data_2HBF # _model_server_result.job_id OSZhfikNno3yn7m-8q0C0w _model_server_result.datetime_utc '2024-11-22 04:55:45' _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 2hbf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":147}' # _entry.id 2HBF # _exptl.entry_id 2HBF _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 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 2HBF _cell.length_a 54.05 _cell.length_b 54.05 _cell.length_c 193.8 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2HBF _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 C N N ? 3 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 metalc ? metalc1 A NE2 HIS 87 A HIS 87 1_555 C FE HEM . A HEM 142 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? metalc ? metalc2 C FE HEM . A HEM 142 1_555 D C NPN . A NPN 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.675 ? metalc ? metalc3 C FE HEM . A HEM 142 1_555 D N NPN . A NPN 143 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.642 ? metalc ? metalc4 B NE2 HIS 92 B HIS 92 1_555 E FE HEM . B HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.997 ? metalc ? metalc5 E FE HEM . B HEM 147 1_555 F N NPN . B NPN 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.715 ? metalc ? metalc6 E FE HEM . B HEM 147 1_555 F C NPN . B NPN 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.754 ? # _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 2HBF _atom_sites.fract_transf_matrix[1][1] 0.018501 _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] 0.018501 _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] 0.00516 _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 HEM A 1 142 142 HEM HEM . D 4 NPN A 1 143 143 NPN NPN . E 3 HEM B 1 147 147 HEM HEM . F 4 NPN B 1 148 148 NPN NPN . G 5 HOH A 1 157 157 HOH HOH . G 5 HOH A 2 158 158 HOH HOH . G 5 HOH A 3 161 161 HOH HOH . G 5 HOH A 4 167 167 HOH HOH . G 5 HOH A 5 169 169 HOH HOH . G 5 HOH A 6 186 186 HOH HOH . G 5 HOH A 7 205 205 HOH HOH . G 5 HOH A 8 206 206 HOH HOH . G 5 HOH A 9 209 209 HOH HOH . G 5 HOH A 10 216 216 HOH HOH . G 5 HOH A 11 245 245 HOH HOH . G 5 HOH A 12 246 246 HOH HOH . G 5 HOH A 13 247 247 HOH HOH . G 5 HOH A 14 251 251 HOH HOH . G 5 HOH A 15 255 255 HOH HOH . G 5 HOH A 16 266 266 HOH HOH . G 5 HOH A 17 360 360 HOH HOH . G 5 HOH A 18 364 364 HOH HOH . G 5 HOH A 19 365 365 HOH HOH . G 5 HOH A 20 412 412 HOH HOH . G 5 HOH A 21 414 414 HOH HOH . G 5 HOH A 22 458 458 HOH HOH . H 5 HOH B 1 152 152 HOH HOH . H 5 HOH B 2 156 156 HOH HOH . H 5 HOH B 3 162 162 HOH HOH . H 5 HOH B 4 163 163 HOH HOH . H 5 HOH B 5 165 165 HOH HOH . H 5 HOH B 6 166 166 HOH HOH . H 5 HOH B 7 173 173 HOH HOH . H 5 HOH B 8 213 213 HOH HOH . H 5 HOH B 9 219 219 HOH HOH . H 5 HOH B 10 229 229 HOH HOH . H 5 HOH B 11 232 232 HOH HOH . H 5 HOH B 12 237 237 HOH HOH . H 5 HOH B 13 238 238 HOH HOH . H 5 HOH B 14 241 241 HOH HOH . H 5 HOH B 15 248 248 HOH HOH . H 5 HOH B 16 259 259 HOH HOH . H 5 HOH B 17 263 263 HOH HOH . H 5 HOH B 18 265 265 HOH HOH . H 5 HOH B 19 268 268 HOH HOH . H 5 HOH B 20 269 269 HOH HOH . H 5 HOH B 21 271 271 HOH HOH . H 5 HOH B 22 273 273 HOH HOH . H 5 HOH B 23 358 358 HOH HOH . H 5 HOH B 24 361 361 HOH HOH . H 5 HOH B 25 363 363 HOH HOH . H 5 HOH B 26 366 366 HOH HOH . H 5 HOH B 27 408 408 HOH HOH . H 5 HOH B 28 410 410 HOH HOH . H 5 HOH B 29 415 415 HOH HOH . H 5 HOH B 30 416 416 HOH HOH . H 5 HOH B 31 459 459 HOH HOH . H 5 HOH B 32 465 465 HOH HOH . H 5 HOH B 33 559 559 HOH HOH . # 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 3 7.048 35.124 -1.762 1 29.69 ? CHA HEM 147 B 1 HETATM 2 C CHB HEM . . . E 3 8.228 32.267 2.049 1 26.97 ? CHB HEM 147 B 1 HETATM 3 C CHC HEM . . . E 3 12.848 33.269 1.19 1 23.16 ? CHC HEM 147 B 1 HETATM 4 C CHD HEM . . . E 3 11.725 36.092 -2.536 1 29.96 ? CHD HEM 147 B 1 HETATM 5 C C1A HEM . . . E 3 6.905 34.301 -0.631 1 33.05 ? C1A HEM 147 B 1 HETATM 6 C C2A HEM . . . E 3 5.662 34.011 0.158 1 34.93 ? C2A HEM 147 B 1 HETATM 7 C C3A HEM . . . E 3 6.02 33.3 1.193 1 32.23 ? C3A HEM 147 B 1 HETATM 8 C C4A HEM . . . E 3 7.466 33.096 1.213 1 31.77 ? C4A HEM 147 B 1 HETATM 9 C CMA HEM . . . E 3 5.04 32.772 2.098 1 32.09 ? CMA HEM 147 B 1 HETATM 10 C CAA HEM . . . E 3 4.261 34.49 -0.037 1 35.71 ? CAA HEM 147 B 1 HETATM 11 C CBA HEM . . . E 3 3.703 33.833 -1.286 1 41.8 ? CBA HEM 147 B 1 HETATM 12 C CGA HEM . . . E 3 2.18 33.895 -1.362 1 44.02 ? CGA HEM 147 B 1 HETATM 13 O O1A HEM . . . E 3 1.526 32.838 -1.563 1 41.99 ? O1A HEM 147 B 1 HETATM 14 O O2A HEM . . . E 3 1.642 35.011 -1.212 1 46.79 ? O2A HEM 147 B 1 HETATM 15 C C1B HEM . . . E 3 9.595 32.209 2.019 1 24.43 ? C1B HEM 147 B 1 HETATM 16 C C2B HEM . . . E 3 10.37 31.485 2.974 1 28.57 ? C2B HEM 147 B 1 HETATM 17 C C3B HEM . . . E 3 11.731 31.658 2.789 1 28 ? C3B HEM 147 B 1 HETATM 18 C C4B HEM . . . E 3 11.697 32.704 1.674 1 27.88 ? C4B HEM 147 B 1 HETATM 19 C CMB HEM . . . E 3 9.79 30.774 4.232 1 31.68 ? CMB HEM 147 B 1 HETATM 20 C CAB HEM . . . E 3 12.818 30.769 3.113 1 26.58 ? CAB HEM 147 B 1 HETATM 21 C CBB HEM . . . E 3 13.664 30.546 4.247 1 28.02 ? CBB HEM 147 B 1 HETATM 22 C C1C HEM . . . E 3 12.953 34.105 0.106 1 27.21 ? C1C HEM 147 B 1 HETATM 23 C C2C HEM . . . E 3 14.247 34.687 -0.402 1 27.26 ? C2C HEM 147 B 1 HETATM 24 C C3C HEM . . . E 3 13.912 35.544 -1.451 1 27.92 ? C3C HEM 147 B 1 HETATM 25 C C4C HEM . . . E 3 12.438 35.391 -1.611 1 27.86 ? C4C HEM 147 B 1 HETATM 26 C CMC HEM . . . E 3 15.678 34.347 0.08 1 24.7 ? CMC HEM 147 B 1 HETATM 27 C CAC HEM . . . E 3 14.81 36.259 -2.299 1 26.08 ? CAC HEM 147 B 1 HETATM 28 C CBC HEM . . . E 3 15.617 37.401 -1.963 1 25.8 ? CBC HEM 147 B 1 HETATM 29 C C1D HEM . . . E 3 10.37 36.219 -2.55 1 30.8 ? C1D HEM 147 B 1 HETATM 30 C C2D HEM . . . E 3 9.654 37.057 -3.478 1 32.27 ? C2D HEM 147 B 1 HETATM 31 C C3D HEM . . . E 3 8.362 36.709 -3.315 1 35.48 ? C3D HEM 147 B 1 HETATM 32 C C4D HEM . . . E 3 8.26 35.756 -2.224 1 32.42 ? C4D HEM 147 B 1 HETATM 33 C CMD HEM . . . E 3 10.044 38.255 -4.37 1 29.55 ? CMD HEM 147 B 1 HETATM 34 C CAD HEM . . . E 3 7.218 37.272 -4.218 1 37.75 ? CAD HEM 147 B 1 HETATM 35 C CBD HEM . . . E 3 6.581 36.246 -5.132 1 42.9 ? CBD HEM 147 B 1 HETATM 36 C CGD HEM . . . E 3 5.452 36.835 -5.953 1 49.92 ? CGD HEM 147 B 1 HETATM 37 O O1D HEM . . . E 3 4.638 37.618 -5.377 1 49.42 ? O1D HEM 147 B 1 HETATM 38 O O2D HEM . . . E 3 5.363 36.492 -7.169 1 53.39 ? O2D HEM 147 B 1 HETATM 39 N NA HEM . . . E 3 8.019 33.769 0.092 1 32.7 ? NA HEM 147 B 1 HETATM 40 N NB HEM . . . E 3 10.403 32.94 1.22 1 27.18 ? NB HEM 147 B 1 HETATM 41 N NC HEM . . . E 3 11.872 34.542 -0.657 1 29.24 ? NC HEM 147 B 1 HETATM 42 N ND HEM . . . E 3 9.535 35.476 -1.742 1 31.57 ? ND HEM 147 B 1 HETATM 43 FE FE HEM . . . E 3 9.93 34.035 -0.34 1 29.1 ? FE HEM 147 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 306 _model_server_stats.encode_time_ms 10 _model_server_stats.element_count 43 #