data_SD9
# 
_chem_comp.id                                    SD9 
_chem_comp.name                                  Cimetidine 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C10 H16 N6 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "2-cyano-1-methyl-3-[2-[(5-methyl-1~{H}-imidazol-4-yl)methylsulfanyl]ethyl]guanidine" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-04-11 
_chem_comp.pdbx_modified_date                    2024-11-11 
_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                        252.339 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     SD9 
_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        8IZI 
_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_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 
SD9 N1  N1  N 0 1 Y N N N N N 1.872  -8.886  15.207 -4.227 -0.090 -1.390 N1  SD9 1  
SD9 N3  N2  N 0 1 N N N N N N 2.432  -14.025 17.151 3.068  0.609  -0.178 N3  SD9 2  
SD9 C4  C1  C 0 1 Y N N N N N 0.897  -8.244  14.591 -5.368 -0.557 -0.961 C4  SD9 3  
SD9 C5  C2  C 0 1 N N N N N N 3.732  -10.443 14.536 -2.189 1.082  -0.432 C5  SD9 4  
SD9 C6  C3  C 0 1 N N N N N N 2.746  -11.587 16.940 0.630  0.775  -0.286 C6  SD9 5  
SD9 C7  C4  C 0 1 N N N N N N 1.958  -12.718 17.577 1.824  -0.159 -0.080 C7  SD9 6  
SD9 C8  C5  C 0 1 N N N N N N 1.677  -15.002 16.653 4.263  0.015  0.113  C8  SD9 7  
SD9 C10 C6  C 0 1 N N N N N N 2.410  -15.829 18.549 3.205  -2.046 0.206  C10 SD9 8  
SD9 C1  C7  C 0 1 N N N N N N 2.235  -9.843  11.622 -3.936 0.738  2.143  C1  SD9 9  
SD9 C2  C8  C 0 1 Y N N N N N 1.946  -9.355  13.003 -4.298 0.293  0.750  C2  SD9 10 
SD9 C3  C9  C 0 1 Y N N N N N 2.537  -9.602  14.222 -3.549 0.438  -0.360 C3  SD9 11 
SD9 N2  N3  N 0 1 Y N N N N N 0.902  -8.497  13.263 -5.452 -0.339 0.369  N2  SD9 12 
SD9 S1  S1  S 0 1 N N N N N N 3.385  -12.059 15.315 -0.910 -0.176 -0.165 S1  SD9 13 
SD9 N4  N4  N 0 1 N N N N N N 0.859  -14.912 15.642 5.408  0.759  0.138  N4  SD9 14 
SD9 C9  C10 C 0 1 N N N N N N 1.408  -14.661 14.317 5.373  2.170  -0.256 C9  SD9 15 
SD9 N5  N5  N 0 1 N N N N N N 1.830  -16.102 17.343 4.311  -1.281 0.371  N5  SD9 16 
SD9 N6  N6  N 0 1 N N N N N N 3.050  -15.383 19.390 2.278  -2.688 0.068  N6  SD9 17 
SD9 H2  H2  H 0 1 N N N N N N 3.411  -14.206 17.240 3.043  1.540  -0.450 H2  SD9 18 
SD9 H3  H3  H 0 1 N N N N N N 0.186  -7.599  15.085 -6.120 -1.038 -1.569 H3  SD9 19 
SD9 H4  H4  H 0 1 N N N N N N 4.269  -10.631 13.595 -2.053 1.535  -1.414 H4  SD9 20 
SD9 H5  H5  H 0 1 N N N N N N 4.377  -9.871  15.219 -2.109 1.850  0.337  H5  SD9 21 
SD9 H6  H6  H 0 1 N N N N N N 3.591  -11.327 17.595 0.639  1.551  0.479  H6  SD9 22 
SD9 H7  H7  H 0 1 N N N N N N 2.088  -10.713 16.825 0.696  1.236  -1.272 H7  SD9 23 
SD9 H8  H8  H 0 1 N N N N N N 2.054  -12.645 18.670 1.815  -0.935 -0.845 H8  SD9 24 
SD9 H9  H9  H 0 1 N N N N N N 0.900  -12.616 17.295 1.759  -0.620 0.905  H9  SD9 25 
SD9 H10 H10 H 0 1 N N N N N N 2.939  -9.156  11.130 -3.408 -0.066 2.656  H10 SD9 26 
SD9 H11 H11 H 0 1 N N N N N N 2.679  -10.848 11.674 -3.293 1.617  2.088  H11 SD9 27 
