP0  O4     HO4    SING  N  N  27  
GP0  C5     O5     SING  N  N  28  
GP0  C5     C6     SING  N  N  29  
GP0  C5     H5     SING  N  N  30  
GP0  C6     O6     SING  N  N  31  
GP0  C6     H61    SING  N  N  32  
GP0  C6     H62    SING  N  N  33  
GP0  O6     HO6    SING  N  N  34  
GP0  "C7'"  "H7'"  SING  N  N  35  
GP0  "C7'"  "O7'"  SING  N  N  36  
GP0  "C7'"  H14    SING  N  N  37  
GP0  "O7'"  H15    SING  N  N  38  
#   #
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
GP0  SMILES            ACDLabs               12.01  "FC1=CN(C(=O)NC1=O)C2OC(C(O)C(O)(C2O)CO)CO"  
GP0  InChI             InChI                 1.03   "InChI=1S/C11H15FN2O8/c12-4-1-14(10(20)13-8(4)19)9-7(18)11(21,3-16)6(17)5(2-15)22-9/h1,5-7,9,15-18,21H,2-3H2,(H,13,19,20)/t5-,6-,7+,9-,11+/m1/s1"  
GP0  InChIKey          InChI                 1.03   ASRLDHHNHXDEKP-RZBPYSQRSA-N  
GP0  SMILES_CANONICAL  CACTVS                3.370  "OC[C@H]1O[C@H]([C@H](O)[C@](O)(CO)[C@@H]1O)N2C=C(F)C(=O)NC2=O"  
GP0  SMILES            CACTVS                3.370  "OC[CH]1O[CH]([CH](O)[C](O)(CO)[CH]1O)N2C=C(F)C(=O)NC2=O"  
GP0  SMILES_CANONICAL  "OpenEye OEToolkits"  1.7.2  "C1=C(C(=O)NC(=O)N1[C@H]2[C@@H]([C@@]([C@@H]([C@H](O2)CO)O)(CO)O)O)F"  
GP0  SMILES            "OpenEye OEToolkits"  1.7.2  "C1=C(C(=O)NC(=O)N1C2C(C(C(C(O2)CO)O)(CO)O)O)F"  
#   #
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
GP0  "SYSTEMATIC NAME"  ACDLabs               12.01  "5-fluoro-1-[3-C-(hydroxymethyl)-beta-D-glucopyranosyl]pyrimidine-2,4(1H,3H)-dione"  
GP0  "SYSTEMATIC NAME"  "OpenEye OEToolkits"  1.7.2  "1-[(2R,3R,4S,5R,6R)-4,6-bis(hydroxymethyl)-3,4,5-tris(oxidanyl)oxan-2-yl]-5-fluoranyl-pyrimidine-2,4-dione"  
#   #
loop_
_pdbx_chem_comp_feature.comp_id
_pdbx_chem_comp_feature.type
_pdbx_chem_comp_feature.value
_pdbx_chem_comp_feature.source
_pdbx_chem_comp_feature.support
GP0  "CARBOHYDRATE ISOMER"                  D         PDB  ?  
GP0  "CARBOHYDRATE RING"                    pyranose  PDB  ?  
GP0  "CARBOHYDRATE ANOMER"                  beta      PDB  ?  
GP0  "CARBOHYDRATE PRIMARY CARBONYL GROUP"  aldose    PDB  ?  
#   #
loop_
_pdbx_chem_comp_audit.comp_id
_pdbx_chem_comp_audit.action_type
_pdbx_chem_comp_audit.date
_pdbx_chem_comp_audit.processing_site
GP0  "Create component"          2011-08-10  RCSB  
GP0  "Other modification"        2020-07-03  RCSB  
GP0  "Modify synonyms"           2020-07-17  RCSB  
GP0  "Modify internal type"      2020-07-17  RCSB  
GP0  "Modify linking type"       2020-07-17  RCSB  
GP0  "Modify atom id"            2020-07-17  RCSB  
GP0  "Modify component atom id"  2020-07-17  RCSB  
GP0  "Modify leaving atom flag"  2020-07-17  RCSB  
##
