data_7DI8 # _model_server_result.job_id aDllfGv3bbT2Z_BWW7iWVg _model_server_result.datetime_utc '2024-11-15 16:37:00' _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 7di8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":601}' # _entry.id 7DI8 # _exptl.entry_id 7DI8 _exptl.method 'ELECTRON CRYSTALLOGRAPHY' # _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 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 7DI8 _cell.length_a 69.98 _cell.length_b 174.02 _cell.length_c 199.45 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7DI8 _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,I,J,K,L _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 ? 2 E N N ? 2 G N N ? 2 I N N ? 2 K 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 OH TYR 358 A TYR 357 1_555 E FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.373 ? metalc ? metalc2 B OH TYR 358 B TYR 357 1_555 G FE HEM . B HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.395 ? metalc ? metalc3 C OH TYR 358 C TYR 357 1_555 I FE HEM . C HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.451 ? metalc ? metalc4 D OH TYR 358 D TYR 357 1_555 K FE HEM . D HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.364 ? # _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 7DI8 _atom_sites.fract_transf_matrix[1][1] 0.01429 _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] 0.005746 _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] 0.005014 _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 2 HEM A 1 601 527 HEM HEM . F 3 NDP A 1 602 528 NDP NDP . G 2 HEM B 1 601 527 HEM HEM . H 3 NDP B 1 602 528 NDP NDP . I 2 HEM C 1 601 527 HEM HEM . J 3 NDP C 1 602 528 NDP NDP . K 2 HEM D 1 601 527 HEM HEM . L 3 NDP D 1 602 528 NDP NDP . # 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 . . . I 2 62.992 56.723 123.946 1 40.3 ? CHA HEM 601 C 1 HETATM 2 C CHB HEM . . . I 2 67.464 55.297 125.172 1 40.3 ? CHB HEM 601 C 1 HETATM 3 C CHC HEM . . . I 2 67.072 51.824 121.855 1 40.52 ? CHC HEM 601 C 1 HETATM 4 C CHD HEM . . . I 2 62.294 52.551 121.574 1 40.31 ? CHD HEM 601 C 1 HETATM 5 C C1A HEM . . . I 2 64.241 56.673 124.528 1 40.51 ? C1A HEM 601 C 1 HETATM 6 C C2A HEM . . . I 2 64.781 57.633 125.463 1 40.3 ? C2A HEM 601 C 1 HETATM 7 C C3A HEM . . . I 2 66.015 57.238 125.804 1 40.51 ? C3A HEM 601 C 1 HETATM 8 C C4A HEM . . . I 2 66.295 56.015 125.091 1 40.3 ? C4A HEM 601 C 1 HETATM 9 C CMA HEM . . . I 2 67.01 57.915 126.772 1 40.29 ? CMA HEM 601 C 1 HETATM 10 C CAA HEM . . . I 2 64.002 58.871 125.948 1 40.3 ? CAA HEM 601 