SD9 H12 H12 H 0 1 N N N N N N 1.300  -9.885  11.045 -4.844 0.986  2.693  H12 SD9 28 
SD9 H13 H13 H 0 1 N N N N N N 0.262  -8.127  12.590 -6.192 -0.583 0.947  H13 SD9 29 
SD9 H14 H14 H 0 1 N N N N N N 0.590  -14.614 13.583 4.946  2.257  -1.255 H14 SD9 30 
SD9 H15 H15 H 0 1 N N N N N N 1.952  -13.705 14.321 4.761  2.730  0.452  H15 SD9 31 
SD9 H16 H16 H 0 1 N N N N N N 2.097  -15.474 14.046 6.386  2.572  -0.257 H16 SD9 32 
SD9 H1  H1  H 0 1 N N N N N N -0.127 -15.013 15.774 6.244  0.354  0.417  H1  SD9 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 
SD9 C1  C2  SING N N 1  
SD9 C2  N2  SING Y N 2  
SD9 C2  C3  DOUB Y N 3  
SD9 N2  C4  SING Y N 4  
SD9 C3  C5  SING N N 5  
SD9 C3  N1  SING Y N 6  
SD9 C9  N4  SING N N 7  
SD9 C5  S1  SING N N 8  
SD9 C4  N1  DOUB Y N 9  
SD9 S1  C6  SING N N 10 
SD9 N4  C8  SING N N 11 
SD9 C8  N3  SING N N 12 
SD9 C8  N5  DOUB N N 13 
SD9 C6  C7  SING N N 14 
SD9 N3  C7  SING N N 15 
SD9 N5  C10 SING N N 16 
SD9 C10 N6  TRIP N N 17 
SD9 N3  H2  SING N N 18 
SD9 C4  H3  SING N N 19 
SD9 C5  H4  SING N N 20 
SD9 C5  H5  SING N N 21 
SD9 C6  H6  SING N N 22 
SD9 C6  H7  SING N N 23 
SD9 C7  H8  SING N N 24 
SD9 C7  H9  SING N N 25 
SD9 C1  H10 SING N N 26 
SD9 C1  H11 SING N N 27 
SD9 C1  H12 SING N N 28 
SD9 N2  H13 SING N N 29 
SD9 C9  H14 SING N N 30 
SD9 C9  H15 SING N N 31 
SD9 C9  H16 SING N N 32 
SD9 N4  H1  SING N N 33 
# 
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 
SD9 InChI            InChI                1.06  "InChI=1S/C10H16N6S/c1-8-9(16-7-15-8)5-17-4-3-13-10(12-2)14-6-11/h7H,3-5H2,1-2H3,(H,15,16)(H2,12,13,14)" 
SD9 InChIKey         InChI                1.06  AQIXAKUUQRKLND-UHFFFAOYSA-N                                                                              
SD9 SMILES_CANONICAL CACTVS               3.385 "CNC(NCCSCc1nc[nH]c1C)=NC#N"                                                                             
SD9 SMILES           CACTVS               3.385 "CNC(NCCSCc1nc[nH]c1C)=NC#N"                                                                             
SD9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(nc[nH]1)CSCCN/C(=N\C#N)/NC"                                                                        
SD9 SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1c(nc[nH]1)CSCCNC(=NC#N)NC"                                                                           
# 
_pdbx_chem_comp_identifier.comp_id           SD9 
_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-cyano-1-methyl-3-[2-[(5-methyl-1~{H}-imidazol-4-yl)methylsulfanyl]ethyl]guanidine" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
SD9 "Create component" 2023-04-11 PDBJ 
SD9 "Initial release"  2024-09-18 RCSB 
SD9 "Modify name"      2024-11-11 PDBJ 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      SD9 
_pdbx_chem_comp_synonyms.name         "2-cyano-1-methyl-3-[2-[(5-methyl-1~{H}-imidazol-4-yl)methylsulfanyl]ethyl]guanidine" 
_pdbx_chem_comp_synonyms.provenance   PDB 
_pdbx_chem_comp_synonyms.type         ? 
# 
