data_A1IFI # _chem_comp.id A1IFI _chem_comp.name "(2~{S})-2-azanyl-3-[1,3-bis(naphthalen-2-ylmethyl)imidazol-4-yl]propanal" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C28 H26 N3 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 1 _chem_comp.pdbx_initial_date 2024-06-21 _chem_comp.pdbx_modified_date 2025-06-27 _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 436.525 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1IFI _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 9FSI _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 A1IFI C1 C1 C 0 1 N N N N N N 8.789 0.209 11.377 -0.929 1.059 -1.546 C1 A1IFI 1 A1IFI N N1 N 0 1 N N N Y Y N 12.158 -1.882 9.176 -1.903 -2.645 1.421 N A1IFI 2 A1IFI CA C2 C 0 1 N N S N Y N 10.714 -1.780 8.941 -2.310 -2.118 0.112 CA A1IFI 3 A1IFI C C3 C 0 1 N N N N Y Y 10.241 -2.804 7.901 -3.296 -3.063 -0.526 C A1IFI 4 A1IFI O O1 O 0 1 N N N N Y Y 9.319 -3.565 8.129 -3.360 -4.210 -0.154 O A1IFI 5 A1IFI CB C4 C 0 1 N N N N N N 10.329 -0.331 8.595 -1.080 -1.982 -0.788 CB A1IFI 6 A1IFI CG C5 C 0 1 Y N N N N N 10.719 0.593 9.718 -0.149 -0.945 -0.213 CG A1IFI 7 A1IFI ND1 N2 N 0 1 Y N N N N N 10.054 0.788 10.913 -0.094 0.380 -0.552 ND1 A1IFI 8 A1IFI CD2 C6 C 0 1 Y N N N N N 11.851 1.371 9.683 0.784 -1.143 0.738 CD2 A1IFI 9 A1IFI CE1 C7 C 0 1 Y N N N N N 10.802 1.739 11.572 0.876 0.945 0.200 CE1 A1IFI 10 A1IFI NE2 N3 N 1 1 Y N N N N N 11.903 2.121 10.838 1.396 0.028 0.969 NE2 A1IFI 11 A1IFI C10 C8 C 0 1 Y N N N N N 9.069 -2.411 16.488 -5.808 2.691 0.876 C10 A1IFI 12 A1IFI C11 C9 C 0 1 Y N N N N N 8.862 -1.673 17.666 -6.874 1.846 0.851 C11 A1IFI 13 A1IFI C2 C10 C 0 1 Y N N N N N 8.613 -0.292 17.595 -6.782 0.592 0.248 C2 A1IFI 14 A1IFI C3 C11 C 0 1 Y N N N N N 8.569 0.351 16.347 -5.624 0.177 -0.333 C3 A1IFI 15 A1IFI C4 C12 C 0 1 Y N N N N N 8.774 -0.385 15.166 -4.501 1.023 -0.327 C4 A1IFI 16 A1IFI C5 C13 C 0 1 Y N N N N N 8.714 0.252 13.913 -3.290 0.632 -0.922 C5 A1IFI 17 A1IFI C6 C14 C 0 1 Y N N N N N 8.897 -0.485 12.729 -2.227 1.482 -0.907 C6 A1IFI 18 A1IFI C7 C15 C 0 1 Y N N N N N 9.154 -1.865 12.806 -2.320 2.737 -0.309 C7 A1IFI 19 A1IFI C8 C16 C 0 1 Y N N N N N 9.221 -2.504 14.055 -3.477 3.149 0.277 C8 A1IFI 20 A1IFI C9 C17 C 0 1 Y N N N N N 9.026 -1.770 15.237 -4.596 2.300 0.281 C9 A1IFI 21 A1IFI C12 C18 C 0 1 N N N N N N 12.860 3.182 11.172 2.476 0.244 1.935 C12 A1IFI 22 A1IFI C13 C19 C 0 1 Y N N N N N 11.376 8.503 9.525 7.489 -0.660 -0.590 C13 A1IFI 23 A1IFI C14 C20 C 0 1 Y N N N N N 12.016 9.610 10.108 8.123 0.382 -1.195 C14 A1IFI 24 A1IFI C15 C21 C 0 1 Y N N N N N 13.008 9.416 11.083 7.562 1.657 -1.201 C15 A1IFI 25 A1IFI C16 C22 C 0 1 Y N N N N N 13.361 8.115 11.477 6.363 1.898 -0.603 C16 A1IFI 26 A1IFI C17 C23 C 0 1 Y N N N N N 12.731 7.003 10.887 5.678 0.847 0.031 C17 A1IFI 27 A1IFI C18 C24 C 0 1 Y N N N N N 13.085 5.700 11.278 4.439 1.057 0.659 C18 A1IFI 28 A1IFI C19 C25 C 0 1 Y N N N N N 12.451 4.583 10.706 3.805 0.015 1.263 C19 A1IFI 29 A1IFI C20 C26 C 0 1 Y N N N N N 11.459 4.786 9.724 4.366 -1.260 1.269 C20 A1IFI 30 A1IFI C21 C27 C 0 1 Y N N N N N 11.102 6.086 9.330 5.565 -1.501 0.671 C21 A1IFI 31 A1IFI C22 C28 C 0 1 Y N N N N N 11.736 7.198 9.908 6.250 -0.450 0.037 C22 A1IFI 32 A1IFI H12 H1 H 0 1 N N N N N N 8.046 1.016 11.458 -0.406 1.938 -1.922 H12 A1IFI 33 A1IFI H51 H51 H 0 1 N N N N N N 8.450 -0.528 10.634 -1.136 0.378 -2.372 H51 A1IFI 34 A1IFI H H3 H 0 1 N N N Y Y N 12.434 -1.203 9.857 -2.687 -2.684 2.055 H1 A1IFI 35 A1IFI H2 H2 H 0 1 N Y N Y Y N 12.377 -2.798 9.511 -1.469 -3.551 1.327 H4 A1IFI 36 A1IFI HA H6 H 0 1 N N N N Y N 10.205 -2.027 9.884 -2.775 -1.141 0.242 HA A1IFI 37 A1IFI HB1 H8 H 0 1 N N N N N N 10.851 -0.026 7.676 -0.564 -2.940 -0.847 HB1 A1IFI 38 A1IFI HB2 H9 H 0 1 N N N N N N 9.242 -0.272 8.437 -1.392 -1.675 -1.787 HB2 A1IFI 39 A1IFI HD2 H10 H 0 1 N N N N N N 12.578 1.391 8.884 1.001 -2.080 1.229 HD2 A1IFI 40 A1IFI HE1 H11 H 0 1 N N N N N N 10.555 2.136 12.545 1.169 1.984 0.171 HE1 A1IFI 41 A1IFI H10 H12 H 0 1 N N N N N N 9.261 -3.472 16.544 -5.894 3.660 1.346 H10 A1IFI 42 A1IFI H11 H13 H 0 1 N N N N N N 8.894 -2.167 18.626 -7.805 2.151 1.305 H11 A1IFI 43 A1IFI H22 H14 H 0 1 N N N N N N 8.455 0.275 18.500 -7.643 -0.059 0.243 H2 A1IFI 44 A1IFI H3 H15 H 0 1 N N N N N N 8.377 1.413 16.294 -5.568 -0.797 -0.796 H3 A1IFI 45 A1IFI H5 H16 H 0 1 N N N N N N 8.526 1.314 13.860 -3.203 -0.338 -1.389 H5 A1IFI 46 A1IFI H7 H17 H 0 1 N N N N N N 9.301 -2.436 11.901 -1.461 3.391 -0.310 H7 A1IFI 47 A1IFI H8 H18 H 0 1 N N N N N N 9.423 -3.564 14.107 -3.535 4.125 0.737 H8 A1IFI 48 A1IFI H32 H19 H 0 1 N N N N N N 13.824 2.933 10.705 2.429 1.267 2.309 H32 A1IFI 49 A1IFI H42 H20 H 0 1 N N N N N N 12.978 3.205 12.265 2.364 -0.452 2.766 H42 A1IFI 50 A1IFI H13 H21 H 0 1 N N N N N N 10.607 8.654 8.782 7.934 -1.644 -0.597 H13 A1IFI 51 A1IFI H14 H22 H 0 1 N N N N N N 11.745 10.611 9.806 9.075 0.218 -1.677 H14 A1IFI 52 A1IFI H15 H23 H 0 1 N N N N N N 13.500 10.267 11.530 8.085 2.467 -1.687 H15 A1IFI 53 A1IFI H16 H24 H 0 1 N N N N N N 14.117 7.967 12.234 5.940 2.892 -0.615 H16 A1IFI 54 A1IFI H18 H25 H 0 1 N N N N N N 13.851 5.556 12.025 3.992 2.040 0.664 H18 A1IFI 55 A1IFI H20 H26 H 0 1 N N N N N N 10.970 3.936 9.272 3.842 -2.070 1.755 H20 A1IFI 56 A1IFI H21 H27 H 0 1 N N N N N N 10.338 6.231 8.581 5.988 -2.495 0.684 H21 A1IFI 57 A1IFI OXT OXT O 0 1 N Y N N Y Y ? ? ? -4.103 -2.629 -1.507 O1 A1IFI 58 A1IFI HXT HXT H 0 1 N Y N N Y Y ? ? ? -4.719 -3.272 -1.885 H6 A1IFI 59 # 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 A1IFI C O DOUB N N 1 A1IFI C CA SING N N 2 A1IFI CB CA SING N N 3 A1IFI CB CG SING N N 4 A1IFI CA N SING N N 5 A1IFI C21 C20 DOUB Y N 6 A1IFI C21 C22 SING Y N 7 A1IFI C13 C22 DOUB Y N 8 A1IFI C13 C14 SING Y N 9 A1IFI CD2 CG DOUB Y N 10 A1IFI CD2 NE2 SING Y N 11 A1IFI CG ND1 SING Y N 12 A1IFI C20 C19 SING Y N 13 A1IFI C22 C17 SING Y N 14 A1IFI C14 C15 DOUB Y N 15 A1IFI C19 C12 SING N N 16 A1IFI C19 C18 DOUB Y N 17 A1IFI NE2 C12 SING N N 18 A1IFI NE2 CE1 DOUB Y N 19 A1IFI C17 C18 SING Y N 20 A1IFI C17 C16 DOUB Y N 21 A1IFI ND1 C1 SING N N 22 A1IFI ND1 CE1 SING Y N 23 A1IFI C15 C16 SING Y N 24 A1IFI C1 C6 SING N N 25 A1IFI C6 C7 DOUB Y N 26 A1IFI C6 C5 SING Y N 27 A1IFI C7 C8 SING Y N 28 A1IFI C5 C4 DOUB Y N 29 A1IFI C8 C9 DOUB Y N 30 A1IFI C4 C9 SING Y N 31 A1IFI C4 C3 SING Y N 32 A1IFI C9 C10 SING Y N 33 A1IFI C3 C2 DOUB Y N 34 A1IFI C10 C11 DOUB Y N 35 A1IFI C2 C11 SING Y N 36 A1IFI C1 H12 SING N N 37 A1IFI C1 H51 SING N N 38 A1IFI N H SING N N 39 A1IFI N H2 SING N N 40 A1IFI CA HA SING N N 41 A1IFI CB HB1 SING N N 42 A1IFI CB HB2 SING N N 43 A1IFI CD2 HD2 SING N N 44 A1IFI CE1 HE1 SING N N 45 A1IFI C10 H10 SING N N 46 A1IFI C11 H11 SING N N 47 A1IFI C2 H22 SING N N 48 A1IFI C3 H3 SING N N 49 A1IFI C5 H5 SING N N 50 A1IFI C7 H7 SING N N 51 A1IFI C8 H8 SING N N 52 A1IFI C12 H32 SING N N 53 A1IFI C12 H42 SING N N 54 A1IFI C13 H13 SING N N 55 A1IFI C14 H14 SING N N 56 A1IFI C15 H15 SING N N 57 A1IFI C16 H16 SING N N 58 A1IFI C18 H18 SING N N 59 A1IFI C20 H20 SING N N 60 A1IFI C21 H21 SING N N 61 A1IFI C OXT SING N N 62 A1IFI OXT HXT SING N N 63 # 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 A1IFI InChI InChI 1.06 "InChI=1S/C28H25N3O2/c29-27(28(32)33)15-26-18-30(16-20-9-11-22-5-1-3-7-24(22)13-20)19-31(26)17-21-10-12-23-6-2-4-8-25(23)14-21/h1-14,18-19,27H,15-17,29H2/p+1/t27-/m0/s1" A1IFI InChIKey InChI 1.06 INPXOHDCACMWLB-MHZLTWQESA-O A1IFI SMILES_CANONICAL CACTVS 3.385 "N[C@@H](Cc1c[n+](Cc2ccc3ccccc3c2)cn1Cc4ccc5ccccc5c4)C(O)=O" A1IFI SMILES CACTVS 3.385 "N[CH](Cc1c[n+](Cc2ccc3ccccc3c2)cn1Cc4ccc5ccccc5c4)C(O)=O" A1IFI SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc2cc(ccc2c1)Cn3c[n+](cc3C[C@@H](C(=O)O)N)Cc4ccc5ccccc5c4" A1IFI SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc2cc(ccc2c1)Cn3c[n+](cc3CC(C(=O)O)N)Cc4ccc5ccccc5c4" # _pdbx_chem_comp_identifier.comp_id A1IFI _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~{S})-2-azanyl-3-[1,3-bis(naphthalen-2-ylmethyl)imidazol-1-ium-4-yl]propanoic 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 A1IFI "Create component" 2024-06-21 PDBE A1IFI "Modify backbone" 2024-09-25 PDBE A1IFI "Modify PCM" 2024-09-27 PDBE A1IFI "Initial release" 2025-07-02 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1IFI _pdbx_chem_comp_pcm.modified_residue_id ? _pdbx_chem_comp_pcm.type None _pdbx_chem_comp_pcm.category "Non-standard residue" _pdbx_chem_comp_pcm.position "Amino-acid side chain" _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 ? #