data_3P3Z # _model_server_result.job_id OqXZYOfMHsY3KRxbFSkZEg _model_server_result.datetime_utc '2025-02-27 02:46:00' _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 3p3z # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 3P3Z # _exptl.entry_id 3P3Z _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 3P3Z _cell.length_a 129.37 _cell.length_b 129.37 _cell.length_c 71.07 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3P3Z _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'H 3' # _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,H,I _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 SG CYS 365 A CYS 355 1_555 B FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.423 ? metalc ? metalc2 B FE HEM . A HEM 501 1_555 C NAM P3Z . A P3Z 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.403 ? # _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 142 n n CHA C4D HEM doub 143 n n CHA HHA HEM sing 144 n n CHB C4A HEM sing 145 n n CHB C1B HEM doub 146 n n CHB HHB HEM sing 147 n n CHC C4B HEM sing 148 n n CHC C1C HEM doub 149 n n CHC HHC HEM sing 150 n n CHD C4C HEM doub 151 n n CHD C1D HEM sing 152 n n CHD HHD HEM sing 153 n n C1A C2A HEM doub 154 n y C1A NA HEM sing 155 n y C2A C3A HEM sing 156 n y C2A CAA HEM sing 157 n n C3A C4A HEM doub 158 n y C3A CMA HEM sing 159 n n C4A NA HEM sing 160 n y CMA HMA HEM sing 161 n n CMA HMAA HEM sing 162 n n CMA HMAB HEM sing 163 n n CAA CBA HEM sing 164 n n CAA HAA HEM sing 165 n n CAA HAAA HEM sing 166 n n CBA CGA HEM sing 167 n n CBA HBA HEM sing 168 n n CBA HBAA HEM sing 169 n n CGA O1A HEM doub 170 n n CGA O2A HEM sing 171 n n C1B C2B HEM sing 172 n n C1B NB HEM sing 173 n n C2B C3B HEM doub 174 n n C2B CMB HEM sing 175 n n C3B C4B HEM sing 176 n n C3B CAB HEM sing 177 n n C4B NB HEM doub 178 n n CMB HMB HEM sing 179 n n CMB HMBA HEM sing 180 n n CMB HMBB HEM sing 181 n n CAB CBB HEM doub 182 n n CAB HAB HEM sing 183 n n CBB HBB HEM sing 184 n n CBB HBBA HEM sing 185 n n C1C C2C HEM sing 186 n y C1C NC HEM sing 187 n y C2C C3C HEM doub 188 n y C2C CMC HEM sing 189 n n C3C C4C HEM sing 190 n y C3C CAC HEM sing 191 n n C4C NC HEM sing 192 n y CMC HMC HEM sing 193 n n CMC HMCA HEM sing 194 n n CMC HMCB HEM sing 195 n n CAC CBC HEM doub 196 n n CAC HAC HEM sing 197 n n CBC HBC HEM sing 198 n n CBC HBCA HEM sing 199 n n C1D C2D HEM sing 200 n n C1D ND HEM doub 201 n n C2D C3D HEM doub 202 n n C2D CMD HEM sing 203 n n C3D C4D HEM sing 204 n n C3D CAD HEM sing 205 n n C4D ND HEM sing 206 n n CMD HMD HEM sing 207 n n CMD HMDA HEM sing 208 n n CMD HMDB HEM sing 209 n n CAD CBD HEM sing 210 n n CAD HAD HEM sing 211 n n CAD HADA HEM sing 212 n n CBD CGD HEM sing 213 n n CBD HBD HEM sing 214 n n CBD HBDA HEM sing 215 n n