data_1DT6 # _model_server_result.job_id YgsAyFs8BIZY-nE2TSUraw _model_server_result.datetime_utc '2024-11-25 03:31:56' _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 1dt6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":501}' # _entry.id 1DT6 # _exptl.entry_id 1DT6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 4 _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 1DT6 _cell.length_a 74.7 _cell.length_b 132 _cell.length_c 172.4 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DT6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PQS monomeric 1 author_and_software_defined_assembly 1 PISA tetrameric 4 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,C,D,E,F 1 1 A,B,C,D,E,F 2 1,2,3,4 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 4 'crystal symmetry operation' 4_555 x,-y,-z 1 0 0 0 -1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 4 _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 disulf ? disulf1 A SG CYS 42 A CYS 60 1_555 A SG CYS 42 A CYS 60 3_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.126 ? metalc ? metalc1 A OE2 GLU 181 A GLU 199 1_555 B SM SM . A SM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc2 A OE1 GLU 181 A GLU 199 1_555 B SM SM . A SM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.487 ? metalc ? metalc3 A OE1 GLU 181 A GLU 199 2_555 B SM SM . A SM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.487 ? metalc ? metalc4 A OE2 GLU 181 A GLU 199 2_555 B SM SM . A SM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.354 ? metalc ? metalc5 A OE1 GLU 185 A GLU 203 1_555 B SM SM . A SM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc6 A OE2 GLU 185 A GLU 203 1_555 B SM SM . A SM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc7 A OE1 GLU 185 A GLU 203 2_555 B SM SM . A SM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.219 ? metalc ? metalc8 A OE2 GLU 185 A GLU 203 2_555 B SM SM . A SM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.319 ? metalc ? metalc9 A SG CYS 414 A CYS 432 1_555 F FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? # _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 1DT6 _atom_sites.fract_transf_matrix[1][1] 0.013387 _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] 0.007576 _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] 0.0058 _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 B 2 SM A 1 502 502 SM SM . C 3 SO4 A 1 503 503 SO4 SO4 . D 3 SO4 A 1 504 504 SO4 SO4 . E 3 SO4 A 1 505 505 SO4 SO4 . F 4 HEM A 1 501 501 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 . . . F 4 -12.969 -19.024 -28.936 1 33.5 ? CHA HEM 501 A 1 HETATM 2 C CHB HEM . . . F 4 -9.307 -22.085 -29.501 1 34.5 ? CHB HEM 501 A 1 HETATM 3 C CHC HEM . . . F 4 -9.479 -21.318 -34.209 1 32.31 ? CHC HEM 501 A 1 HETATM 4 C CHD HEM . . . F 4 -13.254 -18.406 -33.663 1 33.26 ? CHD HEM 501 A 1 HETATM 5 C C1A HEM . . . F 4 -11.934 -19.933 -28.594 1 34.63 ? C1A HEM 501 A 1 HETATM 6 C C2A HEM . . . F 4 -11.524 -20.283 -27.304 1 35.49 ? C2A HEM 501 A 1 HETATM 7 C C3A HEM . . . F 4 -10.481 -21.219 -27.478 1 35.26 ? C3A HEM 501 A 1 HETATM 8 C C4A HEM . . . F 4 -10.319 -21.351 -28.856 1 36.01 ? C4A HEM 501 A 1 HETATM 9 C CMA HEM . . . F 4 -9.678 -21.958 -26.399 1 31.08 ? CMA HEM 501 A 1 HETATM 10 C CAA HEM . . . F 4 -12.154 -19.732 -25.986 1 38.7 ? CAA HEM 501 A 1 HETATM 11 C CBA HEM . . . F 4 -12.381 -20.698 -24.826 1 40.87 ? CBA HEM 501 A 1 HETATM 12 C CGA HEM . . . F 4 -13.773 -20.608 -24.161 1 45.87 ? CGA HEM 501 A 1 HETATM 13 O O1A HEM . . . F 4 -14.325 -19.516 -24.029 1 47.66 ? O1A HEM 501 A 1 HETATM 14 O O2A HEM . . . F 4 -14.344 -21.611 -23.745 1 37.86 ? O2A HEM 501 A 1 HETATM 15 C C1B HEM . . . F 4 -8.912 -22.109 -30.862 1 33.72 ? C1B HEM 501 A 1 HETATM 16 C C2B HEM . . . F 4 -7.787 -22.777 -31.385 1 30.63 ? C2B HEM 501 A 1 HETATM 17 C C3B HEM . . . F 4 -7.837 -22.568 -32.767 1 33.24 ? C3B HEM 501 A 1 HETATM 18 C C4B HEM . . . F 4 -9 -21.777 -32.971 1 35.31 ? C4B HEM 501 A 1 HETATM 19 C CMB HEM . . . F 4 -6.788 -23.557 -30.542 1 35.61 ? CMB HEM 501 A 1 HETATM 20 C CAB HEM . . . F 4 -6.978 -23.014 -33.814 1 32.02 ? CAB HEM 501 A 1 HETATM 21 C CBB HEM . . . F 4 -5.556 -23.24 -33.846 1 34.57 ? CBB HEM 501 A 1 HETATM 22 C C1C HEM . . . F 4 -10.595 -20.533 -34.532 1 29.03 ? C1C HEM 501 A 1 HETATM 23 C C2C HEM . . . F 4 -10.935 -20.137 -35.826 1 33.45 ? C2C HEM 501 A 1 HETATM 24 C C3C HEM . . . F 4 -12.101 -19.35 -35.682 1 38.13 ? C3C HEM 501 A 1 HETATM 25 C C4C HEM . . . F 4 -12.361 -19.307 -34.307 1 34.18 ? C4C HEM 501 A 1 HETATM 26 C CMC HEM . . . F 4 -10.163 -20.526 -37.104 1 29.38 ? CMC HEM 501 A 1 HETATM 27 C CAC HEM . . . F 4 -12.914 -18.679 -36.651 1 36.28 ? CAC HEM 501 A 1 HETATM 28 C CBC HEM . . . F 4 -13.435 -19.173 -37.915 1 40.62 ? CBC HEM 501 A 1 HETATM 29 C C1D HEM . . . F 4 -13.578 -18.346 -32.302 1 39.6 ? C1D HEM 501 A 1 HETATM 30 C C2D HEM . . . F 4 -14.615 -17.586 -31.766 1 44.77 ? C2D HEM 501 A 1 HETATM 31 C C3D HEM . . . F 4 -14.606 -17.859 -30.399 1 44.26 ? C3D HEM 501 A 1 HETATM 32 C C4D HEM . . . F 4 -13.542 -18.769 -30.191 1 38.07 ? C4D HEM 501 A 1 HETATM 33 C CMD HEM . . . F 4 -15.57 -16.661 -32.518 1 43.11 ? CMD HEM 501 A 1 HETATM 34 C CAD HEM . . . F 4 -15.548 -17.29 -29.313 1 55.72 ? CAD HEM 501 A 1 HETATM 35 C CBD HEM . . . F 4 -16.649 -18.329 -28.948 1 66.21 ? CBD HEM 501 A 1 HETATM 36 C CGD HEM . . . F 4 -17.695 -17.944 -27.879 1 75.91 ? CGD HEM 501 A 1 HETATM 37 O O1D HEM . . . F 4 -18.695 -18.631 -27.738 1 78.17 ? O1D HEM 501 A 1 HETATM 38 O O2D HEM . . . F 4 -17.508 -16.954 -27.183 1 80.2 ? O2D HEM 501 A 1 HETATM 39 N NA HEM . . . F 4 -11.191 -20.582 -29.51 1 32.26 ? NA HEM 501 A 1 HETATM 40 N NB HEM . . . F 4 -9.609 -21.517 -31.82 1 26.92 ? NB HEM 501 A 1 HETATM 41 N NC HEM . . . F 4 -11.438 -20.045 -33.612 1 31.7 ? NC HEM 501 A 1 HETATM 42 N ND HEM . . . F 4 -12.939 -19.053 -31.346 1 35.11 ? ND HEM 501 A 1 HETATM 43 FE FE HEM . . . F 4 -11.174 -20.185 -31.545 1 33.67 ? FE HEM 501 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 33 _model_server_stats.query_time_ms 274 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #