data_1FDH # _model_server_result.job_id MeA6y5mSzuaSpfMVZt_faQ _model_server_result.datetime_utc '2025-05-20 03:35:43' _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 1fdh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":142}' # _entry.id 1FDH # _exptl.entry_id 1FDH _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 4 _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 1FDH _cell.length_a 62.8 _cell.length_b 95.1 _cell.length_c 102.1 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1FDH _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 # 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 ? 3 G N N ? 3 H 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 covale ? covale1 B C ACE 1 G ACE 0 1_555 B N GLY 2 G GLY 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale2 B O ACE 1 G ACE 0 1_555 B C GLY 2 G GLY 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? covale ? covale3 B C ACE 1 G ACE 0 1_555 B C GLY 2 G GLY 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale4 B CH3 ACE 1 G ACE 0 1_555 B N HIS 3 G HIS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.762 ? covale ? covale5 B CH3 ACE 1 G ACE 0 1_555 B CA HIS 3 G HIS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 ? covale ? covale6 B C ACE 1 G ACE 0 1_555 B N HIS 3 G HIS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale7 D C ACE 1 H ACE 0 1_555 D N GLY 2 H GLY 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale8 D O ACE 1 H ACE 0 1_555 D C GLY 2 H GLY 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? covale ? covale9 D C ACE 1 H ACE 0 1_555 D C GLY 2 H GLY 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale10 D CH3 ACE 1 H ACE 0 1_555 D CA HIS 3 H HIS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 ? covale ? covale11 D CH3 ACE 1 H ACE 0 1_555 D N HIS 3 H HIS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.762 ? covale ? covale12 D C ACE 1 H ACE 0 1_555 D N HIS 3 H HIS 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? metalc ? metalc1 A NE2 HIS 87 A HIS 87 1_555 E FE HEM . A HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? metalc ? metalc2 B NE2 HIS 93 G HIS 92 1_555 F FE HEM . G HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? metalc ? metalc3 C NE2 HIS 87 B HIS 87 1_555 G FE HEM . B HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.985 ? metalc ? metalc4 D NE2 HIS 93 H HIS 92 1_555 H FE HEM . H HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.234 ? # _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 135 n n CHA C4D HEM doub 136 n n CHA HHA HEM sing 137 n n CHB C4A HEM sing 138 n n CHB C1B HEM doub 139 n n CHB HHB HEM sing 140 n n CHC C4B HEM sing 141 n n CHC C1C HEM doub 142 n n CHC HHC HEM sing 143 n n CHD C4C HEM doub 144 n n CHD C1D HEM sing 145 n n CHD HHD HEM sing 146 n n C1A C2A HEM doub 147 n y C1A NA HEM sing 148 n y C2A C3A HEM sing 149 n y C2A CAA HEM sing 150 n n C3A C4A HEM doub 151 n y C3A CMA HEM sing 152 n n C4A NA HEM sing 153 n y CMA HMA HEM sing 154 n n CMA HMAA HEM sing 155 n n CMA HMAB HEM sing 156 n n CAA CBA HEM sing 157 n n CAA HAA HEM sing 158 n n CAA HAAA HEM sing 159 n n CBA CGA HEM sing 160 n n CBA HBA HEM sing 161 n n CBA HBAA HEM sing 162 n n CGA O1A HEM doub 163 n n CGA O2A HEM sing 164 n n C1B C2B HEM sing 165 n n C1B NB HEM sing 166 n n C2B C3B HEM doub 167 n n C2B CMB HEM sing 168 n n C3B C4B HEM sing 169 n n C3B CAB HEM sing 170 n n C4B NB HEM doub 171 n n CMB HMB HEM sing 172 n n CMB HMBA HEM sing 173 n n CMB HMBB HEM sing 174 n n CAB CBB HEM doub 175 n n CAB HAB HEM sing 176 n n CBB HBB HEM sing 177 n n CBB HBBA HEM sing 178 n n C1C C2C HEM sing 179 n y C1C NC HEM sing 180 n y C2C C3C HEM doub 181 n y C2C CMC HEM sing 182 n n C3C C4C HEM sing 183 n y C3C CAC HEM sing 184 n n C4C NC HEM sing 185 n y CMC HMC HEM sing 186 n n CMC HMCA HEM sing 187 n n CMC HMCB HEM sing 188 n n CAC CBC HEM doub 189 n n CAC HAC HEM sing 190 n n CBC HBC HEM sing 191 n n CBC HBCA HEM sing 192 n n C1D C2D HEM sing 193 n n C1D ND HEM doub 194 n n C2D C3D HEM doub 195 n n C2D CMD HEM sing 196 n n C3D C4D HEM sing 197 n n C3D CAD HEM sing 198 n n C4D ND HEM sing 199 n n CMD HMD HEM sing 200 n n CMD HMDA HEM sing 201 n n CMD HMDB HEM sing 202 n n CAD CBD HEM sing 203 n n CAD HAD HEM sing 204 n n CAD HADA HEM sing 205 n n CBD CGD HEM sing 206 n n CBD HBD HEM sing 207 n n CBD HBDA HEM sing 208 n n CGD O1D HEM doub 209 n n CGD O2D HEM sing 210 n n O2A H2A HEM sing 211 n n O2D H2D HEM sing 212 n n FE NA HEM sing 213 n n FE NB HEM sing 214 n n FE NC HEM sing 215 n n FE ND HEM sing 216 n n # _atom_sites.entry_id 1FDH _atom_sites.fract_transf_matrix[1][1] 0.015924 _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] 0.010515 _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] 0.009794 _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 A 1 142 1 HEM HEM . F 3 HEM G 1 147 1 HEM HEM . G 3 HEM B 1 142 1 HEM HEM . H 3 HEM H 1 147 1 HEM HEM . # 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 . . . G 3 58.508 51.902 51.839 1 0 ? CHA HEM 142 B 1 HETATM 2 C CHB HEM . . . G 3 60.592 52.757 56.104 1 0 ? CHB HEM 142 B 1 HETATM 3 C CHC HEM . . . G 3 58.393 48.88 57.953 1 0 ? CHC HEM 142 B 1 HETATM 4 C CHD HEM . . . G 3 56.308 48.025 53.686 1 0 ? CHD HEM 142 B 1 HETATM 5 C C1A HEM . . . G 3 59.265 52.473 52.835 1 0 ? C1A HEM 142 B 1 HETATM 6 C C2A HEM . . . G 3 60.085 53.664 52.69 1 0 ? C2A HEM 142 B 1 HETATM 7 C C3A HEM . . . G 3 60.662 53.9 53.869 1 0 ? C3A HEM 142 B 1 HETATM 8 C C4A HEM . . . G 3 60.218 52.863 54.785 1 0 ? C4A HEM 142 B 1 HETATM 9 C CMA HEM . . . G 3 61.603 55.045 54.176 1 0 ? CMA HEM 142 B 1 HETATM 10 C CAA HEM . . . G 3 60.265 54.497 51.439 1 0 ? CAA HEM 142 B 1 HETATM 11 C CBA HEM . . . G 3 59.571 55.805 51.656 1 0 ? CBA HEM 142 B 1 HETATM 12 C CGA HEM . . . G 3 59.681 56.615 50.363 1 0 ? CGA HEM 142 B 1 HETATM 13 O O1A HEM . . . G 3 59.484 56.077 49.283 1 0 ? O1A HEM 142 B 1 HETATM 14 O O2A HEM . . . G 3 59.958 57.758 50.392 1 0 ? O2A HEM 142 B 1 HETATM 15 C C1B HEM . . . G 3 60.177 51.78 56.977 1 0 ? C1B HEM 142 B 1 HETATM 16 C C2B HEM . . . G 3 60.577 51.674 58.37 1 0 ? C2B HEM 142 B 1 HETATM 17 C C3B HEM . . . G 3 59.969 50.603 58.881 1 0 ? C3B HEM 142 B 1 HETATM 18 C C4B HEM . . . G 3 59.172 50.007 57.822 1 0 ? C4B HEM 142 B 1 HETATM 19 C CMB HEM . . . G 3 61.511 52.602 59.121 1 0 ? CMB HEM 142 B 1 HETATM 20 C CAB HEM . . . G 3 60.099 50.112 60.307 1 0 ? CAB HEM 142 B 1 HETATM 21 C CBB HEM . . . G 3 61.249 49.593 60.738 1 0 ? CBB HEM 142 B 1 HETATM 22 C C1C HEM . . . G 3 57.636 48.31 56.955 1 0 ? C1C HEM 142 B 1 HETATM 23 C C2C HEM . . . G 3 56.815 47.118 57.101 1 0 ? C2C HEM 142 B 1 HETATM 24 C C3C HEM . . . G 3 56.239 46.882 55.922 1 0 ? C3C HEM 142 B 1 HETATM 25 C C4C HEM . . . G 3 56.682 47.919 55.006 1 0 ? C4C HEM 142 B 1 HETATM 26 C CMC HEM . . . G 3 56.635 46.286 58.352 1 0 ? CMC HEM 142 B 1 HETATM 27 C CAC HEM . . . G 3 55.297 45.737 55.614 1 0 ? CAC HEM 142 B 1 HETATM 28 C CBC HEM . . . G 3 55.779 44.525 55.339 1 0 ? CBC HEM 142 B 1 HETATM 29 C C1D HEM . . . G 3 56.723 49.003 52.813 1 0 ? C1D HEM 142 B 1 HETATM 30 C C2D HEM . . . G 3 56.323 49.108 51.421 1 0 ? C2D HEM 142 B 1 HETATM 31 C C3D HEM . . . G 3 56.931 50.179 50.91 1 0 ? C3D HEM 142 B 1 HETATM 32 C C4D HEM . . . G 3 57.729 50.775 51.969 1 0 ? C4D HEM 142 B 1 HETATM 33 C CMD HEM . . . G 3 55.389 48.181 50.67 1 0 ? CMD HEM 142 B 1 HETATM 34 C CAD HEM . . . G 3 56.801 50.67 49.484 1 0 ? CAD HEM 142 B 1 HETATM 35 C CBD HEM . . . G 3 58.176 50.734 48.895 1 0 ? CBD HEM 142 B 1 HETATM 36 C CGD HEM . . . G 3 58.031 50.821 47.375 1 0 ? CGD HEM 142 B 1 HETATM 37 O O1D HEM . . . G 3 58.562 50.038 46.677 1 0 ? O1D HEM 142 B 1 HETATM 38 O O2D HEM . . . G 3 57.357 51.709 46.872 1 0 ? O2D HEM 142 B 1 HETATM 39 N NA HEM . . . G 3 59.362 52 54.129 1 0 ? NA HEM 142 B 1 HETATM 40 N NB HEM . . . G 3 59.315 50.746 56.665 1 0 ? NB HEM 142 B 1 HETATM 41 N NC HEM . . . G 3 57.538 48.782 55.662 1 0 ? NC HEM 142 B 1 HETATM 42 N ND HEM . . . G 3 57.585 50.037 53.126 1 0 ? ND HEM 142 B 1 HETATM 43 FE FE HEM . . . G 3 57.961 50.688 55.081 1 0 ? FE HEM 142 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #