data_CY5 # _chem_comp.id CY5 _chem_comp.name "[(2S)-2-[(1R)-1-AMINO-2-MERCAPTOETHYL]-4-(4-HYDROXYBENZYL)-5-OXO-2,5-DIHYDRO-1H-IMIDAZOL-1-YL]ACETIC ACID" _chem_comp.type "D-PEPTIDE LINKING" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C14 H17 N3 O4 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2007-05-22 _chem_comp.pdbx_modified_date 2026-02-13 _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 323.367 _chem_comp.one_letter_code C _chem_comp.three_letter_code CY5 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details "Corina V3.40" _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 ? # 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 CY5 CD1 CD1 C 0 1 Y N N N N N -6.279 33.536 19.300 3.181 0.455 -1.169 CD1 CY5 1 CY5 CE1 CE1 C 0 1 Y N N N N N -5.141 33.219 20.042 4.343 -0.096 -0.664 CE1 CY5 2 CY5 CZ CZ C 0 1 Y N N N N N -4.643 31.907 20.007 4.826 0.317 0.569 CZ CY5 3 CY5 OH OH O 0 1 N N N N N N -3.630 31.613 20.647 5.969 -0.223 1.068 OH CY5 4 CY5 CE2 CE2 C 0 1 Y N N N N N -5.267 30.917 19.252 4.141 1.283 1.292 CE2 CY5 5 CY5 CD2 CD2 C 0 1 Y N N N N N -6.397 31.234 18.509 2.979 1.831 0.783 CD2 CY5 6 CY5 CG2 CG2 C 0 1 Y N N N N N -6.914 32.532 18.559 2.500 1.418 -0.447 CG2 CY5 7 CY5 CB2 CB2 C 0 1 N N N N N N -8.030 32.892 17.819 1.233 2.017 -1.000 CB2 CY5 8 CY5 CA2 CA2 C 0 1 N N N N N N -9.245 32.237 17.581 0.051 1.201 -0.547 CA2 CY5 9 CY5 N2 N2 N 0 1 N N N N N N -10.304 32.865 17.106 0.120 0.162 0.192 N2 CY5 10 CY5 C2 C2 C 0 1 N N N N N N -9.626 30.890 17.733 -1.360 1.490 -0.890 C2 CY5 11 CY5 O2 O2 O 0 1 N N N N N N -8.974 29.933 18.156 -1.749 2.414 -1.575 O2 CY5 12 CY5 N3 N3 N 0 1 N N N N N N -10.898 30.798 17.348 -2.142 0.553 -0.313 N3 CY5 13 CY5 CA3 CA3 C 0 1 N N N N N N -11.803 29.626 17.368 -3.602 0.457 -0.391 CA3 CY5 14 CY5 C C C 0 1 N N N N N N -11.415 28.437 16.517 -4.215 1.134 0.808 C CY5 15 CY5 O O O 0 1 N N N N N N -11.910 27.353 16.831 -3.512 1.727 1.592 O CY5 16 CY5 C1 C1 C 0 1 N N S N N N -11.287 32.012 16.969 -1.236 -0.349 0.412 C1 CY5 17 CY5 CA1 CA1 C 0 1 N N R N N N -12.650 32.430 16.482 -1.357 -1.772 -0.137 CA1 CY5 18 CY5 N N N 0 1 N N N N N N -13.524 32.369 17.688 -0.979 -1.783 -1.556 N CY5 19 CY5 CB1 CB1 C 0 1 N N N N N N -12.541 33.873 15.965 -0.426 -2.701 0.645 CB1 CY5 20 CY5 SG SG S 0 1 N N N N N N -14.153 34.499 15.414 -0.568 -4.388 -0.005 SG CY5 21 CY5 OXT OXT O 0 1 N Y N N N N -10.740 28.533 15.679 -5.541 1.079 1.005 OXT CY5 22 CY5 HD1 HD1 H 0 1 N N N N N N -6.666 34.544 19.297 2.807 0.137 -2.131 HD1 CY5 23 CY5 HE1 HE1 H 0 1 N N N N N N -4.649 33.974 20.637 4.874 -0.848 -1.228 HE1 CY5 24 CY5 HOH HOH H 0 1 N N N N N N -2.891 31.537 20.054 6.772 0.253 0.816 HOH CY5 25 CY5 HE2 HE2 H 0 1 N N N N N N -4.875 29.911 19.244 4.515 1.606 2.252 HE2 CY5 26 CY5 HD2 HD2 H 0 1 N N N N N N -6.873 30.483 17.897 2.445 2.583 1.345 HD2 CY5 27 CY5 HB21 1HB2 H 0 0 N N N N N N -8.352 33.823 18.308 1.128 3.041 -0.640 HB21 CY5 28 CY5 HB22 2HB2 H 0 0 N N N N N N -7.592 32.744 16.821 1.278 2.019 -2.089 HB22 CY5 29 CY5 HA31 1HA3 H 0 0 N N N N N N -11.849 29.274 18.409 -3.950 0.944 -1.301 HA31 CY5 30 CY5 HA32 2HA3 H 0 0 N N N N N N -12.751 29.987 16.943 -3.897 -0.592 -0.405 HA32 CY5 31 CY5 HXT HXT H 0 1 N Y N N N N -10.618 27.684 15.271 -5.888 1.529 1.787 HXT CY5 32 CY5 H1 H1 H 0 1 N N N N N N -12.274 31.895 16.497 -1.473 -0.337 1.476 H1 CY5 33 CY5 HA1 HA1 H 0 1 N N N N N N -13.046 31.799 15.673 -2.385 -2.116 -0.032 HA1 CY5 34 CY5 HN1 1HN H 0 1 N N N N N N -12.956 32.355 18.511 -1.629 -1.243 -2.108 HN1 CY5 35 CY5 HN2 2HN H 0 1 N N N N N N -14.121 33.171 17.708 -0.035 -1.449 -1.682 HN2 CY5 36 CY5 HB11 1HB1 H 0 0 N N N N N N -12.169 34.515 16.777 0.603 -2.356 0.540 HB11 CY5 37 CY5 HB12 2HB1 H 0 0 N N N N N N -11.851 33.885 15.108 -0.706 -2.693 1.699 HB12 CY5 38 CY5 HSG HSG H 0 1 N N N N N N -14.935 34.649 16.442 0.290 -5.082 0.763 HSG CY5 39 # 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 CY5 CD1 CG2 SING Y N 1 CY5 CD1 CE1 DOUB Y N 2 CY5 CD1 HD1 SING N N 3 CY5 CE1 CZ SING Y N 4 CY5 CE1 HE1 SING N N 5 CY5 CZ CE2 DOUB Y N 6 CY5 CZ OH SING N N 7 CY5 OH HOH SING N N 8 CY5 CE2 CD2 SING Y N 9 CY5 CE2 HE2 SING N N 10 CY5 CD2 CG2 DOUB Y N 11 CY5 CD2 HD2 SING N N 12 CY5 CG2 CB2 SING N N 13 CY5 CB2 CA2 SING N N 14 CY5 CB2 HB21 SING N N 15 CY5 CB2 HB22 SING N N 16 CY5 CA2 N2 DOUB N N 17 CY5 CA2 C2 SING N N 18 CY5 N2 C1 SING N N 19 CY5 C2 N3 SING N N 20 CY5 C2 O2 DOUB N N 21 CY5 N3 C1 SING N N 22 CY5 N3 CA3 SING N N 23 CY5 CA3 C SING N N 24 CY5 CA3 HA31 SING N N 25 CY5 CA3 HA32 SING N N 26 CY5 C O DOUB N N 27 CY5 C OXT SING N N 28 CY5 C1 CA1 SING N N 29 CY5 C1 H1 SING N N 30 CY5 CA1 CB1 SING N N 31 CY5 CA1 N SING N N 32 CY5 CA1 HA1 SING N N 33 CY5 N HN1 SING N N 34 CY5 N HN2 SING N N 35 CY5 CB1 SG SING N N 36 CY5 CB1 HB11 SING N N 37 CY5 CB1 HB12 SING N N 38 CY5 SG HSG SING N N 39 CY5 OXT HXT SING N N 40 # 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 CY5 SMILES ACDLabs 10.04 "O=C1C(=NC(N1CC(=O)O)C(N)CS)Cc2ccc(O)cc2" CY5 SMILES_CANONICAL CACTVS 3.341 "N[C@@H](CS)[C@H]1N=C(Cc2ccc(O)cc2)C(=O)N1CC(O)=O" CY5 SMILES CACTVS 3.341 "N[CH](CS)[CH]1N=C(Cc2ccc(O)cc2)C(=O)N1CC(O)=O" CY5 SMILES_CANONICAL "OpenEye OEToolkits" 1.5.0 "c1cc(ccc1CC2=NC(N(C2=O)CC(=O)O)[C@H](CS)N)O" CY5 SMILES "OpenEye OEToolkits" 1.5.0 "c1cc(ccc1CC2=NC(N(C2=O)CC(=O)O)C(CS)N)O" CY5 InChI InChI 1.03 "InChI=1S/C14H17N3O4S/c15-10(7-22)13-16-11(14(21)17(13)6-12(19)20)5-8-1-3-9(18)4-2-8/h1-4,10,13,18,22H,5-7,15H2,(H,19,20)/t10-,13-/m0/s1" CY5 InChIKey InChI 1.03 HBCPMVTWUFZRTI-GWCFXTLKSA-N # 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 CY5 "SYSTEMATIC NAME" ACDLabs 10.04 "[(2S)-2-[(1R)-1-amino-2-sulfanylethyl]-4-(4-hydroxybenzyl)-5-oxo-2,5-dihydro-1H-imidazol-1-yl]acetic acid" CY5 "SYSTEMATIC NAME" "OpenEye OEToolkits" 1.5.0 "2-[2-[(1R)-1-amino-2-sulfanyl-ethyl]-4-[(4-hydroxyphenyl)methyl]-5-oxo-2H-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 CY5 "Create component" 2007-05-22 RCSB CY5 "Modify descriptor" 2011-06-04 RCSB CY5 "Initial release" 2026-02-18 RCSB #