data_OIQ
# 
_chem_comp.id                                    OIQ 
_chem_comp.name                                  
;[(1R,3R,4R,7S)-5-[(E)-N,N'-dimethylcarbamimidoyl]-3-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-7-oxidanyl-2-oxa-5-azabicyclo[2.2.1]heptan-1-yl]methyl dihydrogen phosphate
;
_chem_comp.type                                  "DNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C14 H22 N5 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-02-02 
_chem_comp.pdbx_modified_date                    2023-08-04 
_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                        419.327 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     OIQ 
_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        8I50 
_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.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 
OIQ N1    N1  N 0 1 N N N 14.592 7.696  25.819 -2.307 0.718  0.447  N1    OIQ 1  
OIQ C4    C1  C 0 1 N N N 12.755 7.226  27.830 -4.395 2.426  0.118  C4    OIQ 2  
OIQ C5    C2  C 0 1 N N N 14.111 6.649  27.912 -3.073 2.861  -0.142 C5    OIQ 3  
OIQ C6    C3  C 0 1 N N N 14.970 6.924  26.862 -2.051 1.995  0.027  C6    OIQ 4  
OIQ C2    C4  C 0 1 N N N 13.299 8.228  25.766 -3.568 0.317  0.691  C2    OIQ 5  
OIQ CD    C5  C 0 1 N N N 17.119 10.435 22.733 -0.362 -3.553 0.006  CD    OIQ 6  
OIQ "C1'" C6  C 0 1 N N R 15.502 7.943  24.685 -1.199 -0.224 0.625  "C1'" OIQ 7  
OIQ "C2'" C7  C 0 1 N N R 16.272 9.253  24.762 -1.087 -1.167 -0.613 "C2'" OIQ 8  
OIQ "C3'" C8  C 0 1 N N S 17.347 8.857  25.716 -0.172 -0.269 -1.523 "C3'" OIQ 9  
OIQ "C4'" C9  C 0 1 N N R 17.744 7.659  24.868 0.891  -0.030 -0.392 "C4'" OIQ 10 
OIQ "C5'" C10 C 0 1 N N N 18.812 6.777  25.483 2.113  0.808  -0.773 "C5'" OIQ 11 
OIQ C5M   C11 C 0 1 N N N 14.535 5.800  29.083 -2.810 4.271  -0.603 C5M   OIQ 12 
OIQ "C6'" C12 C 0 1 N N N 18.028 8.243  23.497 1.172  -1.509 0.020  "C6'" OIQ 13 
OIQ "C7'" C13 C 0 1 N N N 18.457 11.924 21.340 -1.825 -5.453 -0.024 "C7'" OIQ 14 
OIQ "C8'" C14 C 0 1 N N N 14.694 10.638 22.234 1.954  -3.834 0.786  "C8'" OIQ 15 
OIQ "N2'" N2  N 0 1 N N N 17.108 9.373  23.551 -0.114 -2.213 -0.177 "N2'" OIQ 16 
OIQ N3    N3  N 0 1 N N N 12.437 7.961  26.757 -4.606 1.159  0.530  N3    OIQ 17 
OIQ "N3'" N4  N 0 1 N N N 18.224 10.801 22.234 -1.522 -4.051 -0.319 "N3'" OIQ 18 
OIQ "N4'" N5  N 0 1 N N N 16.034 11.155 22.447 0.613  -4.367 0.531  "N4'" OIQ 19 
OIQ O2    O1  O 0 1 N N N 12.972 8.950  24.796 -3.774 -0.822 1.063  O2    OIQ 20 
OIQ "O3'" O2  O 0 1 N N N 18.340 9.877  25.779 0.366  -0.988 -2.635 "O3'" OIQ 21 
OIQ O4    O3  O 0 1 N N N 11.909 7.017  28.732 -5.332 3.189  -0.028 O4    OIQ 22 
OIQ "O4'" O4  O 0 1 N N N 16.517 6.949  24.732 0.054  0.485  0.681  "O4'" OIQ 23 
OIQ "O5'" O5  O 0 1 N N N 18.338 6.515  26.797 3.032  0.834  0.320  "O5'" OIQ 24 
OIQ OP1   O6  O 0 1 N N N 20.672 6.121  27.754 4.187  3.042  -0.084 OP1   OIQ 25 
OIQ OP2   O7  O 0 1 N N N 18.611 5.978  29.243 5.146  1.549  1.711  OP2   OIQ 26 
OIQ P     P1  P 0 1 N N N 19.222 5.752  27.888 4.433  1.626  0.269  P     OIQ 27 
OIQ OP3   O8  O 0 1 N Y N 19.059 4.204  27.509 5.389  0.955  -0.839 OP3   OIQ 28 
OIQ H1    H1  H 0 1 N N N 15.968 6.511  26.877 -1.036 2.309  -0.166 H1    OIQ 29 
OIQ H2    H2  H 0 1 N N N 14.948 7.896  23.736 -1.343 -0.809 1.533  H2    OIQ 30 
OIQ H3    H3  H 0 1 N N N 15.679 10.138 25.038 -2.024 -1.513 -1.049 H3    OIQ 31 
OIQ H4    H4  H 0 1 N N N 16.953 8.559  26.699 -0.668 0.651  -1.832 H4    OIQ 32 
OIQ H5    H5  H 0 1 N N N 18.920 5.842  24.914 2.598  0.368  -1.645 H5    OIQ 33 
OIQ H6    H6  H 0 1 N N N 19.779 7.301  25.515 1.798  1.824  -1.008 H6    OIQ 34 
OIQ H7    H7  H 0 1 N N N 13.701 5.713  29.794 -3.754 4.811  -0.680 H7    OIQ 35 
OIQ H8    H8  H 0 1 N N N 14.819 4.799  28.726 -2.162 4.773  0.115  H8    OIQ 36 
OIQ H9    H9  H 0 1 N N N 15.395 6.269  29.583 -2.323 4.250  -1.579 H9    OIQ 37 
OIQ H10   H10 H 0 1 N N N 17.777 7.542  22.687 1.942  -1.940 -0.620 H10   OIQ 38 
OIQ H11   H11 H 0 1 N N N 19.075 8.565  23.392 1.476  -1.559 1.066  H11   OIQ 39 
OIQ H12   H12 H 0 1 N N N 19.526 11.975 21.086 -1.060 -6.091 -0.466 H12   OIQ 40 
OIQ H13   H13 H 0 1 N N N 17.868 11.789 20.421 -1.843 -5.602 1.056  H13   OIQ 41 
OIQ H14   H14 H 0 1 N N N 18.153 12.857 21.837 -2.798 -5.710 -0.442 H14   OIQ 42 
OIQ H15   H15 H 0 1 N N N 14.009 11.471 22.016 1.895  -3.050 1.541  H15   OIQ 43 
OIQ H16   H16 H 0 1 N N N 14.702 9.938  21.385 2.602  -4.635 1.143  H16   OIQ 44 
OIQ H17   H17 H 0 1 N N N 14.356 10.113 23.139 2.362  -3.420 -0.136 H17   OIQ 45 
OIQ H18   H18 H 0 1 N N N 11.510 8.329  26.692 -5.508 0.854  0.710  H18   OIQ 46 
OIQ H19   H19 H 0 1 N N N 16.154 12.145 22.372 0.414  -5.295 0.732  H19   OIQ 47 
OIQ H20   H20 H 0 1 N Y N 19.022 9.619  26.388 -0.304 -1.338 -3.239 H20   OIQ 48 
OIQ H21   H21 H 0 1 N N N 19.266 6.335  29.831 5.997  2.006  1.754  H21   OIQ 49 
OIQ H22   H22 H 0 1 N N N 19.907 3.843  27.280 5.593  0.025  -0.671 H22   OIQ 50 
# 
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 
OIQ "C7'" "N3'" SING N N 1  
OIQ "N3'" CD    DOUB N N 2  
OIQ "C8'" "N4'" SING N N 3  
OIQ "N4'" CD    SING N N 4  
OIQ CD    "N2'" SING N N 5  
OIQ "C6'" "N2'" SING N N 6  
OIQ "C6'" "C4'" SING N N 7  
OIQ "N2'" "C2'" SING N N 8  
OIQ "C1'" "O4'" SING N N 9  
OIQ "C1'" "C2'" SING N N 10 
OIQ "C1'" N1    SING N N 11 
OIQ "O4'" "C4'" SING N N 12 
OIQ "C2'" "C3'" SING N N 13 
OIQ O2    C2    DOUB N N 14 
OIQ "C4'" "C5'" SING N N 15 
OIQ "C4'" "C3'" SING N N 16 
OIQ "C5'" "O5'" SING N N 17 
OIQ "C3'" "O3'" SING N N 18 
OIQ C2    N1    SING N N 19 
OIQ C2    N3    SING N N 20 
OIQ N1    C6    SING N N 21 
OIQ N3    C4    SING N N 22 
OIQ "O5'" P     SING N N 23 
OIQ C6    C5    DOUB N N 24 
OIQ OP1   P     DOUB N N 25 
OIQ C4    C5    SING N N 26 
OIQ C4    O4    DOUB N N 27 
OIQ P     OP2   SING N N 28 
OIQ C5    C5M   SING N N 29 
OIQ P     OP3   SING N N 30 
OIQ C6    H1    SING N N 31 
OIQ "C1'" H2    SING N N 32 
OIQ "C2'" H3    SING N N 33 
OIQ "C3'" H4    SING N N 34 
OIQ "C5'" H5    SING N N 35 
OIQ "C5'" H6    SING N N 36 
OIQ C5M   H7    SING N N 37 
OIQ C5M   H8    SING N N 38 
OIQ C5M   H9    SING N N 39 
OIQ "C6'" H10   SING N N 40 
OIQ "C6'" H11   SING N N 41 
OIQ "C7'" H12   SING N N 42 
OIQ "C7'" H13   SING N N 43 
OIQ "C7'" H14   SING N N 44 
OIQ "C8'" H15   SING N N 45 
OIQ "C8'" H16   SING N N 46 
OIQ "C8'" H17   SING N N 47 
OIQ N3    H18   SING N N 48 
OIQ "N4'" H19   SING N N 49 
OIQ "O3'" H20   SING N N 50 
OIQ OP2   H21   SING N N 51 
OIQ OP3   H22   SING N N 52 
# 
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 
OIQ InChI            InChI                1.06  "InChI=1S/C14H22N5O8P/c1-7-4-18(13(22)17-10(7)21)11-8-9(20)14(27-11,6-26-28(23,24)25)5-19(8)12(15-2)16-3/h4,8-9,11,20H,5-6H2,1-3H3,(H,15,16)(H,17,21,22)(H2,23,24,25)/t8-,9+,11-,14-/m1/s1" 
OIQ InChIKey         InChI                1.06  UBEWFRLVLLXNDH-SZRLZVLASA-N                                                                                                                                                                 
OIQ SMILES_CANONICAL CACTVS               3.385 "CNC(=NC)N1C[C@]2(CO[P](O)(O)=O)O[C@H]([C@H]1[C@@H]2O)N3C=C(C)C(=O)NC3=O"                                                                                                                   
OIQ SMILES           CACTVS               3.385 "CNC(=NC)N1C[C]2(CO[P](O)(O)=O)O[CH]([CH]1[CH]2O)N3C=C(C)C(=O)NC3=O"                                                                                                                        
OIQ SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC1=CN(C(=O)NC1=O)[C@H]2[C@H]3[C@@H]([C@@](O2)(CN3/C(=N/C)/NC)COP(=O)(O)O)O"                                                                                                               
OIQ SMILES           "OpenEye OEToolkits" 2.0.7 "CC1=CN(C(=O)NC1=O)C2C3C(C(O2)(CN3C(=NC)NC)COP(=O)(O)O)O"                                                                                                                                   
# 
_pdbx_chem_comp_identifier.comp_id           OIQ 
_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        
;[(1~{R},3~{R},4~{R},7~{S})-5-[(~{E})-~{N},~{N}'-dimethylcarbamimidoyl]-3-[5-methyl-2,4-bis(oxidanylidene)pyrimidin-1-yl]-7-oxidanyl-2-oxa-5-azabicyclo[2.2.1]heptan-1-yl]methyl dihydrogen 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 
OIQ "Create component" 2023-02-02 PDBJ 
OIQ "Initial release"  2023-08-09 RCSB 
# 
