data_QYX # _chem_comp.id QYX _chem_comp.name "2-[4-[(4-hydroxyphenyl)methyl]-2-(3-methylsulfanylpropanimidoyl)-5-oxidanylidene-imidazol-1-ium-1-yl]ethanoic acid" _chem_comp.type "L-peptide linking" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C16 H18 N3 O4 S" _chem_comp.mon_nstd_parent_comp_id "MET, TYR, GLY" _chem_comp.pdbx_synonyms "CHROMOPHORE (MET-TYR-GLY)" _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2022-11-18 _chem_comp.pdbx_modified_date 2023-11-03 _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 348.397 _chem_comp.one_letter_code MYG _chem_comp.three_letter_code QYX _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 8BGL _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # 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 QYX N1 N1 N 0 1 N N N Y Y N -39.199 19.217 -21.532 -0.732 2.131 -0.449 N1 QYX 1 QYX CE CE C 0 1 N N N N N N -41.596 19.464 -25.437 -5.750 3.834 -0.001 CE QYX 2 QYX SD SD S 0 1 N N N N N N -41.263 17.729 -25.131 -5.174 2.127 0.212 SD QYX 3 QYX CG1 CG1 C 0 1 N N N N N N -41.570 17.689 -23.354 -3.382 2.269 -0.025 CG1 QYX 4 QYX CB1 CB1 C 0 1 N N N N N N -40.331 17.394 -22.521 -2.737 0.890 0.126 CB1 QYX 5 QYX CA1 CA1 C 0 1 N N N Y N N -40.116 18.289 -21.328 -1.247 1.007 -0.071 CA1 QYX 6 QYX C1 C1 C 0 1 N N N Y N N -40.588 17.843 -19.984 -0.377 -0.160 0.167 C1 QYX 7 QYX N2 N2 N 0 1 N N N Y N N -41.501 16.933 -19.872 0.990 -0.121 0.147 N2 QYX 8 QYX OH OH O 0 1 N N N N N N -43.137 13.452 -12.863 6.171 2.775 -0.511 OH QYX 9 QYX CD2 CD2 C 0 1 Y N N N N N -42.712 16.027 -15.463 4.179 -0.214 -1.086 CD2 QYX 10 QYX CE2 CE2 C 0 1 Y N N N N N -42.841 15.425 -14.223 4.978 0.887 -1.329 CE2 QYX 11 QYX CZ CZ C 0 1 Y N N N N N -43.001 14.054 -14.122 5.385 1.692 -0.275 CZ QYX 12 QYX CE1 CE1 C 0 1 Y N N N N N -43.024 13.282 -15.270 4.990 1.389 1.020 CE1 QYX 13 QYX CD1 CD1 C 0 1 Y N N N N N -42.889 13.889 -16.508 4.192 0.287 1.257 CD1 QYX 14 QYX CG2 CG2 C 0 1 Y N N N N N -42.723 15.262 -16.618 3.782 -0.511 0.204 CG2 QYX 15 QYX CB2 CB2 C 0 1 N N N N N N -42.593 15.862 -17.943 2.911 -1.713 0.466 CB2 QYX 16 QYX CA2 CA2 C 0 1 N N N Y N N -41.709 16.726 -18.499 1.461 -1.307 0.393 CA2 QYX 17 QYX C2 C2 C 0 1 N N N Y N N -40.813 17.653 -17.747 0.262 -2.190 0.590 C2 QYX 18 QYX O2 O2 O 0 1 N N N Y N N -40.637 17.837 -16.559 0.255 -3.377 0.840 O2 QYX 19 QYX N3 N3 N 1 1 N N N Y N N -40.125 18.327 -18.754 -0.816 -1.371 0.432 N3 QYX 20 QYX CA3 CA3 C 0 1 N N N Y N N -39.120 19.321 -18.432 -2.221 -1.772 0.536 CA3 QYX 21 QYX C3 C3 C 0 1 N N N Y N Y -39.478 20.707 -18.928 -2.539 -2.772 -0.545 C3 QYX 22 QYX O3 O3 O 0 1 N N N Y N Y -38.598 21.604 -19.004 -1.681 -3.115 -1.323 O3 QYX 23 QYX H HN11 H 0 0 N Y N Y Y N -38.850 19.594 -20.674 0.227 2.207 -0.576 HN11 QYX 24 QYX HE1A HE1A H 0 0 N N N N N N -41.455 19.682 -26.506 -6.833 3.871 0.122 HE1A QYX 25 QYX HE2A HE2A H 0 0 N N N N N N -42.633 19.694 -25.150 -5.278 4.473 0.745 HE2A QYX 26 QYX HE3 HE3 H 0 1 N N N N N N -40.905 20.080 -24.843 -5.486 4.185 -0.999 HE3 QYX 27 QYX HG11 HG11 H 0 0 N N N N N N -41.967 18.668 -23.049 -3.177 2.658 -1.022 HG11 QYX 28 QYX HG12 HG12 H 0 0 N N N N N N -42.319 16.910 -23.149 -2.968 2.947 0.722 HG12 QYX 29 QYX HB11 HB11 H 0 0 N N N N N N -40.407 16.359 -22.157 -2.941 0.500 1.123 HB11 QYX 30 QYX HB12 HB12 H 0 0 N N N N N N -39.453 17.488 -23.177 -3.150 0.212 -0.621 HB12 QYX 31 QYX HOH HOH H 0 1 N N N N N N -43.100 14.119 -12.187 5.678 3.589 -0.682 HOH QYX 32 QYX HD2 HD2 H 0 1 N N N N N N -42.602 17.099 -15.530 3.861 -0.841 -1.906 HD2 QYX 33 QYX HE2 HE2 H 0 1 N N N N N N -42.817 16.029 -13.328 5.284 1.120 -2.338 HE2 QYX 34 QYX HE1 HE1 H 0 1 N N N N N N -43.147 12.211 -15.201 5.307 2.014 1.842 HE1 QYX 35 QYX HD1 HD1 H 0 1 N N N N N N -42.913 13.284 -17.402 3.884 0.050 2.265 HD1 QYX 36 QYX HB2 HB2 H 0 1 N N N N N N -43.559 16.370 -18.083 3.112 -2.478 -0.284 HB2 QYX 37 QYX H15 H15 H 0 1 N N N N N N -42.539 14.988 -18.608 3.128 -2.110 1.457 H15 QYX 38 QYX HA31 HA31 H 0 0 N N N Y N N -38.168 19.019 -18.893 -2.399 -2.224 1.513 HA31 QYX 39 QYX HA32 HA32 H 0 0 N N N Y N N -39.003 19.359 -17.339 -2.858 -0.896 0.420 HA32 QYX 40 QYX OXT OXT O 0 1 N Y N Y N Y -40.495 20.927 -19.218 -3.777 -3.282 -0.644 OXT QYX 41 QYX HXT HXT H 0 1 N Y N Y N Y -40.555 21.831 -19.503 -3.934 -3.921 -1.354 HXT QYX 42 # 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 QYX CE SD SING N N 1 QYX SD CG1 SING N N 2 QYX CG1 CB1 SING N N 3 QYX CB1 CA1 SING N N 4 QYX N1 CA1 DOUB N N 5 QYX CA1 C1 SING N N 6 QYX C1 N2 SING N N 7 QYX C1 N3 DOUB N N 8 QYX N2 CA2 DOUB N N 9 QYX O3 C3 DOUB N N 10 QYX C3 CA3 SING N N 11 QYX N3 CA3 SING N N 12 QYX N3 C2 SING N N 13 QYX CA2 CB2 SING N N 14 QYX CA2 C2 SING N N 15 QYX CB2 CG2 SING N N 16 QYX C2 O2 DOUB N N 17 QYX CG2 CD1 DOUB Y N 18 QYX CG2 CD2 SING Y N 19 QYX CD1 CE1 SING Y N 20 QYX CD2 CE2 DOUB Y N 21 QYX CE1 CZ DOUB Y N 22 QYX CE2 CZ SING Y N 23 QYX CZ OH SING N N 24 QYX N1 H SING N N 25 QYX CE HE1A SING N N 26 QYX CE HE2A SING N N 27 QYX CE HE3 SING N N 28 QYX CG1 HG11 SING N N 29 QYX CG1 HG12 SING N N 30 QYX CB1 HB11 SING N N 31 QYX CB1 HB12 SING N N 32 QYX OH HOH SING N N 33 QYX CD2 HD2 SING N N 34 QYX CE2 HE2 SING N N 35 QYX CE1 HE1 SING N N 36 QYX CD1 HD1 SING N N 37 QYX CB2 HB2 SING N N 38 QYX CB2 H15 SING N N 39 QYX CA3 HA31 SING N N 40 QYX CA3 HA32 SING N N 41 QYX C3 OXT SING N N 42 QYX OXT HXT SING N N 43 # 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 QYX InChI InChI 1.06 "InChI=1S/C16H17N3O4S/c1-24-7-6-12(17)15-18-13(16(23)19(15)9-14(21)22)8-10-2-4-11(20)5-3-10/h2-5,17H,6-9H2,1H3,(H-,20,21,22)/p+1/b17-12-" QYX InChIKey InChI 1.06 NWLFIBLWZFPHLC-ATVHPVEESA-O QYX SMILES_CANONICAL CACTVS 3.385 "CSCCC(=N)C1=[N+](CC(O)=O)C(=O)C(=N1)Cc2ccc(O)cc2" QYX SMILES CACTVS 3.385 "CSCCC(=N)C1=[N+](CC(O)=O)C(=O)C(=N1)Cc2ccc(O)cc2" QYX SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "[H]/N=C(/CCSC)\C1=[N+](C(=O)C(=N1)Cc2ccc(cc2)O)CC(=O)O" QYX SMILES "OpenEye OEToolkits" 3.1.0.0 "CSCCC(=N)C1=[N+](C(=O)C(=N1)Cc2ccc(cc2)O)CC(=O)O" # _pdbx_chem_comp_identifier.comp_id QYX _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 3.1.0.0 _pdbx_chem_comp_identifier.identifier "2-[4-[(4-hydroxyphenyl)methyl]-2-(3-methylsulfanylpropanimidoyl)-5-oxidanylidene-imidazol-1-ium-1-yl]ethanoic acid" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id QYX _pdbx_chem_comp_synonyms.name "CHROMOPHORE (MET-TYR-GLY)" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site QYX "Create component" 2022-11-18 PDBE QYX "Modify aromatic_flag" 2022-11-19 PDBE QYX "Initial release" 2023-02-15 RCSB QYX "Modify backbone" 2023-11-03 PDBE #