data_YG3
# 
_chem_comp.id                                    YG3 
_chem_comp.name                                  "[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl N-[(2R)-2-azanylpropanoyl]sulfamate" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C13 H19 N7 O7 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "5'-O-(N-(D-ALANYL)-SULFAMOYL)ADENOSINE" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-12-02 
_chem_comp.pdbx_modified_date                    2024-05-31 
_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                        417.398 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YG3 
_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        8WWW 
_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_n_terminal_atom_flag 
_chem_comp_atom.pdbx_backbone_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 
YG3 C4  C1  C 0 1 N N N N N N -5.406 -39.107 -23.361 2.054  1.655  0.315  C4  YG3 1  
YG3 C5  C2  C 0 1 N N R N N N -5.756 -38.348 -22.080 0.638  1.994  -0.154 C5  YG3 2  
YG3 C6  C3  C 0 1 N N R N N N -5.888 -38.454 -19.813 -1.504 1.187  -0.329 C6  YG3 3  
YG3 C11 C4  C 0 1 Y N N N N N -4.380 -40.177 -18.700 -3.698 -0.075 -0.343 C11 YG3 4  
YG3 C7  C5  C 0 1 Y N N N N N -5.643 -38.973 -17.447 -1.972 -1.144 0.518  C7  YG3 5  
YG3 C8  C6  C 0 1 Y N N N N N -4.173 -40.529 -17.434 -4.087 -1.355 0.089  C8  YG3 6  
YG3 C9  C7  C 0 1 Y N N N N N -3.305 -41.482 -17.120 -5.430 -1.733 -0.083 C9  YG3 7  
YG3 C10 C8  C 0 1 Y N N N N N -2.792 -41.785 -19.384 -5.853 0.327  -1.034 C10 YG3 8  
YG3 C12 C9  C 0 1 N N R N N N -4.994 -37.276 -20.176 -1.576 2.192  0.842  C12 YG3 9  
YG3 C13 C10 C 0 1 N N S N N N -4.554 -37.592 -21.591 -0.134 2.735  0.960  C13 YG3 10 
YG3 N1  N1  N 0 1 N N N N N N -7.197 -37.410 -29.788 3.563  -4.252 -0.072 N1  YG3 11 
YG3 N2  N2  N 0 1 N N N N N N -6.154 -37.225 -26.758 4.148  -0.678 0.509  N2  YG3 12 
YG3 C3  C11 C 0 1 N N N N N N -7.007 -38.032 -27.410 3.689  -1.825 -0.029 C3  YG3 13 
YG3 N3  N3  N 0 1 Y N N N N N -5.293 -39.211 -18.700 -2.360 0.029  -0.060 N3  YG3 14 
YG3 C1  C12 C 0 1 N N N N N N -8.084 -35.886 -28.068 2.375  -3.036 1.691  C1  YG3 15 
YG3 C2  C13 C 0 1 N N R N N N -7.858 -37.338 -28.480 3.624  -3.077 0.808  C2  YG3 16 
YG3 N4  N4  N 0 1 Y N N N N N -4.952 -39.785 -16.663 -2.987 -1.954 0.604  N4  YG3 17 
YG3 N5  N5  N 0 1 N N N N N N -3.185 -41.750 -15.823 -5.872 -2.980 0.324  N5  YG3 18 
YG3 N6  N6  N 0 1 Y N N N N N -2.601 -42.132 -18.052 -6.265 -0.865 -0.644 N6  YG3 19 
YG3 N7  N7  N 0 1 Y N N N N N -3.709 -40.782 -19.687 -4.605 0.723  -0.898 N7  YG3 20 
YG3 O1  O1  O 0 1 N N N N N N -7.137 -39.235 -27.189 3.328  -1.850 -1.186 O1  YG3 21 
YG3 O2  O2  O 0 1 N N N N N N -4.391 -36.727 -24.953 4.706  1.725  0.442  O2  YG3 22 
YG3 O3  O3  O 0 1 N N N N N N -4.259 -38.917 -26.124 4.852  0.333  -1.629 O3  YG3 23 
YG3 O4  O4  O 0 1 N N N N N N -6.059 -38.490 -24.473 2.788  1.076  -0.766 O4  YG3 24 
YG3 O5  O5  O 0 1 N N N N N N -5.954 -39.262 -21.002 -0.118 0.786  -0.386 O5  YG3 25 
YG3 O6  O6  O 0 1 N N N N N N -5.781 -36.088 -20.164 -2.487 3.250  0.538  O6  YG3 26 
YG3 O7  O7  O 0 1 N N N N N N -4.393 -36.390 -22.355 -0.111 4.146  0.732  O7  YG3 27 
YG3 S1  S1  S 0 1 N N N N N N -5.206 -37.858 -25.569 4.219  0.697  -0.410 S1  YG3 28 
YG3 H1  H1  H 0 1 N N N N N N -5.741 -40.151 -23.272 2.554  2.565  0.647  H1  YG3 29 
YG3 H2  H2  H 0 1 N N N N N N -4.317 -39.083 -23.516 2.003  0.946  1.141  H2  YG3 30 
YG3 H3  H3  H 0 1 N N N N N N -6.617 -37.681 -22.236 0.674  2.601  -1.059 H3  YG3 31 
YG3 H4  H4  H 0 1 N N N N N N -6.887 -38.087 -19.534 -1.800 1.668  -1.261 H4  YG3 32 
YG3 H5  H5  H 0 1 N N N N N N -6.368 -38.242 -17.120 -0.970 -1.367 0.854  H5  YG3 33 
YG3 H6  H6  H 0 1 N N N N N N -2.241 -42.283 -20.168 -6.565 1.002  -1.486 H6  YG3 34 
YG3 H7  H7  H 0 1 N N N N N N -4.130 -37.214 -19.498 -1.872 1.687  1.762  H7  YG3 35 
YG3 H8  H8  H 0 1 N N N N N N -3.652 -38.221 -21.598 0.285  2.498  1.938  H8  YG3 36 
YG3 H9  H9  H 0 1 N N N N N N -7.058 -38.368 -30.040 2.748  -4.217 -0.665 H9  YG3 37 
YG3 H10 H10 H 0 1 N N N N N N -7.770 -36.965 -30.476 4.406  -4.337 -0.619 H10 YG3 38 
YG3 H12 H12 H 0 1 N N N N N N -6.095 -36.254 -26.991 4.436  -0.658 1.435  H12 YG3 39 
YG3 H13 H13 H 0 1 N N N N N N -8.580 -35.856 -27.086 2.328  -3.941 2.296  H13 YG3 40 
YG3 H14 H14 H 0 1 N N N N N N -7.116 -35.368 -28.006 2.420  -2.164 2.344  H14 YG3 41 
YG3 H15 H15 H 0 1 N N N N N N -8.719 -35.388 -28.815 1.487  -2.973 1.062  H15 YG3 42 
YG3 H16 H16 H 0 1 N N N N N N -8.833 -37.844 -28.534 4.512  -3.140 1.437  H16 YG3 43 
YG3 H17 H17 H 0 1 N N N N N N -2.514 -42.480 -15.694 -5.252 -3.604 0.732  H17 YG3 44 
YG3 H18 H18 H 0 1 N N N N N N -2.882 -40.929 -15.340 -6.801 -3.229 0.200  H18 YG3 45 
YG3 H19 H19 H 0 1 N N N N N N -6.053 -35.897 -19.274 -2.571 3.911  1.240  H19 YG3 46 
YG3 H20 H20 H 0 1 N N N N N N -4.403 -36.599 -23.282 -0.581 4.660  1.402  H20 YG3 47 
# 
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 
YG3 N1  C2  SING N N 1  
YG3 C2  C1  SING N N 2  
YG3 C2  C3  SING N N 3  
YG3 C3  O1  DOUB N N 4  
YG3 C3  N2  SING N N 5  
YG3 N2  S1  SING N N 6  
YG3 O3  S1  DOUB N N 7  
YG3 S1  O2  DOUB N N 8  
YG3 S1  O4  SING N N 9  
YG3 O4  C4  SING N N 10 
YG3 C4  C5  SING N N 11 
YG3 O7  C13 SING N N 12 
YG3 C5  C13 SING N N 13 
YG3 C5  O5  SING N N 14 
YG3 C13 C12 SING N N 15 
YG3 O5  C6  SING N N 16 
YG3 C12 O6  SING N N 17 
YG3 C12 C6  SING N N 18 
YG3 C6  N3  SING N N 19 
YG3 N7  C10 DOUB Y N 20 
YG3 N7  C11 SING Y N 21 
YG3 C10 N6  SING Y N 22 