C 1 HETATM 11 C CBA HEM . . . I 2 63.283 58.468 127.23 1 40.51 ? CBA HEM 601 C 1 HETATM 12 C CGA HEM . . . I 2 62.294 59.52 127.648 1 40.3 ? CGA HEM 601 C 1 HETATM 13 O O1A HEM . . . I 2 62.708 60.69 127.835 1 40.3 ? O1A HEM 601 C 1 HETATM 14 O O2A HEM . . . I 2 61.094 59.182 127.803 1 40.3 ? O2A HEM 601 C 1 HETATM 15 C C1B HEM . . . I 2 67.756 54.186 124.42 1 40.3 ? C1B HEM 601 C 1 HETATM 16 C C2B HEM . . . I 2 68.926 53.345 124.537 1 40.51 ? C2B HEM 601 C 1 HETATM 17 C C3B HEM . . . I 2 68.821 52.376 123.63 1 40.31 ? C3B HEM 601 C 1 HETATM 18 C C4B HEM . . . I 2 67.58 52.573 122.895 1 40.3 ? C4B HEM 601 C 1 HETATM 19 C CMB HEM . . . I 2 70.078 53.531 125.55 1 40.51 ? CMB HEM 601 C 1 HETATM 20 C CAB HEM . . . I 2 69.879 51.272 123.437 1 40.3 ? CAB HEM 601 C 1 HETATM 21 C CBB HEM . . . I 2 69.599 50.147 122.78 1 40.31 ? CBB HEM 601 C 1 HETATM 22 C C1C HEM . . . I 2 65.734 51.627 121.601 1 40.31 ? C1C HEM 601 C 1 HETATM 23 C C2C HEM . . . I 2 65.156 50.437 121.025 1 40.31 ? C2C HEM 601 C 1 HETATM 24 C C3C HEM . . . I 2 63.824 50.628 120.931 1 40.52 ? C3C HEM 601 C 1 HETATM 25 C C4C HEM . . . I 2 63.532 51.948 121.467 1 40.52 ? C4C HEM 601 C 1 HETATM 26 C CMC HEM . . . I 2 66.035 49.236 120.609 1 40.31 ? CMC HEM 601 C 1 HETATM 27 C CAC HEM . . . I 2 62.717 49.685 120.399 1 40.31 ? CAC HEM 601 C 1 HETATM 28 C CBC HEM . . . I 2 62.881 48.368 120.234 1 40.31 ? CBC HEM 601 C 1 HETATM 29 C C1D HEM . . . I 2 62.054 53.767 122.18 1 40.31 ? C1D HEM 601 C 1 HETATM 30 C C2D HEM . . . I 2 60.777 54.444 122.3 1 40.31 ? C2D HEM 601 C 1 HETATM 31 C C3D HEM . . . I 2 60.975 55.595 122.952 1 40.31 ? C3D HEM 601 C 1 HETATM 32 C C4D HEM . . . I 2 62.38 55.688 123.277 1 40.31 ? C4D HEM 601 C 1 HETATM 33 C CMD HEM . . . I 2 59.429 53.922 121.758 1 40.31 ? CMD HEM 601 C 1 HETATM 34 C CAD HEM . . . I 2 59.905 56.649 123.314 1 40.31 ? CAD HEM 601 C 1 HETATM 35 C CBD HEM . . . I 2 59.01 56.11 124.425 1 40.31 ? CBD HEM 601 C 1 HETATM 36 C CGD HEM . . . I 2 57.888 57.082 124.68 1 40.32 ? CGD HEM 601 C 1 HETATM 37 O O1D HEM . . . I 2 57.1 57.346 123.736 1 40.32 ? O1D HEM 601 C 1 HETATM 38 O O2D HEM . . . I 2 57.775 57.585 125.829 1 40.31 ? O2D HEM 601 C 1 HETATM 39 N NA HEM . . . I 2 65.193 55.695 124.323 1 40.3 ? NA HEM 601 C 1 HETATM 40 N NB HEM . . . I 2 66.962 53.692 123.407 1 40.51 ? NB HEM 601 C 1 HETATM 41 N NC HEM . . . I 2 64.722 52.521 121.859 1 40.52 ? NC HEM 601 C 1 HETATM 42 N ND HEM . . . I 2 63.008 54.56 122.788 1 40.31 ? ND HEM 601 C 1 HETATM 43 FE FE HEM . . . I 2 64.978 54.096 123.078 1 40.3 ? FE HEM 601 C 1 