CGD O1D HEM doub 216 n n CGD O2D HEM sing 217 n n O2A H2A HEM sing 218 n n O2D H2D HEM sing 219 n n FE NA HEM sing 220 n n FE NB HEM sing 221 n n FE NC HEM sing 222 n n FE ND HEM sing 223 n n # _atom_sites.entry_id 3P3Z _atom_sites.fract_transf_matrix[1][1] 0.00773 _atom_sites.fract_transf_matrix[1][2] 0.004463 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008926 _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] 0.014071 _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 1 501 501 HEM HEM . C 3 P3Z A 1 502 502 P3Z P3Z . D 4 GOL A 1 407 1 GOL GOL . E 4 GOL A 1 408 2 GOL GOL . F 5 CL A 1 409 3 CL CL . G 5 CL A 1 410 4 CL CL . H 5 CL A 1 411 5 CL CL . I 6 HOH A 1 412 1 HOH HOH . I 6 HOH A 2 413 2 HOH HOH . I 6 HOH A 3 414 3 HOH HOH . I 6 HOH A 4 415 4 HOH HOH . I 6 HOH A 5 416 5 HOH HOH . I 6 HOH A 6 417 6 HOH HOH . I 6 HOH A 7 418 7 HOH HOH . I 6 HOH A 8 419 10 HOH HOH . I 6 HOH A 9 420 11 HOH HOH . I 6 HOH A 10 421 12 HOH HOH . I 6 HOH A 11 422 13 HOH HOH . I 6 HOH A 12 423 15 HOH HOH . I 6 HOH A 13 424 16 HOH HOH . I 6 HOH A 14 425 17 HOH HOH . I 6 HOH A 15 426 19 HOH HOH . I 6 HOH A 16 427 20 HOH HOH . I 6 HOH A 17 428 21 HOH HOH . I 6 HOH A 18 429 22 HOH HOH . I 6 HOH A 19 430 23 HOH HOH . I 6 HOH A 20 431 24 HOH HOH . I 6 HOH A 21 432 26 HOH HOH . I 6 HOH A 22 433 27 HOH HOH . I 6 HOH A 23 434 30 HOH HOH . I 6 HOH A 24 435 31 HOH HOH . I 6 HOH A 25 436 32 HOH HOH . I 6 HOH A 26 437 33 HOH HOH . I 6 HOH A 27 438 34 HOH HOH . I 6 HOH A 28 439 35 HOH HOH . I 6 HOH A 29 440 36 HOH HOH . I 6 HOH A 30 441 37 HOH HOH . I 6 HOH A 31 442 38 HOH HOH . I 6 HOH A 32 443 39 HOH HOH . I 6 HOH A 33 444 40 HOH HOH . I 6 HOH A 34 445 41 HOH HOH . I 6 HOH A 35 446 42 HOH HOH . I 6 HOH A 36 447 43 HOH HOH . I 6 HOH A 37 448 44 HOH HOH . I 6 HOH A 38 449 46 HOH HOH . I 6 HOH A 39 450 47 HOH HOH . I 6 HOH A 40 451 48 HOH HOH . I 6 HOH A 41 452 50 HOH HOH . I 6 HOH A 42 453 51 HOH HOH . I 6 HOH A 43 454 52 HOH HOH . I 6 HOH A 44 455 53 HOH HOH . I 6 HOH A 45 456 54 HOH HOH . I 6 HOH A 46 457 55 HOH HOH . I 6 HOH A 47 458 56 HOH HOH . I 6 HOH A 48 459 58 HOH HOH . I 6 HOH A 49 460 59 HOH HOH . I 6 HOH A 50 461 61 HOH HOH . I 6 HOH A 51 462 62 HOH HOH . I 6 HOH A 52 463 63 HOH HOH . I 6 HOH A 53 464 64 HOH HOH . I 6 HOH A 54 465 65 HOH HOH . I 6 HOH A 55 466 66 HOH HOH . I 6 HOH A 56 467 68 HOH HOH . I 6 HOH A 57 468 70 HOH HOH . I 6 HOH A 58 469 71 HOH HOH . I 6 HOH A 59 470 72 HOH HOH . I 6 HOH A 60 471 73 HOH HOH . I 6 HOH A 61 472 74 HOH HOH . I 6 HOH A 62 473 75 HOH HOH . I 6 HOH A 63 474 76 HOH HOH . I 6 HOH A 64 475 77 HOH HOH . I 6 HOH A 65 476 78 HOH HOH . I 6 HOH A 66 477 79 HOH HOH . I 6 HOH A 67 478 80 HOH HOH . I 6 HOH A 68 479 82 HOH HOH . I 6 HOH A 69 480 83 HOH HOH . I 6 HOH A 70 481 84 HOH HOH . I 6 HOH A 71 482 86 HOH HOH . I 6 HOH A 72 483 87 HOH HOH . I 6 HOH A 73 484 88 HOH HOH . I 6 HOH A 74 485 89 HOH HOH . I 6 HOH A 75 486 90 HOH HOH . I 6 HOH A 76 487 91 HOH HOH . I 6 HOH A 77 488 92 HOH HOH . I 6 HOH A 78 489 93 HOH HOH . I 6 HOH A 79 490 95 HOH HOH . I 6 HOH A 80 491 97 HOH HOH . I 6 HOH A 81 492 98 HOH HOH . I 6 HOH A 82 493 102 HOH HOH . I 6 HOH A 83 494 103 HOH HOH . I 6 HOH A 84 495 106 HOH HOH . I 6 HOH A 85 496 107 HOH HOH . I 6 HOH A 86 497 109 HOH HOH . I 6 HOH A 87 498 110 HOH HOH . I 6 HOH A 88 499 112 HOH HOH . I 6 HOH A 89 500 113 HOH HOH . I 6 HOH A 90 503 115 HOH HOH . I 6 HOH A 91 504 117 HOH HOH . I 6 HOH A 92 505 121 HOH HOH . I 6 HOH A 93 506 124 HOH HOH . I 6 HOH A 94 507 125 HOH HOH . I 6 HOH A 95 508 126 HOH HOH . I 6 HOH A 96 509 127 HOH HOH . I 6 HOH A 97 510 131 HOH HOH . I 6 HOH A 98 511 133 HOH HOH . I 6 HOH A 99 512 135 HOH HOH . I 6 HOH A 100 513 137 HOH HOH . I 6 HOH A 101 514 138 HOH HOH . I 6 HOH A 102 515 139 HOH HOH . I 6 HOH A 103 516 141 HOH HOH . I 6 HOH A 104 517 142 HOH HOH . I 6 HOH A 105 518 143 HOH HOH . I 6 HOH A 106 519 145 HOH HOH . I 6 HOH A 107 520 146 HOH HOH . I 6 HOH A 108 521 148 HOH HOH . I 6 HOH A 109 522 149 HOH HOH . I 6 HOH A 110 523 150 HOH HOH . I 6 HOH A 111 524 151 HOH HOH . I 6 HOH A 112 525 152 HOH HOH . I 6 HOH A 113 526 154 HOH HOH . I 6 HOH A 114 527 156 HOH HOH . I 6 HOH A 115 528 157 HOH HOH . I 6 HOH A 116 529 162 HOH HOH . I 6 HOH A 117 530 163 HOH HOH . I 6 HOH A 118 531 165 HOH HOH . I 6 HOH A 119 532 166 HOH HOH . I 6 HOH A 120 533 167 HOH HOH . I 6 HOH A 121 534 168 HOH HOH . I 6 HOH A 122 535 169 HOH HOH . I 6 HOH A 123 536 171 HOH HOH . I 6 HOH A 124 537 173 HOH HOH . I 6 HOH A 125 538 174 HOH HOH . I 6 HOH A 126 539 178 HOH HOH . I 6 HOH A 127 540 179 HOH HOH . I 6 HOH A 128 541 180 HOH HOH . I 6 HOH A 129 542 181 HOH HOH . I 6 HOH A 130 543 182 HOH HOH . I 6 HOH A 131 544 183 HOH HOH . I 6 HOH A 132 545 184 HOH HOH . I 6 HOH A 133 546 185 HOH HOH . I 6 HOH A 134 547 186 HOH HOH . I 6 HOH A 135 548 187 HOH HOH . I 6 HOH A 136 549 188 HOH HOH . I 6 HOH A 137 550 189 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 27.216 13.951 45.656 1 13.23 ? CHA HEM 501 A 1 HETATM 2 C CHB HEM . . . B 2 25.215 11.017 48.98 1 10.24 ? CHB HEM 501 A 1 HETATM 3 C CHC HEM . . . B 2 23.313 14.864 51.243 1 12.78 ? CHC HEM 501 A 1 HETATM 4 C CHD HEM . . . B 2 25.359 17.833 47.998 1 16.4 ? CHD HEM 501 A 1 HETATM 5 C C1A HEM . . . B 2 26.856 12.822 46.359 1 12.02 ? C1A HEM 501 A 1 HETATM 6 C C2A HEM . . . B 2 27.246 11.46 46.054 1 11.38 ? C2A HEM 501 A 1 HETATM 7 C C3A HEM . . . B 2 26.692 10.66 46.972 1 10.59 ? C3A HEM 501 A 1 HETATM 8 C C4A HEM . . . B 2 25.932 11.476 47.893 1 10.81 ? C4A HEM 501 A 1 HETATM 9 C CMA HEM . . . B 2 26.824 9.128 47.054 1 9.14 ? CMA HEM 501 A 1 HETATM 10 C CAA HEM . . . B 2 28.139 11.014 44.873 1 11.31 ? CAA HEM 501 A 1 HETATM 11 C CBA HEM . . . B 2 29.601 10.963 45.305 1 10.84 ? CBA HEM 501 A 1 HETATM 12 C CGA HEM . . . B 2 30.458 10.354 44.218 1 11.48 ? CGA HEM 501 A 1 HETATM 13 O O1A HEM . . . B 2 30.14 10.519 43.008 1 11.75 ? O1A HEM 501 A 1 HETATM 14 O O2A HEM . . . B 2 31.474 9.699 44.566 1 10.72 ? O2A HEM 501 A 1 HETATM 15 C C1B HEM . . . B 2 24.491 11.782 49.868 1 10.39 ? C1B HEM 501 A 1 HETATM 16 C C2B HEM . . . B 2 23.655 11.296 50.949 1 9.85 ? C2B HEM 501 A 1 HETATM 17 C C3B HEM . . . B 2 23.127 12.36 51.575 1 10.32 ? C3B HEM 501 A 1 HETATM 18 C C4B HEM . . . B 2 23.612 13.556 50.911 1 11.43 ? C4B HEM 501 A 1 HETATM 19 C CMB HEM . . . B 2 23.433 9.803 51.293 1 8.34 ? CMB HEM 501 A 1 HETATM 20 C CAB HEM . . . B 2 22.165 12.339 52.787 1 10.26 ? CAB HEM 501 A 1 HETATM 21 C CBB HEM . . . B 2 22.501 11.74 53.935 1 10.11 ? CBB HEM 501 A 1 HETATM 22 C C1C HEM . . . B 2 23.762 16.011 50.615 1 13.73 ? C1C HEM 501 A 1 HETATM 23 C C2C HEM . . . B 2 23.614 17.379 51.09 1 15.43 ? C2C HEM 501 A 1 HETATM 24 C C3C HEM . . . B 2 24.183 18.195 50.184 1 16.77 ? C3C HEM 501 A 1 HETATM 25 C C4C HEM . . . B 2 24.705 17.369 49.116 1 15.82 ? C4C HEM 501 A 1 HETATM 26 C CMC HEM . . . B 2 22.917 17.787 52.411 1 15.36 ? CMC HEM 501 A 1 HETATM 27 C CAC HEM . . . B 2 24.305 19.743 50.191 1 18.86 ? CAC HEM 501 A 1 HETATM 28 C CBC HEM . . . B 2 24.05 20.497 51.265 1 20.35 ? CBC HEM 501 A 1 HETATM 29 C C1D HEM . . . B 2 26.02 17.085 47.05 1 15.81 ? C1D HEM 501 A 1 HETATM 30 C C2D HEM . . . B 2 26.679 17.626 45.883 1 17.02 ? C2D HEM 501 A 1 HETATM 31 C C3D HEM . . . B 2 27.257 16.411 45.151 1 15.97 ? C3D HEM 501 A 1 HETATM 32 C C4D HEM . . . B 2 26.894 15.261 45.95 1 14.5 ? C4D HEM 501 A 1 HETATM 33 C CMD HEM . . . B 2 26.779 19.111 45.459 1 19.26 ? CMD HEM 501 A 1 HETATM 34 C CAD HEM . . . B 2 28.071 16.418 43.842 1 16.66 ? CAD HEM 501 A 1 HETATM 35 C CBD HEM . . . B 2 29.54 16.456 44.244 1 16.17 ? CBD HEM 501 A 1 HETATM 36 C CGD HEM . . . B 2 30.444 16.558 43.048 1 17.26 ? CGD HEM 501 A 1 HETATM 37 O O1D HEM . . . B 2 31.431 17.328 43.128 1 18.58 ? O1D HEM 501 A 1 HETATM 38 O O2D HEM . . . B 2 30.193 15.876 42.023 1 17.49 ? O2D HEM 501 A 1 HETATM 39 N NA HEM . . . B 2 26.06 12.789 47.487 1 11.68 ? NA HEM 501 A 1 HETATM 40 N NB HEM . . . B 2 24.432 13.159 49.873 1 11.45 ? NB HEM 501 A 1 HETATM 41 N NC HEM . . . B 2 24.432 16.051 49.41 1 14.02 ? NC HEM 501 A 1 HETATM 42 N ND HEM . . . B 2 26.165 15.7 47.05 1 14.58 ? ND HEM 501 A 1 HETATM 43 FE FE HEM . . . B 2 25.277 14.414 48.449 1 12.98 ? FE HEM 501 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #