data_7K8
# 
_chem_comp.id                                    7K8 
_chem_comp.name                                  "[(2~{R},3~{S},5~{R})-5-[(4~{E})-4-hydroxyimino-2-oxidanylidene-1,3-diazinan-1-yl]-3-oxidanyl-oxolan-2-yl]methyl dihydrogen phosphate" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C9 H16 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                     2016-11-03 
_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                        325.212 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     7K8 
_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        5M4Z 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  EBI 
_chem_comp.pdbx_pcm                              Y 
# 
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 
7K8 O2    O1  O 0 1 N N N N N N 44.648 26.117 15.493 1.266  -0.280 1.450  O2    7K8 1  
7K8 C2    C1  C 0 1 N N N N N N 45.232 27.215 15.379 2.192  -0.026 0.705  C2    7K8 2  
7K8 N3    N1  N 0 1 N N N N N N 46.564 27.254 15.221 3.208  0.726  1.166  N3    7K8 3  
7K8 C4    C2  C 0 1 N N N N N N 47.193 28.371 14.826 4.257  1.047  0.313  C4    7K8 4  
7K8 N4    N2  N 0 1 N N N N N N 48.406 28.323 14.436 5.422  1.362  0.770  N4    7K8 5  
7K8 O4    O2  O 0 1 N N N N N N 49.058 29.477 13.977 6.470  1.683  -0.126 O4    7K8 6  
7K8 C5    C3  C 0 1 N N N N N N 46.432 29.692 14.765 3.976  1.011  -1.176 C5    7K8 7  
7K8 C6    C4  C 0 1 N N N N N N 45.158 29.705 15.623 3.272  -0.318 -1.482 C6    7K8 8  
7K8 N1    N3  N 0 1 N N N N N N 44.559 28.383 15.359 2.167  -0.512 -0.544 N1    7K8 9  
7K8 "C1'" C5  C 0 1 N N R N N N 43.117 28.371 15.096 0.987  -1.259 -0.988 "C1'" 7K8 10 
7K8 "C2'" C6  C 0 1 N N N N N N 42.340 28.313 16.416 0.855  -2.561 -0.175 "C2'" 7K8 11 
7K8 "C3'" C7  C 0 1 N N S N N N 41.053 28.983 16.024 -0.539 -2.453 0.491  "C3'" 7K8 12 
7K8 "O3'" O3  O 0 1 N N N N N N 40.180 28.090 15.297 -1.218 -3.710 0.459  "O3'" 7K8 13 
7K8 "O4'" O4  O 0 1 N N N N N N 42.659 29.564 14.437 -0.200 -0.484 -0.750 "O4'" 7K8 14 
7K8 "C4'" C8  C 0 1 N N R N N N 41.504 30.096 15.088 -1.251 -1.416 -0.414 "C4'" 7K8 15 
7K8 "C5'" C9  C 0 1 N N N N N N 41.911 31.370 15.812 -2.371 -0.710 0.354  "C5'" 7K8 16 
7K8 "O5'" O5  O 0 1 N N N N N N 40.742 32.077 16.225 -3.018 0.230  -0.505 "O5'" 7K8 17 
7K8 P     P1  P 0 1 N N N N N N 40.652 32.744 17.679 -4.247 1.154  -0.027 P     7K8 18 
7K8 OP1   O6  O 0 1 N N N N N N 41.699 33.845 17.769 -4.809 1.992  -1.282 OP1   7K8 19 
7K8 OP2   O7  O 0 1 N N N N N N 39.234 33.305 17.724 -5.325 0.297  0.516  OP2   7K8 20 
7K8 OP3   O8  O 0 1 N N N N N N 40.862 31.646 18.710 -3.742 2.170  1.115  OP3   7K8 21 
7K8 H3    H1  H 0 1 N N N N N N 47.101 26.430 15.402 3.207  1.042  2.083  H3    7K8 22 
7K8 H4    H2  H 0 1 N N N N N N 49.949 29.260 13.729 7.305  1.905  0.309  H4    7K8 23 
7K8 H52   H3  H 0 1 N N N N N N 47.097 30.494 15.118 3.329  1.844  -1.450 H52   7K8 24 
7K8 H51   H4  H 0 1 N N N N N N 46.150 29.883 13.719 4.912  1.070  -1.731 H51   7K8 25 
7K8 H6    H5  H 0 1 N N N N N N 45.402 29.821 16.689 2.887  -0.298 -2.502 H6    7K8 26 
7K8 H1    H6  H 0 1 N N N N N N 44.481 30.514 15.311 3.981  -1.138 -1.377 H1    7K8 27 
7K8 H11   H7  H 0 1 N N N N N N 42.859 27.486 14.495 1.074  -1.492 -2.049 H11   7K8 28 
7K8 H22   H8  H 0 1 N N N N N N 42.172 27.275 16.740 0.897  -3.428 -0.833 H22   7K8 29 
7K8 H21   H9  H 0 1 N N N N N N 42.857 28.867 17.213 1.638  -2.619 0.582  H21   7K8 30 
7K8 H31   H10 H 0 1 N N N N N N 40.552 29.406 16.907 -0.454 -2.085 1.513  H31   7K8 31 
7K8 H32   H11 H 0 1 N N N N N N 39.892 27.391 15.872 -0.762 -4.416 0.938  H32   7K8 32 
7K8 H41   H12 H 0 1 N N N N N N 40.707 30.318 14.363 -1.644 -1.892 -1.312 H41   7K8 33 
7K8 H53   H13 H 0 1 N N N N N N 42.515 31.113 16.695 -3.096 -1.448 0.697  H53   7K8 34 
7K8 H54   H14 H 0 1 N N N N N N 42.502 32.004 15.135 -1.949 -0.188 1.213  H54   7K8 35 
7K8 H2    H15 H 0 1 N N N N N N 41.267 34.688 17.837 -5.552 2.571  -1.066 H2    7K8 36 
7K8 H5    H16 H 0 1 N N N N N N 40.058 31.511 19.198 -3.034 2.764  0.828  H5    7K8 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 
7K8 O4    N4    SING N N 1  
7K8 N4    C4    DOUB N E 2  
7K8 "O4'" "C4'" SING N N 3  
7K8 "O4'" "C1'" SING N N 4  
7K8 C5    C4    SING N N 5  
7K8 C5    C6    SING N N 6  
7K8 C4    N3    SING N N 7  
7K8 "C4'" "C5'" SING N N 8  
7K8 "C4'" "C3'" SING N N 9  
7K8 "C1'" N1    SING N N 10 
7K8 "C1'" "C2'" SING N N 11 
7K8 N3    C2    SING N N 12 
7K8 "O3'" "C3'" SING N N 13 
7K8 N1    C2    SING N N 14 
7K8 N1    C6    SING N N 15 
7K8 C2    O2    DOUB N N 16 
7K8 "C5'" "O5'" SING N N 17 
7K8 "C3'" "C2'" SING N N 18 
7K8 "O5'" P     SING N N 19 
7K8 P     OP2   DOUB N N 20 
7K8 P     OP1   SING N N 21 
7K8 P     OP3   SING N N 22 
7K8 N3    H3    SING N N 23 
7K8 O4    H4    SING N N 24 
7K8 C5    H52   SING N N 25 
7K8 C5    H51   SING N N 26 
7K8 C6    H6    SING N N 27 
7K8 C6    H1    SING N N 28 
7K8 "C1'" H11   SING N N 29 
7K8 "C2'" H22   SING N N 30 
7K8 "C2'" H21   SING N N 31 
7K8 "C3'" H31   SING N N 32 
7K8 "O3'" H32   SING N N 33 
7K8 "C4'" H41   SING N N 34 
7K8 "C5'" H53   SING N N 35 
7K8 "C5'" H54   SING N N 36 
7K8 OP1   H2    SING N N 37 
7K8 OP3   H5    SING N N 38 
# 
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 
7K8 InChI            InChI                1.03  "InChI=1S/C9H16N3O8P/c13-5-3-8(20-6(5)4-19-21(16,17)18)12-2-1-7(11-15)10-9(12)14/h5-6,8,13,15H,1-4H2,(H,10,11,14)(H2,16,17,18)/t5-,6+,8+/m0/s1" 
7K8 InChIKey         InChI                1.03  BXCKTJBMNGLVHU-SHYZEUOFSA-N                                                                                                                     
7K8 SMILES_CANONICAL CACTVS               3.385 "O\N=C\1CCN([C@H]2C[C@H](O)[C@@H](CO[P](O)(O)=O)O2)C(=O)N\1"                                                                                    
7K8 SMILES           CACTVS               3.385 "ON=C1CCN([CH]2C[CH](O)[CH](CO[P](O)(O)=O)O2)C(=O)N1"                                                                                           
7K8 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "C\1CN(C(=O)N/C1=N/O)[C@H]2C[C@@H]([C@H](O2)COP(=O)(O)O)O"                                                                                      
7K8 SMILES           "OpenEye OEToolkits" 2.0.6 "C1CN(C(=O)NC1=NO)C2CC(C(O2)COP(=O)(O)O)O"                                                                                                      
# 
_pdbx_chem_comp_identifier.comp_id           7K8 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.6 
_pdbx_chem_comp_identifier.identifier        "[(2~{R},3~{S},5~{R})-5-[(4~{E})-4-hydroxyimino-2-oxidanylidene-1,3-diazinan-1-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 
7K8 "Create component" 2016-11-03 EBI  
7K8 "Modify atom id"   2016-12-13 EBI  
7K8 "Modify atom id"   2016-12-15 EBI  
7K8 "Initial release"  2017-12-20 RCSB 
7K8 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            7K8 
_pdbx_chem_comp_pcm.modified_residue_id                CYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C6 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   SG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
