data_XI6
# 
_chem_comp.id                                    XI6 
_chem_comp.name                                  DZNep 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C12 H14 N4 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "(1~{S},2~{R},5~{R})-5-(4-azanylimidazo[4,5-c]pyridin-1-yl)-3-(hydroxymethyl)cyclopent-3-ene-1,2-diol; 3-Deazaneplanocin" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-11-06 
_chem_comp.pdbx_modified_date                    2024-11-01 
_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                        262.265 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XI6 
_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        8WZ6 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
_chem_comp.pdbx_pcm                              ? 
# 
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_n_terminal_atom_flag 
_chem_comp_atom.pdbx_backbone_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 
XI6 N1  N1  N 0 1 Y N N N N N 24.605 -34.999 4.105  -4.290 0.374  -0.920 N1  XI6 1  
XI6 C4  C1  C 0 1 Y N N N N N 24.210 -37.348 4.484  -2.566 -0.504 0.433  C4  XI6 2  
XI6 C5  C2  C 0 1 Y N N N N N 23.884 -37.502 3.104  -1.623 0.205  -0.331 C5  XI6 3  
XI6 C6  C3  C 0 1 Y N N N N N 23.686 -39.457 4.194  -0.605 -0.936 1.257  C6  XI6 4  
XI6 C7  C4  C 0 1 N N R N N N 23.137 -39.624 1.630  0.900  0.421  -0.247 C7  XI6 5  
XI6 C8  C5  C 0 1 N N N N N N 21.676 -40.013 1.620  1.824  -0.726 -0.589 C8  XI6 6  
XI6 C1  C6  C 0 1 Y N N N N N 23.914 -36.395 2.248  -2.074 0.991  -1.388 C1  XI6 7  
XI6 C2  C7  C 0 1 Y N N N N N 24.304 -35.199 2.806  -3.414 1.048  -1.649 C2  XI6 8  
XI6 C3  C8  C 0 1 Y N N N N N 24.584 -36.049 4.988  -3.924 -0.389 0.096  C3  XI6 9  
XI6 O1  O1  O 0 1 N N N N N N 25.091 -40.614 0.413  1.434  2.591  0.771  O1  XI6 10 
XI6 C9  C9  C 0 1 N N N N N N 21.630 -41.485 1.509  3.019  -0.527 -0.104 C9  XI6 11 
XI6 C10 C10 C 0 1 N N R N N N 23.096 -41.994 0.903  3.093  0.785  0.641  C10 XI6 12 
XI6 C11 C11 C 0 1 N N S N N N 24.128 -40.830 1.367  1.617  1.179  0.895  C11 XI6 13 
XI6 C12 C12 C 0 1 N N N N N N 20.349 -41.965 0.739  4.174  -1.481 -0.267 C12 XI6 14 
XI6 N2  N2  N 0 1 Y N N N N N 23.576 -38.867 2.908  -0.395 -0.087 0.213  N2  XI6 15 
XI6 N3  N3  N 0 1 Y N N N N N 24.059 -38.540 5.133  -1.877 -1.179 1.385  N3  XI6 16 
XI6 N4  N4  N 0 1 N N N N N N 24.914 -35.809 6.295  -4.882 -1.076 0.829  N4  XI6 17 
XI6 O2  O2  O 0 1 N N N N N N 23.156 -42.286 -0.409 3.741  1.774  -0.161 O2  XI6 18 
XI6 O3  O3  O 0 1 N N N N N N 19.673 -40.972 -0.019 3.751  -2.616 -1.025 O3  XI6 19 
XI6 H1  H1  H 0 1 N N N N N N 23.498 -40.500 4.403  0.170  -1.347 1.887  H1  XI6 20 
XI6 H2  H2  H 0 1 N N N N N N 23.283 -38.926 0.793  0.767  1.072  -1.110 H2  XI6 21 
XI6 H3  H3  H 0 1 N N N N N N 20.830 -39.344 1.682  1.532  -1.596 -1.158 H3  XI6 22 
XI6 H5  H5  H 0 1 N N N N N N 23.645 -36.475 1.205  -1.375 1.549  -1.994 H5  XI6 23 
XI6 H6  H6  H 0 1 N N N N N N 24.375 -34.347 2.146  -3.767 1.656  -2.469 H6  XI6 24 
XI6 H7  H7  H 0 1 N N N N N N 25.681 -39.930 0.707  1.947  3.111  1.405  H7  XI6 25 
XI6 H9  H9  H 0 1 N N N N N N 23.363 -42.886 1.488  3.619  0.657  1.587  H9  XI6 26 
XI6 H10 H10 H 0 1 N N N N N N 24.573 -41.132 2.327  1.280  0.827  1.870  H10 XI6 27 
XI6 H11 H11 H 0 1 N N N N N N 19.640 -42.364 1.480  4.989  -0.979 -0.789 H11 XI6 28 
XI6 H12 H12 H 0 1 N N N N N N 20.651 -42.768 0.050  4.518  -1.807 0.715  H12 XI6 29 
XI6 H13 H13 H 0 1 N N N N N N 25.134 -34.840 6.411  -5.820 -0.996 0.596  H13 XI6 30 
XI6 H14 H14 H 0 1 N N N N N N 24.141 -36.048 6.883  -4.614 -1.635 1.575  H14 XI6 31 
XI6 H15 H15 H 0 1 N N N N N N 22.529 -42.971 -0.610 4.669  1.580  -0.352 H15 XI6 32 
XI6 H16 H16 H 0 1 N N N N N N 18.917 -41.358 -0.445 4.446  -3.274 -1.169 H16 XI6 33 
# 
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 
XI6 O2  C10 SING N N 1  
XI6 O3  C12 SING N N 2  
XI6 O1  C11 SING N N 3  
XI6 C12 C9  SING N N 4  
XI6 C10 C11 SING N N 5  
XI6 C10 C9  SING N N 6  
XI6 C11 C7  SING N N 7  
XI6 C9  C8  DOUB N N 8  
XI6 C8  C7  SING N N 9  
XI6 C7  N2  SING N N 10 
XI6 C1  C2  DOUB Y N 11 
XI6 C1  C5  SING Y N 12 
XI6 C2  N1  SING Y N 13 
XI6 N2  C5  SING Y N 14 
XI6 N2  C6  SING Y N 15 
XI6 C5  C4  DOUB Y N 16 
XI6 N1  C3  DOUB Y N 17 
XI6 C6  N3  DOUB Y N 18 
XI6 C4  C3  SING Y N 19 
XI6 C4  N3  SING Y N 20 
XI6 C3  N4  SING N N 21 
XI6 C6  H1  SING N N 22 
XI6 C7  H2  SING N N 23 
XI6 C8  H3  SING N N 24 
XI6 C1  H5  SING N N 25 
XI6 C2  H6  SING N N 26 
XI6 O1  H7  SING N N 27 
XI6 C10 H9  SING N N 28 
XI6 C11 H10 SING N N 29 
XI6 C12 H11 SING N N 30 
XI6 C12 H12 SING N N 31 
XI6 N4  H13 SING N N 32 
XI6 N4  H14 SING N N 33 
XI6 O2  H15 SING N N 34 
XI6 O3  H16 SING N N 35 
# 
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 
XI6 InChI            InChI                1.06  "InChI=1S/C12H14N4O3/c13-12-9-7(1-2-14-12)16(5-15-9)8-3-6(4-17)10(18)11(8)19/h1-3,5,8,10-11,17-19H,4H2,(H2,13,14)/t8-,10-,11+/m1/s1" 
XI6 InChIKey         InChI                1.06  OMKHWTRUYNAGFG-IEBDPFPHSA-N                                                                                                          
XI6 SMILES_CANONICAL CACTVS               3.385 "Nc1nccc2n(cnc12)[C@@H]3C=C(CO)[C@@H](O)[C@H]3O"                                                                                     
XI6 SMILES           CACTVS               3.385 "Nc1nccc2n(cnc12)[CH]3C=C(CO)[CH](O)[CH]3O"                                                                                          
XI6 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cnc(c2c1n(cn2)[C@@H]3C=C([C@H]([C@H]3O)O)CO)N"                                                                                    
XI6 SMILES           "OpenEye OEToolkits" 2.0.7 "c1cnc(c2c1n(cn2)C3C=C(C(C3O)O)CO)N"                                                                                                 
# 
_pdbx_chem_comp_identifier.comp_id           XI6 
_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~{S},2~{R},5~{R})-5-(4-azanylimidazo[4,5-c]pyridin-1-yl)-3-(hydroxymethyl)cyclopent-3-ene-1,2-diol" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
XI6 "Create component" 2023-11-06 PDBJ 
XI6 "Initial release"  2024-11-06 RCSB 
# 
loop_
_pdbx_chem_comp_synonyms.ordinal 
_pdbx_chem_comp_synonyms.comp_id 
_pdbx_chem_comp_synonyms.name 
_pdbx_chem_comp_synonyms.provenance 
_pdbx_chem_comp_synonyms.type 
1 XI6 "(1~{S},2~{R},5~{R})-5-(4-azanylimidazo[4,5-c]pyridin-1-yl)-3-(hydroxymethyl)cyclopent-3-ene-1,2-diol" PDB     ? 
2 XI6 3-Deazaneplanocin                                                                                      PUBCHEM ? 
# 
