data_5NW6 # _model_server_result.job_id F84v2YdbImQ-9uaXd3aNIw _model_server_result.datetime_utc '2024-11-27 18:07:31' _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 5nw6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5NW6 # _exptl.entry_id 5NW6 _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 120 _cell.entry_id 5NW6 _cell.length_a 89.126 _cell.length_b 89.126 _cell.length_c 115.265 _cell.Z_PDB 18 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5NW6 _symmetry.cell_setting ? _symmetry.Int_Tables_number 155 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3 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,F,G _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 62 A HIS 64 1_555 B FE HEM . A HEM 201 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.08 ? metalc ? metalc2 A NE2 HIS 94 A HIS 96 1_555 B FE HEM . A HEM 201 1_555 ? ? ? ? A ? ? ? ? ? ? ? 2.113 ? # _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 5NW6 _atom_sites.fract_transf_matrix[1][1] 0.01122 _atom_sites.fract_transf_matrix[1][2] 0.006478 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012956 _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] 0.008676 _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 1 201 201 HEM HEM . C 3 SO4 A 1 202 202 SO4 SO4 . D 4 KR A 1 204 204 KR KR . E 4 KR A 1 205 205 KR KR . F 4 KR A 1 206 206 KR KR . G 5 HOH A 1 301 363 HOH HOH . G 5 HOH A 2 302 377 HOH HOH . G 5 HOH A 3 303 312 HOH HOH . G 5 HOH A 4 304 328 HOH HOH . G 5 HOH A 5 305 332 HOH HOH . G 5 HOH A 6 306 318 HOH HOH . G 5 HOH A 7 307 320 HOH HOH . G 5 HOH A 8 308 346 HOH HOH . G 5 HOH A 9 309 313 HOH HOH . G 5 HOH A 10 310 301 HOH HOH . G 5 HOH A 11 311 335 HOH HOH . G 5 HOH A 12 312 334 HOH HOH . G 5 HOH A 13 313 327 HOH HOH . G 5 HOH A 14 314 315 HOH HOH . G 5 HOH A 15 315 302 HOH HOH . G 5 HOH A 16 316 339 HOH HOH . G 5 HOH A 17 317 304 HOH HOH . G 5 HOH A 18 318 336 HOH HOH . G 5 HOH A 19 319 308 HOH HOH . G 5 HOH A 20 320 307 HOH HOH . G 5 HOH A 21 321 314 HOH HOH . G 5 HOH A 22 322 303 HOH HOH . G 5 HOH A 23 323 371 HOH HOH . G 5 HOH A 24 324 353 HOH HOH . G 5 HOH A 25 325 321 HOH HOH . G 5 HOH A 26 326 316 HOH HOH . G 5 HOH A 27 327 329 HOH HOH . G 5 HOH A 28 328 311 HOH HOH . G 5 HOH A 29 329 340 HOH HOH . G 5 HOH A 30 330 309 HOH HOH . G 5 HOH A 31 331 337 HOH HOH . G 5 HOH A 32 332 338 HOH HOH . G 5 HOH A 33 333 317 HOH HOH . G 5 HOH A 34 334 319 HOH HOH . G 5 HOH A 35 335 364 HOH HOH . G 5 HOH A 36 336 366 HOH HOH . G 5 HOH A 37 337 348 HOH HOH . G 5 HOH A 38 338 325 HOH HOH . G 5 HOH A 39 339 350 HOH HOH . G 5 HOH A 40 340 310 HOH HOH . G 5 HOH A 41 341 322 HOH HOH . G 5 HOH A 42 342 326 HOH HOH . G 5 HOH A 43 343 375 HOH HOH . G 5 HOH A 44 344 374 HOH HOH . G 5 HOH A 45 345 349 HOH HOH . G 5 HOH A 46 346 333 HOH HOH . G 5 HOH A 47 347 305 HOH HOH . G 5 HOH A 48 348 360 HOH HOH . G 5 HOH A 49 349 341 HOH HOH . G 5 HOH A 50 350 356 HOH HOH . G 5 HOH A 51 351 359 HOH HOH . G 5 HOH A 52 352 365 HOH HOH . G 5 HOH A 53 353 373 HOH HOH . G 5 HOH A 54 354 355 HOH HOH . G 5 HOH A 55 355 354 HOH HOH . G 5 HOH A 56 356 306 HOH HOH . G 5 HOH A 57 357 370 HOH HOH . G 5 HOH A 58 358 357 HOH HOH . G 5 HOH A 59 359 343 HOH HOH . G 5 HOH A 60 360 376 HOH HOH . G 5 HOH A 61 361 351 HOH HOH . G 5 HOH A 62 362 362 HOH HOH . G 5 HOH A 63 363 358 HOH HOH . G 5 HOH A 64 364 344 HOH HOH . G 5 HOH A 65 365 368 HOH HOH . G 5 HOH A 66 366 331 HOH HOH . G 5 HOH A 67 367 369 HOH HOH . G 5 HOH A 68 368 367 HOH HOH . G 5 HOH A 69 369 323 HOH HOH . G 5 HOH A 70 370 324 HOH HOH . G 5 HOH A 71 371 372 HOH HOH . G 5 HOH A 72 372 342 HOH HOH . G 5 HOH A 73 373 345 HOH HOH . G 5 HOH A 74 374 347 HOH HOH . G 5 HOH A 75 375 361 HOH HOH . G 5 HOH A 76 376 330 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 . A . B 2 19.621 58.911 36.744 1 18.9 ? CHA HEM 201 A 1 HETATM 2 C CHB HEM . A . B 2 15.209 58.082 34.925 1 18.73 ? CHB HEM 201 A 1 HETATM 3 C CHC HEM . A . B 2 15.844 53.314 35.735 1 19.98 ? CHC HEM 201 A 1 HETATM 4 C CHD HEM . A . B 2 20.467 54.132 36.844 1 18.21 ? CHD HEM 201 A 1 HETATM 5 C C1A HEM . A . B 2 18.352 59.063 36.215 1 18.93 ? C1A HEM 201 A 1 HETATM 6 C C2A HEM . A . B 2 17.802 60.314 35.883 1 19.71 ? C2A HEM 201 A 1 HETATM 7 C C3A HEM . A . B 2 16.56 60.1 35.345 1 20.42 ? C3A HEM 201 A 1 HETATM 8 C C4A HEM . A . B 2 16.352 58.708 35.36 1 18.36 ? C4A HEM 201 A 1 HETATM 9 C CMA HEM . A . B 2 15.564 61.126 34.851 1 23.79 ? CMA HEM 201 A 1 HETATM 10 C CAA HEM . A . B 2 18.433 61.658 36.046 1 20.02 ? CAA HEM 201 A 1 HETATM 11 C CBA HEM . A . B 2 18.981 62.168 34.714 1 20.24 ? CBA HEM 201 A 1 HETATM 12 C CGA HEM . A . B 2 20.132 61.359 34.203 1 23.21 ? CGA HEM 201 A 1 HETATM 13 O O1A HEM . A . B 2 21.184 61.201 34.908 1 23.6 ? O1A HEM 201 A 1 HETATM 14 O O2A HEM . A . B 2 20.078 60.809 33.083 1 21.92 ? O2A HEM 201 A 1 HETATM 15 C C1B HEM . A . B 2 15.014 56.718 35.023 1 18.08 ? C1B HEM 201 A 1 HETATM 16 C C2B HEM . A . B 2 13.763 56.068 34.708 1 20.18 ? C2B HEM 201 A 1 HETATM 17 C C3B HEM . A . B 2 13.942 54.711 34.944 1 20.38 ? C3B HEM 201 A 1 HETATM 18 C C4B HEM . A . B 2 15.295 54.538 35.42 1 19.77 ? C4B HEM 201 A 1 HETATM 19 C CMB HEM . A . B 2 12.51 56.794 34.24 1 22 ? CMB HEM 201 A 1 HETATM 20 C CAB HEM . A . B 2 12.997 53.527 34.867 1 22.65 ? CAB HEM 201 A 1 HETATM 21 C CBB HEM . A . B 2 11.701 53.636 34.908 1 31.93 ? CBB HEM 201 A 1 HETATM 22 C C1C HEM . A . B 2 17.147 53.121 36.096 1 19.87 ? C1C HEM 201 A 1 HETATM 23 C C2C HEM . A . B 2 17.708 51.887 36.425 1 21.3 ? C2C HEM 201 A 1 HETATM 24 C C3C HEM . A . B 2 19.035 52.101 36.73 1 20.59 ? C3C HEM 201 A 1 HETATM 25 C C4C HEM . A . B 2 19.274 53.499 36.571 1 18.38 ? C4C HEM 201 A 1 HETATM 26 C CMC HEM . A . B 2 16.989 50.548 36.404 1 24.29 ? CMC HEM 201 A 1 HETATM 27 C CAC HEM . A . B 2 20.069 51.15 37.149 1 23.04 ? CAC HEM 201 A 1 HETATM 28 C CBC HEM . A . B 2 19.896 49.886 37.474 1 30.25 ? CBC HEM 201 A 1 HETATM 29 C C1D HEM . A . B 2 20.546 55.517 36.887 1 16.96 ? C1D HEM 201 A 1 HETATM 30 C C2D HEM . A . B 2 21.798 56.192 37.334 1 19.04 ? C2D HEM 201 A 1 HETATM 31 C C3D HEM . A . B 2 21.563 57.511 37.33 1 17.91 ? C3D HEM 201 A 1 HETATM 32 C C4D HEM . A . B 2 20.176 57.67 36.907 1 19.01 ? C4D HEM 201 A 1 HETATM 33 C CMD HEM . A . B 2 23.074 55.495 37.704 1 19 ? CMD HEM 201 A 1 HETATM 34 C CAD HEM . A . B 2 22.554 58.621 37.749 1 21.13 ? CAD HEM 201 A 1 HETATM 35 C CBD HEM . A . B 2 22.252 58.841 39.233 1 24.41 ? CBD HEM 201 A 1 HETATM 36 C CGD HEM . A . B 2 23.042 59.988 39.896 1 29.08 ? CGD HEM 201 A 1 HETATM 37 O O1D HEM . A . B 2 22.641 61.173 39.838 1 34.93 ? O1D HEM 201 A 1 HETATM 38 O O2D HEM . A . B 2 24.07 59.693 40.469 1 29.45 ? O2D HEM 201 A 1 HETATM 39 N NA HEM . A . B 2 17.438 58.042 35.87 1 18.1 ? NA HEM 201 A 1 HETATM 40 N NB HEM . A . B 2 15.847 55.775 35.381 1 16.74 ? NB HEM 201 A 1 HETATM 41 N NC HEM . A . B 2 18.114 54.136 36.229 1 19.1 ? NC HEM 201 A 1 HETATM 42 N ND HEM . A . B 2 19.623 56.447 36.669 1 16.23 ? ND HEM 201 A 1 HETATM 43 FE FE HEM . A . B 2 17.781 56.122 36.029 1 17.41 ? FE HEM 201 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 43 #