data_4HKA # _model_server_result.job_id F5TF4tdc9VV_93vXxtHGKQ _model_server_result.datetime_utc '2025-07-24 12:55:06' _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 4hka # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 4HKA # _exptl.entry_id 4HKA _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 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 4HKA _cell.length_a 114.719 _cell.length_b 114.719 _cell.length_c 213.438 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4HKA _symmetry.cell_setting ? _symmetry.Int_Tables_number 181 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 64 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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' 4_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 114.719 0 0 3 'crystal symmetry operation' 8_555 x-y,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 11_655 -x+y+1,y,-z -1 0 0 0 1 0 0 0 -1 114.719 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id NE2 _struct_conn.ptnr1_label_comp_id HIS _struct_conn.ptnr1_label_seq_id 291 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id HIS _struct_conn.ptnr1_auth_seq_id 312 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 401 _struct_conn.ptnr2_symmetry 1_555 _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 2.238 _struct_conn.pdbx_value_order ? # _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 4HKA _atom_sites.fract_transf_matrix[1][1] 0.008717 _atom_sites.fract_transf_matrix[1][2] 0.005033 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010065 _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] 0.004685 _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 1 HEM HEM . C 3 HOH A 1 501 1 HOH HOH . C 3 HOH A 2 502 2 HOH HOH . C 3 HOH A 3 503 3 HOH HOH . C 3 HOH A 4 504 4 HOH HOH . C 3 HOH A 5 505 5 HOH HOH . C 3 HOH A 6 506 6 HOH HOH . C 3 HOH A 7 507 7 HOH HOH . C 3 HOH A 8 508 8 HOH HOH . C 3 HOH A 9 509 9 HOH HOH . C 3 HOH A 10 510 10 HOH HOH . C 3 HOH A 11 511 11 HOH HOH . C 3 HOH A 12 512 12 HOH HOH . C 3 HOH A 13 513 13 HOH HOH . C 3 HOH A 14 514 14 HOH HOH . C 3 HOH A 15 515 15 HOH HOH . C 3 HOH A 16 516 16 HOH HOH . C 3 HOH A 17 517 17 HOH HOH . C 3 HOH A 18 518 18 HOH HOH . C 3 HOH A 19 519 19 HOH HOH . C 3 HOH A 20 520 20 HOH HOH . C 3 HOH A 21 521 21 HOH HOH . C 3 HOH A 22 522 22 HOH HOH . C 3 HOH A 23 523 23 HOH HOH . C 3 HOH A 24 524 24 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 . . . B 2 60.926 -16.17 -18.395 1 56.45 ? CHA HEM 401 A 1 HETATM 2 C CHB HEM . . . B 2 65.646 -15.383 -17.164 1 57.45 ? CHB HEM 401 A 1 HETATM 3 C CHC HEM . . . B 2 64.397 -15.128 -12.361 1 55.74 ? CHC HEM 401 A 1 HETATM 4 C CHD HEM . . . B 2 59.706 -15.926 -13.619 1 56.36 ? CHD HEM 401 A 1 HETATM 5 C C1A HEM . . . B 2 62.404 -15.964 -18.492 1 58.06 ? C1A HEM 401 A 1 HETATM 6 C C2A HEM . . . B 2 63.062 -15.973 -19.75 1 61.22 ? C2A HEM 401 A 1 HETATM 7 C C3A HEM . . . B 2 64.483 -15.742 -19.357 1 59.97 ? C3A HEM 401 A 1 HETATM 8 C C4A HEM . . . B 2 64.407 -15.629 -17.958 1 57.77 ? C4A HEM 401 A 1 HETATM 9 C CMA HEM . . . B 2 65.683 -15.649 -20.243 1 60.12 ? CMA HEM 401 A 1 HETATM 10 C CAA HEM . . . B 2 62.495 -16.191 -21.111 1 64.96 ? CAA HEM 401 A 1 HETATM 11 C CBA HEM . . . B 2 62.316 -17.668 -21.237 1 72.26 ? CBA HEM 401 A 1 HETATM 12 C CGA HEM . . . B 2 62.527 -18.105 -22.641 1 76.14 ? CGA HEM 401 A 1 HETATM 13 O O1A HEM . . . B 2 63.691 -18.118 -23.135 1 75.49 ? O1A HEM 401 A 1 HETATM 14 O O2A HEM . . . B 2 61.527 -18.464 -23.317 1 78.32 ? O2A HEM 401 A 1 HETATM 15 C C1B HEM . . . B 2 65.741 -15.232 -15.678 1 57.09 ? C1B HEM 401 A 1 HETATM 16 C C2B HEM . . . B 2 67.003 -14.999 -15.109 1 57.35 ? C2B HEM 401 A 1 HETATM 17 C C3B HEM . . . B 2 66.631 -14.922 -13.65 1 57.87 ? C3B HEM 401 A 1 HETATM 18 C C4B HEM . . . B 2 65.222 -15.12 -13.619 1 57.37 ? C4B HEM 401 A 1 HETATM 19 C CMB HEM . . . B 2 68.33 -14.87 -15.785 1 57.73 ? CMB HEM 401 A 1 HETATM 20 C CAB HEM . . . B 2 67.504 -14.683 -12.466 1 59.1 ? CAB HEM 401 A 1 HETATM 21 C CBB HEM . . . B 2 68.925 -15.123 -12.455 1 63.9 ? CBB HEM 401 A 1 HETATM 22 C C1C HEM . . . B 2 62.912 -15.332 -12.258 1 55.5 ? C1C HEM 401 A 1 HETATM 23 C C2C HEM . . . B 2 62.271 -15.313 -10.995 1 57.19 ? C2C HEM 401 A 1 HETATM 24 C C3C HEM . . . B 2 60.848 -15.555 -11.378 1 56.19 ? C3C HEM 401 A 1 HETATM 25 C C4C HEM . . . B 2 60.912 -15.673 -12.779 1 55.97 ? C4C HEM 401 A 1 HETATM 26 C CMC HEM . . . B 2 62.808 -15.111 -9.615 1 56.51 ? CMC HEM 401 A 1 HETATM 27 C CAC HEM . . . B 2 59.647 -15.653 -10.508 1 55.93 ? CAC HEM 401 A 1 HETATM 28 C CBC HEM . . . B 2 58.789 -16.869 -10.617 1 57.93 ? CBC HEM 401 A 1 HETATM 29 C C1D HEM . . . B 2 59.651 -16.06 -15.094 1 56.07 ? C1D HEM 401 A 1 HETATM 30 C C2D HEM . . . B 2 58.398 -16.291 -15.687 1 55.47 ? C2D HEM 401 A 1 HETATM 31 C C3D HEM . . . B 2 58.742 -16.381 -17.136 1 55.87 ? C3D HEM 401 A 1 HETATM 32 C C4D HEM . . . B 2 60.141 -16.17 -17.12 1 56.2 ? C4D HEM 401 A 1 HETATM 33 C CMD HEM . . . B 2 57.072 -16.427 -15.024 1 54.26 ? CMD HEM 401 A 1 HETATM 34 C CAD HEM . . . B 2 57.827 -16.579 -18.296 1 57.41 ? CAD HEM 401 A 1 HETATM 35 C CBD HEM . . . B 2 57.566 -15.172 -18.749 1 57.2 ? CBD HEM 401 A 1 HETATM 36 C CGD HEM . . . B 2 56.636 -15.016 -19.91 1 59.7 ? CGD HEM 401 A 1 HETATM 37 O O1D HEM . . . B 2 56.158 -13.871 -20.144 1 55.36 ? O1D HEM 401 A 1 HETATM 38 O O2D HEM . . . B 2 56.329 -15.996 -20.651 1 62.32 ? O2D HEM 401 A 1 HETATM 39 N NA HEM . . . B 2 63.192 -15.757 -17.419 1 57.38 ? NA HEM 401 A 1 HETATM 40 N NB HEM . . . B 2 64.699 -15.302 -14.843 1 56.42 ? NB HEM 401 A 1 HETATM 41 N NC HEM . . . B 2 62.133 -15.543 -13.333 1 56.41 ? NC HEM 401 A 1 HETATM 42 N ND HEM . . . B 2 60.697 -15.983 -15.906 1 55.18 ? ND HEM 401 A 1 HETATM 43 FE FE HEM . . . B 2 62.697 -15.643 -15.377 1 55.97 ? FE HEM 401 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 339 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #