data_7W7D # _model_server_result.job_id bi7DyJf2v2_SFvq03RYlfQ _model_server_result.datetime_utc '2025-01-10 22:09:16' _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 7w7d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":401}' # _entry.id 7W7D # _exptl.entry_id 7W7D _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 112.488 _cell.angle_beta 100.412 _cell.angle_gamma 93.776 _cell.entry_id 7W7D _cell.length_a 82.585 _cell.length_b 135.026 _cell.length_c 160.969 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7W7D _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall 'P 1' _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 author_defined_assembly 2 ? tetrameric 4 author_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,M 1 1 E,F,G,H,N 2 1 I,J,K,L 3 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 M N N ? 3 N 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 OE2 GLU 219 B GLU 219 1_555 M FE HEM . D HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc2 D OE2 GLU 219 D GLU 219 1_555 M FE HEM . D HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.103 ? metalc ? metalc3 F OE2 GLU 219 F GLU 219 1_555 N FE HEM . F HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc4 N FE HEM . F HEM 401 1_555 H OE2 GLU 219 H GLU 219 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.102 ? # _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 116 n n CHA C4D HEM doub 117 n n CHA HHA HEM sing 118 n n CHB C4A HEM sing 119 n n CHB C1B HEM doub 120 n n CHB HHB HEM sing 121 n n CHC C4B HEM sing 122 n n CHC C1C HEM doub 123 n n CHC HHC HEM sing 124 n n CHD C4C HEM doub 125 n n CHD C1D HEM sing 126 n n CHD HHD HEM sing 127 n n C1A C2A HEM doub 128 n y C1A NA HEM sing 129 n y C2A C3A HEM sing 130 n y C2A CAA HEM sing 131 n n C3A C4A HEM doub 132 n y C3A CMA HEM sing 133 n n C4A NA HEM sing 134 n y CMA HMA HEM sing 135 n n CMA HMAA HEM sing 136 n n CMA HMAB HEM sing 137 n n CAA CBA HEM sing 138 n n CAA HAA HEM sing 139 n n CAA HAAA HEM sing 140 n n CBA CGA HEM sing 141 n n CBA HBA HEM sing 142 n n CBA HBAA HEM sing 143 n n CGA O1A HEM doub 144 n n CGA O2A HEM sing 145 n n C1B C2B HEM sing 146 n n C1B NB HEM sing 147 n n C2B C3B HEM doub 148 n n C2B CMB HEM sing 149 n n C3B C4B HEM sing 150 n n C3B CAB HEM sing 151 n n C4B NB HEM doub 152 n n CMB HMB HEM sing 153 n n CMB HMBA HEM sing 154 n n CMB HMBB HEM sing 155 n n CAB CBB HEM doub 156 n n CAB HAB HEM sing 157 n n CBB HBB HEM sing 158 n n CBB HBBA HEM sing 159 n n C1C C2C HEM sing 160 n y C1C NC HEM sing 161 n y C2C C3C HEM doub 162 n y C2C CMC HEM sing 163 n n C3C C4C HEM sing 164 n y C3C CAC HEM sing 165 n n C4C NC HEM sing 166 n y CMC HMC HEM sing 167 n n CMC HMCA HEM sing 168 n n CMC HMCB HEM sing 169 n n CAC CBC HEM doub 170 n n CAC HAC HEM sing 171 n n CBC HBC HEM sing 172 n n CBC HBCA HEM sing 173 n n C1D C2D HEM sing 174 n n C1D ND HEM doub 175 n n C2D C3D HEM doub 176 n n C2D CMD HEM sing 177 n n C3D C4D HEM sing 178 n n C3D CAD HEM sing 179 n n C4D ND HEM sing 180 n n CMD HMD HEM sing 181 n n CMD HMDA HEM sing 182 n n CMD HMDB HEM sing 183 n n CAD CBD HEM sing 184 n n CAD HAD HEM sing 185 n n CAD HADA HEM sing 186 n n CBD CGD HEM sing 187 n n CBD HBD HEM sing 188 n n CBD HBDA HEM sing 189 n n CGD O1D HEM doub 190 n n CGD O2D HEM sing 191 n n O2A H2A HEM sing 192 n n O2D H2D HEM sing 193 n n FE NA HEM sing 194 n n FE NB HEM sing 195 n n FE NC HEM sing 196 n n FE ND HEM sing 197 n n # _atom_sites.entry_id 7W7D _atom_sites.fract_transf_matrix[1][1] 0.012109 _atom_sites.fract_transf_matrix[1][2] 0.000799 _atom_sites.fract_transf_matrix[1][3] 0.002781 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007422 _atom_sites.fract_transf_matrix[2][3] 0.003257 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.006898 _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 M 3 HEM D 1 401 401 HEM HEM . N 3 HEM F 1 401 401 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 . . . N 3 13.142 59.585 151.794 0.81 288.43 ? CHA HEM 401 F 1 HETATM 2 C CHB HEM . . . N 3 15.589 56.798 154.937 0.81 288.43 ? CHB HEM 401 F 1 HETATM 3 C CHC HEM . . . N 3 17.867 54.642 151.227 0.81 288.43 ? CHC HEM 401 F 1 HETATM 4 C CHD HEM . . . N 3 15.512 57.494 148.088 0.81 288.43 ? CHD HEM 401 F 1 HETATM 5 C C1A HEM . . . N 3 13.599 59.031 152.974 0.81 238.43 ? C1A HEM 401 F 1 HETATM 6 C C2A HEM . . . N 3 13.197 59.396 154.321 0.81 238.43 ? C2A HEM 401 F 1 HETATM 7 C C3A HEM . . . N 3 13.871 58.625 155.179 0.81 238.43 ? C3A HEM 401 F 1 HETATM 8 C C4A HEM . . . N 3 14.73 57.743 154.418 0.81 238.43 ? C4A HEM 401 F 1 HETATM 9 C CMA HEM . . . N 3 13.76 58.663 156.72 0.81 288.43 ? CMA HEM 401 F 1 HETATM 10 C CAA HEM . . . N 3 12.167 60.475 154.719 0.81 288.43 ? CAA HEM 401 F 1 HETATM 11 C CBA HEM . . . N 3 10.765 59.88 154.664 0.81 288.43 ? CBA HEM 401 F 1 HETATM 12 C CGA HEM . . . N 3 9.776 60.854 155.246 0.81 288.43 ? CGA HEM 401 F 1 HETATM 13 O O1A HEM . . . N 3 9.449 61.86 154.566 0.81 288.43 ? O1A HEM 401 F 1 HETATM 14 O O2A HEM . . . N 3 9.318 60.625 156.395 0.81 288.43 ? O2A HEM 401 F 1 HETATM 15 C C1B HEM . . . N 3 16.389 55.941 154.209 0.81 238.43 ? C1B HEM 401 F 1 HETATM 16 C C2B HEM . . . N 3 17.189 54.864 154.742 0.81 238.43 ? C2B HEM 401 F 1 HETATM 17 C C3B HEM . . . N 3 17.81 54.268 153.705 0.81 238.43 ? C3B HEM 401 F 1 HETATM 18 C C4B HEM . . . N 3 17.433 54.954 152.495 0.81 238.43 ? C4B HEM 401 F 1 HETATM 19 C CMB HEM . . . N 3 17.224 54.552 156.261 0.81 288.43 ? CMB HEM 401 F 1 HETATM 20 C CAB HEM . . . N 3 18.781 53.078 153.748 0.81 288.43 ? CAB HEM 401 F 1 HETATM 21 C CBB HEM . . . N 3 18.983 52.492 154.922 0.81 288.43 ? CBB HEM 401 F 1 HETATM 22 C C1C HEM . . . N 3 17.454 55.239 150.056 0.81 238.43 ? C1C HEM 401 F 1 HETATM 23 C C2C HEM . . . N 3 17.951 54.945 148.735 0.81 238.43 ? C2C HEM 401 F 1 HETATM 24 C C3C HEM . . . N 3 17.297 55.739 147.864 0.81 238.43 ? C3C HEM 401 F 1 HETATM 25 C C4C HEM . . . N 3 16.369 56.554 148.611 0.81 238.43 ? C4C HEM 401 F 1 HETATM 26 C CMC HEM . . . N 3 19.052 53.876 148.517 0.81 288.43 ? CMC HEM 401 F 1 HETATM 27 C CAC HEM . . . N 3 17.47 55.801 146.338 0.81 288.43 ? CAC HEM 401 F 1 HETATM 28 C CBC HEM . . . N 3 18.335 54.954 145.788 0.81 288.43 ? CBC HEM 401 F 1 HETATM 29 C C1D HEM . . . N 3 14.677 58.316 148.814 0.81 238.43 ? C1D HEM 401 F 1 HETATM 30 C C2D HEM . . . N 3 13.817 59.354 148.277 0.81 238.43 ? C2D HEM 401 F 1 HETATM 31 C C3D HEM . . . N 3 13.164 59.921 149.293 0.81 238.43 ? C3D HEM 401 F 1 HETATM 32 C C4D HEM . . . N 3 13.586 59.279 150.521 0.81 238.43 ? C4D HEM 401 F 1 HETATM 33 C CMD HEM . . . N 3 13.66 59.742 146.791 0.81 288.43 ? CMD HEM 401 F 1 HETATM 34 C CAD HEM . . . N 3 12.143 61.075 149.198 0.81 288.43 ? CAD HEM 401 F 1 HETATM 35 C CBD HEM . . . N 3 12.791 62.367 149.686 0.81 288.43 ? CBD HEM 401 F 1 HETATM 36 C CGD HEM . . . N 3 11.731 63.408 149.945 0.81 288.43 ? CGD HEM 401 F 1 HETATM 37 O O1D HEM . . . N 3 10.972 63.756 149.003 0.81 288.43 ? O1D HEM 401 F 1 HETATM 38 O O2D HEM . . . N 3 11.643 63.889 151.104 0.81 288.43 ? O2D HEM 401 F 1 HETATM 39 N NA HEM . . . N 3 14.537 58.02 153.077 0.81 208.43 ? NA HEM 401 F 1 HETATM 40 N NB HEM . . . N 3 16.564 55.967 152.841 0.81 208.43 ? NB HEM 401 F 1 HETATM 41 N NC HEM . . . N 3 16.493 56.221 149.944 0.81 208.43 ? NC HEM 401 F 1 HETATM 42 N ND HEM . . . N 3 14.508 58.302 150.188 0.81 208.43 ? ND HEM 401 F 1 HETATM 43 FE FE HEM . . . N 3 15.475 57.086 151.517 0.81 288.43 2 FE HEM 401 F 1 HETATM 44 H HHB HEM . . . N 3 15.636 56.728 155.913 0.81 288.43 ? HHB HEM 401 F 1 HETATM 45 H HHC HEM . . . N 3 18.533 53.927 151.149 0.81 288.43 ? HHC HEM 401 F 1 HETATM 46 H HHD HEM . . . N 3 15.495 57.589 147.113 0.81 288.43 ? HHD HEM 401 F 1 HETATM 47 H HMA HEM . . . N 3 14.168 57.856 157.097 0.81 288.43 ? HMA HEM 401 F 1 HETATM 48 H HMAA HEM . . . N 3 12.816 58.703 156.979 0.81 288.43 ? HMAA HEM 401 F 1 HETATM 49 H HMAB HEM . . . N 3 14.226 59.454 157.062 0.81 288.43 ? HMAB HEM 401 F 1 HETATM 50 H HAA HEM . . . N 3 12.226 61.222 154.102 0.81 288.43 ? HAA HEM 401 F 1 HETATM 51 H HAAA HEM . . . N 3 12.352 60.783 155.62 0.81 288.43 ? HAAA HEM 401 F 1 HETATM 52 H HBA HEM . . . N 3 10.744 59.056 155.175 0.81 288.43 ? HBA HEM 401 F 1 HETATM 53 H HBAA HEM . . . N 3 10.53 59.695 153.741 0.81 288.43 ? HBAA HEM 401 F 1 HETATM 54 H HMB HEM . . . N 3 16.72 55.226 156.742 0.81 288.43 ? HMB HEM 401 F 1 HETATM 55 H HMBA HEM . . . N 3 18.143 54.553 156.57 0.81 288.43 ? HMBA HEM 401 F 1 HETATM 56 H HMBB HEM . . . N 3 16.831 53.68 156.421 0.81 288.43 ? HMBB HEM 401 F 1 HETATM 57 H HAB HEM . . . N 3 19.225 52.77 152.954 0.81 288.43 ? HAB HEM 401 F 1 HETATM 58 H HBB HEM . . . N 3 19.589 51.737 154.99 0.81 288.43 ? HBB HEM 401 F 1 HETATM 59 H HBBA HEM . . . N 3 18.525 52.818 155.713 0.81 288.43 ? HBBA HEM 401 F 1 HETATM 60 H HMC HEM . . . N 3 19.312 53.5 149.372 0.81 288.43 ? HMC HEM 401 F 1 HETATM 61 H HMCA HEM . . . N 3 19.824 54.286 148.097 0.81 288.43 ? HMCA HEM 401 F 1 HETATM 62 H HMCB HEM . . . N 3 18.71 53.171 147.945 0.81 288.43 ? HMCB HEM 401 F 1 HETATM 63 H HAC HEM . . . N 3 16.975 56.427 145.804 0.81 288.43 ? HAC HEM 401 F 1 HETATM 64 H HBC HEM . . . N 3 18.825 54.33 146.346 0.81 288.43 ? HBC HEM 401 F 1 HETATM 65 H HBCA HEM . . . N 3 18.475 54.959 144.828 0.81 288.43 ? HBCA HEM 401 F 1 HETATM 66 H HMD HEM . . . N 3 13.455 58.942 146.264 0.81 288.43 ? HMD HEM 401 F 1 HETATM 67 H HMDA HEM . . . N 3 14.494 60.142 146.467 0.81 288.43 ? HMDA HEM 401 F 1 HETATM 68 H HMDB HEM . . . N 3 12.93 60.389 146.698 0.81 288.43 ? HMDB HEM 401 F 1 HETATM 69 H HAD HEM . . . N 3 11.861 61.182 148.277 0.81 288.43 ? HAD HEM 401 F 1 HETATM 70 H HADA HEM . . . N 3 11.372 60.871 149.751 0.81 288.43 ? HADA HEM 401 F 1 HETATM 71 H HBD HEM . . . N 3 13.278 62.193 150.507 0.81 288.43 ? HBD HEM 401 F 1 HETATM 72 H HBDA HEM . . . N 3 13.404 62.694 149.009 0.81 288.43 ? HBDA HEM 401 F 1 HETATM 73 H HHA HEM . . . N 3 12.434 60.259 151.866 0.81 288.43 ? HHA HEM 401 F 1 # _model_server_stats.io_time_ms 84 _model_server_stats.parse_time_ms 35 _model_server_stats.create_model_time_ms 67 _model_server_stats.query_time_ms 340 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 73 #