data_3S48 # _model_server_result.job_id T0_3gCAwNiVf7r7VdpfCLw _model_server_result.datetime_utc '2025-08-01 04:07:24' _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 3s48 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":500}' # _entry.id 3S48 # _exptl.entry_id 3S48 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 3 _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 90 _cell.angle_gamma 90 _cell.entry_id 3S48 _cell.length_a 115.607 _cell.length_b 115.607 _cell.length_c 142.333 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3S48 _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dimeric 2 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,G 1 1 C,D,F,H 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 E N N ? 3 F 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 B NE2 HIS 87 D HIS 87 1_555 E FE HEM . D HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.362 ? metalc ? metalc2 E FE HEM . D HEM 500 1_555 G O HOH . D HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.95 ? metalc ? metalc3 D NE2 HIS 87 C HIS 87 1_555 F FE HEM . C HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc4 F FE HEM . C HEM 500 1_555 H O HOH . C HOH 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? # _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 3S48 _atom_sites.fract_transf_matrix[1][1] 0.00865 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00865 _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] 0.007026 _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 E 3 HEM D 1 500 500 HEM HEM . F 3 HEM C 1 500 500 HEM HEM . G 4 HOH D 1 501 501 HOH HOH . H 4 HOH C 1 501 501 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 . . . E 3 38.669 -34.678 20.194 1 85.54 ? CHA HEM 500 D 1 HETATM 2 C CHB HEM . . . E 3 36.74 -38.41 22.625 1 75.8 ? CHB HEM 500 D 1 HETATM 3 C CHC HEM . . . E 3 33.902 -39.48 18.829 1 75.91 ? CHC HEM 500 D 1 HETATM 4 C CHD HEM . . . E 3 35.808 -35.758 16.35 1 85.33 ? CHD HEM 500 D 1 HETATM 5 C C1A HEM . . . E 3 38.395 -35.595 21.185 1 83.13 ? C1A HEM 500 D 1 HETATM 6 C C2A HEM . . . E 3 39.018 -35.652 22.494 1 83.84 ? C2A HEM 500 D 1 HETATM 7 C C3A HEM . . . E 3 38.484 -36.679 23.161 1 80.27 ? C3A HEM 500 D 1 HETATM 8 C C4A HEM . . . E 3 37.507 -37.313 22.302 1 77.93 ? C4A HEM 500 D 1 HETATM 9 C CMA HEM . . . E 3 38.841 -37.122 24.596 1 79.37 ? CMA HEM 500 D 1 HETATM 10 C CAA HEM . . . E 3 40.101 -34.686 23.029 1 87.74 ? CAA HEM 500 D 1 HETATM 11 C CBA HEM . . . E 3 41.428 -34.924 22.317 1 91.96 ? CBA HEM 500 D 1 HETATM 12 C CGA HEM . . . E 3 42.401 -33.82 22.654 1 96.55 ? CGA HEM 500 D 1 HETATM 13 O O1A HEM . . . E 3 42.423 -33.364 23.829 1 96.59 ? O1A HEM 500 D 1 HETATM 14 O O2A HEM . . . E 3 43.161 -33.393 21.746 1 100.37 ? O2A HEM 500 D 1 HETATM 15 C C1B HEM . . . E 3 35.808 -39.021 21.814 1 74.74 ? C1B HEM 500 D 1 HETATM 16 C C2B HEM . . . E 3 35.006 -40.174 22.166 1 72.22 ? C2B HEM 500 D 1 HETATM 17 C C3B HEM . . . E 3 34.225 -40.472 21.127 1 72.68 ? C3B HEM 500 D 1 HETATM 18 C C4B HEM . . . E 3 34.499 -39.517 20.071 1 74.7 ? C4B HEM 500 D 1 HETATM 19 C CMB HEM . . . E 3 35.05 -40.926 23.511 1 69.85 ? CMB HEM 500 D 1 HETATM 20 C CAB HEM . . . E 3 33.21 -41.633 21.069 1 71.86 ? CAB HEM 500 D 1 HETATM 21 C CBB HEM . . . E 3 33.633 -42.894 21.208 1 71.89 ? CBB HEM 500 D 1 HETATM 22 C C1C HEM . . . E 3 34.167 -38.57 17.827 1 77.86 ? C1C HEM 500 D 1 HETATM 23 C C2C HEM . . . E 3 33.542 -38.53 16.52 1 78.87 ? C2C HEM 500 D 1 HETATM 24 C C3C HEM . . . E 3 34.066 -37.508 15.841 1 81.87 ? C3C HEM 500 D 1 HETATM 25 C C4C HEM . . . E 3 35.046 -36.856 16.688 1 82.42 ? C4C HEM 500 D 1 HETATM 26 C CMC HEM . . . E 3 32.458 -39.498 16.001 1 77.9 ? CMC HEM 500 D 1 HETATM 27 C CAC HEM . . . E 3 33.691 -37.095 14.402 1 84.82 ? CAC HEM 500 D 1 HETATM 28 C CBC HEM . . . E 3 34.072 -37.857 13.372 1 86.26 ? CBC HEM 500 D 1 HETATM 29 C C1D HEM . . . E 3 36.747 -35.123 17.138 1 86.29 ? C1D HEM 500 D 1 HETATM 30 C C2D HEM . . . E 3 37.523 -33.971 16.732 1 89.79 ? C2D HEM 500 D 1 HETATM 31 C C3D HEM . . . E 3 38.416 -33.632 17.93 1 89.53 ? C3D HEM 500 D 1 HETATM 32 C C4D HEM . . . E 3 38.091 -34.612 18.943 1 86.03 ? C4D HEM 500 D 1 HETATM 33 C CMD HEM . . . E 3 37.468 -33.23 15.379 1 93.73 ? CMD HEM 500 D 1 HETATM 34 C CAD HEM . . . E 3 39.441 -32.481 18.022 1 93.39 ? CAD HEM 500 D 1 HETATM 35 C CBD HEM . . . E 3 40.8 -32.962 17.519 1 96.28 ? CBD HEM 500 D 1 HETATM 36 C CGD HEM . . . E 3 41.886 -32.055 18.034 1 99.59 ? CGD HEM 500 D 1 HETATM 37 O O1D HEM . . . E 3 42.013 -30.915 17.518 1 102.99 ? O1D HEM 500 D 1 HETATM 38 O O2D HEM . . . E 3 42.626 -32.474 18.961 1 99.33 ? O2D HEM 500 D 1 HETATM 39 N NA HEM . . . E 3 37.48 -36.626 21.104 1 79.79 ? NA HEM 500 D 1 HETATM 40 N NB HEM . . . E 3 35.471 -38.646 20.527 1 75.59 ? NB HEM 500 D 1 HETATM 41 N NC HEM . . . E 3 35.08 -37.533 17.892 1 79.71 ? NC HEM 500 D 1 HETATM 42 N ND HEM . . . E 3 37.111 -35.468 18.439 1 84.08 ? ND HEM 500 D 1 HETATM 43 FE FE HEM . . . E 3 36.281 -37.07 19.491 1 79.93 ? FE HEM 500 D 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 246 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #