data_1BIN # _model_server_result.job_id 1hfQMiCkYhZZZ4-oylWQzA _model_server_result.datetime_utc '2024-11-18 08:31:34' _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 1bin # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":144}' # _entry.id 1BIN # _exptl.entry_id 1BIN _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 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 1BIN _cell.length_a 34.98 _cell.length_b 53.39 _cell.length_c 141.73 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BIN _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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,H 1 1 B,F,G,I 2 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 ? 4 E N N ? 4 G 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 92 A HIS 92 1_555 E FE HEM . A HEM 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc2 E FE HEM . A HEM 144 1_555 C O ACT . A ACT 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? metalc ? metalc3 B NE2 HIS 92 B HIS 92 1_555 G FE HEM . B HEM 144 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? metalc ? metalc4 G FE HEM . B HEM 144 1_555 F O ACT . B ACT 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.915 ? # _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 122 n n CHA C4D HEM doub 123 n n CHA HHA HEM sing 124 n n CHB C4A HEM sing 125 n n CHB C1B HEM doub 126 n n CHB HHB HEM sing 127 n n CHC C4B HEM sing 128 n n CHC C1C HEM doub 129 n n CHC HHC HEM sing 130 n n CHD C4C HEM doub 131 n n CHD C1D HEM sing 132 n n CHD HHD HEM sing 133 n n C1A C2A HEM doub 134 n y C1A NA HEM sing 135 n y C2A C3A HEM sing 136 n y C2A CAA HEM sing 137 n n C3A C4A HEM doub 138 n y C3A CMA HEM sing 139 n n C4A NA HEM sing 140 n y CMA HMA HEM sing 141 n n CMA HMAA HEM sing 142 n n CMA HMAB HEM sing 143 n n CAA CBA HEM sing 144 n n CAA HAA HEM sing 145 n n CAA HAAA HEM sing 146 n n CBA CGA HEM sing 147 n n CBA HBA HEM sing 148 n n CBA HBAA HEM sing 149 n n CGA O1A HEM doub 150 n n CGA O2A HEM sing 151 n n C1B C2B HEM sing 152 n n C1B NB HEM sing 153 n n C2B C3B HEM doub 154 n n C2B CMB HEM sing 155 n n C3B C4B HEM sing 156 n n C3B CAB HEM sing 157 n n C4B NB HEM doub 158 n n CMB HMB HEM sing 159 n n CMB HMBA HEM sing 160 n n CMB HMBB HEM sing 161 n n CAB CBB HEM doub 162 n n CAB HAB HEM sing 163 n n CBB HBB HEM sing 164 n n CBB HBBA HEM sing 165 n n C1C C2C HEM sing 166 n y C1C NC HEM sing 167 n y C2C C3C HEM doub 168 n y C2C CMC HEM sing 169 n n C3C C4C HEM sing 170 n y C3C CAC HEM sing 171 n n C4C NC HEM sing 172 n y CMC HMC HEM sing 173 n n CMC HMCA HEM sing 174 n n CMC HMCB HEM sing 175 n n CAC CBC HEM doub 176 n n CAC HAC HEM sing 177 n n CBC HBC HEM sing 178 n n CBC HBCA HEM sing 179 n n C1D C2D HEM sing 180 n n C1D ND HEM doub 181 n n C2D C3D HEM doub 182 n n C2D CMD HEM sing 183 n n C3D C4D HEM sing 184 n n C3D CAD HEM sing 185 n n C4D ND HEM sing 186 n n CMD HMD HEM sing 187 n n CMD HMDA HEM sing 188 n n CMD HMDB HEM sing 189 n n CAD CBD HEM sing 190 n n CAD HAD HEM sing 191 n n CAD HADA HEM sing 192 n n CBD CGD HEM sing 193 n n CBD HBD HEM sing 194 n n CBD HBDA HEM sing 195 n n CGD O1D HEM doub 196 n n CGD O2D HEM sing 197 n n O2A H2A HEM sing 198 n n O2D H2D HEM sing 199 n n FE NA HEM sing 200 n n FE NB HEM sing 201 n n FE NC HEM sing 202 n n FE ND HEM sing 203 n n # _atom_sites.entry_id 1BIN _atom_sites.fract_transf_matrix[1][1] 0.028588 _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] 0.01873 _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] 0.007056 _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 ACT A 1 145 145 ACT ACT . D 3 SO4 A 1 200 200 SO4 SO4 . E 4 HEM A 1 144 144 HEM HEM . F 2 ACT B 1 145 145 ACT ACT . G 4 HEM B 1 144 144 HEM HEM . H 5 HOH A 1 202 202 HOH HOH . H 5 HOH A 2 204 204 HOH HOH . H 5 HOH A 3 205 205 HOH HOH . H 5 HOH A 4 206 206 HOH HOH . H 5 HOH A 5 207 207 HOH HOH . H 5 HOH A 6 210 210 HOH HOH . H 5 HOH A 7 215 215 HOH HOH . H 5 HOH A 8 216 216 HOH HOH . H 5 HOH A 9 218 218 HOH HOH . H 5 HOH A 10 220 220 HOH HOH . H 5 HOH A 11 221 221 HOH HOH . H 5 HOH A 12 222 222 HOH HOH . H 5 HOH A 13 227 227 HOH HOH . H 5 HOH A 14 228 228 HOH HOH . H 5 HOH A 15 230 230 HOH HOH . H 5 HOH A 16 232 232 HOH HOH . H 5 HOH A 17 234 234 HOH HOH . H 5 HOH A 18 237 237 HOH HOH . H 5 HOH A 19 238 238 HOH HOH . H 5 HOH A 20 241 241 HOH HOH . H 5 HOH A 21 242 242 HOH HOH . H 5 HOH A 22 243 243 HOH HOH . H 5 HOH A 23 245 245 HOH HOH . H 5 HOH A 24 246 246 HOH HOH . H 5 HOH A 25 249 249 HOH HOH . H 5 HOH A 26 253 253 HOH HOH . H 5 HOH A 27 255 255 HOH HOH . H 5 HOH A 28 256 256 HOH HOH . H 5 HOH A 29 258 258 HOH HOH . H 5 HOH A 30 259 259 HOH HOH . H 5 HOH A 31 263 263 HOH HOH . H 5 HOH A 32 266 266 HOH HOH . H 5 HOH A 33 267 267 HOH HOH . H 5 HOH A 34 268 268 HOH HOH . H 5 HOH A 35 274 274 HOH HOH . H 5 HOH A 36 276 276 HOH HOH . H 5 HOH A 37 278 278 HOH HOH . H 5 HOH A 38 290 290 HOH HOH . H 5 HOH A 39 292 292 HOH HOH . H 5 HOH A 40 293 293 HOH HOH . H 5 HOH A 41 294 294 HOH HOH . H 5 HOH A 42 296 296 HOH HOH . H 5 HOH A 43 297 297 HOH HOH . H 5 HOH A 44 298 298 HOH HOH . H 5 HOH A 45 299 299 HOH HOH . H 5 HOH A 46 302 302 HOH HOH . H 5 HOH A 47 303 303 HOH HOH . H 5 HOH A 48 304 304 HOH HOH . H 5 HOH A 49 305 305 HOH HOH . H 5 HOH A 50 307 307 HOH HOH . H 5 HOH A 51 310 310 HOH HOH . H 5 HOH A 52 312 312 HOH HOH . H 5 HOH A 53 316 316 HOH HOH . H 5 HOH A 54 317 317 HOH HOH . H 5 HOH A 55 319 319 HOH HOH . H 5 HOH A 56 321 321 HOH HOH . H 5 HOH A 57 322 322 HOH HOH . H 5 HOH A 58 323 323 HOH HOH . H 5 HOH A 59 326 326 HOH HOH . H 5 HOH A 60 327 327 HOH HOH . H 5 HOH A 61 334 334 HOH HOH . H 5 HOH A 62 335 335 HOH HOH . I 5 HOH B 1 201 201 HOH HOH . I 5 HOH B 2 203 203 HOH HOH . I 5 HOH B 3 208 208 HOH HOH . I 5 HOH B 4 209 209 HOH HOH . I 5 HOH B 5 211 211 HOH HOH . I 5 HOH B 6 212 212 HOH HOH . I 5 HOH B 7 213 213 HOH HOH . I 5 HOH B 8 214 214 HOH HOH . I 5 HOH B 9 217 217 HOH HOH . I 5 HOH B 10 219 219 HOH HOH . I 5 HOH B 11 223 223 HOH HOH . I 5 HOH B 12 224 224 HOH HOH . I 5 HOH B 13 225 225 HOH HOH . I 5 HOH B 14 226 226 HOH HOH . I 5 HOH B 15 229 229 HOH HOH . I 5 HOH B 16 231 231 HOH HOH . I 5 HOH B 17 233 233 HOH HOH . I 5 HOH B 18 235 235 HOH HOH . I 5 HOH B 19 236 236 HOH HOH . I 5 HOH B 20 239 239 HOH HOH . I 5 HOH B 21 240 240 HOH HOH . I 5 HOH B 22 244 244 HOH HOH . I 5 HOH B 23 247 247 HOH HOH . I 5 HOH B 24 248 248 HOH HOH . I 5 HOH B 25 250 250 HOH HOH . I 5 HOH B 26 251 251 HOH HOH . I 5 HOH B 27 252 252 HOH HOH . I 5 HOH B 28 254 254 HOH HOH . I 5 HOH B 29 257 257 HOH HOH . I 5 HOH B 30 260 260 HOH HOH . I 5 HOH B 31 261 261 HOH HOH . I 5 HOH B 32 262 262 HOH HOH . I 5 HOH B 33 264 264 HOH HOH . I 5 HOH B 34 265 265 HOH HOH . I 5 HOH B 35 269 269 HOH HOH . I 5 HOH B 36 270 270 HOH HOH . I 5 HOH B 37 271 271 HOH HOH . I 5 HOH B 38 272 272 HOH HOH . I 5 HOH B 39 273 273 HOH HOH . I 5 HOH B 40 275 275 HOH HOH . I 5 HOH B 41 277 277 HOH HOH . I 5 HOH B 42 279 279 HOH HOH . I 5 HOH B 43 280 280 HOH HOH . I 5 HOH B 44 281 281 HOH HOH . I 5 HOH B 45 282 282 HOH HOH . I 5 HOH B 46 283 283 HOH HOH . I 5 HOH B 47 284 284 HOH HOH . I 5 HOH B 48 285 285 HOH HOH . I 5 HOH B 49 286 286 HOH HOH . I 5 HOH B 50 287 287 HOH HOH . I 5 HOH B 51 288 288 HOH HOH . I 5 HOH B 52 289 289 HOH HOH . I 5 HOH B 53 291 291 HOH HOH . I 5 HOH B 54 295 295 HOH HOH . I 5 HOH B 55 300 300 HOH HOH . I 5 HOH B 56 301 301 HOH HOH . I 5 HOH B 57 306 306 HOH HOH . I 5 HOH B 58 308 308 HOH HOH . I 5 HOH B 59 309 309 HOH HOH . I 5 HOH B 60 311 311 HOH HOH . I 5 HOH B 61 313 313 HOH HOH . I 5 HOH B 62 314 314 HOH HOH . I 5 HOH B 63 315 315 HOH HOH . I 5 HOH B 64 318 318 HOH HOH . I 5 HOH B 65 320 320 HOH HOH . I 5 HOH B 66 324 324 HOH HOH . I 5 HOH B 67 325 325 HOH HOH . I 5 HOH B 68 328 328 HOH HOH . I 5 HOH B 69 329 329 HOH HOH . I 5 HOH B 70 330 330 HOH HOH . I 5 HOH B 71 331 331 HOH HOH . I 5 HOH B 72 332 332 HOH HOH . I 5 HOH B 73 333 333 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 4 15.005 12.885 11.661 1 14.1 ? CHA HEM 144 A 1 HETATM 2 C CHB HEM . . . E 4 13.044 16.856 9.777 1 12.5 ? CHB HEM 144 A 1 HETATM 3 C CHC HEM . . . E 4 14.224 19.32 13.748 1 12.2 ? CHC HEM 144 A 1 HETATM 4 C CHD HEM . . . E 4 16.33 15.352 15.45 1 13.9 ? CHD HEM 144 A 1 HETATM 5 C C1A HEM . . . E 4 14.337 13.788 10.785 1 13.8 ? C1A HEM 144 A 1 HETATM 6 C C2A HEM . . . E 4 13.745 13.447 9.603 1 13.9 ? C2A HEM 144 A 1 HETATM 7 C C3A HEM . . . E 4 13.412 14.554 8.95 1 13.9 ? C3A HEM 144 A 1 HETATM 8 C C4A HEM . . . E 4 13.614 15.625 9.881 1 13.5 ? C4A HEM 144 A 1 HETATM 9 C CMA HEM . . . E 4 13.06 14.757 7.476 1 13.9 ? CMA HEM 144 A 1 HETATM 10 C CAA HEM . . . E 4 13.383 12.057 9.318 1 14.8 ? CAA HEM 144 A 1 HETATM 11 C CBA HEM . . . E 4 13.701 11.32 8.081 1 15.9 ? CBA HEM 144 A 1 HETATM 12 C CGA HEM . . . E 4 13.683 9.827 8.369 1 17.1 ? CGA HEM 144 A 1 HETATM 13 O O1A HEM . . . E 4 14.783 9.196 8.415 1 17.7 ? O1A HEM 144 A 1 HETATM 14 O O2A HEM . . . E 4 12.573 9.295 8.617 1 17.1 ? O2A HEM 144 A 1 HETATM 15 C C1B HEM . . . E 4 13.131 17.805 10.711 1 12 ? C1B HEM 144 A 1 HETATM 16 C C2B HEM . . . E 4 12.655 19.157 10.55 1 12 ? C2B HEM 144 A 1 HETATM 17 C C3B HEM . . . E 4 12.911 19.86 11.671 1 12.1 ? C3B HEM 144 A 1 HETATM 18 C C4B HEM . . . E 4 13.617 18.924 12.545 1 12.1 ? C4B HEM 144 A 1 HETATM 19 C CMB HEM . . . E 4 12.07 19.799 9.318 1 11.9 ? CMB HEM 144 A 1 HETATM 20 C CAB HEM . . . E 4 12.711 21.256 11.873 1 12.2 ? CAB HEM 144 A 1 HETATM 21 C CBB HEM . . . E 4 11.508 21.896 12.21 1 11.4 ? CBB HEM 144 A 1 HETATM 22 C C1C HEM . . . E 4 15.094 18.515 14.539 1 12.5 ? C1C HEM 144 A 1 HETATM 23 C C2C HEM . . . E 4 15.577 18.844 15.886 1 12.3 ? C2C HEM 144 A 1 HETATM 24 C C3C HEM . . . E 4 16.174 17.726 16.371 1 12.7 ? C3C HEM 144 A 1 HETATM 25 C C4C HEM . . . E 4 15.994 16.71 15.295 1 13.3 ? C4C HEM 144 A 1 HETATM 26 C CMC HEM . . . E 4 15.279 20.154 16.617 1 11.6 ? CMC HEM 144 A 1 HETATM 27 C CAC HEM . . . E 4 16.878 17.535 17.563 1 12.7 ? CAC HEM 144 A 1 HETATM 28 C CBC HEM . . . E 4 18.34 17.409 17.598 1 13 ? CBC HEM 144 A 1 HETATM 29 C C1D HEM . . . E 4 16.222 14.291 14.574 1 14.4 ? C1D HEM 144 A 1 HETATM 30 C C2D HEM . . . E 4 16.682 12.889 14.815 1 14.7 ? C2D HEM 144 A 1 HETATM 31 C C3D HEM . . . E 4 16.291 12.158 13.698 1 15.2 ? C3D HEM 144 A 1 HETATM 32 C C4D HEM . . . E 4 15.648 13.165 12.846 1 14.3 ? C4D HEM 144 A 1 HETATM 33 C CMD HEM . . . E 4 17.618 12.42 15.939 1 14.8 ? CMD HEM 144 A 1 HETATM 34 C CAD HEM . . . E 4 16.683 10.737 13.153 1 16.3 ? CAD HEM 144 A 1 HETATM 35 C CBD HEM . . . E 4 17.916 10.754 12.187 1 18 ? CBD HEM 144 A 1 HETATM 36 C CGD HEM . . . E 4 17.905 9.623 11.104 1 19.4 ? CGD HEM 144 A 1 HETATM 37 O O1D HEM . . . E 4 18.546 8.537 11.34 1 19.8 ? O1D HEM 144 A 1 HETATM 38 O O2D HEM . . . E 4 17.286 9.837 10.006 1 19.5 ? O2D HEM 144 A 1 HETATM 39 N NA HEM . . . E 4 14.275 15.149 10.957 1 13.7 ? NA HEM 144 A 1 HETATM 40 N NB HEM . . . E 4 13.799 17.661 11.899 1 12 ? NB HEM 144 A 1 HETATM 41 N NC HEM . . . E 4 15.41 17.246 14.19 1 12.7 ? NC HEM 144 A 1 HETATM 42 N ND HEM . . . E 4 15.664 14.436 13.368 1 14 ? ND HEM 144 A 1 HETATM 43 FE FE HEM . . . E 4 14.691 16.13 12.659 1 12.6 ? FE HEM 144 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 43 #