data_5ZLE # _model_server_result.job_id 3t6QWxLOEGE3RSXrBAQH4Q _model_server_result.datetime_utc '2025-02-05 16:46:52' _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 5zle # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":402}' # _entry.id 5ZLE # _exptl.entry_id 5ZLE _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 118.45 _cell.angle_gamma 90 _cell.entry_id 5ZLE _cell.length_a 64.45 _cell.length_b 115.94 _cell.length_c 48.43 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ZLE _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 41.378352 0 42.581263 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N 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 metalc ? metalc1 A NE2 HIS 50 A HIS 50 1_555 B FE HEM . A HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.973 ? metalc ? metalc2 A NE2 HIS 86 A HIS 86 1_555 C FE HEM . A HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc3 A NE2 HIS 120 A HIS 120 1_555 B FE HEM . A HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? metalc ? metalc4 A NE2 HIS 159 A HIS 159 1_555 C FE HEM . A HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? # _chem_comp.formula 'C34 H32 Fe N4 O4' _chem_comp.formula_weight 616.487 _chem_comp.id HEM _chem_comp.mon_nstd_flag . _chem_comp.name 'PROTOPORPHYRIN IX CONTAINING FE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms HEME # 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 CHA C1A HEM sing 129 n n CHA C4D HEM doub 130 n n CHA HHA HEM sing 131 n n CHB C4A HEM sing 132 n n CHB C1B HEM doub 133 n n CHB HHB HEM sing 134 n n CHC C4B HEM sing 135 n n CHC C1C HEM doub 136 n n CHC HHC HEM sing 137 n n CHD C4C HEM doub 138 n n CHD C1D HEM sing 139 n n CHD HHD HEM sing 140 n n C1A C2A HEM doub 141 n y C1A NA HEM sing 142 n y C2A C3A HEM sing 143 n y C2A CAA HEM sing 144 n n C3A C4A HEM doub 145 n y C3A CMA HEM sing 146 n n C4A NA HEM sing 147 n y CMA HMA HEM sing 148 n n CMA HMAA HEM sing 149 n n CMA HMAB HEM sing 150 n n CAA CBA HEM sing 151 n n CAA HAA HEM sing 152 n n CAA HAAA HEM sing 153 n n CBA CGA HEM sing 154 n n CBA HBA HEM sing 155 n n CBA HBAA HEM sing 156 n n CGA O1A HEM doub 157 n n CGA O2A HEM sing 158 n n C1B C2B HEM sing 159 n n C1B NB HEM sing 160 n n C2B C3B HEM doub 161 n n C2B CMB HEM sing 162 n n C3B C4B HEM sing 163 n n C3B CAB HEM sing 164 n n C4B NB HEM doub 165 n n CMB HMB HEM sing 166 n n CMB HMBA HEM sing 167 n n CMB HMBB HEM sing 168 n n CAB CBB HEM doub 169 n n CAB HAB HEM sing 170 n n CBB HBB HEM sing 171 n n CBB HBBA HEM sing 172 n n C1C C2C HEM sing 173 n y C1C NC HEM sing 174 n y C2C C3C HEM doub 175 n y C2C CMC HEM sing 176 n n C3C C4C HEM sing 177 n y C3C CAC HEM sing 178 n n C4C NC HEM sing 179 n y CMC HMC HEM sing 180 n n CMC HMCA HEM sing 181 n n CMC HMCB HEM sing 182 n n CAC CBC HEM doub 183 n n CAC HAC HEM sing 184 n n CBC HBC HEM sing 185 n n CBC HBCA HEM sing 186 n n C1D C2D HEM sing 187 n n C1D ND HEM doub 188 n n C2D C3D HEM doub 189 n n C2D CMD HEM sing 190 n n C3D C4D HEM sing 191 n n C3D CAD HEM sing 192 n n C4D ND HEM sing 193 n n CMD HMD HEM sing 194 n n CMD HMDA HEM sing 195 n n CMD HMDB HEM sing 196 n n CAD CBD HEM sing 197 n n CAD HAD HEM sing 198 n n CAD HADA HEM sing 199 n n CBD CGD HEM sing 200 n n CBD HBD HEM sing 201 n n CBD HBDA HEM sing 202 n n CGD O1D HEM doub 203 n n CGD O2D HEM sing 204 n n O2A H2A HEM sing 205 n n O2D H2D HEM sing 206 n n FE NA HEM sing 207 n n FE NB HEM sing 208 n n FE NC HEM sing 209 n n FE ND HEM sing 210 n n # _atom_sites.entry_id 5ZLE _atom_sites.fract_transf_matrix[1][1] 0.015516 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008407 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008625 _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] 0.023484 _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 B 2 HEM A 1 401 401 HEM HEM . C 2 HEM A 1 402 402 HEM HEM . D 3 HOH A 1 501 505 HOH HOH . D 3 HOH A 2 502 501 HOH HOH . D 3 HOH A 3 503 503 HOH HOH . D 3 HOH A 4 504 502 HOH HOH . D 3 HOH A 5 505 504 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 CHA HEM . . . C 2 13.736 50.408 10.796 1 27.04 ? CHA HEM 402 A 1 HETATM 2 C CHB HEM . . . C 2 13.465 45.628 11.467 1 17.09 ? CHB HEM 402 A 1 HETATM 3 C CHC HEM . . . C 2 9.728 45.385 8.296 1 22.85 ? CHC HEM 402 A 1 HETATM 4 C CHD HEM . . . C 2 9.79 50.263 8.029 1 30.81 ? CHD HEM 402 A 1 HETATM 5 C C1A HEM . . . C 2 13.967 49.119 11.204 1 21.83 ? C1A HEM 402 A 1 HETATM 6 C C2A HEM . . . C 2 15.003 48.787 12.09 1 19.95 ? C2A HEM 402 A 1 HETATM 7 C C3A HEM . . . C 2 14.945 47.442 12.295 1 19.49 ? C3A HEM 402 A 1 HETATM 8 C C4A HEM . . . C 2 13.854 46.948 11.537 1 20.09 ? C4A HEM 402 A 1 HETATM 9 C CMA HEM . . . C 2 15.86 46.605 13.154 1 17.86 ? CMA HEM 402 A 1 HETATM 10 C CAA HEM . . . C 2 15.979 49.794 12.644 1 23.99 ? CAA HEM 402 A 1 HETATM 11 C CBA HEM . . . C 2 17.108 49.845 11.619 1 21.32 ? CBA HEM 402 A 1 HETATM 12 C CGA HEM . . . C 2 17.885 51.133 11.526 1 23.31 ? CGA HEM 402 A 1 HETATM 13 O O1A HEM . . . C 2 18.169 51.815 12.523 1 23.38 ? O1A HEM 402 A 1 HETATM 14 O O2A HEM . . . C 2 18.296 51.501 10.411 1 31.09 ? O2A HEM 402 A 1 HETATM 15 C C1B HEM . . . C 2 12.416 45.198 10.644 1 19.07 ? C1B HEM 402 A 1 HETATM 16 C C2B HEM . . . C 2 12.112 43.814 10.527 1 24.36 ? C2B HEM 402 A 1 HETATM 17 C C3B HEM . . . C 2 11.062 43.705 9.649 1 23.02 ? C3B HEM 402 A 1 HETATM 18 C C4B HEM . . . C 2 10.75 45.089 9.209 1 20.63 ? C4B HEM 402 A 1 HETATM 19 C CMB HEM . . . C 2 12.842 42.723 11.28 1 16.35 ? CMB HEM 402 A 1 HETATM 20 C CAB HEM . . . C 2 10.37 42.481 9.192 1 32.22 ? CAB HEM 402 A 1 HETATM 21 C CBB HEM . . . C 2 10.158 41.419 9.974 1 32.21 ? CBB HEM 402 A 1 HETATM 22 C C1C HEM . . . C 2 9.422 46.696 7.919 1 25.2 ? C1C HEM 402 A 1 HETATM 23 C C2C HEM . . . C 2 8.481 47.082 6.938 1 27.76 ? C2C HEM 402 A 1 HETATM 24 C C3C HEM . . . C 2 8.497 48.465 6.866 1 29.77 ? C3C HEM 402 A 1 HETATM 25 C C4C HEM . . . C 2 9.457 48.933 7.821 1 33.22 ? C4C HEM 402 A 1 HETATM 26 C CMC HEM . . . C 2 7.58 46.19 6.124 1 28.5 ? CMC HEM 402 A 1 HETATM 27 C CAC HEM . . . C 2 7.626 49.263 5.98 1 32.93 ? CAC HEM 402 A 1 HETATM 28 C CBC HEM . . . C 2 8.036 50.343 5.319 1 40.02 ? CBC HEM 402 A 1 HETATM 29 C C1D HEM . . . C 2 10.889 50.673 8.787 1 28.84 ? C1D HEM 402 A 1 HETATM 30 C C2D HEM . . . C 2 11.275 52.091 8.903 1 30.81 ? C2D HEM 402 A 1 HETATM 31 C C3D HEM . . . C 2 12.381 52.134 9.669 1 29.27 ? C3D HEM 402 A 1 HETATM 32 C C4D HEM . . . C 2 12.649 50.736 10.015 1 26.36 ? C4D HEM 402 A 1 HETATM 33 C CMD HEM . . . C 2 10.575 53.283 8.29 1 34.18 ? CMD HEM 402 A 1 HETATM 34 C CAD HEM . . . C 2 13.161 53.364 10.11 1 30.52 ? CAD HEM 402 A 1 HETATM 35 C CBD HEM . . . C 2 14.145 53.86 9.042 1 44.46 ? CBD HEM 402 A 1 HETATM 36 C CGD HEM . . . C 2 15.096 54.958 9.483 1 41.65 ? CGD HEM 402 A 1 HETATM 37 O O1D HEM . . . C 2 14.974 56.11 9.008 1 43.72 ? O1D HEM 402 A 1 HETATM 38 O O2D HEM . . . C 2 16.03 54.736 10.289 1 37.05 ? O2D HEM 402 A 1 HETATM 39 N NA HEM . . . C 2 13.28 47.986 10.848 1 20.92 ? NA HEM 402 A 1 HETATM 40 N NB HEM . . . C 2 11.606 45.923 9.848 1 26.61 ? NB HEM 402 A 1 HETATM 41 N NC HEM . . . C 2 10.062 47.83 8.365 1 25.68 ? NC HEM 402 A 1 HETATM 42 N ND HEM . . . C 2 11.746 49.903 9.465 1 26.23 ? ND HEM 402 A 1 HETATM 43 FE FE HEM . . . C 2 11.705 48.027 9.648 1 29.74 ? FE HEM 402 A 1 # _model_server_stats.io_time_ms 63 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #