data_ZRF # _chem_comp.id ZRF _chem_comp.name "2-[(4E)-2-[(1S)-1-aminoethyl]-4-(hydroxymethylidene)-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 "C8 H11 N3 O4" _chem_comp.mon_nstd_parent_comp_id "ALA, SER, GLY" _chem_comp.pdbx_synonyms "2-[(4~{E})-2-(1-azanylethyl)-5-oxidanylidene-4-(oxidanylmethylidene)imidazol-1-yl]ethanoic acid" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-01-22 _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 213.191 _chem_comp.one_letter_code ASG _chem_comp.three_letter_code ZRF _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 PDBE _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 ZRF CB CB C 0 1 N N N N N N -0.467 2.844 0.379 -1.882 2.114 -1.118 CB ZRF 1 ZRF CA1 CA1 C 0 1 N N S N Y N 0.022 1.848 -0.660 -1.214 2.034 0.256 CA1 ZRF 2 ZRF N1 N1 N 0 1 N N N Y Y N -1.047 1.596 -1.651 -0.725 3.365 0.641 N1 ZRF 3 ZRF C1 C1 C 0 1 N N N N Y N 0.515 0.568 -0.045 -0.055 1.072 0.196 C1 ZRF 4 ZRF N2 N2 N 0 1 N N N N Y N 1.803 0.281 -0.017 1.138 1.389 -0.192 N2 ZRF 5 ZRF CA2 CA2 C 0 1 N N N N Y N 1.924 -0.971 0.609 1.945 0.282 -0.125 CA2 ZRF 6 ZRF CB2 CB2 C 0 1 N N N N N N 3.237 -1.627 0.814 3.266 0.206 -0.448 CB2 ZRF 7 ZRF O1 O1 O 0 1 N N N N N N 3.253 -2.797 1.407 3.923 -0.962 -0.326 O1 ZRF 8 ZRF C2 C2 C 0 1 N N N N Y N 0.565 -1.428 0.973 1.088 -0.806 0.369 C2 ZRF 9 ZRF O2 O2 O 0 1 N N N N Y N 0.198 -2.451 1.529 1.408 -1.963 0.575 O2 ZRF 10 ZRF N3 N3 N 0 1 N N N N Y N -0.264 -0.413 0.537 -0.128 -0.247 0.551 N3 ZRF 11 ZRF CA3 CA3 C 0 1 N N N N Y N -1.704 -0.461 0.700 -1.324 -0.937 1.041 CA3 ZRF 12 ZRF C3 C3 C 0 1 N N N N Y Y -2.356 -1.372 -0.311 -2.085 -1.513 -0.125 C3 ZRF 13 ZRF OXT OXT O 0 1 N Y N N Y Y -2.283 -0.875 -1.521 -3.223 -2.194 0.086 OXT ZRF 14 ZRF O3 O3 O 0 1 N N N N Y Y -2.874 -2.422 -0.019 -1.672 -1.362 -1.250 O3 ZRF 15 ZRF HB1 HB1 H 0 1 N N N N N N 0.330 3.029 1.114 -1.158 2.462 -1.855 HB1 ZRF 16 ZRF HB2 HB2 H 0 1 N N N N N N -0.735 3.789 -0.117 -2.244 1.126 -1.403 HB2 ZRF 17 ZRF HB3 HB3 H 0 1 N N N N N N -1.350 2.435 0.891 -2.720 2.809 -1.075 HB3 ZRF 18 ZRF HA1 HA1 H 0 1 N N N N Y N 0.869 2.312 -1.187 -1.938 1.686 0.993 HA1 ZRF 19 ZRF H H H 0 1 N N N Y Y N -0.722 0.941 -2.333 -1.484 4.029 0.688 H ZRF 20 ZRF H2 H2 H 0 1 N Y N Y Y N -1.851 1.223 -1.187 -0.223 3.327 1.515 H2 ZRF 21 ZRF HB21 HB21 H 0 0 N N N N N N 4.152 -1.157 0.485 3.787 1.084 -0.803 HB21 ZRF 22 ZRF H8 H8 H 0 1 N N N N N N 4.149 -3.105 1.476 4.859 -0.967 -0.568 H8 ZRF 23 ZRF HA31 HA31 H 0 0 N N N N Y N -1.935 -0.829 1.711 -1.028 -1.741 1.715 HA31 ZRF 24 ZRF HA32 HA32 H 0 0 N N N N Y N -2.110 0.554 0.577 -1.958 -0.230 1.576 HA32 ZRF 25 ZRF HXT HXT H 0 1 N Y N N Y Y -2.701 -1.469 -2.134 -3.676 -2.544 -0.693 HXT ZRF 26 # 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 ZRF CB CA1 SING N N 1 ZRF CA1 N1 SING N N 2 ZRF CA1 C1 SING N N 3 ZRF C1 N2 DOUB N N 4 ZRF N2 CA2 SING N N 5 ZRF CA2 CB2 DOUB N E 6 ZRF CB2 O1 SING N N 7 ZRF CA2 C2 SING N N 8 ZRF C2 O2 DOUB N N 9 ZRF C2 N3 SING N N 10 ZRF N3 CA3 SING N N 11 ZRF CA3 C3 SING N N 12 ZRF C3 OXT SING N N 13 ZRF C3 O3 DOUB N N 14 ZRF C1 N3 SING N N 15 ZRF CB HB1 SING N N 16 ZRF CB HB2 SING N N 17 ZRF CB HB3 SING N N 18 ZRF CA1 HA1 SING N N 19 ZRF N1 H SING N N 20 ZRF N1 H2 SING N N 21 ZRF CB2 HB21 SING N N 22 ZRF O1 H8 SING N N 23 ZRF CA3 HA31 SING N N 24 ZRF CA3 HA32 SING N N 25 ZRF OXT HXT SING N N 26 # 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 ZRF InChI InChI 1.06 "InChI=1S/C8H11N3O4/c1-4(9)7-10-5(3-12)8(15)11(7)2-6(13)14/h3-4,12H,2,9H2,1H3,(H,13,14)/b5-3+/t4-/m0/s1" ZRF InChIKey InChI 1.06 FVXPLHKMTPOASN-MXFQXMHVSA-N ZRF SMILES_CANONICAL CACTVS 3.385 "C[C@H](N)C1=N\C(=C\O)C(=O)N1CC(O)=O" ZRF SMILES CACTVS 3.385 "C[CH](N)C1=NC(=CO)C(=O)N1CC(O)=O" ZRF SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CC(C1=N/C(=C/O)/C(=O)N1CC(=O)O)N" ZRF SMILES "OpenEye OEToolkits" 2.0.7 "CC(C1=NC(=CO)C(=O)N1CC(=O)O)N" # _pdbx_chem_comp_identifier.comp_id ZRF _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-[(4~{E})-2-(1-azanylethyl)-5-oxidanylidene-4-(oxidanylmethylidene)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 ZRF "Create component" 2024-02-14 PDBE ZRF "Modify descriptor" 2024-02-14 PDBE ZRF "Other modification" 2024-02-14 PDBE ZRF "Initial release" 2024-06-26 RCSB ZRF "Other modification" 2024-09-26 PDBE ZRF "Modify PCM" 2024-09-27 PDBE # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id ZRF _pdbx_chem_comp_synonyms.name "2-[(4~{E})-2-(1-azanylethyl)-5-oxidanylidene-4-(oxidanylmethylidene)imidazol-1-yl]ethanoic acid" _pdbx_chem_comp_synonyms.provenance PDB _pdbx_chem_comp_synonyms.type ? # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id ZRF _pdbx_chem_comp_pcm.modified_residue_id "ALA, SER, 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 ? #