data_CJ1
# 
_chem_comp.id                                    CJ1 
_chem_comp.name                                  "7-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-7H-pyrrolo[2,3-d]pyrimidine-2,4-diol" 
_chem_comp.type                                  "DNA linking" 
_chem_comp.pdbx_type                             ATOMN 
_chem_comp.formula                               "C11 H14 N3 O8 P" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2017-09-22 
_chem_comp.pdbx_modified_date                    2018-09-14 
_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                        347.218 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     CJ1 
_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        6B1Q 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
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 
CJ1 C2     C1  C 0 1 Y N N 20.609 4.638 -11.728 4.945  0.703  0.918  C2     CJ1 1  
CJ1 C4     C2  C 0 1 Y N N 21.224 5.327 -9.721  2.928  -0.062 0.108  C4     CJ1 2  
CJ1 C5     C3  C 0 1 Y N N 21.928 6.425 -10.169 3.587  -1.202 -0.389 C5     CJ1 3  
CJ1 C6     C4  C 0 1 Y N N 21.979 6.664 -11.576 4.967  -1.330 -0.179 C6     CJ1 4  
CJ1 C7     C5  C 0 1 Y N N 22.476 7.114 -9.087  2.559  -2.019 -1.034 C7     CJ1 5  
CJ1 P      P1  P 0 1 N N N 18.840 7.706 -4.384  -5.068 -0.817 0.347  P      CJ1 6  
CJ1 OP1    O1  O 0 1 N N N 17.842 7.549 -3.296  -5.025 -1.710 -0.832 OP1    CJ1 7  
CJ1 "O5'"  O2  O 0 1 N N N 19.260 6.250 -4.843  -3.642 -0.089 0.521  "O5'"  CJ1 8  
CJ1 "C5'"  C6  C 0 1 N N N 18.225 5.353 -5.286  -3.025 0.671  -0.520 "C5'"  CJ1 9  
CJ1 "C4'"  C7  C 0 1 N N R 18.817 4.233 -6.101  -1.686 1.222  -0.024 "C4'"  CJ1 10 
CJ1 "C3'"  C8  C 0 1 N N S 19.974 3.472 -5.450  -1.059 2.149  -1.088 "C3'"  CJ1 11 
CJ1 "O3'"  O3  O 0 1 N N N 19.828 2.133 -5.923  -1.328 3.519  -0.779 "O3'"  CJ1 12 
CJ1 "C2'"  C9  C 0 1 N N N 21.207 4.121 -6.069  0.455  1.858  -0.994 "C2'"  CJ1 13 
CJ1 "C1'"  C10 C 0 1 N N R 20.708 4.327 -7.488  0.564  0.788  0.115  "C1'"  CJ1 14 
CJ1 "O4'"  O4  O 0 1 N N N 19.344 4.725 -7.355  -0.732 0.150  0.141  "O4'"  CJ1 15 
CJ1 N9     N1  N 0 1 Y N N 21.336 5.333 -8.349  1.606  -0.187 -0.216 N9     CJ1 16 
CJ1 C8     C11 C 0 1 Y N N 22.100 6.434 -8.034  1.398  -1.359 -0.898 C8     CJ1 17 
CJ1 N3     N2  N 0 1 Y N N 20.546 4.400 -10.431 3.645  0.858  0.751  N3     CJ1 18 
CJ1 O2     O5  O 0 1 N N N 19.994 3.825 -12.597 5.637  1.663  1.579  O2     CJ1 19 
CJ1 N1     N3  N 0 1 Y N N 21.275 5.698 -12.282 5.600  -0.359 0.469  N1     CJ1 20 
CJ1 O6     O6  O 0 1 N N N 22.536 7.573 -12.212 5.641  -2.410 -0.639 O6     CJ1 21 
CJ1 OP2    O7  O 0 1 N N N 20.078 8.504 -4.152  -6.215 0.293  0.139  OP2    CJ1 22 
CJ1 H1     H1  H 0 1 N N N 23.078 8.011 -9.113  2.706  -2.969 -1.527 H1     CJ1 23 
CJ1 H3     H3  H 0 1 N N N 17.503 5.908 -5.903  -2.856 0.031  -1.386 H3     CJ1 24 
CJ1 H4     H4  H 0 1 N N N 17.711 4.931 -4.410  -3.676 1.498  -0.801 H4     CJ1 25 
CJ1 H5     H5  H 0 1 N N N 18.017 3.508 -6.313  -1.822 1.759  0.915  H5     CJ1 26 
CJ1 H6     H6  H 0 1 N N N 19.963 3.560 -4.354  -1.435 1.901  -2.080 H6     CJ1 27 
CJ1 H7     H7  H 0 1 N N N 20.518 1.591 -5.559  -0.956 4.145  -1.416 H7     CJ1 28 
CJ1 H8     H8  H 0 1 N N N 22.081 3.453 -6.036  0.828  1.465  -1.940 H8     CJ1 29 
CJ1 H9     H9  H 0 1 N N N 21.456 5.075 -5.581  1.001  2.758  -0.714 H9     CJ1 30 
CJ1 H10    H10 H 0 1 N N N 20.748 3.355 -8.002  0.775  1.258  1.076  H10    CJ1 31 
CJ1 H11    H11 H 0 1 N N N 22.362 6.708 -7.023  0.443  -1.700 -1.270 H11    CJ1 32 
CJ1 H14    H14 H 0 1 N N N 20.076 8.842 -3.264  -6.300 0.914  0.875  H14    CJ1 33 
CJ1 OP3    O8  O 0 1 N Y N 18.107 8.296 -5.662  -5.392 -1.683 1.665  OP3    CJ1 34 
CJ1 "HO3'" H2  H 0 0 N Y N 17.186 8.426 -5.468  -6.238 -2.151 1.630  "HO3'" CJ1 35 
CJ1 H2     H13 H 0 1 N N N 20.135 4.141 -13.482 5.689  1.523  2.534  H2     CJ1 36 
CJ1 H12    H12 H 0 1 N N N 22.380 7.452 -13.141 5.991  -2.304 -1.534 H12    CJ1 37 
# 
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 
CJ1 O2    C2     SING N N 1  
CJ1 N1    C2     SING Y N 2  
CJ1 N1    C6     DOUB Y N 3  
CJ1 O6    C6     SING N N 4  
CJ1 C2    N3     DOUB Y N 5  
CJ1 C6    C5     SING Y N 6  
CJ1 N3    C4     SING Y N 7  
CJ1 C5    C4     DOUB Y N 8  
CJ1 C5    C7     SING Y N 9  
CJ1 C4    N9     SING Y N 10 
CJ1 C7    C8     DOUB Y N 11 
CJ1 N9    C8     SING Y N 12 
CJ1 N9    "C1'"  SING N N 13 
CJ1 "C1'" "O4'"  SING N N 14 
CJ1 "C1'" "C2'"  SING N N 15 
CJ1 "O4'" "C4'"  SING N N 16 
CJ1 "C4'" "C3'"  SING N N 17 
CJ1 "C4'" "C5'"  SING N N 18 
CJ1 "C2'" "C3'"  SING N N 19 
CJ1 "O3'" "C3'"  SING N N 20 
CJ1 "C5'" "O5'"  SING N N 21 
CJ1 "O5'" P      SING N N 22 
CJ1 P     OP2    SING N N 23 
CJ1 P     OP1    DOUB N N 24 
CJ1 C7    H1     SING N N 25 
CJ1 "C5'" H3     SING N N 26 
CJ1 "C5'" H4     SING N N 27 
CJ1 "C4'" H5     SING N N 28 
CJ1 "C3'" H6     SING N N 29 
CJ1 "O3'" H7     SING N N 30 
CJ1 "C2'" H8     SING N N 31 
CJ1 "C2'" H9     SING N N 32 
CJ1 "C1'" H10    SING N N 33 
CJ1 C8    H11    SING N N 34 
CJ1 OP2   H14    SING N N 35 
CJ1 P     OP3    SING N N 36 
CJ1 OP3   "HO3'" SING N N 37 
CJ1 O2    H2     SING N N 38 
CJ1 O6    H12    SING N N 39 
# 
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 
CJ1 SMILES           ACDLabs              12.01 "c3(nc2n(C1CC(C(COP(O)(=O)O)O1)O)ccc2c(n3)O)O"                                                                                                              
CJ1 InChI            InChI                1.03  "InChI=1S/C11H14N3O8P/c15-6-3-8(22-7(6)4-21-23(18,19)20)14-2-1-5-9(14)12-11(17)13-10(5)16/h1-2,6-8,15H,3-4H2,(H2,18,19,20)(H2,12,13,16,17)/t6-,7+,8+/m0/s1" 
CJ1 InChIKey         InChI                1.03  KGLSEDQJBHBOAW-XLPZGREQSA-N                                                                                                                                 
CJ1 SMILES_CANONICAL CACTVS               3.385 "O[C@H]1C[C@@H](O[C@@H]1CO[P](O)(O)=O)n2ccc3c(O)nc(O)nc23"                                                                                                  
CJ1 SMILES           CACTVS               3.385 "O[CH]1C[CH](O[CH]1CO[P](O)(O)=O)n2ccc3c(O)nc(O)nc23"                                                                                                       
CJ1 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "c1cn(c2c1c(nc(n2)O)O)[C@H]3C[C@@H]([C@H](O3)COP(=O)(O)O)O"                                                                                                 
CJ1 SMILES           "OpenEye OEToolkits" 2.0.6 "c1cn(c2c1c(nc(n2)O)O)C3CC(C(O3)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 
CJ1 "SYSTEMATIC NAME" ACDLabs              12.01 "7-(2-deoxy-5-O-phosphono-beta-D-erythro-pentofuranosyl)-7H-pyrrolo[2,3-d]pyrimidine-2,4-diol"                              
CJ1 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "[(2~{R},3~{S},5~{R})-5-[2,4-bis(oxidanyl)pyrrolo[2,3-d]pyrimidin-7-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 
CJ1 "Create component"    2017-09-22 RCSB 
CJ1 "Modify linking type" 2017-09-22 RCSB 
CJ1 "Initial release"     2018-09-19 RCSB 
# 