YG3 C11 N3  SING Y N 23 
YG3 C11 C8  DOUB Y N 24 
YG3 N3  C7  SING Y N 25 
YG3 N6  C9  DOUB Y N 26 
YG3 C7  N4  DOUB Y N 27 
YG3 C8  C9  SING Y N 28 
YG3 C8  N4  SING Y N 29 
YG3 C9  N5  SING N N 30 
YG3 C4  H1  SING N N 31 
YG3 C4  H2  SING N N 32 
YG3 C5  H3  SING N N 33 
YG3 C6  H4  SING N N 34 
YG3 C7  H5  SING N N 35 
YG3 C10 H6  SING N N 36 
YG3 C12 H7  SING N N 37 
YG3 C13 H8  SING N N 38 
YG3 N1  H9  SING N N 39 
YG3 N1  H10 SING N N 40 
YG3 N2  H12 SING N N 41 
YG3 C1  H13 SING N N 42 
YG3 C1  H14 SING N N 43 
YG3 C1  H15 SING N N 44 
YG3 C2  H16 SING N N 45 
YG3 N5  H17 SING N N 46 
YG3 N5  H18 SING N N 47 
YG3 O6  H19 SING N N 48 
YG3 O7  H20 SING N N 49 
# 
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 
YG3 InChI            InChI                1.06  "InChI=1S/C13H19N7O7S/c1-5(14)12(23)19-28(24,25)26-2-6-8(21)9(22)13(27-6)20-4-18-7-10(15)16-3-17-11(7)20/h3-6,8-9,13,21-22H,2,14H2,1H3,(H,19,23)(H2,15,16,17)/t5-,6-,8-,9-,13-/m1/s1" 
YG3 InChIKey         InChI                1.06  CWWYMWDIYBJVLP-ZOBJURTISA-N                                                                                                                                                           
YG3 SMILES_CANONICAL CACTVS               3.385 "C[C@@H](N)C(=O)N[S](=O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)n2cnc3c(N)ncnc23"                                                                                                         
YG3 SMILES           CACTVS               3.385 "C[CH](N)C(=O)N[S](=O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)n2cnc3c(N)ncnc23"                                                                                                                
YG3 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@H](C(=O)NS(=O)(=O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)n2cnc3c2ncnc3N)O)O)N"                                                                                                           
YG3 SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C(=O)NS(=O)(=O)OCC1C(C(C(O1)n2cnc3c2ncnc3N)O)O)N"                                                                                                                                 
# 
_pdbx_chem_comp_identifier.comp_id           YG3 
_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~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methyl ~{N}-[(2~{R})-2-azanylpropanoyl]sulfamate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
YG3 "Create component" 2023-12-02 PDBJ 
YG3 "Initial release"  2024-06-05 RCSB 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      YG3 
_pdbx_chem_comp_synonyms.name         "5'-O-(N-(D-ALANYL)-SULFAMOYL)ADENOSINE" 
_pdbx_chem_comp_synonyms.provenance   AUTHOR 
_pdbx_chem_comp_synonyms.type         ? 
# 
