data_94O
# 
_chem_comp.id                                    94O 
_chem_comp.name                                  "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-2H-indeno[2',1':5,6]pyrido[2,3-d]pyrimidine-2,6(3H)-dione" 
_chem_comp.type                                  "DNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C19 H16 N3 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               DT 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2017-12-14 
_chem_comp.pdbx_modified_date                    2018-11-16 
_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                        445.319 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     94O 
_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        5YTG 
_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 
94O P     P1  P 0 1 N N N -44.177 14.383 9.457  6.360  -1.757 -0.460 P     94O 1  
94O OP2   O1  O 0 1 N N N -44.428 12.928 9.753  6.575  -2.533 -1.854 OP2   94O 2  
94O OP1   O2  O 0 1 N N N -45.354 15.167 8.957  7.644  -1.167 -0.020 OP1   94O 3  
94O "O5'" O3  O 0 1 N N N -43.531 15.000 10.785 5.272  -0.587 -0.658 "O5'" 94O 4  
94O "C5'" C1  C 0 1 N N N -43.351 16.380 10.770 4.938  0.348  0.369  "C5'" 94O 5  
94O "C4'" C2  C 0 1 N N R -42.532 16.912 11.923 3.876  1.319  -0.150 "C4'" 94O 6  
94O "O4'" O4  O 0 1 N N N -41.493 17.702 11.318 2.614  0.637  -0.324 "O4'" 94O 7  
94O "C1'" C3  C 0 1 N N R -41.509 19.055 11.797 1.615  1.680  -0.321 "C1'" 94O 8  
94O N1    N1  N 0 1 N N N -41.914 19.981 10.723 0.298  1.123  -0.001 N1    94O 9  
94O C2    C4  C 0 1 N N N -41.196 21.205 10.546 0.149  0.391  1.113  C2    94O 10 
94O O2    O5  O 0 1 N N N -40.285 21.551 11.317 1.123  0.212  1.827  O2    94O 11 
94O N3    N2  N 0 1 N N N -41.462 22.049 9.531  -1.010 -0.148 1.475  N3    94O 12 
94O C4    C5  C 0 1 N N N -42.428 21.783 8.634  -2.099 0.023  0.723  C4    94O 13 
94O N23   N3  N 0 1 N N N -42.693 22.666 7.620  -3.274 -0.512 1.063  N23   94O 14 
94O C22   C6  C 0 1 N N N -43.688 22.357 6.742  -4.351 -0.349 0.319  C22   94O 15 
94O C26   C7  C 0 1 Y N N -44.182 23.122 5.560  -5.745 -0.837 0.484  C26   94O 16 
94O C27   C8  C 0 1 Y N N -43.752 24.341 5.032  -6.337 -1.613 1.473  C27   94O 17 
94O C28   C9  C 0 1 Y N N -44.403 24.858 3.903  -7.682 -1.934 1.391  C28   94O 18 
94O C29   C10 C 0 1 Y N N -45.450 24.153 3.278  -8.443 -1.486 0.328  C29   94O 19 
94O C30   C11 C 0 1 Y N N -45.900 22.910 3.764  -7.869 -0.711 -0.665 C30   94O 20 
94O C25   C12 C 0 1 Y N N -45.286 22.385 4.898  -6.519 -0.381 -0.596 C25   94O 21 
94O C24   C13 C 0 1 N N N -45.422 21.149 5.728  -5.655 0.418  -1.499 C24   94O 22 
94O C21   C14 C 0 1 N N N -44.460 21.093 6.870  -4.299 0.431  -0.916 C21   94O 23 
94O C20   C15 C 0 1 N N N -44.212 20.187 7.886  -3.111 1.011  -1.321 C20   94O 24 
94O C5    C16 C 0 1 N N N -43.200 20.504 8.789  -1.977 0.820  -0.507 C5    94O 25 
94O C6    C17 C 0 1 N N N -42.892 19.653 9.846  -0.736 1.362  -0.827 C6    94O 26 
94O O31   O6  O 0 1 N N N -46.276 20.222 5.502  -6.001 0.961  -2.530 O31   94O 27 
94O "C2'" C18 C 0 1 N N N -42.371 19.014 13.011 2.069  2.658  0.784  "C2'" 94O 28 
94O "C3'" C19 C 0 1 N N S -43.343 17.867 12.806 3.590  2.416  0.899  "C3'" 94O 29 
94O "O3'" O7  O 0 1 N N N -43.965 17.295 13.991 4.313  3.608  0.587  "O3'" 94O 30 
94O H1    H1  H 0 1 N N N -45.336 12.719 9.569  7.219  -3.253 -1.808 H1    94O 31 
94O H3    H3  H 0 1 N N N -42.843 16.651 9.833  4.550  -0.187 1.235  H3    94O 32 
94O H4    H4  H 0 1 N N N -44.342 16.857 10.802 5.830  0.905  0.656  H4    94O 33 
94O H5    H5  H 0 1 N N N -42.122 16.087 12.524 4.199  1.767  -1.089 H5    94O 34 
94O H6    H6  H 0 1 N N N -40.491 19.326 12.115 1.590  2.184  -1.287 H6    94O 35 
94O H9    H9  H 0 1 N N N -42.931 24.877 5.486  -5.747 -1.967 2.306  H9    94O 36 
94O H10   H10 H 0 1 N N N -44.096 25.814 3.505  -8.138 -2.537 2.162  H10   94O 37 
94O H11   H11 H 0 1 N N N -45.920 24.577 2.403  -9.491 -1.742 0.272  H11   94O 38 
94O H12   H12 H 0 1 N N N -46.700 22.378 3.270  -8.468 -0.364 -1.494 H12   94O 39 
94O H13   H13 H 0 1 N N N -44.779 19.272 7.975  -3.053 1.590  -2.230 H13   94O 40 
94O H14   H14 H 0 1 N N N -43.435 18.727 9.967  -0.605 1.954  -1.722 H14   94O 41 
94O H17   H17 H 0 1 N N N -41.758 18.838 13.907 1.868  3.688  0.489  H17   94O 42 
94O H18   H18 H 0 1 N N N -42.918 19.962 13.121 1.571  2.428  1.726  H18   94O 43 
94O H19   H19 H 0 1 N N N -44.153 18.257 12.172 3.846  2.064  1.899  H19   94O 44 
94O H20   H20 H 0 1 N Y N -44.438 17.973 14.459 4.170  4.330  1.214  H20   94O 45 
94O OP3   OP3 O 0 1 N Y N -42.998 14.483 8.419  5.836  -2.793 0.656  OP3   94O 46 
94O H2    H2  H 0 1 N N N -43.268 15.020 7.683  4.997  -3.219 0.434  H2    94O 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 
94O C29   C30   DOUB Y N 1  
94O C29   C28   SING Y N 2  
94O C30   C25   SING Y N 3  
94O C28   C27   DOUB Y N 4  
94O C25   C26   DOUB Y N 5  
94O C25   C24   SING N N 6  
94O C27   C26   SING Y N 7  
94O O31   C24   DOUB N N 8  
94O C26   C22   SING N N 9  
94O C24   C21   SING N N 10 
94O C22   C21   SING N N 11 
94O C22   N23   DOUB N N 12 
94O C21   C20   DOUB N N 13 
94O N23   C4    SING N N 14 
94O C20   C5    SING N N 15 
94O C4    C5    SING N N 16 
94O C4    N3    DOUB N N 17 
94O C5    C6    DOUB N N 18 
94O OP1   P     DOUB N N 19 
94O P     OP2   SING N N 20 
94O P     "O5'" SING N N 21 
94O N3    C2    SING N N 22 
94O C6    N1    SING N N 23 
94O C2    N1    SING N N 24 
94O C2    O2    DOUB N N 25 
94O N1    "C1'" SING N N 26 
94O "C5'" "O5'" SING N N 27 
94O "C5'" "C4'" SING N N 28 
94O "O4'" "C1'" SING N N 29 
94O "O4'" "C4'" SING N N 30 
94O "C1'" "C2'" SING N N 31 
94O "C4'" "C3'" SING N N 32 
94O "C3'" "C2'" SING N N 33 
94O "C3'" "O3'" SING N N 34 
94O OP2   H1    SING N N 35 
94O "C5'" H3    SING N N 36 
94O "C5'" H4    SING N N 37 
94O "C4'" H5    SING N N 38 
94O "C1'" H6    SING N N 39 
94O C27   H9    SING N N 40 
94O C28   H10   SING N N 41 
94O C29   H11   SING N N 42 
94O C30   H12   SING N N 43 
94O C20   H13   SING N N 44 
94O C6    H14   SING N N 45 
94O "C2'" H17   SING N N 46 
94O "C2'" H18   SING N N 47 
94O "C3'" H19   SING N N 48 
94O "O3'" H20   SING N N 49 
94O P     OP3   SING N N 50 
94O OP3   H2    SING N N 51 
# 
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 
94O SMILES           ACDLabs              12.01 "P(O)(OCC1C(CC(O1)N5C(=O)N=C2C(C=C4C(=N2)c3ccccc3C4=O)=C5)O)(O)=O"                                                                                                                
94O InChI            InChI                1.03  "InChI=1S/C19H16N3O8P/c23-13-6-15(30-14(13)8-29-31(26,27)28)22-7-9-5-12-16(20-18(9)21-19(22)25)10-3-1-2-4-11(10)17(12)24/h1-5,7,13-15,23H,6,8H2,(H2,26,27,28)/t13-,14+,15+/m0/s1" 
94O InChIKey         InChI                1.03  WDLPMEJMNGIHMS-RRFJBIMHSA-N                                                                                                                                                       
94O SMILES_CANONICAL CACTVS               3.385 "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)N2C=C3C=C4C(=O)c5ccccc5C4=NC3=NC2=O"                                                                                                        
94O SMILES           CACTVS               3.385 "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)N2C=C3C=C4C(=O)c5ccccc5C4=NC3=NC2=O"                                                                                                             
94O SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "c1ccc2c(c1)C3=NC4=NC(=O)N(C=C4C=C3C2=O)[C@H]5C[C@@H]([C@H](O5)COP(=O)(O)O)O"                                                                                                     
94O SMILES           "OpenEye OEToolkits" 2.0.6 "c1ccc2c(c1)C3=NC4=NC(=O)N(C=C4C=C3C2=O)C5CC(C(O5)COP(=O)(O)O)O"                                                                                                                  
# 
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 
94O "SYSTEMATIC NAME" ACDLabs              12.01 "3-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-2H-indeno[2',1':5,6]pyrido[2,3-d]pyrimidine-2,6(3H)-dione"                                                                              
94O "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[(2~{R},3~{S},5~{R})-5-[6,17-bis(oxidanylidene)-5,7,9-triazatetracyclo[8.7.0.0^{3,8}.0^{11,16}]heptadeca-1,3,7,9,11(16),12,14-heptaen-5-yl]-3-oxidanyl-oxolan-2-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 
94O "Create component" 2017-12-14 PDBJ 
94O "Initial release"  2018-11-21 RCSB 
# 