HETATM 44 H HHB HEM . . . I 2 68.206 55.709 125.663 1 48.54 ? HHB HEM 601 C 1 HETATM 45 H HHC HEM . . . I 2 67.703 51.544 121.159 1 48.8 ? HHC HEM 601 C 1 HETATM 46 H HHD HEM . . . I 2 61.565 52.167 121.043 1 48.55 ? HHD HEM 601 C 1 HETATM 47 H HMA HEM . . . I 2 66.61 57.972 127.665 1 48.53 ? HMA HEM 601 C 1 HETATM 48 H HMAA HEM . . . I 2 67.217 58.817 126.449 1 48.53 ? HMAA HEM 601 C 1 HETATM 49 H HMAB HEM . . . I 2 67.834 57.387 126.816 1 48.53 ? HMAB HEM 601 C 1 HETATM 50 H HAA HEM . . . I 2 63.356 59.14 125.276 1 48.54 ? HAA HEM 601 C 1 HETATM 51 H HAAA HEM . . . I 2 64.616 59.599 126.127 1 48.54 ? HAAA HEM 601 C 1 HETATM 52 H HBA HEM . . . I 2 63.936 58.347 127.936 1 48.79 ? HBA HEM 601 C 1 HETATM 53 H HBAA HEM . . . I 2 62.814 57.632 127.082 1 48.79 ? HBAA HEM 601 C 1 HETATM 54 H HMB HEM . . . I 2 70.491 54.398 125.414 1 48.79 ? HMB HEM 601 C 1 HETATM 55 H HMBA HEM . . . I 2 70.739 52.834 125.419 1 48.79 ? HMBA HEM 601 C 1 HETATM 56 H HMBB HEM . . . I 2 69.727 53.479 126.453 1 48.79 ? HMBB HEM 601 C 1 HETATM 57 H HAB HEM . . . I 2 70.759 51.397 123.799 1 48.55 ? HAB HEM 601 C 1 HETATM 58 H HBB HEM . . . I 2 70.28 49.464 122.675 1 48.55 ? HBB HEM 601 C 1 HETATM 59 H HBBA HEM . . . I 2 68.713 50.008 122.41 1 48.55 ? HBBA HEM 601 C 1 HETATM 60 H HMC HEM . . . I 2 66.674 49.521 119.938 1 48.55 ? HMC HEM 601 C 1 HETATM 61 H HMCA HEM . . . I 2 65.474 48.535 120.244 1 48.55 ? HMCA HEM 601 C 1 HETATM 62 H HMCB HEM . . . I 2 66.51 48.9 121.385 1 48.55 ? HMCB HEM 601 C 1 HETATM 63 H HAC HEM . . . I 2 61.865 50.067 120.176 1 48.55 ? HAC HEM 601 C 1 HETATM 64 H HBC HEM . . . I 2 62.152 47.827 119.893 1 48.55 ? HBC HEM 601 C 1 HETATM 65 H HBCA HEM . . . I 2 63.731 47.954 120.451 1 48.55 ? HBCA HEM 601 C 1 HETATM 66 H HMD HEM . . . I 2 59.489 53.811 120.786 1 48.55 ? HMD HEM 601 C 1 HETATM 67 H HMDA HEM . . . I 2 58.72 54.565 121.97 1 48.55 ? HMDA HEM 601 C 1 HETATM 68 H HMDB HEM . . . I 2 59.221 53.059 122.173 1 48.55 ? HMDB HEM 601 C 1 HETATM 69 H HAD HEM . . . I 2 59.367 56.845 122.532 1 48.55 ? HAD HEM 601 C 1 HETATM 70 H HADA HEM . . . I 2 60.342 57.461 123.617 1 48.55 ? HADA HEM 601 C 1 HETATM 71 H HBD HEM . . . I 2 59.531 55.997 125.235 1 48.55 ? HBD HEM 601 C 1 HETATM 72 H HBDA HEM . . . I 2 58.641 55.254 124.156 1 48.55 ? HBDA HEM 601 C 1 HETATM 73 H HHA HEM . . . I 2 62.556 57.6 123.904 1 48.54 ? HHA HEM 601 C 1 # _model_server_stats.io_time_ms 41 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 33 _model_server_stats.query_time_ms 318 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 73 #