data_X56
# 
_chem_comp.id                                    X56 
_chem_comp.name                                  "(6~{R},7~{R})-3-[(5-methyl-1,3,4-thiadiazol-2-yl)sulfanylmethyl]-8-oxidanylidene-7-[2-(1,2,3,4-tetrazol-1-yl)ethanoylamino]-5-thia-1-azabicyclo[4.2.0]oct-2-ene-2-carboxylic acid" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C14 H14 N8 O4 S3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         cefazolin 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-10-30 
_chem_comp.pdbx_modified_date                    2024-08-02 
_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                        454.507 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     X56 
_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        ? 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBC 
# 
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 
X56 S1  S1  S 0 1 N N N N N N ? ? ? 0.963  -2.000 -0.401 S1  X56 1  
X56 C1  C1  C 0 1 N N R N N N ? ? ? 1.311  -0.596 -1.511 C1  X56 2  
X56 C2  C2  C 0 1 N N R N N N ? ? ? 2.611  0.151  -1.231 C2  X56 3  
X56 C3  C3  C 0 1 N N N N N N ? ? ? 1.747  1.341  -0.850 C3  X56 4  
X56 C4  C4  C 0 1 N N N N N N ? ? ? -0.684 0.634  -0.405 C4  X56 5  
X56 C5  C5  C 0 1 N N N N N N ? ? ? -1.325 -0.490 -0.119 C5  X56 6  
X56 O1  O1  O 0 1 N N N N N N ? ? ? 1.970  2.509  -0.609 O1  X56 7  
X56 O2  O2  O 0 1 N N N N N N ? ? ? -1.949 2.448  -1.145 O2  X56 8  
X56 N1  N1  N 0 1 N N N N N N ? ? ? 0.635  0.586  -0.887 N1  X56 9  
X56 C6  C6  C 0 1 N N N N N N ? ? ? -0.849 -1.896 -0.283 C6  X56 10 
X56 C7  C7  C 0 1 N N N N N N ? ? ? -2.712 -0.328 0.446  C7  X56 11 
X56 C8  C8  C 0 1 N N N N N N ? ? ? -1.354 1.933  -0.219 C8  X56 12 
X56 O3  O3  O 0 1 N N N N N N ? ? ? -1.308 2.550  0.978  O3  X56 13 
X56 N2  N2  N 0 1 N N N N N N ? ? ? 3.377  -0.401 -0.111 N2  X56 14 
X56 C9  C9  C 0 1 N N N N N N ? ? ? 4.710  -0.214 -0.049 C9  X56 15 
X56 O4  O4  O 0 1 N N N N N N ? ? ? 5.276  0.411  -0.920 O4  X56 16 
X56 C10 C10 C 0 1 N N N N N N ? ? ? 5.498  -0.783 1.104  C10 X56 17 
X56 N3  N3  N 0 1 Y N N N N N ? ? ? 6.914  -0.445 0.941  N3  X56 18 
X56 C11 C11 C 0 1 Y N N N N N ? ? ? -5.420 -0.398 0.059  C11 X56 19 
X56 C12 C12 C 0 1 Y N N N N N ? ? ? 7.694  0.186  1.838  C12 X56 20 
X56 C13 C13 C 0 1 Y N N N N N ? ? ? -7.676 -0.113 1.030  C13 X56 21 
X56 S2  S2  S 0 1 N N N N N N ? ? ? -3.933 -0.650 -0.851 S2  X56 22 
X56 C14 C14 C 0 1 N N N N N N ? ? ? -9.126 0.008  1.421  C14 X56 23 
X56 N4  N4  N 0 1 Y N N N N N ? ? ? 7.650  -0.701 -0.088 N4  X56 24 
X56 N5  N5  N 0 1 Y N N N N N ? ? ? -5.506 -0.066 1.317  N5  X56 25 
X56 N6  N6  N 0 1 Y N N N N N ? ? ? 8.884  0.287  1.297  N6  X56 26 
X56 N7  N7  N 0 1 Y N N N N N ? ? ? 8.838  -0.256 0.130  N7  X56 27 
X56 N8  N8  N 0 1 Y N N N N N ? ? ? -6.659 0.078  1.806  N8  X56 28 
X56 S3  S3  S 0 1 Y N N N N N ? ? ? -7.064 -0.542 -0.569 S3  X56 29 
X56 H1  H1  H 0 1 N N N N N N ? ? ? 1.095  -0.786 -2.562 H1  X56 30 
X56 H2  H2  H 0 1 N N N N N N ? ? ? 3.220  0.317  -2.119 H2  X56 31 
X56 H5  H5  H 0 1 N N N N N N ? ? ? -1.287 -2.314 -1.190 H5  X56 32 
X56 H6  H6  H 0 1 N N N N N N ? ? ? -1.182 -2.484 0.572  H6  X56 33 
X56 H7  H7  H 0 1 N N N N N N ? ? ? -2.856 -1.034 1.264  H7  X56 34 
X56 H8  H8  H 0 1 N N N N N N ? ? ? -2.837 0.689  0.818  H8  X56 35 
X56 H9  H9  H 0 1 N N N N N N ? ? ? -1.762 3.401  1.052  H9  X56 36 
X56 H10 H10 H 0 1 N N N N N N ? ? ? 2.924  -0.901 0.586  H10 X56 37 
X56 H11 H11 H 0 1 N N N N N N ? ? ? 5.129  -0.361 2.039  H11 X56 38 
X56 H12 H12 H 0 1 N N N N N N ? ? ? 5.383  -1.866 1.123  H12 X56 39 
X56 H13 H13 H 0 1 N N N N N N ? ? ? 7.398  0.540  2.814  H13 X56 40 
X56 H14 H14 H 0 1 N N N N N N ? ? ? -9.463 1.031  1.255  H14 X56 41 
X56 H15 H15 H 0 1 N N N N N N ? ? ? -9.723 -0.675 0.817  H15 X56 42 
X56 H16 H16 H 0 1 N N N N N N ? ? ? -9.240 -0.245 2.476  H16 X56 43 
# 
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 
X56 C1  C2  SING N N 1  
X56 C1  S1  SING N N 2  
X56 C1  N1  SING N N 3  
X56 C2  N2  SING N N 4  
X56 C2  C3  SING N N 5  
X56 N2  C9  SING N N 6  
X56 S1  C6  SING N N 7  
X56 O2  C8  DOUB N N 8  
X56 C6  C5  SING N N 9  
X56 N1  C3  SING N N 10 
X56 N1  C4  SING N N 11 
X56 C3  O1  DOUB N N 12 
X56 C12 N6  DOUB Y N 13 
X56 C12 N3  SING Y N 14 
X56 C8  O3  SING N N 15 
X56 C8  C4  SING N N 16 
X56 C9  O4  DOUB N N 17 
X56 C9  C10 SING N N 18 
X56 C4  C5  DOUB N N 19 
X56 C10 N3  SING N N 20 
X56 C5  C7  SING N N 21 
X56 N6  N7  SING Y N 22 
X56 N3  N4  SING Y N 23 
X56 N7  N4  DOUB Y N 24 
X56 C7  S2  SING N N 25 
X56 S2  C11 SING N N 26 
X56 C11 S3  SING Y N 27 
X56 C11 N5  DOUB Y N 28 
X56 S3  C13 SING Y N 29 
X56 N5  N8  SING Y N 30 
X56 C13 N8  DOUB Y N 31 
X56 C13 C14 SING N N 32 
X56 C1  H1  SING N N 33 
X56 C2  H2  SING N N 34 
X56 C6  H5  SING N N 35 
X56 C6  H6  SING N N 36 
X56 C7  H7  SING N N 37 
X56 C7  H8  SING N N 38 
X56 O3  H9  SING N N 39 
X56 N2  H10 SING N N 40 
X56 C10 H11 SING N N 41 
X56 C10 H12 SING N N 42 
X56 C12 H13 SING N N 43 
X56 C14 H14 SING N N 44 
X56 C14 H15 SING N N 45 
X56 C14 H16 SING N N 46 
# 
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 
X56 InChI            InChI                1.06  "InChI=1S/C14H14N8O4S3/c1-6-17-18-14(29-6)28-4-7-3-27-12-9(11(24)22(12)10(7)13(25)26)16-8(23)2-21-5-15-19-20-21/h5,9,12H,2-4H2,1H3,(H,16,23)(H,25,26)/t9-,12-/m1/s1" 
X56 InChIKey         InChI                1.06  MLYYVTUWGNIJIB-BXKDBHETSA-N                                                                                                                                          
X56 SMILES_CANONICAL CACTVS               3.385 "Cc1sc(SCC2=C(N3[C@H](SC2)[C@H](NC(=O)Cn4cnnn4)C3=O)C(O)=O)nn1"                                                                                                      
X56 SMILES           CACTVS               3.385 "Cc1sc(SCC2=C(N3[CH](SC2)[CH](NC(=O)Cn4cnnn4)C3=O)C(O)=O)nn1"                                                                                                        
X56 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1nnc(s1)SCC2=C(N3[C@@H]([C@@H](C3=O)NC(=O)Cn4cnnn4)SC2)C(=O)O"                                                                                                    
X56 SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1nnc(s1)SCC2=C(N3C(C(C3=O)NC(=O)Cn4cnnn4)SC2)C(=O)O"                                                                                                              
# 
_pdbx_chem_comp_identifier.comp_id           X56 
_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        "(6~{R},7~{R})-3-[(5-methyl-1,3,4-thiadiazol-2-yl)sulfanylmethyl]-8-oxidanylidene-7-[2-(1,2,3,4-tetrazol-1-yl)ethanoylamino]-5-thia-1-azabicyclo[4.2.0]oct-2-ene-2-carboxylic 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 
X56 "Create component" 2023-10-30 PDBC 
X56 "Initial release"  2024-08-07 RCSB 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      X56 
_pdbx_chem_comp_synonyms.name         cefazolin 
_pdbx_chem_comp_synonyms.provenance   PUBCHEM 
_pdbx_chem_comp_synonyms.type         ? 
# 
