data_4PDZ # _model_server_result.job_id xSwVqzm8WMl-8yc607bHSA _model_server_result.datetime_utc '2025-02-17 16:40:40' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 4pdz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":101}' # _entry.id 4PDZ # _exptl.entry_id 4PDZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 348.372 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-dimethoxy-12-methyl[1,3]benzodioxolo[5,6-c]phenanthridin-12-ium _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 110.97 _cell.angle_gamma 90 _cell.entry_id 4PDZ _cell.length_a 34.988 _cell.length_b 57.119 _cell.length_c 47.998 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PDZ _symmetry.cell_setting . _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id E _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 B SG CYS 85 B CYS 84 1_555 E C12 CTI . B CTI 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.831 ? metalc ? metalc1 A O SER 19 A SER 18 1_555 C CA CA . A CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc2 A O GLU 22 A GLU 21 1_555 C CA CA . A CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc3 A O ASP 24 A ASP 23 1_555 C CA CA . A CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.386 ? metalc ? metalc4 A O LYS 27 A LYS 26 1_555 C CA CA . A CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.58 ? metalc ? metalc5 A OE1 GLU 32 A GLU 31 1_555 C CA CA . A CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc6 A OE2 GLU 32 A GLU 31 1_555 C CA CA . A CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.441 ? metalc ? metalc7 A OD2 ASP 62 A ASP 61 1_555 D CA CA . A CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.095 ? metalc ? metalc8 A OD1 ASP 64 A ASP 63 1_555 D CA CA . A CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.385 ? metalc ? metalc9 A OD1 ASP 66 A ASP 65 1_555 D CA CA . A CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc10 A O GLU 68 A GLU 67 1_555 D CA CA . A CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.371 ? metalc ? metalc11 A OE1 GLU 73 A GLU 72 1_555 D CA CA . A CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.519 ? metalc ? metalc12 A OE2 GLU 73 A GLU 72 1_555 D CA CA . A CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.132 ? metalc ? metalc13 C CA CA . A CA 101 1_555 H O HOH . A HOH 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.453 ? metalc ? metalc14 D CA CA . A CA 102 1_555 H O HOH . A HOH 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.464 ? metalc ? metalc15 B O SER 19 B SER 18 1_555 F CA CA . B CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.369 ? metalc ? metalc16 B O GLU 22 B GLU 21 1_555 F CA CA . B CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc17 B O ASP 24 B ASP 23 1_555 F CA CA . B CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.507 ? metalc ? metalc18 B O LYS 27 B LYS 26 1_555 F CA CA . B CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.439 ? metalc ? metalc19 B OE1 GLU 32 B GLU 31 1_555 F CA CA . B CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.318 ? metalc ? metalc20 B OE2 GLU 32 B GLU 31 1_555 F CA CA . B CA 102 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.51 ? metalc ? metalc21 B OD1 ASP 62 B ASP 61 1_555 G CA CA . B CA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.302 ? metalc ? metalc22 B OD1 ASP 64 B ASP 63 1_555 G CA CA . B CA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.376 ? metalc ? metalc23 B OD2 ASP 64 B ASP 63 1_555 G CA CA . B CA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.037 ? metalc ? metalc24 B OD1 ASP 66 B ASP 65 1_555 G CA CA . B CA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.388 ? metalc ? metalc25 B O GLU 68 B GLU 67 1_555 G CA CA . B CA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.27 ? metalc ? metalc26 B OE1 GLU 73 B GLU 72 1_555 G CA CA . B CA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.468 ? metalc ? metalc27 B OE2 GLU 73 B GLU 72 1_555 G CA CA . B CA 103 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.608 ? metalc ? metalc28 F CA CA . B CA 102 1_555 I O HOH . B HOH 209 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.276 ? metalc ? metalc29 G CA CA . B CA 103 1_555 I O HOH . B HOH 220 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? # _chem_comp.formula 'C21 H18 N O4 1' _chem_comp.formula_weight 348.372 _chem_comp.id CTI _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-dimethoxy-12-methyl[1,3]benzodioxolo[5,6-c]phenanthridin-12-ium _chem_comp.type non-polymer _chem_comp.pdbx_synonyms chelerythrine # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 CTI doub 70 n y C1 C22 CTI sing 71 n y C2 C3 CTI sing 72 n y C2 C5 CTI sing 73 n y C3 C4 CTI doub 74 n y C3 C8 CTI sing 75 n y C4 C23 CTI sing 76 n y C5 C6 CTI doub 77 n y C5 N9 CTI sing 78 n y C6 C7 CTI sing 79 n y C6 C10 CTI sing 80 n y C7 C8 CTI doub 81 n y N9 C12 CTI doub 82 n y N9 C13 CTI sing 83 n n C10 C11 CTI doub 84 n y C10 C16 CTI sing 85 n y C11 C12 CTI sing 86 n y C11 C17 CTI sing 87 n y C14 C15 CTI sing 88 n y C14 C17 CTI doub 89 n y C14 O20 CTI sing 90 n n C15 C16 CTI doub 91 n y C17 O18 CTI sing 92 n n O18 C19 CTI sing 93 n n O20 C21 CTI sing 94 n n C22 C23 CTI doub 95 n y C22 O24 CTI sing 96 n n C23 O26 CTI sing 97 n n O24 C25 CTI sing 98 n n C25 O26 CTI sing 99 n n C1 H1 CTI sing 100 n n C4 H4 CTI sing 101 n n C7 H7 CTI sing 102 n n C8 H8 CTI sing 103 n n C12 H12 CTI sing 104 n n C13 H13 CTI sing 105 n n C13 H13A CTI sing 106 n n C13 H13B CTI sing 107 n n C15 H15 CTI sing 108 n n C16 H16 CTI sing 109 n n C19 H19 CTI sing 110 n n C19 H19A CTI sing 111 n n C19 H19B CTI sing 112 n n C21 H21 CTI sing 113 n n C21 H21A CTI sing 114 n n C21 H21B CTI sing 115 n n C25 H25 CTI sing 116 n n C25 H25A CTI sing 117 n n # _atom_sites.entry_id 4PDZ _atom_sites.fract_transf_matrix[1][1] 0.028581 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.010955 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017507 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.022312 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 CA A 1 101 1 CA CA . D 2 CA A 1 102 1 CA CA . E 3 CTI B 1 101 200 CTI CTI . F 2 CA B 1 102 1 CA CA . G 2 CA B 1 103 1 CA CA . H 4 HOH A 1 201 59 HOH HOH . H 4 HOH A 2 202 57 HOH HOH . H 4 HOH A 3 203 66 HOH HOH . H 4 HOH A 4 204 15 HOH HOH . H 4 HOH A 5 205 64 HOH HOH . H 4 HOH A 6 206 58 HOH HOH . H 4 HOH A 7 207 32 HOH HOH . H 4 HOH A 8 208 54 HOH HOH . H 4 HOH A 9 209 42 HOH HOH . H 4 HOH A 10 210 48 HOH HOH . H 4 HOH A 11 211 45 HOH HOH . H 4 HOH A 12 212 61 HOH HOH . H 4 HOH A 13 213 50 HOH HOH . H 4 HOH A 14 214 47 HOH HOH . H 4 HOH A 15 215 72 HOH HOH . H 4 HOH A 16 216 53 HOH HOH . H 4 HOH A 17 217 3 HOH HOH . H 4 HOH A 18 218 4 HOH HOH . H 4 HOH A 19 219 5 HOH HOH . H 4 HOH A 20 220 9 HOH HOH . H 4 HOH A 21 221 12 HOH HOH . H 4 HOH A 22 222 13 HOH HOH . H 4 HOH A 23 223 14 HOH HOH . H 4 HOH A 24 224 18 HOH HOH . H 4 HOH A 25 225 23 HOH HOH . H 4 HOH A 26 226 24 HOH HOH . H 4 HOH A 27 227 25 HOH HOH . H 4 HOH A 28 228 26 HOH HOH . H 4 HOH A 29 229 28 HOH HOH . H 4 HOH A 30 230 29 HOH HOH . H 4 HOH A 31 231 36 HOH HOH . H 4 HOH A 32 232 37 HOH HOH . H 4 HOH A 33 233 40 HOH HOH . H 4 HOH A 34 234 43 HOH HOH . H 4 HOH A 35 235 49 HOH HOH . H 4 HOH A 36 236 60 HOH HOH . H 4 HOH A 37 237 73 HOH HOH . I 4 HOH B 1 201 55 HOH HOH . I 4 HOH B 2 202 63 HOH HOH . I 4 HOH B 3 203 7 HOH HOH . I 4 HOH B 4 204 41 HOH HOH . I 4 HOH B 5 205 68 HOH HOH . I 4 HOH B 6 206 56 HOH HOH . I 4 HOH B 7 207 33 HOH HOH . I 4 HOH B 8 208 35 HOH HOH . I 4 HOH B 9 209 1 HOH HOH . I 4 HOH B 10 210 30 HOH HOH . I 4 HOH B 11 211 44 HOH HOH . I 4 HOH B 12 212 21 HOH HOH . I 4 HOH B 13 213 46 HOH HOH . I 4 HOH B 14 214 70 HOH HOH . I 4 HOH B 15 215 11 HOH HOH . I 4 HOH B 16 216 67 HOH HOH . I 4 HOH B 17 217 75 HOH HOH . I 4 HOH B 18 218 76 HOH HOH . I 4 HOH B 19 219 38 HOH HOH . I 4 HOH B 20 220 2 HOH HOH . I 4 HOH B 21 221 6 HOH HOH . I 4 HOH B 22 222 8 HOH HOH . I 4 HOH B 23 223 10 HOH HOH . I 4 HOH B 24 224 16 HOH HOH . I 4 HOH B 25 225 17 HOH HOH . I 4 HOH B 26 226 19 HOH HOH . I 4 HOH B 27 227 20 HOH HOH . I 4 HOH B 28 228 22 HOH HOH . I 4 HOH B 29 229 27 HOH HOH . I 4 HOH B 30 230 31 HOH HOH . I 4 HOH B 31 231 34 HOH HOH . I 4 HOH B 32 232 39 HOH HOH . I 4 HOH B 33 233 51 HOH HOH . I 4 HOH B 34 234 52 HOH HOH . I 4 HOH B 35 235 62 HOH HOH . I 4 HOH B 36 236 65 HOH HOH . I 4 HOH B 37 237 69 HOH HOH . I 4 HOH B 38 238 71 HOH HOH . I 4 HOH B 39 239 74 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 CTI . . . E 3 29.614 -23.177 36.81 1 31.54 ? C1 CTI 101 B 1 HETATM 2 C C2 CTI . . . E 3 30.797 -23.926 36.879 1 34.62 ? C2 CTI 101 B 1 HETATM 3 C C3 CTI . . . E 3 31.069 -24.894 35.9 1 34.36 ? C3 CTI 101 B 1 HETATM 4 C C4 CTI . . . E 3 30.173 -25.124 34.864 1 34.63 ? C4 CTI 101 B 1 HETATM 5 C C5 CTI . . . E 3 31.707 -23.712 37.912 1 33.75 ? C5 CTI 101 B 1 HETATM 6 C C6 CTI . . . E 3 32.863 -24.48 37.984 1 33 ? C6 CTI 101 B 1 HETATM 7 C C7 CTI . . . E 3 33.142 -25.424 37 1 37.38 ? C7 CTI 101 B 1 HETATM 8 C C8 CTI . . . E 3 32.237 -25.631 35.967 1 38.08 ? C8 CTI 101 B 1 HETATM 9 N N9 CTI . . . E 3 31.399 -22.728 38.904 1 34.94 ? N9 CTI 101 B 1 HETATM 10 C C10 CTI . . . E 3 33.798 -24.247 38.975 1 38.43 ? C10 CTI 101 B 1 HETATM 11 C C11 CTI . . . E 3 33.487 -23.455 40.054 1 35.41 ? C11 CTI 101 B 1 HETATM 12 C C12 CTI . . . E 3 32.08 -22.932 40.189 1 38.16 ? C12 CTI 101 B 1 HETATM 13 C C13 CTI . . . E 3 31.717 -21.358 38.434 1 36.99 ? C13 CTI 101 B 1 HETATM 14 C C14 CTI . . . E 3 35.728 -23.666 40.884 1 38.06 ? C14 CTI 101 B 1 HETATM 15 C C15 CTI . . . E 3 36.044 -24.451 39.778 1 39.52 ? C15 CTI 101 B 1 HETATM 16 C C16 CTI . . . E 3 35.085 -24.729 38.821 1 39.15 ? C16 CTI 101 B 1 HETATM 17 C C17 CTI . . . E 3 34.435 -23.178 41.034 1 39.52 ? C17 CTI 101 B 1 HETATM 18 O O18 CTI . . . E 3 34.08 -22.385 42.108 1 43.83 ? O18 CTI 101 B 1 HETATM 19 C C19 CTI . . . E 3 34.277 -22.794 43.464 1 43.13 ? C19 CTI 101 B 1 HETATM 20 O O20 CTI . . . E 3 36.722 -23.424 41.788 1 45.05 ? O20 CTI 101 B 1 HETATM 21 C C21 CTI . . . E 3 38.056 -23.796 41.436 1 48.96 ? C21 CTI 101 B 1 HETATM 22 C C22 CTI . . . E 3 28.747 -23.426 35.775 1 35.95 ? C22 CTI 101 B 1 HETATM 23 C C23 CTI . . . E 3 29.014 -24.363 34.83 1 34.45 ? C23 CTI 101 B 1 HETATM 24 O O24 CTI . . . E 3 27.551 -22.825 35.514 1 37.08 ? O24 CTI 101 B 1 HETATM 25 C C25 CTI . . . E 3 27.016 -23.409 34.308 1 38.21 ? C25 CTI 101 B 1 HETATM 26 O O26 CTI . . . E 3 27.988 -24.397 33.924 1 42.11 ? O26 CTI 101 B 1 # _model_server_stats.io_time_ms 69 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 26 #