data_3HEP # _model_server_result.job_id xwOCPuuinMZopxZjRj3wqQ _model_server_result.datetime_utc '2024-10-19 22:22:38' _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 3hep # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":154}' # _entry.id 3HEP # _exptl.entry_id 3HEP _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 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 3HEP _cell.length_a 30.389 _cell.length_b 119.39 _cell.length_c 57.155 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3HEP _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 metalc ? metalc1 A NE2 HIS 93 A HIS 93 1_555 B FE HEM . A HEM 154 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? metalc ? metalc2 B FE HEM . A HEM 154 1_555 C N NO2 . A NO2 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.571 ? # _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 3HEP _atom_sites.fract_transf_matrix[1][1] 0.032906 _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] 0.008376 _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] 0.017496 _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 HEM A 1 154 154 HEM HEM . C 3 NO2 A 1 155 1 NO2 NO2 . D 3 NO2 A 1 156 2 NO2 NO2 . E 4 HOH A 1 157 1 HOH HOH . E 4 HOH A 2 158 2 HOH HOH . E 4 HOH A 3 159 3 HOH HOH . E 4 HOH A 4 160 4 HOH HOH . E 4 HOH A 5 161 5 HOH HOH . E 4 HOH A 6 162 6 HOH HOH . E 4 HOH A 7 163 7 HOH HOH . E 4 HOH A 8 164 8 HOH HOH . E 4 HOH A 9 165 9 HOH HOH . E 4 HOH A 10 166 10 HOH HOH . E 4 HOH A 11 167 11 HOH HOH . E 4 HOH A 12 168 12 HOH HOH . E 4 HOH A 13 169 13 HOH HOH . E 4 HOH A 14 170 14 HOH HOH . E 4 HOH A 15 171 15 HOH HOH . E 4 HOH A 16 172 16 HOH HOH . E 4 HOH A 17 173 17 HOH HOH . E 4 HOH A 18 174 18 HOH HOH . E 4 HOH A 19 175 19 HOH HOH . E 4 HOH A 20 176 20 HOH HOH . E 4 HOH A 21 177 21 HOH HOH . E 4 HOH A 22 178 22 HOH HOH . E 4 HOH A 23 179 23 HOH HOH . E 4 HOH A 24 180 24 HOH HOH . E 4 HOH A 25 181 25 HOH HOH . E 4 HOH A 26 182 26 HOH HOH . E 4 HOH A 27 183 27 HOH HOH . E 4 HOH A 28 184 28 HOH HOH . E 4 HOH A 29 185 29 HOH HOH . E 4 HOH A 30 186 30 HOH HOH . E 4 HOH A 31 187 31 HOH HOH . E 4 HOH A 32 188 32 HOH HOH . E 4 HOH A 33 189 33 HOH HOH . E 4 HOH A 34 190 34 HOH HOH . E 4 HOH A 35 191 35 HOH HOH . E 4 HOH A 36 192 36 HOH HOH . E 4 HOH A 37 193 37 HOH HOH . E 4 HOH A 38 194 38 HOH HOH . E 4 HOH A 39 195 39 HOH HOH . E 4 HOH A 40 196 40 HOH HOH . E 4 HOH A 41 197 41 HOH HOH . E 4 HOH A 42 198 42 HOH HOH . E 4 HOH A 43 199 43 HOH HOH . E 4 HOH A 44 200 44 HOH HOH . E 4 HOH A 45 201 45 HOH HOH . E 4 HOH A 46 202 46 HOH HOH . E 4 HOH A 47 203 47 HOH HOH . E 4 HOH A 48 204 48 HOH HOH . E 4 HOH A 49 205 49 HOH HOH . E 4 HOH A 50 206 50 HOH HOH . E 4 HOH A 51 207 51 HOH HOH . E 4 HOH A 52 208 52 HOH HOH . E 4 HOH A 53 209 53 HOH HOH . E 4 HOH A 54 210 54 HOH HOH . E 4 HOH A 55 211 55 HOH HOH . E 4 HOH A 56 212 56 HOH HOH . E 4 HOH A 57 213 57 HOH HOH . E 4 HOH A 58 214 58 HOH HOH . E 4 HOH A 59 215 59 HOH HOH . E 4 HOH A 60 216 60 HOH HOH . E 4 HOH A 61 217 61 HOH HOH . E 4 HOH A 62 218 62 HOH HOH . E 4 HOH A 63 219 63 HOH HOH . E 4 HOH A 64 220 64 HOH HOH . E 4 HOH A 65 221 65 HOH HOH . E 4 HOH A 66 222 66 HOH HOH . E 4 HOH A 67 223 67 HOH HOH . E 4 HOH A 68 224 68 HOH HOH . E 4 HOH A 69 225 69 HOH HOH . E 4 HOH A 70 226 70 HOH HOH . E 4 HOH A 71 227 71 HOH HOH . E 4 HOH A 72 228 72 HOH HOH . E 4 HOH A 73 229 73 HOH HOH . E 4 HOH A 74 230 74 HOH HOH . E 4 HOH A 75 231 75 HOH HOH . E 4 HOH A 76 232 76 HOH HOH . E 4 HOH A 77 233 77 HOH HOH . E 4 HOH A 78 234 78 HOH HOH . E 4 HOH A 79 235 79 HOH HOH . E 4 HOH A 80 236 80 HOH HOH . E 4 HOH A 81 237 81 HOH HOH . E 4 HOH A 82 238 82 HOH HOH . E 4 HOH A 83 239 83 HOH HOH . E 4 HOH A 84 240 84 HOH HOH . E 4 HOH A 85 241 85 HOH HOH . E 4 HOH A 86 242 86 HOH HOH . E 4 HOH A 87 243 87 HOH HOH . E 4 HOH A 88 244 88 HOH HOH . E 4 HOH A 89 245 89 HOH HOH . E 4 HOH A 90 246 90 HOH HOH . E 4 HOH A 91 247 91 HOH HOH . E 4 HOH A 92 248 92 HOH HOH . E 4 HOH A 93 249 93 HOH HOH . E 4 HOH A 94 250 94 HOH HOH . E 4 HOH A 95 251 95 HOH HOH . E 4 HOH A 96 252 96 HOH HOH . E 4 HOH A 97 253 97 HOH HOH . E 4 HOH A 98 254 98 HOH HOH . E 4 HOH A 99 255 99 HOH HOH . E 4 HOH A 100 256 100 HOH HOH . E 4 HOH A 101 257 101 HOH HOH . E 4 HOH A 102 258 102 HOH HOH . E 4 HOH A 103 259 103 HOH HOH . E 4 HOH A 104 260 104 HOH HOH . E 4 HOH A 105 261 105 HOH HOH . E 4 HOH A 106 262 106 HOH HOH . E 4 HOH A 107 263 107 HOH HOH . E 4 HOH A 108 264 108 HOH HOH . E 4 HOH A 109 265 109 HOH HOH . E 4 HOH A 110 266 110 HOH HOH . E 4 HOH A 111 267 111 HOH HOH . E 4 HOH A 112 268 112 HOH HOH . E 4 HOH A 113 269 113 HOH HOH . E 4 HOH A 114 270 114 HOH HOH . E 4 HOH A 115 271 115 HOH HOH . E 4 HOH A 116 272 116 HOH HOH . E 4 HOH A 117 273 117 HOH HOH . E 4 HOH A 118 274 118 HOH HOH . E 4 HOH A 119 275 119 HOH HOH . E 4 HOH A 120 276 120 HOH HOH . E 4 HOH A 121 277 121 HOH HOH . E 4 HOH A 122 278 122 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 . . . B 2 -18.038 19.76 -10.706 1 24.12 ? CHA HEM 154 A 1 HETATM 2 C CHB HEM . . . B 2 -15.297 23.363 -12.478 1 20.17 ? CHB HEM 154 A 1 HETATM 3 C CHC HEM . . . B 2 -11.459 21.496 -10.055 1 17.35 ? CHC HEM 154 A 1 HETATM 4 C CHD HEM . . . B 2 -14.324 18.039 -7.987 1 21.94 ? CHD HEM 154 A 1 HETATM 5 C C1A HEM . . . B 2 -17.628 20.894 -11.374 1 24.95 ? C1A HEM 154 A 1 HETATM 6 C C2A HEM . . . B 2 -18.47 21.654 -12.226 1 24.44 ? C2A HEM 154 A 1 HETATM 7 C C3A HEM . . . B 2 -17.72 22.651 -12.675 1 21.05 ? C3A HEM 154 A 1 HETATM 8 C C4A HEM . . . B 2 -16.384 22.536 -12.182 1 22.4 ? C4A HEM 154 A 1 HETATM 9 C CMA HEM . . . B 2 -18.128 23.77 -13.651 1 22.5 ? CMA HEM 154 A 1 HETATM 10 C CAA HEM . . . B 2 -19.991 21.393 -12.45 1 25.82 ? CAA HEM 154 A 1 HETATM 11 C CBA HEM . . . B 2 -20.886 22.449 -11.743 1 28.68 ? CBA HEM 154 A 1 HETATM 12 C CGA HEM . . . B 2 -20.532 22.595 -10.277 1 33.29 ? CGA HEM 154 A 1 HETATM 13 O O1A HEM . . . B 2 -20.631 21.597 -9.506 1 37.7 ? O1A HEM 154 A 1 HETATM 14 O O2A HEM . . . B 2 -20.125 23.725 -9.883 1 31.82 ? O2A HEM 154 A 1 HETATM 15 C C1B HEM . . . B 2 -14.002 23.183 -11.99 1 19.29 ? C1B HEM 154 A 1 HETATM 16 C C2B HEM . . . B 2 -12.809 23.939 -12.388 1 18.71 ? C2B HEM 154 A 1 HETATM 17 C C3B HEM . . . B 2 -11.762 23.375 -11.729 1 17.43 ? C3B HEM 154 A 1 HETATM 18 C C4B HEM . . . B 2 -12.239 22.307 -10.873 1 18.94 ? C4B HEM 154 A 1 HETATM 19 C CMB HEM . . . B 2 -12.881 25.128 -13.425 1 15.76 ? CMB HEM 154 A 1 HETATM 20 C CAB HEM . . . B 2 -10.266 23.771 -11.703 1 17.13 ? CAB HEM 154 A 1 HETATM 21 C CBB HEM . . . B 2 -9.715 24.117 -12.855 1 21.03 ? CBB HEM 154 A 1 HETATM 22 C C1C HEM . . . B 2 -11.845 20.362 -9.344 1 18.77 ? C1C HEM 154 A 1 HETATM 23 C C2C HEM . . . B 2 -11.006 19.425 -8.6 1 20.87 ? C2C HEM 154 A 1 HETATM 24 C C3C HEM . . . B 2 -11.809 18.443 -8.041 1 16.22 ? C3C HEM 154 A 1 HETATM 25 C C4C HEM . . . B 2 -13.186 18.77 -8.386 1 20.65 ? C4C HEM 154 A 1 HETATM 26 C CMC HEM . . . B 2 -9.48 19.567 -8.551 1 15.72 ? CMC HEM 154 A 1 HETATM 27 C CAC HEM . . . B 2 -11.541 17.219 -7.163 1 16.92 ? CAC HEM 154 A 1 HETATM 28 C CBC HEM . . . B 2 -10.306 16.75 -6.843 1 15.33 ? CBC HEM 154 A 1 HETATM 29 C C1D HEM . . . B 2 -15.557 18.186 -8.594 1 24.24 ? C1D HEM 154 A 1 HETATM 30 C C2D HEM . . . B 2 -16.633 17.285 -8.388 1 23.51 ? C2D HEM 154 A 1 HETATM 31 C C3D HEM . . . B 2 -17.771 17.772 -9.235 1 25.82 ? C3D HEM 154 A 1 HETATM 32 C C4D HEM . . . B 2 -17.265 18.945 -9.901 1 24.93 ? C4D HEM 154 A 1 HETATM 33 C CMD HEM . . . B 2 -16.585 16.023 -7.483 1 24.37 ? CMD HEM 154 A 1 HETATM 34 C CAD HEM . . . B 2 -19.178 17.038 -9.364 1 25.52 ? CAD HEM 154 A 1 HETATM 35 C CBD HEM . . . B 2 -18.847 16.106 -10.559 1 29.17 ? CBD HEM 154 A 1 HETATM 36 C CGD HEM . . . B 2 -20.014 15.421 -11.236 1 36.76 ? CGD HEM 154 A 1 HETATM 37 O O1D HEM . . . B 2 -20.923 16.034 -11.89 1 41.64 ? O1D HEM 154 A 1 HETATM 38 O O2D HEM . . . B 2 -19.969 14.186 -11.179 1 42.75 ? O2D HEM 154 A 1 HETATM 39 N NA HEM . . . B 2 -16.347 21.436 -11.428 1 21.56 ? NA HEM 154 A 1 HETATM 40 N NB HEM . . . B 2 -13.595 22.206 -11.137 1 21.66 ? NB HEM 154 A 1 HETATM 41 N NC HEM . . . B 2 -13.159 19.903 -9.161 1 20.45 ? NC HEM 154 A 1 HETATM 42 N ND HEM . . . B 2 -15.958 19.196 -9.487 1 23.71 ? ND HEM 154 A 1 HETATM 43 FE FE HEM . . . B 2 -14.839 20.813 -10.163 1 24.21 ? FE HEM 154 A 1 # _model_server_stats.io_time_ms 45 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #