data_5XE1 # _model_server_result.job_id gPrqKEY-K5aDOnfwebM3Tg _model_server_result.datetime_utc '2024-10-20 03:30:16' _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 5xe1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":501}' # _entry.id 5XE1 # _exptl.entry_id 5XE1 _exptl.method 'X-RAY DIFFRACTION' # _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 2 _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 5XE1 _cell.length_a 87.05 _cell.length_b 97.38 _cell.length_c 128.47 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5XE1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 PISA monomeric 1 software_defined_assembly 2 PISA monomeric 1 software_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,E,F 1 1 A,C,D 2 1 B,E,F 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 ? 2 C N N ? 2 E 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 disulf ? disulf1 A SG CYS 308 A CYS 308 1_555 B SG CYS 308 B CYS 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc1 A NE2 HIS 346 A HIS 346 1_555 C FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.001 ? metalc ? metalc2 C FE HEM . A HEM 501 1_555 D NAO IUU . A IUU 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.99 ? metalc ? metalc3 C FE HEM . A HEM 501 1_555 D OAP IUU . A IUU 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.396 ? metalc ? metalc4 B NE2 HIS 346 B HIS 346 1_555 E FE HEM . B HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.994 ? metalc ? metalc5 E FE HEM . B HEM 501 1_555 F NAO IUU . B IUU 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.963 ? metalc ? metalc6 E FE HEM . B HEM 501 1_555 F OAP IUU . B IUU 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.173 ? # _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 5XE1 _atom_sites.fract_transf_matrix[1][1] 0.011488 _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] 0.010269 _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] 0.007784 _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 2 HEM A 1 501 501 HEM HEM . D 3 IUU A 1 502 502 IUU IUU . E 2 HEM B 1 501 501 HEM HEM . F 3 IUU B 1 502 502 IUU IUU . # 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 . . . E 2 -19.462 -2.893 -20.794 1 78.74 ? CHA HEM 501 B 1 HETATM 2 C CHB HEM . . . E 2 -21.418 -7.139 -21.909 1 74.72 ? CHB HEM 501 B 1 HETATM 3 C CHC HEM . . . E 2 -22.442 -7.859 -17.261 1 74.06 ? CHC HEM 501 B 1 HETATM 4 C CHD HEM . . . E 2 -20.083 -3.849 -16.101 1 77.06 ? CHD HEM 501 B 1 HETATM 5 C C1A HEM . . . E 2 -19.92 -3.967 -21.491 1 78.7 ? C1A HEM 501 B 1 HETATM 6 C C2A HEM . . . E 2 -20.006 -4.057 -22.891 1 79.5 ? C2A HEM 501 B 1 HETATM 7 C C3A HEM . . . E 2 -20.561 -5.251 -23.197 1 77.69 ? C3A HEM 501 B 1 HETATM 8 C C4A HEM . . . E 2 -20.803 -5.915 -21.989 1 75.67 ? C4A HEM 501 B 1 HETATM 9 C CMA HEM . . . E 2 -20.858 -5.796 -24.564 1 78.24 ? CMA HEM 501 B 1 HETATM 10 C CAA HEM . . . E 2 -19.6 -3.018 -23.887 1 81.1 ? CAA HEM 501 B 1 HETATM 11 C CBA HEM . . . E 2 -20.776 -2.052 -24.13 1 83.87 ? CBA HEM 501 B 1 HETATM 12 C CGA HEM . . . E 2 -21.144 -1.925 -25.594 1 86.52 ? CGA HEM 501 B 1 HETATM 13 O O1A HEM . . . E 2 -20.313 -1.513 -26.44 1 86.91 ? O1A HEM 501 B 1 HETATM 14 O O2A HEM . . . E 2 -22.302 -2.226 -25.961 1 88.45 ? O2A HEM 501 B 1 HETATM 15 C C1B HEM . . . E 2 -21.897 -7.676 -20.723 1 75.31 ? C1B HEM 501 B 1 HETATM 16 C C2B HEM . . . E 2 -22.625 -8.873 -20.686 1 74.66 ? C2B HEM 501 B 1 HETATM 17 C C3B HEM . . . E 2 -22.966 -9.087 -19.402 1 74.82 ? C3B HEM 501 B 1 HETATM 18 C C4B HEM . . . E 2 -22.363 -7.995 -18.631 1 74.78 ? C4B HEM 501 B 1 HETATM 19 C CMB HEM . . . E 2 -22.968 -9.737 -21.87 1 74.24 ? CMB HEM 501 B 1 HETATM 20 C CAB HEM . . . E 2 -23.615 -10.334 -18.975 1 75.38 ? CAB HEM 501 B 1 HETATM 21 C CBB HEM . . . E 2 -23.392 -10.89 -17.797 1 75.19 ? CBB HEM 501 B 1 HETATM 22 C C1C HEM . . . E 2 -21.876 -6.837 -16.52 1 73.85 ? C1C HEM 501 B 1 HETATM 23 C C2C HEM . . . E 2 -22.035 -6.662 -15.141 1 74.42 ? C2C HEM 501 B 1 HETATM 24 C C3C HEM . . . E 2 -21.334 -5.518 -14.799 1 75.16 ? C3C HEM 501 B 1 HETATM 25 C C4C HEM . . . E 2 -20.793 -4.991 -15.987 1 75.47 ? C4C HEM 501 B 1 HETATM 26 C CMC HEM . . . E 2 -22.771 -7.591 -14.208 1 73.72 ? CMC HEM 501 B 1 HETATM 27 C CAC HEM . . . E 2 -21.213 -4.857 -13.494 1 74.35 ? CAC HEM 501 B 1 HETATM 28 C CBC HEM . . . E 2 -21.982 -5.116 -12.453 1 74.12 ? CBC HEM 501 B 1 HETATM 29 C C1D HEM . . . E 2 -19.763 -3.295 -17.323 1 77.77 ? C1D HEM 501 B 1 HETATM 30 C C2D HEM . . . E 2 -19.131 -1.979 -17.372 1 77.57 ? C2D HEM 501 B 1 HETATM 31 C C3D HEM . . . E 2 -18.972 -1.709 -18.675 1 78.92 ? C3D HEM 501 B 1 HETATM 32 C C4D HEM . . . E 2 -19.503 -2.861 -19.408 1 78.81 ? C4D HEM 501 B 1 HETATM 33 C CMD HEM . . . E 2 -18.747 -1.109 -16.201 1 76.68 ? CMD HEM 501 B 1 HETATM 34 C CAD HEM . . . E 2 -18.332 -0.478 -19.267 1 79.06 ? CAD HEM 501 B 1 HETATM 35 C CBD HEM . . . E 2 -16.832 -0.776 -19.409 1 78.72 ? CBD HEM 501 B 1 HETATM 36 C CGD HEM . . . E 2 -16.118 -0.595 -18.095 1 78.64 ? CGD HEM 501 B 1 HETATM 37 O O1D HEM . . . E 2 -15.127 -1.306 -17.786 1 79.53 ? O1D HEM 501 B 1 HETATM 38 O O2D HEM . . . E 2 -16.503 0.285 -17.3 1 78.22 ? O2D HEM 501 B 1 HETATM 39 N NA HEM . . . E 2 -20.451 -5.101 -20.947 1 77.37 ? NA HEM 501 B 1 HETATM 40 N NB HEM . . . E 2 -21.745 -7.215 -19.498 1 75.92 ? NB HEM 501 B 1 HETATM 41 N NC HEM . . . E 2 -21.177 -5.784 -16.999 1 73.55 ? NC HEM 501 B 1 HETATM 42 N ND HEM . . . E 2 -19.958 -3.79 -18.551 1 77.52 ? ND HEM 501 B 1 HETATM 43 FE FE HEM . . . E 2 -20.791 -5.419 -19.002 1 76.45 ? FE HEM 501 B 1 # _model_server_stats.io_time_ms 28 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #