data_3R3
#

_chem_comp.id                                   3R3
_chem_comp.name                                 "[[[(2R,3R,4S,5R)-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]oxy-oxidanyl-phosphoryl]amino]phosphonic acid"
_chem_comp.type                                 D-saccharide
_chem_comp.pdbx_type                            ATOMS
_chem_comp.formula                              "C5 H14 N O13 P3"
_chem_comp.mon_nstd_parent_comp_id              RIB
_chem_comp.pdbx_synonyms                        ?
_chem_comp.pdbx_formal_charge                   0
_chem_comp.pdbx_initial_date                    2014-10-13
_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                       389.085
_chem_comp.one_letter_code                      ?
_chem_comp.three_letter_code                    3R3
_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       4WN3
_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
3R3  O3B  O3B  O  0  1  N  N  N  -7.649  -19.628  -1.520  -4.667  -1.540  -0.986  O3B  3R3   1  
3R3  PB   PB   P  0  1  N  N  N  -8.450  -20.616  -0.623  -3.625  -1.846   0.020  PB   3R3   2  
3R3  O1B  O1B  O  0  1  N  N  N  -9.802  -20.104  -0.448  -4.209  -1.577   1.496  O1B  3R3   3  
3R3  O2B  O2B  O  0  1  N  N  N  -7.712  -21.001   0.610  -3.189  -3.390  -0.111  O2B  3R3   4  
3R3  N3A  N3A  N  0  1  N  N  N  -8.668  -21.988  -1.494  -2.287  -0.860  -0.242  N3A  3R3   5  
3R3  PA   PA   P  0  1  N  N  N  -7.566  -23.110  -2.076  -2.700   0.766  -0.114  PA   3R3   6  
3R3  O1A  O1A  O  0  1  N  N  N  -8.222  -23.861  -3.238  -3.229   1.035   1.242  O1A  3R3   7  
3R3  O2A  O2A  O  0  1  N  N  N  -6.915  -23.884  -0.964  -3.826   1.122  -1.209  O2A  3R3   8  
3R3  O1   O1   O  0  1  N  N  N  -6.338  -22.233  -2.718  -1.396   1.674  -0.371  O1   3R3   9  
3R3  C1   C1   C  0  1  N  N  R  -4.964  -22.641  -2.794  -0.305   1.747   0.550  C1   3R3  10  
3R3  O4   O4   O  0  1  N  N  N  -4.889  -23.576  -3.866   0.680   0.762   0.216  O4   3R3  11  
3R3  C4   C4   C  0  1  N  N  R  -4.668  -22.832  -5.086   1.919   1.403  -0.125  C4   3R3  12  
3R3  C3   C3   C  0  1  N  N  S  -4.293  -21.387  -4.730   1.875   2.776   0.591  C3   3R3  13  
3R3  O3   O3   O  0  1  N  N  N  -5.429  -20.588  -5.181   2.694   3.735  -0.081  O3   3R3  14  
3R3  C2   C2   C  0  1  N  N  R  -4.135  -21.418  -3.206   0.368   3.133   0.455  C2   3R3  15  
3R3  O2   O2   O  0  1  N  N  N  -4.688  -20.247  -2.583   0.102   3.741  -0.811  O2   3R3  16  
3R3  C5   C5   C  0  1  N  N  N  -3.703  -23.537  -5.994   3.103   0.577   0.382  C5   3R3  17  
3R3  O5   O5   O  0  1  N  N  N  -4.543  -24.523  -6.637   3.196  -0.634  -0.370  O5   3R3  18  
3R3  P    P    P  0  1  N  N  N  -3.765  -25.759  -7.279   4.330  -1.746  -0.105  P    3R3  19  
3R3  O1P  O1P  O  0  1  N  N  N  -2.984  -26.403  -6.130   4.127  -2.381   1.360  O1P  3R3  20  
3R3  O2P  O2P  O  0  1  N  N  N  -4.714  -26.800  -7.832   4.213  -2.906  -1.215  O2P  3R3  21  
3R3  O3P  O3P  O  0  1  N  N  N  -2.818  -25.014  -8.261   5.667  -1.116  -0.189  O3P  3R3  22  
3R3  H1A  H1   H  0  1  N  N  N  -9.894  -19.284  -0.919  -3.579  -1.756   2.207  H1A  3R3  23  
3R3  H2A  H2   H  0  1  N  N  N  -6.869  -20.564   0.624  -3.912  -4.016   0.028  H2A  3R3  24  
3R3  H3A  H3   H  0  1  N  N  N  -9.148  -21.677  -2.314  -1.863  -1.056  -1.137  H3A  3R3  25  
3R3  H4A  H4   H  0  1  N  N  N  -6.998  -24.815  -1.134  -3.547   0.969  -2.123  H4A  3R3  26  
3R3  H1   H5   H  0  1  N  N  N  -4.599  -23.059  -1.844  -0.666   1.580   1.565  H1   3R3  27  
3R3  H4   H6   H  0  1  N  N  N  -5.628  -22.781  -5.620   1.988   1.541  -1.204  H4   3R3  28  
3R3  H3   H7   H  0  1  N  N  N  -3.354  -21.089  -5.220   2.162   2.682   1.639  H3   3R3  29  
3R3  HO3  H8   H  0  1  N  Y  N  -5.267  -19.671  -4.992   2.697   4.609   0.332  HO3  3R3  30  
3R3  H2   H9   H  0  1  N  N  N  -3.079  -21.564  -2.934   0.047   3.779   1.272  H2   3R3  31  
3R3  HO2  H10  H  0  1  N  Y  N  -4.571  -20.303  -1.642  -0.825   3.982  -0.944  HO2  3R3  32  
3R3  H51  H11  H  0  1  N  N  N  -2.895  -24.016  -5.421   4.023   1.150   0.264  H51  3R3  33  
3R3  H52  H12  H  0  1  N  N  N  -3.270  -22.843  -6.729   2.955   0.340   1.436  H52  3R3  34  
3R3  H13  H13  H  0  1  N  N  N  -2.057  -26.223  -6.236   3.270  -2.812   1.487  H13  3R3  35  
3R3  H14  H14  H  0  1  N  N  N  -4.599  -26.866  -8.773   4.867  -3.612  -1.117  H14  3R3  36  
#   #
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
3R3  O3P  P    DOUB  N  N   1  
3R3  O2P  P    SING  N  N   2  
3R3  P    O5   SING  N  N   3  
3R3  P    O1P  SING  N  N   4  
3R3  O5   C5   SING  N  N   5  
3R3  C5   C4   SING  N  N   6  
3R3  O3   C3   SING  N  N   7  
3R3  C4   C3   SING  N  N   8  
3R3  C4   O4   SING  N  N   9  
3R3  C3   C2   SING  N  N  10  
3R3  O4   C1   SING  N  N  11  
3R3  O1A  PA   DOUB  N  N  12  
3R3  C2   C1   SING  N  N  13  
3R3  C2   O2   SING  N  N  14  
3R3  C1   O1   SING  N  N  15  
3R3  O1   PA   SING  N  N  16  
3R3  PA   N3A  SING  N  N  17  
3R3  PA   O2A  SING  N  N  18  
3R3  O3B  PB   DOUB  N  N  19  
3R3  N3A  PB   SING  N  N  20  
3R3  PB   O1B  SING  N  N  21  
3R3  PB   O2B  SING  N  N  22  
3R3  O1B  H1A  SING  N  N  23  
3R3  O2B  H2A  SING  N  N  24  
3R3  N3A  H3A  SING  N  N  25  
3R3  O2A  H4A  SING  N  N  26  
3R3  C1   H1   SING  N  N  27  
3R3  C4   H4   SING  N  N  28  
3R3  C3   H3   SING  N  N  29  
3R3  O3   HO3  SING  N  N  30  
3R3  C2   H2   SING  N  N  31  
3R3  O2   HO2  SING  N  N  32  
3R3  C5   H51  SING  N  N  33  
3R3  C5   H52  SING  N  N  34  
3R3  O1P  H13  SING  N  N  35  
3R3  O2P  H14  SING  N  N  36  
#   #
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
3R3  InChI             InChI                 1.03   "InChI=1S/C5H14NO13P3/c7-3-2(1-17-22(14,15)16)18-5(4(3)8)19-21(12,13)6-20(9,10)11/h2-5,7-8H,1H2,(H2,14,15,16)(H4,6,9,10,11,12,13)/t2-,3-,4-,5-/m1/s1"  
3R3  InChIKey          InChI                 1.03   FCRMTSGXHCKCEX-TXICZTDVSA-N  
3R3  SMILES_CANONICAL  CACTVS                3.385  "O[C@H]1[C@@H](O)[C@H](O[C@@H]1CO[P](O)(O)=O)O[P](O)(=O)N[P](O)(O)=O"  
3R3  SMILES            CACTVS                3.385  "O[CH]1[CH](O)[CH](O[CH]1CO[P](O)(O)=O)O[P](O)(=O)N[P](O)(O)=O"  
3R3  SMILES_CANONICAL  "OpenEye OEToolkits"  1.9.2  "C([C@@H]1[C@H]([C@H]([C@H](O1)OP(=O)(NP(=O)(O)O)O)O)O)OP(=O)(O)O"  
3R3  SMILES            "OpenEye OEToolkits"  1.9.2  "C(C1C(C(C(O1)OP(=O)(NP(=O)(O)O)O)O)O)OP(=O)(O)O"  
#
_pdbx_chem_comp_identifier.comp_id          3R3
_pdbx_chem_comp_identifier.type             "SYSTEMATIC NAME"
_pdbx_chem_comp_identifier.program          "OpenEye OEToolkits"
_pdbx_chem_comp_identifier.program_version  1.9.2
_pdbx_chem_comp_identifier.identifier       "[[[(2R,3R,4S,5R)-3,4-bis(oxidanyl)-5-(phosphonooxymethyl)oxolan-2-yl]oxy-oxidanyl-phosphoryl]amino]phosphonic acid"
#
_pdbx_chem_comp_related.comp_id            3R3
_pdbx_chem_comp_related.related_comp_id    RIB
_pdbx_chem_comp_related.relationship_type  "Carbohydrate core"
_pdbx_chem_comp_related.details            ?
#   #
loop_
_pdbx_chem_comp_atom_related.ordinal
_pdbx_chem_comp_atom_related.comp_id
_pdbx_chem_comp_atom_related.atom_id
_pdbx_chem_comp_atom_related.related_comp_id
_pdbx_chem_comp_atom_related.related_atom_id
_pdbx_chem_comp_atom_related.related_type
 1  3R3  C1   RIB  C1   "Carbohydrate core"  
 2  3R3  C2   RIB  C2   "Carbohydrate core"  
 3  3R3  C3   RIB  C3   "Carbohydrate core"  
 4  3R3  C4   RIB  C4   "Carbohydrate core"  
 5  3R3  C5   RIB  C5   "Carbohydrate core"  
 6  3R3  O1   RIB  O1   "Carbohydrate core"  
 7  3R3  O2   RIB  O2   "Carbohydrate core"  
 8  3R3  O3   RIB  O3   "Carbohydrate core"  
 9  3R3  O4   RIB  O4   "Carbohydrate core"  
10  3R3  O5   RIB  O5   "Carbohydrate core"  
11  3R3  HO2  RIB  HO2  "Carbohydrate core"  
12  3R3  H51  RIB  H51  "Carbohydrate core"  
13  3R3  H52  RIB  H52  "Carbohydrate core"  
14  3R3  H1   RIB  H1   "Carbohydrate core"  
15  3R3  H4   RIB  H4   "Carbohydrate core"  
16  3R3  H3   RIB  H3   "Carbohydrate core"  
17  3R3  HO3  RIB  HO3  "Carbohydrate core"  
18  3R3  H2   RIB  H2   "Carbohydrate core"  
#   #
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
3R3  "CARBOHYDRATE ISOMER"                  D         PDB  ?  
3R3  "CARBOHYDRATE RING"                    furanose  PDB  ?  
3R3  "CARBOHYDRATE ANOMER"                  alpha     PDB  ?  
3R3  "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
3R3  "Create component"          2014-10-13  EBI   
3R3  "Initial release"           2015-12-23  RCSB  
3R3  "Other modification"        2020-07-03  RCSB  
3R3  "Modify parent residue"     2020-07-17  RCSB  
3R3  "Modify internal type"      2020-07-17  RCSB  
3R3  "Modify linking type"       2020-07-17  RCSB  
3R3  "Modify atom id"            2020-07-17  RCSB  
3R3  "Modify component atom id"  2020-07-17  RCSB  
3R3  "Modify leaving atom flag"  2020-07-17  RCSB  
##
