data_A1A48 # _chem_comp.id A1A48 _chem_comp.name "(4Z)-4-{(4Z)-1-(carboxymethyl)-4-[(1H-indol-3-yl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-2-yl}-4-iminobutanoic acid" _chem_comp.type "L-peptide linking" _chem_comp.pdbx_type ATOMP _chem_comp.formula "C18 H16 N4 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-09-09 _chem_comp.pdbx_modified_date 2025-07-04 _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 368.343 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1A48 _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 9CXP _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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1A48 C1 C1 C 0 1 N N N N N N -12.745 -18.827 10.000 5.736 -1.696 -0.193 C1 A1A48 1 A1A48 C10 C2 C 0 1 Y N N N N N -21.007 -16.594 6.973 -5.117 -1.332 0.219 C10 A1A48 2 A1A48 C11 C3 C 0 1 Y N N N N N -22.374 -16.431 7.180 -6.473 -1.624 0.324 C11 A1A48 3 A1A48 C12 C4 C 0 1 Y N N N N N -23.139 -16.054 6.098 -7.405 -0.619 0.181 C12 A1A48 4 A1A48 C13 C5 C 0 1 Y N N N N N -22.571 -15.845 4.842 -7.006 0.686 -0.067 C13 A1A48 5 A1A48 C14 C6 C 0 1 Y N N N N N -21.219 -16.009 4.634 -5.667 0.994 -0.174 C14 A1A48 6 A1A48 C15 C7 C 0 1 Y N N N N N -20.416 -16.394 5.712 -4.715 -0.011 -0.032 C15 A1A48 7 A1A48 C16 C8 C 0 1 N N N N Y N -15.767 -16.450 3.850 0.030 1.884 -0.551 C16 A1A48 8 A1A48 C17 C9 C 0 1 N N N N Y N -13.317 -16.073 3.780 2.537 1.826 -0.651 C17 A1A48 9 A1A48 C18 C10 C 0 1 N N N N Y Y -13.092 -16.819 2.468 3.110 2.159 0.702 C18 A1A48 10 A1A48 C2 C11 C 0 1 N N N N N N -12.627 -18.203 8.621 4.282 -2.032 0.023 C2 A1A48 11 A1A48 C3 C12 C 0 1 N N N N N N -13.931 -17.768 7.979 3.423 -0.809 -0.305 C3 A1A48 12 A1A48 C4 C13 C 0 1 N N N N Y N -13.738 -16.855 6.789 1.969 -1.145 -0.090 C4 A1A48 13 A1A48 C5 C14 C 0 1 N N N N Y N -14.714 -16.762 5.796 0.944 -0.101 -0.235 C5 A1A48 14 A1A48 C6 C15 C 0 1 N N N N Y N -16.720 -16.688 4.951 -1.001 0.860 -0.329 C6 A1A48 15 A1A48 C7 C16 C 0 1 N N N N N N -18.048 -16.557 4.829 -2.377 1.053 -0.311 C7 A1A48 16 A1A48 C8 C17 C 0 1 Y N N N N N -19.007 -16.666 5.872 -3.239 -0.040 -0.083 C8 A1A48 17 A1A48 C9 C18 C 0 1 Y N N N N N -18.816 -16.987 7.202 -2.874 -1.357 0.137 C9 A1A48 18 A1A48 N1 N1 N 0 1 N N N Y Y N -12.758 -15.973 6.749 1.623 -2.353 0.224 N1 A1A48 19 A1A48 N2 N2 N 0 1 N N N N Y N -16.015 -17.077 6.074 -0.344 -0.306 -0.148 N2 A1A48 20 A1A48 N3 N3 N 0 1 Y N N N N N -20.002 -16.958 7.850 -3.977 -2.107 0.318 N3 A1A48 21 A1A48 N4 N4 N 0 1 N N N N Y N -14.535 -16.424 4.475 1.210 1.229 -0.486 N4 A1A48 22 A1A48 O1 O1 O 0 1 N N N N N N -11.671 -19.119 10.558 6.679 -2.625 0.029 O1 A1A48 23 A1A48 O2 O2 O 0 1 N N N N N N -13.863 -19.026 10.531 6.051 -0.593 -0.570 O2 A1A48 24 A1A48 O3 O3 O 0 1 N N N N Y N -15.964 -16.228 2.667 -0.144 3.073 -0.755 O3 A1A48 25 A1A48 O5 O4 O 0 1 N N N N Y Y -12.014 -16.528 1.906 2.475 1.921 1.702 O5 A1A48 26 A1A48 H9 H1 H 0 1 N N N N N N -22.818 -16.594 8.151 -6.794 -2.637 0.516 H9 A1A48 27 A1A48 H10 H2 H 0 1 N N N N N N -24.203 -15.917 6.226 -8.457 -0.850 0.263 H10 A1A48 28 A1A48 H11 H3 H 0 1 N N N N N N -23.202 -15.549 4.017 -7.748 1.463 -0.177 H11 A1A48 29 A1A48 H12 H4 H 0 1 N N N N N N -20.788 -15.843 3.658 -5.358 2.010 -0.368 H12 A1A48 30 A1A48 H13 H5 H 0 1 N N N N Y N -13.346 -14.996 3.560 2.455 2.737 -1.245 H13 A1A48 31 A1A48 H14 H6 H 0 1 N N N N Y N -12.469 -16.288 4.446 3.193 1.119 -1.160 H14 A1A48 32 A1A48 H16 H7 H 0 1 N Y N N Y Y -12.250 -18.593 2.465 4.651 2.914 1.687 H16 A1A48 33 A1A48 H1 H8 H 0 1 N N N N N N -11.981 -17.317 8.706 4.000 -2.860 -0.627 H1 A1A48 34 A1A48 H2 H9 H 0 1 N N N N N N -12.153 -18.940 7.956 4.126 -2.317 1.063 H2 A1A48 35 A1A48 H3 H10 H 0 1 N N N N N N -14.472 -18.666 7.646 3.705 0.019 0.345 H3 A1A48 36 A1A48 H4 H11 H 0 1 N N N N N N -14.531 -17.237 8.733 3.579 -0.524 -1.346 H4 A1A48 37 A1A48 H6 H12 H 0 1 N N N N N N -18.427 -16.348 3.840 -2.787 2.039 -0.470 H6 A1A48 38 A1A48 H7 H13 H 0 1 N N N N N N -17.865 -17.225 7.655 -1.859 -1.726 0.163 H7 A1A48 39 A1A48 H5 H14 H 0 1 N Y N Y Y N -12.857 -15.338 5.983 0.684 -2.587 0.291 H5 A1A48 40 A1A48 H8 H15 H 0 1 N N N N N N -20.133 -17.168 8.819 -3.973 -3.061 0.489 H8 A1A48 41 A1A48 H15 H16 H 0 1 N N N N N N -11.849 -19.498 11.411 7.597 -2.364 -0.127 H15 A1A48 42 A1A48 O4 O5 O 0 1 N Y N N Y Y -13.071 -18.218 2.763 4.326 2.719 0.797 O4 A1A48 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 A1A48 O1 C1 SING N N 1 A1A48 C1 O2 DOUB N N 2 A1A48 C1 C2 SING N N 3 A1A48 C2 C3 SING N N 4 A1A48 C3 C4 SING N N 5 A1A48 C4 N1 DOUB N N 6 A1A48 C4 C5 SING N N 7 A1A48 C5 N2 DOUB N N 8 A1A48 N2 C6 SING N N 9 A1A48 C6 C7 DOUB N Z 10 A1A48 C7 C8 SING N N 11 A1A48 C8 C9 DOUB Y N 12 A1A48 C9 N3 SING Y N 13 A1A48 N3 C10 SING Y N 14 A1A48 C10 C11 DOUB Y N 15 A1A48 C11 C12 SING Y N 16 A1A48 C12 C13 DOUB Y N 17 A1A48 C13 C14 SING Y N 18 A1A48 C14 C15 DOUB Y N 19 A1A48 C6 C16 SING N N 20 A1A48 C16 O3 DOUB N N 21 A1A48 C16 N4 SING N N 22 A1A48 N4 C17 SING N N 23 A1A48 C17 C18 SING N N 24 A1A48 C18 O5 DOUB N N 25 A1A48 C5 N4 SING N N 26 A1A48 C8 C15 SING Y N 27 A1A48 C10 C15 SING Y N 28 A1A48 C11 H9 SING N N 29 A1A48 C12 H10 SING N N 30 A1A48 C13 H11 SING N N 31 A1A48 C14 H12 SING N N 32 A1A48 C17 H13 SING N N 33 A1A48 C17 H14 SING N N 34 A1A48 C2 H1 SING N N 35 A1A48 C2 H2 SING N N 36 A1A48 C3 H3 SING N N 37 A1A48 C3 H4 SING N N 38 A1A48 C7 H6 SING N N 39 A1A48 C9 H7 SING N N 40 A1A48 N1 H5 SING N N 41 A1A48 N3 H8 SING N N 42 A1A48 O1 H15 SING N N 43 A1A48 C18 O4 SING N N 44 A1A48 O4 H16 SING N N 45 # 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 A1A48 SMILES ACDLabs 14.52 "O=C1C(/N=C(C(=N)CCC(=O)O)N1CC(O)=O)=C/c1c[NH]c2ccccc21" A1A48 InChI InChI 1.06 "InChI=1S/C18H16N4O5/c19-12(5-6-15(23)24)17-21-14(18(27)22(17)9-16(25)26)7-10-8-20-13-4-2-1-3-11(10)13/h1-4,7-8,19-20H,5-6,9H2,(H,23,24)(H,25,26)/b14-7-,19-12-" A1A48 InChIKey InChI 1.06 QVDHEUVDWAUECU-OBDXYOGDSA-N A1A48 SMILES_CANONICAL CACTVS 3.385 "OC(=O)CCC(=N)C1=NC(=C\c2c[nH]c3ccccc23)/C(=O)N1CC(O)=O" A1A48 SMILES CACTVS 3.385 "OC(=O)CCC(=N)C1=NC(=Cc2c[nH]c3ccccc23)C(=O)N1CC(O)=O" A1A48 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "[H]/N=C(/CCC(=O)O)\C1=N/C(=C\c2c[nH]c3c2cccc3)/C(=O)N1CC(=O)O" A1A48 SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)c(c[nH]2)C=C3C(=O)N(C(=N3)C(=N)CCC(=O)O)CC(=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 A1A48 "SYSTEMATIC NAME" ACDLabs 14.52 "(4Z)-4-{(4Z)-1-(carboxymethyl)-4-[(1H-indol-3-yl)methylidene]-5-oxo-4,5-dihydro-1H-imidazol-2-yl}-4-iminobutanoic acid" A1A48 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "4-azanylidene-4-[(4~{Z})-1-(2-hydroxy-2-oxoethyl)-4-(1~{H}-indol-3-ylmethylidene)-5-oxidanylidene-imidazol-2-yl]butanoic 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 A1A48 "Create component" 2024-09-09 RCSB A1A48 "Modify backbone" 2024-09-25 PDBE A1A48 "Modify PCM" 2024-09-27 PDBE A1A48 "Initial release" 2025-07-09 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1A48 _pdbx_chem_comp_pcm.modified_residue_id "GLU, TRP, 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 ? #