data_1ZJ8 # _model_server_result.job_id RfLYr4JXEmjBQJ5BXZVUqQ _model_server_result.datetime_utc '2024-12-07 11:59:24' _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 1zj8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":557}' # _entry.id 1ZJ8 # _exptl.entry_id 1ZJ8 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 916.661 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description SIROHEME _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 1ZJ8 _cell.length_a 84.257 _cell.length_b 115.355 _cell.length_c 114.697 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1ZJ8 _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,I 1 1 B,F,G,H,J 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 H 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 covale ? covale1 A CE2 TYR 80 A TYR 69 1_555 A SG CYS 172 A CYS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.615 ? covale ? covale2 B CE2 TYR 80 B TYR 69 1_555 B SG CYS 172 B CYS 161 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.629 ? metalc ? metalc1 A SG CYS 428 A CYS 417 1_555 D FE1 SF4 . A SF4 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.925 ? metalc ? metalc2 A SG CYS 434 A CYS 423 1_555 D FE2 SF4 . A SF4 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.796 ? metalc ? metalc3 A SG CYS 474 A CYS 463 1_555 D FE3 SF4 . A SF4 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.799 ? metalc ? metalc4 A SG CYS 478 A CYS 467 1_555 D FE4 SF4 . A SF4 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.555 ? metalc ? metalc5 B SG CYS 428 B CYS 417 1_555 G FE1 SF4 . B SF4 1556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.91 ? metalc ? metalc6 B SG CYS 434 B CYS 423 1_555 G FE2 SF4 . B SF4 1556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.793 ? metalc ? metalc7 B SG CYS 474 B CYS 463 1_555 G FE3 SF4 . B SF4 1556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.672 ? metalc ? metalc8 B SG CYS 478 B CYS 467 1_555 G FE4 SF4 . B SF4 1556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 4.65 ? # _chem_comp.formula 'C42 H44 Fe N4 O16' _chem_comp.formula_weight 916.661 _chem_comp.id SRM _chem_comp.mon_nstd_flag . _chem_comp.name SIROHEME _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 FE NA SRM sing 302 n n FE NB SRM sing 303 n n FE NC SRM sing 304 n n FE ND SRM sing 305 n n CHA C1A SRM doub 306 n n CHA C4D SRM sing 307 n n CHA HHA SRM sing 308 n n CHB C4A SRM sing 309 n n CHB C1B SRM doub 310 n n CHB HHB SRM sing 311 n n CHC C4B SRM sing 312 n n CHC C1C SRM doub 313 n n CHC HHC SRM sing 314 n n CHD C4C SRM doub 315 n n CHD C1D SRM sing 316 n n CHD HHD SRM sing 317 n n NA C1A SRM sing 318 n n NA C4A SRM doub 319 n n C1A C2A SRM sing 320 n n C2A CMA SRM sing 321 n n C2A CDA SRM sing 322 n n C2A C3A SRM sing 323 n n CMA HMA1 SRM sing 324 n n CMA HMA2 SRM sing 325 n n CMA HMA3 SRM sing 326 n n CDA CEA SRM sing 327 n n CDA HDA1 SRM sing 328 n n CDA HDA2 SRM sing 329 n n CEA O3A SRM doub 330 n n CEA O4A SRM sing 331 n n O4A H4A SRM sing 332 n n C3A CAA SRM sing 333 n n C3A C4A SRM sing 334 n n CAA CBA SRM sing 335 n n CAA HAA1 SRM sing 336 n n CAA HAA2 SRM sing 337 n n CBA CCA SRM sing 338 n n CBA HBA1 SRM sing 339 n n CBA HBA2 SRM sing 340 n n CCA O1A SRM doub 341 n n CCA O2A SRM sing 342 n n O2A H2A SRM sing 343 n n NB C1B SRM sing 344 n n NB C4B SRM doub 345 n n C1B C2B SRM sing 346 n n C2B CMB SRM sing 347 n n C2B CDB SRM sing 348 n n C2B C3B SRM sing 349 n n CMB HMB1 SRM sing 350 n n CMB HMB2 SRM sing 351 n n CMB HMB3 SRM sing 352 n n CDB CEB SRM sing 353 n n CDB HDB1 SRM sing 354 n n CDB HDB2 SRM sing 355 n n CEB O3B SRM doub 356 n n CEB O4B SRM sing 357 n n O4B H4B