data_GYC
# 
_chem_comp.id                                    GYC 
_chem_comp.name                                  "[(4Z)-2-[(1R)-1-AMINO-2-MERCAPTOETHYL]-4-(4-HYDROXYBENZYLIDENE)-5-OXO-4,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC ACID" 
_chem_comp.type                                  "L-PEPTIDE LINKING" 
_chem_comp.pdbx_type                             ATOMP 
_chem_comp.formula                               "C14 H15 N3 O4 S" 
_chem_comp.mon_nstd_parent_comp_id               "CYS, TYR, GLY" 
_chem_comp.pdbx_synonyms                         "CHROMOPHORE (CYS-TYR-GLY)" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2006-05-30 
_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                        321.352 
_chem_comp.one_letter_code                       CYG 
_chem_comp.three_letter_code                     GYC 
_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                  RCSB 
_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 
GYC N1   N    N 0 1 N N N Y Y N -60.048 -8.465  3.931  -0.951 -2.310 -1.582 N    GYC 1  
GYC SG1  SG1  S 0 1 N N N N N N -62.583 -10.038 3.163  -2.967 -3.556 0.354  SG1  GYC 2  
GYC CB1  CB1  C 0 1 N N N N N N -61.771 -10.091 4.469  -2.084 -1.986 0.565  CB1  GYC 3  
GYC CA1  CA1  C 0 1 N N R Y N N -61.169 -8.732  4.814  -1.785 -1.380 -0.808 CA1  GYC 4  
GYC C1   C1   C 0 1 N N N Y N N -60.669 -8.609  6.230  -1.051 -0.075 -0.632 C1   GYC 5  
GYC N2   N2   N 0 1 N N N Y N N -60.586 -9.529  7.133  0.232  0.028  -0.481 N2   GYC 6  
GYC N3   N3   N 0 1 N N N Y N N -60.107 -7.431  6.709  -1.654 1.151  -0.618 N3   GYC 7  
GYC C2   C2   C 0 1 N N N Y N N -59.643 -7.615  8.003  -0.700 2.092  -0.442 C2   GYC 8  
GYC O2   O2   O 0 1 N N N Y N N -59.093 -6.701  8.659  -0.854 3.298  -0.376 O2   GYC 9  
GYC CA2  CA2  C 0 1 N N N Y N N -59.967 -8.998  8.247  0.567  1.347  -0.349 CA2  GYC 10 
GYC CA3  CA3  C 0 1 N N N Y N N -59.893 -6.154  5.995  -3.089 1.403  -0.768 CA3  GYC 11 
GYC CB2  CB2  C 0 1 N N N N N N -59.654 -9.606  9.454  1.829  1.870  -0.170 CB2  GYC 12 
GYC CG2  CG2  C 0 1 Y N N N N N -59.836 -10.912 9.919  2.974  0.975  0.011  CG2  GYC 13 
GYC CD1  CD1  C 0 1 Y N N N N N -60.452 -11.944 9.128  2.812  -0.412 -0.123 CD1  GYC 14 
GYC CD2  CD2  C 0 1 Y N N N N N -59.372 -11.253 11.239 4.239  1.501  0.313  CD2  GYC 15 
GYC CE1  CE1  C 0 1 Y N N N N N -60.598 -13.258 9.625  3.888  -1.245 0.046  CE1  GYC 16 
GYC CE2  CE2  C 0 1 Y N N N N N -59.518 -12.573 11.734 5.307  0.658  0.480  CE2  GYC 17 
GYC CZ   CZ   C 0 1 Y N N N N N -60.126 -13.579 10.936 5.139  -0.717 0.351  CZ   GYC 18 
GYC OH   OH   O 0 1 N N N N N N -60.239 -14.814 11.440 6.200  -1.546 0.518  OH   GYC 19 
GYC C3   C    C 0 1 N N N Y N Y -60.222 -4.824  6.586  -3.746 1.392  0.588  C    GYC 20 
GYC O3   O    O 0 1 N N N Y N Y -59.678 -3.823  6.169  -3.083 1.194  1.579  O    GYC 21 
GYC OXT  OXT  O 0 1 N Y N Y N Y -61.427 -4.889  7.046  -5.067 1.603  0.696  OXT  GYC 22 
GYC HXT  HXT  H 0 1 N Y N Y N Y -61.827 -4.028  7.009  -5.443 1.586  1.586  HXT  GYC 23 
GYC H    HN1  H 0 1 N N N Y Y N -59.651 -7.575  4.155  -0.078 -2.490 -1.110 HN1  GYC 24 
GYC H2   HN2  H 0 1 N Y N Y Y N -59.355 -9.177  4.047  -1.446 -3.169 -1.768 HN2  GYC 25 
GYC HG1  HG1  H 0 1 N N N N N N -62.999 -11.265 3.053  -3.160 -3.967 1.620  HG1  GYC 26 
GYC HB11 HB11 H 0 0 N N N N N N -62.438 -10.400 5.287  -2.702 -1.296 1.139  HB11 GYC 27 
GYC HB12 HB12 H 0 0 N N N N N N -60.955 -10.819 4.349  -1.149 -2.163 1.096  HB12 GYC 28 
GYC HA1  HA1  H 0 1 N N N Y N N -61.989 -8.009  4.692  -2.720 -1.203 -1.338 HA1  GYC 29 
GYC HA31 HA31 H 0 0 N N N Y N N -58.813 -6.118  5.789  -3.240 2.376  -1.237 HA31 GYC 30 
GYC HA32 HA32 H 0 0 N N N Y N N -60.510 -6.226  5.087  -3.531 0.626  -1.392 HA32 GYC 31 
GYC HB2  HB2  H 0 1 N N N N N N -59.181 -8.948  10.168 1.974  2.940  -0.162 HB2  GYC 32 
GYC HD1  HD1  H 0 1 N N N N N N -60.809 -11.710 8.136  1.842  -0.823 -0.360 HD1  GYC 33 
GYC HD2  HD2  H 0 1 N N N N N N -58.909 -10.497 11.856 4.371  2.568  0.413  HD2  GYC 34 
GYC HE1  HE1  H 0 1 N N N N N N -61.065 -14.018 9.016  3.764  -2.312 -0.057 HE1  GYC 35 
GYC HE2  HE2  H 0 1 N N N N N N -59.164 -12.816 12.725 6.281  1.062  0.712  HE2  GYC 36 
GYC HOH  HOH  H 0 1 N N N N N N -59.872 -14.834 12.316 6.691  -1.725 -0.295 HOH  GYC 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 
GYC N1  CA1  SING N N 1  
GYC N1  H    SING N N 2  
GYC N1  H2   SING N N 3  
GYC SG1 CB1  SING N N 4  
GYC SG1 HG1  SING N N 5  
GYC CB1 CA1  SING N N 6  
GYC CB1 HB11 SING N N 7  
GYC CB1 HB12 SING N N 8  
GYC CA1 C1   SING N N 9  
GYC CA1 HA1  SING N N 10 
GYC C1  N2   DOUB N N 11 
GYC C1  N3   SING N N 12 
GYC N2  CA2  SING N N 13 
GYC N3  C2   SING N N 14 
GYC N3  CA3  SING N N 15 
GYC C2  O2   DOUB N N 16 
GYC C2  CA2  SING N N 17 
GYC CA2 CB2  DOUB N Z 18 
GYC CA3 C3   SING N N 19 
GYC CA3 HA31 SING N N 20 
GYC CA3 HA32 SING N N 21 
GYC CB2 CG2  SING N N 22 
GYC CB2 HB2  SING N N 23 
GYC CG2 CD1  DOUB Y N 24 
GYC CG2 CD2  SING Y N 25 
GYC CD1 CE1  SING Y N 26 
GYC CD1 HD1  SING N N 27 
GYC CD2 CE2  DOUB Y N 28 
GYC CD2 HD2  SING N N 29 
GYC CE1 CZ   DOUB Y N 30 
GYC CE1 HE1  SING N N 31 
GYC CE2 CZ   SING Y N 32 
GYC CE2 HE2  SING N N 33 
GYC CZ  OH   SING N N 34 
GYC OH  HOH  SING N N 35 
GYC C3  O3   DOUB N N 36 
GYC C3  OXT  SING N N 37 
GYC OXT HXT  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 
GYC SMILES           ACDLabs              12.01 "O=C1C(\N=C(N1CC(=O)O)C(N)CS)=C\c2ccc(O)cc2"                                                                                              
GYC InChI            InChI                1.03  "InChI=1S/C14H15N3O4S/c15-10(7-22)13-16-11(14(21)17(13)6-12(19)20)5-8-1-3-9(18)4-2-8/h1-5,10,18,22H,6-7,15H2,(H,19,20)/b11-5-/t10-/m0/s1" 
GYC InChIKey         InChI                1.03  YINRVYIMXSNUJH-QIMWGGGBSA-N                                                                                                               
GYC SMILES_CANONICAL CACTVS               3.385 "N[C@@H](CS)C1=N\C(=C/c2ccc(O)cc2)C(=O)N1CC(O)=O"                                                                                         
GYC SMILES           CACTVS               3.385 "N[CH](CS)C1=NC(=Cc2ccc(O)cc2)C(=O)N1CC(O)=O"                                                                                             
GYC SMILES_CANONICAL "OpenEye OEToolkits" 1.7.5 "c1cc(ccc1/C=C\2/C(=O)N(C(=N2)[C@H](CS)N)CC(=O)O)O"                                                                                       
GYC SMILES           "OpenEye OEToolkits" 1.7.5 "c1cc(ccc1C=C2C(=O)N(C(=N2)C(CS)N)CC(=O)O)O"                                                                                              
# 
loop_
_pdbx_chem_comp_identifier.comp_id 
_pdbx_chem_comp_identifier.type 
_pdbx_chem_comp_identifier.program 
_pdbx_chem_comp_identifier.program_version 
_pdbx_chem_comp_identifier.identifier 
GYC "SYSTEMATIC NAME" ACDLabs              12.01 "[(4Z)-2-[(1R)-1-amino-2-sulfanylethyl]-4-(4-hydroxybenzylidene)-5-oxo-4,5-dihydro-1H-imidazol-1-yl]acetic acid"          
GYC "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.7.2 "2-[(4Z)-2-[(1R)-1-azanyl-2-sulfanyl-ethyl]-4-[(4-hydroxyphenyl)methylidene]-5-oxidanylidene-imidazol-1-yl]ethanoic 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 
GYC "Create component"   2006-05-30 RCSB 
GYC "Modify descriptor"  2011-06-04 RCSB 
GYC "Other modification" 2011-07-19 RCSB 
GYC "Modify descriptor"  2012-01-05 RCSB 
GYC "Modify coordinates" 2012-01-05 RCSB 
GYC "Modify synonyms"    2020-06-05 PDBE 
GYC "Modify backbone"    2023-11-03 PDBE 
GYC "Modify PCM"         2024-09-27 PDBE 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      GYC 
_pdbx_chem_comp_synonyms.name         "CHROMOPHORE (CYS-TYR-GLY)" 
_pdbx_chem_comp_synonyms.provenance   ? 
_pdbx_chem_comp_synonyms.type         ? 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            GYC 
_pdbx_chem_comp_pcm.modified_residue_id                "CYS, TYR, GLY" 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           Chromophore/chromophore-like 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain and backbone" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               ? 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   ? 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
