data_86N
# 
_chem_comp.id                                    86N 
_chem_comp.name                                  "(2S)-5-[[5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)furan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-2-azanyl-5-oxidanylidene-pentanoic acid" 
_chem_comp.type                                  "L-peptide linking" 
_chem_comp.pdbx_type                             ATOMP 
_chem_comp.formula                               "C15 H17 N6 O10 P" 
_chem_comp.mon_nstd_parent_comp_id               GLU 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2021-10-04 
_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                        472.303 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     86N 
_chem_comp.pdbx_model_coordinates_details        ? 
_chem_comp.pdbx_model_coordinates_missing_flag   Y 
_chem_comp.pdbx_ideal_coordinates_details        Corina 
_chem_comp.pdbx_ideal_coordinates_missing_flag   N 
_chem_comp.pdbx_model_coordinates_db_code        7PPO 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_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 
86N C2    C1  C 0 1 Y N N N N N 152.163 133.965 132.328 4.928  -3.045 1.258  C2    86N 1  
86N C4    C2  C 0 1 Y N N N N N 151.203 133.347 130.408 5.124  -1.086 0.072  C4    86N 2  
86N C5    C3  C 0 1 Y N N N N N 152.429 133.535 129.696 6.357  -1.531 -0.438 C5    86N 3  
86N C6    C4  C 0 1 Y N N N N N 153.554 133.969 130.438 6.821  -2.796 -0.039 C6    86N 4  
86N N     N1  N 0 1 N N N N N N 145.407 129.146 121.410 -7.515 -0.672 -2.366 N     86N 5  
86N CA    C5  C 0 1 N N S N N N 145.964 128.033 122.101 -7.334 -1.492 -1.160 CA    86N 6  
86N C     C6  C 0 1 N N N N N N 144.820 127.538 122.959 -8.676 -1.751 -0.523 C     86N 7  
86N OXT   O1  O 0 1 N Y N N N N 144.708 126.271 123.166 -8.827 -2.776 0.330  OXT   86N 8  
86N CB    C7  C 0 1 N N N N N N 147.289 128.358 122.785 -6.435 -0.750 -0.169 CB    86N 9  
86N CG    C8  C 0 1 N N N N N N 148.414 128.198 123.786 -5.035 -0.597 -0.768 CG    86N 10 
86N CD    C9  C 0 1 N N N N N N 148.699 128.868 125.088 -4.149 0.134  0.208  CD    86N 11 
86N OE1   O2  O 0 1 N N N N N N 148.096 128.392 126.067 -2.868 0.383  -0.106 OE1   86N 12 
86N OE2   O3  O 0 1 N N N N N N 149.477 129.794 125.009 -4.591 0.495  1.273  OE2   86N 13 
86N "C1'" C10 C 0 1 Y N N N N N 148.896 132.605 129.687 3.809  0.984  -0.253 "C1'" 86N 14 
86N "C2'" C11 C 0 1 Y N N N N N 147.720 133.310 129.749 3.611  2.207  -0.800 "C2'" 86N 15 
86N "C3'" C12 C 0 1 Y N N N N N 146.680 132.326 129.949 2.375  2.685  -0.297 "C3'" 86N 16 
86N "C4'" C13 C 0 1 Y N N N N N 147.293 131.091 129.994 1.891  1.730  0.523  "C4'" 86N 17 
86N "C5'" C14 C 0 1 N N N N N N 146.767 129.678 130.153 0.593  1.800  1.286  "C5'" 86N 18 
86N C8    C15 C 0 1 Y N N N N N 150.933 132.877 128.253 5.983  0.433  -1.279 C8    86N 19 
86N N1    N2  N 0 1 Y N N N N N 153.393 134.177 131.777 6.078  -3.507 0.803  N1    86N 20 
86N N3    N3  N 0 1 Y N N N N N 151.032 133.555 131.730 4.451  -1.869 0.909  N3    86N 21 
86N N6    N4  N 0 1 N N N N N N 154.820 134.192 129.906 8.027  -3.288 -0.507 N6    86N 22 
86N N7    N5  N 0 1 Y N N N N N 152.216 133.225 128.346 6.827  -0.558 -1.254 N7    86N 23 
86N N9    N6  N 0 1 Y N N N N N 150.243 132.944 129.483 4.915  0.156  -0.477 N9    86N 24 
86N "O2'" O4  O 0 1 N N N N N N 147.617 134.646 129.649 4.441  2.855  -1.665 "O2'" 86N 25 
86N O2P   O5  O 0 1 N N N N N N 147.579 130.734 127.142 -2.042 0.443  2.279  O2P   86N 26 
86N "O3'" O6  O 0 1 N N N N N N 145.360 132.557 130.078 1.788  3.879  -0.587 "O3'" 86N 27 
86N O3P   O7  O 0 1 N N N N N N 149.550 129.023 128.512 -2.572 2.655  1.184  O3P   86N 28 
86N "O4'" O8  O 0 1 Y N N N N N 148.631 131.266 129.825 2.763  0.703  0.546  "O4'" 86N 29 
86N "O5'" O9  O 0 1 N N N N N N 146.701 128.983 128.948 -0.459 1.254  0.488  "O5'" 86N 30 
86N P     P1  P 0 1 N N N N N N 147.972 129.202 127.743 -1.986 1.168  0.990  P     86N 31 
86N H1    H1  H 0 1 N N N N N N 152.088 134.152 133.389 4.355  -3.656 1.940  H1    86N 32 
86N H2    H2  H 0 1 N Y N N N N 144.544 128.876 120.983 -8.052 -1.167 -3.062 H2    86N 33 
86N H     H3  H 0 1 N N N N N N 145.240 129.890 122.057 -7.943 0.213  -2.140 H     86N 34 
86N HA    H5  H 0 1 N N N N N N 146.174 127.245 121.363 -6.872 -2.440 -1.431 HA    86N 35 
86N HXT   H8  H 0 1 N Y N N N N 144.065 125.908 122.568 -9.706 -2.903 0.713  HXT   86N 36 
86N HB2   H9  H 0 1 N N N N N N 147.914 128.312 121.881 -6.853 0.236  0.034  HB2   86N 37 
86N HB3   H10 H 0 1 N N N N N N 147.059 129.408 123.018 -6.373 -1.317 0.760  HB3   86N 38 
86N HG2   H11 H 0 1 N N N N N N 148.375 127.131 124.049 -4.617 -1.583 -0.971 HG2   86N 39 
86N HG3   H12 H 0 1 N N N N N N 149.318 128.396 123.191 -5.097 -0.030 -1.697 HG3   86N 40 
86N H13   H13 H 0 1 N N N N N N 145.757 129.727 130.585 0.683  1.227  2.209  H13   86N 41 
86N H14   H14 H 0 1 N N N N N N 147.433 129.131 130.837 0.367  2.839  1.524  H14   86N 42 
86N H15   H15 H 0 1 N N N N N N 150.467 132.573 127.327 6.109  1.341  -1.851 H15   86N 43 
86N H16   H16 H 0 1 N N N N N N 155.441 134.485 130.633 8.562  -2.758 -1.118 H16   86N 44 
86N H17   H17 H 0 1 N N N N N N 155.163 133.347 129.496 8.337  -4.162 -0.224 H17   86N 45 
86N H18   H18 H 0 1 N N N N N N 146.704 134.900 129.721 4.260  2.669  -2.597 H18   86N 46 
86N H19   H19 H 0 1 N N N N N N 144.904 131.732 130.199 1.197  3.852  -1.352 H19   86N 47 
86N H20   H20 H 0 1 N N N N N N 150.009 129.855 128.492 -2.566 3.189  0.378  H20   86N 48 
86N O     O   O 0 1 N N N N N N ?       ?       ?       -9.615 -1.036 -0.781 O     86N 49 
# 
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 
86N N     CA    SING N N 1  
86N CA    CB    SING N N 2  
86N CA    C     SING N N 3  
86N CB    CG    SING N N 4  
86N C     OXT   SING N N 5  
86N CG    CD    SING N N 6  
86N OE2   CD    DOUB N N 7  
86N CD    OE1   SING N N 8  
86N OE1   P     SING N N 9  
86N O2P   P     DOUB N N 10 
86N P     O3P   SING N N 11 
86N P     "O5'" SING N N 12 
86N C8    N7    DOUB Y N 13 
86N C8    N9    SING Y N 14 
