data_7D9R # _model_server_result.job_id AwyNK4mRTppn-NkXONTVVA _model_server_result.datetime_utc '2024-12-23 00:38:29' _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 7d9r # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":701}' # _entry.id 7D9R # _exptl.entry_id 7D9R _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 616.487 _entity.id 5 _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 90 _cell.entry_id 7D9R _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7D9R _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? _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 5 _struct_asym.id F _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 metalc ? metalc1 A OD1 ASP 486 A ASP 486 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.991 ? metalc ? metalc2 A OD1 ASP 486 A ASP 486 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.533 ? metalc ? metalc3 A OD2 ASP 486 A ASP 486 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc4 A O ILE 487 A ILE 487 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.238 ? metalc ? metalc5 A OD2 ASP 530 A ASP 530 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.326 ? metalc ? metalc6 C O5' G2P . A G2P 1001 1_555 D MG MG . A MG 1002 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.16 ? metalc ? metalc7 C O3B G2P . A G2P 1001 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.225 ? metalc ? metalc8 C O2B G2P . A G2P 1001 1_555 E MG MG . A MG 1003 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.338 ? # _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 234 n n CHA C4D HEM doub 235 n n CHA HHA HEM sing 236 n n CHB C4A HEM sing 237 n n CHB C1B HEM doub 238 n n CHB HHB HEM sing 239 n n CHC C4B HEM sing 240 n n CHC C1C HEM doub 241 n n CHC HHC HEM sing 242 n n CHD C4C HEM doub 243 n n CHD C1D HEM sing 244 n n CHD HHD HEM sing 245 n n C1A C2A HEM doub 246 n y C1A NA HEM sing 247 n y C2A C3A HEM sing 248 n y C2A CAA HEM sing 249 n n C3A C4A HEM doub 250 n y C3A CMA HEM sing 251 n n C4A NA HEM sing 252 n y CMA HMA HEM sing 253 n n CMA HMAA HEM sing 254 n n CMA HMAB HEM sing 255 n n CAA CBA HEM sing 256 n n CAA HAA HEM sing 257 n n CAA HAAA HEM sing 258 n n CBA CGA HEM sing 259 n n CBA HBA HEM sing 260 n n CBA HBAA HEM sing 261 n n CGA O1A HEM doub 262 n n CGA O2A HEM sing 263 n n C1B C2B HEM sing 264 n n C1B NB HEM sing 265 n n C2B C3B HEM doub 266 n n C2B CMB HEM sing 267 n n C3B C4B HEM sing 268 n n C3B CAB HEM sing 269 n n C4B NB HEM doub 270 n n CMB HMB HEM sing 271 n n CMB HMBA HEM sing 272 n n CMB HMBB HEM sing 273 n n CAB CBB HEM doub 274 n n CAB HAB HEM sing 275 n n CBB HBB HEM sing 276 n n CBB HBBA HEM sing 277 n n C1C C2C HEM sing 278 n y C1C NC HEM sing 279 n y C2C C3C HEM doub 280 n y C2C CMC HEM sing 281 n n C3C C4C HEM sing 282 n y C3C CAC HEM sing 283 n n C4C NC HEM sing 284 n y CMC HMC HEM sing 285 n n CMC HMCA HEM sing 286 n n CMC HMCB HEM sing 287 n n CAC CBC HEM doub 288 n n CAC HAC HEM sing 289 n n CBC HBC HEM sing 290 n n CBC HBCA HEM sing 291 n n C1D C2D HEM sing 292 n n C1D ND HEM doub 293 n n C2D C3D HEM doub 294 n n C2D CMD HEM sing 295 n n C3D C4D HEM sing 296 n n C3D CAD HEM sing 297 n n C4D ND HEM sing 298 n n CMD HMD HEM sing 299 n n CMD HMDA HEM sing 300 n n CMD HMDB HEM sing 301 n n CAD CBD HEM sing 302 n n CAD HAD HEM sing 303 n n CAD HADA HEM sing 304 n n CBD CGD HEM sing 305 n n CBD HBD HEM sing 306 n n CBD HBDA HEM sing 307 n n CGD O1D HEM doub 308 n n CGD O2D HEM sing 309 n n O2A H2A HEM sing 310 n n O2D H2D HEM sing 311 n n FE NA HEM sing 312 n n FE NB HEM sing 313 n n FE NC HEM sing 314 n n FE ND HEM sing 315 n n # _atom_sites.entry_id 7D9R _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 3 G2P A 1 1001 1001 G2P G2P . D 4 MG A 1 1002 1002 MG MG . E 4 MG A 1 1003 1201 MG MG . F 5 HEM B 1 701 1000 HEM HEM . G 6 GZO B 1 702 1101 GZO RIO . # 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 . . . F 5 103.219 116.889 112.609 1 112.34 ? CHA HEM 701 B 1 HETATM 2 C CHB HEM . . . F 5 103.16 116.737 117.442 1 112.34 ? CHB HEM 701 B 1 HETATM 3 C CHC HEM . . . F 5 101.148 112.347 117.266 1 112.34 ? CHC HEM 701 B 1 HETATM 4 C CHD HEM . . . F 5 100.457 112.917 112.505 1 112.34 ? CHD HEM 701 B 1 HETATM 5 C C1A HEM . . . F 5 103.336 117.267 113.924 1 112.34 ? C1A HEM 701 B 1 HETATM 6 C C2A HEM . . . F 5 103.751 118.56 114.429 1 112.34 ? C2A HEM 701 B 1 HETATM 7 C C3A HEM . . . F 5 103.728 118.506 115.758 1 112.34 ? C3A HEM 701 B 1 HETATM 8 C C4A HEM . . . F 5 103.306 117.183 116.151 1 112.34 ? C4A HEM 701 B 1 HETATM 9 C CMA HEM . . . F 5 104.095 119.656 116.717 1 112.34 ? CMA HEM 701 B 1 HETATM 10 C CAA HEM . . . F 5 104.145 119.802 113.604 1 112.34 ? CAA HEM 701 B 1 HETATM 11 C CBA HEM . . . F 5 102.951 120.287 112.794 1 112.34 ? CBA HEM 701 B 1 HETATM 12 C CGA HEM . . . F 5 103.073 121.769 112.58 1 112.34 ? CGA HEM 701 B 1 HETATM 13 O O1A HEM . . . F 5 103.936 122.396 113.243 1 112.34 ? O1A HEM 701 B 1 HETATM 14 O O2A HEM . . . F 5 102.304 122.324 111.755 1 112.34 ? O2A HEM 701 B 1 HETATM 15 C C1B HEM . . . F 5 102.709 115.493 117.812 1 112.34 ? C1B HEM 701 B 1 HETATM 16 C C2B HEM . . . F 5 102.82 114.909 119.128 1 112.34 ? C2B HEM 701 B 1 HETATM 17 C C3B HEM . . . F 5 102.275 113.7 119.1 1 112.34 ? C3B HEM 701 B 1 HETATM 18 C C4B HEM . . . F 5 101.786 113.465 117.751 1 112.34 ? C4B HEM 701 B 1 HETATM 19 C CMB HEM . . . F 5 103.465 115.566 120.363 1 112.34 ? CMB HEM 701 B 1 HETATM 20 C CAB HEM . . . F 5 102.215 112.778 120.337 1 112.34 ? CAB HEM 701 B 1 HETATM 21 C CBB HEM . . . F 5 101.701 111.548 120.295 1 112.34 ? CBB HEM 701 B 1 HETATM 22 C C1C HEM . . . F 5 100.72 112.155 115.972 1 112.34 ? C1C HEM 701 B 1 HETATM 23 C C2C HEM . . . F 5 99.877 111.076 115.514 1 112.34 ? C2C HEM 701 B 1 HETATM 24 C C3C HEM . . . F 5 99.674 111.216 114.209 1 112.34 ? C3C HEM 701 B 1 HETATM 25 C C4C HEM . . . F 5 100.391 112.402 113.778 1 112.34 ? C4C HEM 701 B 1 HETATM 26 C CMC HEM . . . F 5 99.301 109.948 116.388 1 112.34 ? CMC HEM 701 B 1 HETATM 27 C CAC HEM . . . F 5 98.817 110.245 113.367 1 112.34 ? CAC HEM 701 B 1 HETATM 28 C CBC HEM . . . F 5 98.571 110.434 112.068 1 112.34 ? CBC HEM 701 B 1 HETATM 29 C C1D HEM . . . F 5 101.115 114.062 112.129 1 112.34 ? C1D HEM 701 B 1 HETATM 30 C C2D HEM . . . F 5 101.075 114.662 110.817 1 112.34 ? C2D HEM 701 B 1 HETATM 31 C C3D HEM . . . F 5 101.827 115.756 110.837 1 112.34 ? C3D HEM 701 B 1 HETATM 32 C C4D HEM . . . F 5 102.384 115.892 112.165 1 112.34 ? C4D HEM 701 B 1 HETATM 33 C CMD HEM . . . F 5 100.29 114.137 109.602 1 112.34 ? CMD HEM 701 B 1 HETATM 34 C CAD HEM . . . F 5 102.054 116.69 109.634 1 112.34 ? CAD HEM 701 B 1 HETATM 35 C CBD HEM . . . F 5 101.38 118.026 109.912 1 112.34 ? CBD HEM 701 B 1 HETATM 36 C CGD HEM . . . F 5 100.768 118.539 108.639 1 112.34 ? CGD HEM 701 B 1 HETATM 37 O O1D HEM . . . F 5 100.762 117.784 107.635 1 112.34 ? O1D HEM 701 B 1 HETATM 38 O O2D HEM . . . F 5 100.282 119.698 108.634 1 112.34 ? O2D HEM 701 B 1 HETATM 39 N NA HEM . . . F 5 103.074 116.45 115.006 1 112.34 ? NA HEM 701 B 1 HETATM 40 N NB HEM . . . F 5 102.073 114.584 116.995 1 112.34 ? NB HEM 701 B 1 HETATM 41 N NC HEM . . . F 5 101.016 112.947 114.883 1 112.34 ? NC HEM 701 B 1 HETATM 42 N ND HEM . . . F 5 101.926 114.839 112.93 1 112.34 ? ND HEM 701 B 1 HETATM 43 FE FE HEM . . . F 5 102.051 114.693 114.951 1 112.34 ? FE HEM 701 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 41 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #