data_BQO
# 
_chem_comp.id                                    BQO 
_chem_comp.name                                  "[(2~{R},3~{S})-3-azanyl-4-oxidanylidene-butan-2-yl] [(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C13 H20 N3 O10 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2019-03-04 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        409.286 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     BQO 
_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        6J5V 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
_chem_comp.pdbx_pcm                              N 
# 
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 
BQO N1    N1  N 0 1 N N N N N N 109.520 87.934 67.700 3.458  -0.458 0.186  N1    BQO 1  
BQO C1    C1  C 0 1 N N N N N N 105.549 86.850 68.388 -0.472 1.862  -0.580 C1    BQO 2  
BQO O1    O1  O 0 1 N N N N N N 109.133 87.897 71.043 4.273  2.587  -0.163 O1    BQO 3  
BQO N     N2  N 0 1 N N N N N N 102.701 83.762 63.961 -5.246 -2.148 1.699  N     BQO 4  
BQO CA    C2  C 0 1 N N S N N N 102.691 85.197 64.129 -5.505 -1.677 0.332  CA    BQO 5  
BQO C     C3  C 0 1 N N N N N N 102.905 85.859 62.782 -4.574 -2.375 -0.626 C     BQO 6  
BQO O     O2  O 0 1 N N N N N N 103.961 85.637 62.153 -3.776 -3.181 -0.212 O     BQO 7  
BQO CB    C4  C 0 1 N N R N N N 103.773 85.625 65.100 -5.273 -0.167 0.260  CB    BQO 8  
BQO CG2   C5  C 0 1 N N N N N N 103.749 87.143 65.176 -6.128 0.532  1.319  CG2   BQO 9  
BQO "C1'" C6  C 0 1 N N R N N N 109.021 87.174 68.775 2.767  0.783  0.547  "C1'" BQO 10 
BQO C2    C7  C 0 1 N N N N N N 110.854 88.035 67.536 4.423  -0.941 0.989  C2    BQO 11 
BQO "C2'" C8  C 0 1 N N R N N N 108.503 88.135 69.777 3.067  1.895  -0.491 "C2'" BQO 12 
BQO C3    C9  C 0 1 N N R N N N 106.769 86.612 69.193 0.767  1.926  0.315  C3    BQO 13 
BQO "C3'" C10 C 0 1 N N S N N N 107.065 87.885 69.882 1.837  2.823  -0.335 "C3'" BQO 14 
BQO C4    C11 C 0 1 N N N N N N 110.518 89.377 65.679 4.764  -2.756 -0.441 C4    BQO 15 
BQO C5    C12 C 0 1 N N N N N N 109.175 89.278 65.850 3.746  -2.263 -1.292 C5    BQO 16 
BQO C6    C13 C 0 1 N N N N N N 108.685 88.544 66.876 3.110  -1.119 -0.960 C6    BQO 17 
BQO N3    N3  N 0 1 N N N N N N 111.346 88.766 66.510 5.073  -2.079 0.683  N3    BQO 18 
BQO O2    O3  O 0 1 N N N N N N 111.581 87.482 68.288 4.714  -0.340 2.006  O2    BQO 19 
BQO "O3'" O4  O 0 1 N N N N N N 106.660 87.836 71.258 2.149  3.927  0.517  "O3'" BQO 20 
BQO O4    O5  O 0 1 N N N N N N 110.955 90.016 64.784 5.352  -3.786 -0.719 O4    BQO 21 
BQO "O4'" O6  O 0 1 N N N N N N 107.907 86.333 68.312 1.336  0.614  0.456  "O4'" BQO 22 
BQO "O5'" O7  O 0 1 N N N N N N 104.710 85.758 68.586 -1.502 1.125  0.083  "O5'" BQO 23 
BQO OP1   O8  O 0 1 N N N N N N 103.449 85.100 66.343 -3.892 0.115  0.501  OP1   BQO 24 
BQO OP2   O9  O 0 1 N N N N N N 105.997 85.123 66.483 -3.562 2.151  -0.953 OP2   BQO 25 
BQO OP3   O10 O 0 1 N N N N N N 104.819 83.239 67.700 -2.787 -0.067 -1.877 OP3   BQO 26 
BQO P     P1  P 0 1 N N N N N N 104.793 84.815 67.243 -2.949 0.859  -0.570 P     BQO 27 
BQO H1    H1  H 0 1 N N N N N N 105.810 86.937 67.323 -0.824 2.873  -0.786 H1    BQO 28 
BQO H2    H2  H 0 1 N N N N N N 105.052 87.773 68.720 -0.218 1.368  -1.518 H2    BQO 29 
BQO H3    H3  H 0 1 N N N N N N 108.800 88.514 71.684 4.503  3.292  -0.783 H3    BQO 30 
BQO H4    H4  H 0 1 N N N N N N 102.560 83.321 64.847 -5.455 -3.132 1.788  H4    BQO 31 
BQO H5    H5  H 0 1 N N N N N N 101.968 83.495 63.336 -4.295 -1.954 1.974  H5    BQO 32 
BQO H7    H7  H 0 1 N N N N N N 101.716 85.515 64.526 -6.538 -1.899 0.061  H7    BQO 33 
BQO H8    H8  H 0 1 N N N N N N 102.152 86.515 62.371 -4.620 -2.154 -1.682 H8    BQO 34 
BQO H9    H9  H 0 1 N N N N N N 104.756 85.280 64.748 -5.550 0.197  -0.729 H9    BQO 35 
BQO H10   H10 H 0 1 N N N N N N 104.525 87.488 65.875 -5.962 1.608  1.268  H10   BQO 36 
BQO H11   H11 H 0 1 N N N N N N 103.942 87.563 64.178 -7.181 0.317  1.135  H11   BQO 37 
BQO H12   H12 H 0 1 N N N N N N 102.762 87.477 65.530 -5.851 0.168  2.308  H12   BQO 38 
BQO H13   H13 H 0 1 N N N N N N 109.809 86.550 69.221 3.055  1.104  1.548  H13   BQO 39 
BQO H14   H14 H 0 1 N N N N N N 108.687 89.166 69.439 3.118  1.483  -1.499 H14   BQO 40 
BQO H15   H15 H 0 1 N N N N N N 106.614 85.797 69.915 0.496  2.322  1.294  H15   BQO 41 
BQO H16   H16 H 0 1 N N N N N N 106.524 88.696 69.373 1.500  3.175  -1.310 H16   BQO 42 
BQO H17   H17 H 0 1 N N N N N N 108.502 89.782 65.172 3.484  -2.792 -2.196 H17   BQO 43 
BQO H18   H18 H 0 1 N N N N N N 107.618 88.457 67.021 2.330  -0.727 -1.597 H18   BQO 44 
BQO H19   H19 H 0 1 N N N N N N 112.334 88.844 66.380 5.770  -2.411 1.271  H19   BQO 45 
BQO H20   H20 H 0 1 N N N N N N 106.861 88.664 71.677 2.859  4.493  0.183  H20   BQO 46 
BQO H21   H21 H 0 1 N N N N N N 105.615 82.829 67.381 -2.390 -0.931 -1.700 H21   BQO 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 
BQO O     C     DOUB N N 1  
BQO C     CA    SING N N 2  
BQO N     CA    SING N N 3  
BQO CA    CB    SING N N 4  
BQO O4    C4    DOUB N N 5  
BQO CB    CG2   SING N N 6  
BQO CB    OP1   SING N N 7  
BQO C4    C5    SING N N 8  
BQO C4    N3    SING N N 9  
BQO C5    C6    DOUB N N 10 
BQO OP1   P     SING N N 11 
BQO OP2   P     DOUB N N 12 
BQO N3    C2    SING N N 13 
BQO C6    N1    SING N N 14 
BQO P     OP3   SING N N 15 
BQO P     "O5'" SING N N 16 
BQO C2    N1    SING N N 17 
BQO C2    O2    DOUB N N 18 
BQO N1    "C1'" SING N N 19 
BQO "O4'" "C1'" SING N N 20 
BQO "O4'" C3    SING N N 21 
BQO C1    "O5'" SING N N 22 
BQO C1    C3    SING N N 23 
BQO "C1'" "C2'" SING N N 24 
BQO C3    "C3'" SING N N 25 
BQO "C2'" "C3'" SING N N 26 
BQO "C2'" O1    SING N N 27 
BQO "C3'" "O3'" SING N N 28 
BQO C1    H1    SING N N 29 
BQO C1    H2    SING N N 30 
BQO O1    H3    SING N N 31 
BQO N     H4    SING N N 32 
BQO N     H5    SING N N 33 
BQO CA    H7    SING N N 34 
BQO C     H8    SING N N 35 
BQO CB    H9    SING N N 36 
BQO CG2   H10   SING N N 37 
BQO CG2   H11   SING N N 38 
BQO CG2   H12   SING N N 39 
BQO "C1'" H13   SING N N 40 
BQO "C2'" H14   SING N N 41 
BQO C3    H15   SING N N 42 
BQO "C3'" H16   SING N N 43 
BQO C5    H17   SING N N 44 
BQO C6    H18   SING N N 45 
BQO N3    H19   SING N N 46 
BQO "O3'" H20   SING N N 47 
BQO OP3   H21   SING N N 48 
# 
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 
BQO InChI            InChI                1.03  "InChI=1S/C13H20N3O10P/c1-6(7(14)4-17)26-27(22,23)24-5-8-10(19)11(20)12(25-8)16-3-2-9(18)15-13(16)21/h2-4,6-8,10-12,19-20H,5,14H2,1H3,(H,22,23)(H,15,18,21)/t6-,7-,8-,10-,11-,12-/m1/s1" 
BQO InChIKey         InChI                1.03  MTUPUTQZEYXVLI-ZXIMEAKPSA-N                                                                                                                                                              
BQO SMILES_CANONICAL CACTVS               3.385 "C[C@@H](O[P](O)(=O)OC[C@H]1O[C@H]([C@H](O)[C@@H]1O)N2C=CC(=O)NC2=O)[C@H](N)C=O"                                                                                                         
BQO SMILES           CACTVS               3.385 "C[CH](O[P](O)(=O)OC[CH]1O[CH]([CH](O)[CH]1O)N2C=CC(=O)NC2=O)[CH](N)C=O"                                                                                                                 
BQO SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C[C@H]([C@@H](C=O)N)OP(=O)(O)OC[C@@H]1[C@H]([C@H]([C@@H](O1)N2C=CC(=O)NC2=O)O)O"                                                                                                        
BQO SMILES           "OpenEye OEToolkits" 2.0.6 "CC(C(C=O)N)OP(=O)(O)OCC1C(C(C(O1)N2C=CC(=O)NC2=O)O)O"                                                                                                                                   
# 
_pdbx_chem_comp_identifier.comp_id           BQO 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.6 
_pdbx_chem_comp_identifier.identifier        "[(2~{R},3~{S})-3-azanyl-4-oxidanylidene-butan-2-yl] [(2~{R},3~{S},4~{R},5~{R})-5-[2,4-bis(oxidanylidene)pyrimidin-1-yl]-3,4-bis(oxidanyl)oxolan-2-yl]methyl hydrogen phosphate" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
BQO "Create component" 2019-03-04 PDBJ 
BQO "Initial release"  2019-03-20 RCSB 
BQO "Modify PCM"       2024-09-27 PDBE 
# 