86N N7    C5    SING Y N 15 
86N "O5'" "C5'" SING N N 16 
86N N9    "C1'" SING N N 17 
86N N9    C4    SING Y N 18 
86N "O2'" "C2'" SING N N 19 
86N "C1'" "C2'" DOUB Y N 20 
86N "C1'" "O4'" SING Y N 21 
86N C5    C4    DOUB Y N 22 
86N C5    C6    SING Y N 23 
86N "C2'" "C3'" SING Y N 24 
86N "O4'" "C4'" SING Y N 25 
86N N6    C6    SING N N 26 
86N "C3'" "C4'" DOUB Y N 27 
86N "C3'" "O3'" SING N N 28 
86N "C4'" "C5'" SING N N 29 
86N C4    N3    SING Y N 30 
86N C6    N1    DOUB Y N 31 
86N N3    C2    DOUB Y N 32 
86N N1    C2    SING Y N 33 
86N C2    H1    SING N N 34 
86N N     H2    SING N N 35 
86N N     H     SING N N 36 
86N CA    HA    SING N N 37 
86N OXT   HXT   SING N N 38 
86N CB    HB2   SING N N 39 
86N CB    HB3   SING N N 40 
86N CG    HG2   SING N N 41 
86N CG    HG3   SING N N 42 
86N "C5'" H13   SING N N 43 
86N "C5'" H14   SING N N 44 
86N C8    H15   SING N N 45 
86N N6    H16   SING N N 46 
86N N6    H17   SING N N 47 
86N "O2'" H18   SING N N 48 
86N "O3'" H19   SING N N 49 
86N O3P   H20   SING N N 50 
86N C     O     DOUB 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 
86N InChI            InChI                1.06  "InChI=1S/C15H17N6O10P/c16-6(15(25)26)1-2-8(22)31-32(27,28)29-3-7-10(23)11(24)14(30-7)21-5-20-9-12(17)18-4-19-13(9)21/h4-6,23-24H,1-3,16H2,(H,25,26)(H,27,28)(H2,17,18,19)/t6-/m0/s1" 
86N InChIKey         InChI                1.06  GJGJYVIFESYGRN-LURJTMIESA-N                                                                                                                                                           
86N SMILES_CANONICAL CACTVS               3.385 "N[C@@H](CCC(=O)O[P](O)(=O)OCc1oc(n2cnc3c(N)ncnc23)c(O)c1O)C(O)=O"                                                                                                                    
86N SMILES           CACTVS               3.385 "N[CH](CCC(=O)O[P](O)(=O)OCc1oc(n2cnc3c(N)ncnc23)c(O)c1O)C(O)=O"                                                                                                                      
86N SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)c3c(c(c(o3)COP(=O)(O)OC(=O)CC[C@@H](C(=O)O)N)O)O)N"                                                                                                                
86N SMILES           "OpenEye OEToolkits" 2.0.7 "c1nc(c2c(n1)n(cn2)c3c(c(c(o3)COP(=O)(O)OC(=O)CCC(C(=O)O)N)O)O)N"                                                                                                                     
# 
_pdbx_chem_comp_identifier.comp_id           86N 
_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~{S})-5-[[5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)furan-2-yl]methoxy-oxidanyl-phosphoryl]oxy-2-azanyl-5-oxidanylidene-pentanoic acid" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
86N "Create component"    2021-10-04 PDBE 
86N "Modify linking type" 2021-10-12 PDBE 
86N "Initial release"     2021-10-27 RCSB 
86N "Modify descriptor"   2022-08-22 RCSB 
86N "Modify PCM"          2024-09-27 PDBE 
# 