SRM sing 358 n n C3B CAB SRM sing 359 n n C3B C4B SRM sing 360 n n CAB CBB SRM sing 361 n n CAB HAB1 SRM sing 362 n n CAB HAB2 SRM sing 363 n n CBB CCB SRM sing 364 n n CBB HBB1 SRM sing 365 n n CBB HBB2 SRM sing 366 n n CCB O1B SRM doub 367 n n CCB O2B SRM sing 368 n n O2B H2B SRM sing 369 n n NC C1C SRM sing 370 n n NC C4C SRM sing 371 n n C1C C2C SRM sing 372 n n C2C CDC SRM sing 373 n n C2C C3C SRM doub 374 n n CDC CEC SRM sing 375 n n CDC HCD1 SRM sing 376 n n CDC HCD2 SRM sing 377 n n CEC O3C SRM doub 378 n n CEC O4C SRM sing 379 n n O4C H4C SRM sing 380 n n C3C CAC SRM sing 381 n n C3C C4C SRM sing 382 n n CAC CBC SRM sing 383 n n CAC HAC1 SRM sing 384 n n CAC HAC2 SRM sing 385 n n CBC CCC SRM sing 386 n n CBC HBC1 SRM sing 387 n n CBC HBC2 SRM sing 388 n n CCC O1C SRM doub 389 n n CCC O2C SRM sing 390 n n O2C H2C SRM sing 391 n n ND C1D SRM sing 392 n y ND C4D SRM sing 393 n y C1D C2D SRM doub 394 n y C2D CAD SRM sing 395 n n C2D C3D SRM sing 396 n y CAD CBD SRM sing 397 n n CAD HAD1 SRM sing 398 n n CAD HAD2 SRM sing 399 n n CBD CCD SRM sing 400 n n CBD HBD1 SRM sing 401 n n CBD HBD2 SRM sing 402 n n CCD O1D SRM doub 403 n n CCD O2D SRM sing 404 n n O2D H2D SRM sing 405 n n C3D CDD SRM sing 406 n n C3D C4D SRM doub 407 n y CDD CED SRM sing 408 n n CDD HDD1 SRM sing 409 n n CDD HDD2 SRM sing 410 n n CED O3D SRM doub 411 n n CED O4D SRM sing 412 n n O4D H4D SRM sing 413 n n C3A H1 SRM sing 414 n n C3B H2 SRM sing 415 n n # _atom_sites.entry_id 1ZJ8 _atom_sites.fract_transf_matrix[1][1] 0.011868 _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] 0.008669 _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] 0.008719 _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 CL A 1 558 558 CL CL . D 3 SF4 A 1 556 556 SF4 FS4 . E 4 SRM A 1 557 557 SRM SRM . F 2 CL B 1 1558 1558 CL CL . G 3 SF4 B 1 1556 1556 SF4 FS4 . H 4 SRM B 1 1557 1557 SRM SRM . I 5 HOH A 1 602 602 HOH HOH . I 5 HOH A 2 603 603 HOH HOH . I 5 HOH A 3 604 604 HOH HOH . I 5 HOH A 4 605 605 HOH HOH . I 5 HOH A 5 610 610 HOH HOH . I 5 HOH A 6 611 611 HOH HOH . I 5 HOH A 7 612 612 HOH HOH . I 5 HOH A 8 613 613 HOH HOH . I 5 HOH A 9 614 614 HOH HOH . I 5 HOH A 10 615 615 HOH HOH . I 5 HOH A 11 616 616 HOH HOH . I 5 HOH A 12 617 617 HOH HOH . I 5 HOH A 13 618 618 HOH HOH . I 5 HOH A 14 619 619 HOH HOH . I 5 HOH A 15 620 620 HOH HOH . J 5 HOH B 1 600 600 HOH HOH . J 5 HOH B 2 601 601 HOH HOH . J 5 HOH B 3 606 606 HOH HOH . J 5 HOH B 4 607 607 HOH HOH . J 5 HOH B 5 608 608 HOH HOH . J 5 HOH B 6 609 609 HOH HOH . J 5 HOH B 7 621 621 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 FE FE SRM . . . E 4 16.224 27.905 44.318 1 36.68 ? FE SRM 557 A 1 HETATM 2 C CHA SRM . . . E 4 15.747 28.74 47.596 1 39.33 ? CHA SRM 557 A 1 HETATM 3 C CHB SRM . . . E 4 17.742 25.077 45.275 1 37.03 ? CHB SRM 557 A 1 HETATM 4 C CHC SRM . . . E 4 16.717 27.138 41.194 1 31.66 ? CHC SRM 557 A 1 HETATM 5 C CHD SRM . . . E 4 13.137 29.238 43.525 1 36.19 ? CHD SRM 557 A 1 HETATM 6 N NA SRM . . . E 4 16.83 27.172 46.077 1 38.55 ? NA SRM 557 A 1 HETATM 7 C C1A SRM . . . E 4 16.662 27.706 47.307 1 39.78 ? C1A SRM 557 A 1 HETATM 8 C C2A SRM . . . E 4 17.54 27.096 48.356 1 40.69 ? C2A SRM 557 A 1 HETATM 9 C CMA SRM . . . E 4 18.752 27.953 48.556 1 40.05 ? CMA SRM 557 A 1 HETATM 10 C CDA SRM . . . E 4 16.797 26.779 49.624 1 42.56 ? CDA SRM 557 A 1 HETATM 11 C CEA SRM . . . E 4 16.961 27.662 50.82 1 44.84 ? CEA SRM 557 A 1 HETATM 12 O O3A SRM . . . E 4 16.605 28.842 50.739 1 47.29 ? O3A SRM 557 A 1 HETATM 13 O O4A SRM . . . E 4 17.45 27.227 51.873 1 46.66 ? O4A SRM 557 A 1 HETATM 14 C C3A SRM . . . E 4 17.892 25.808 47.693 1 40.44 ? C3A SRM 557 A 1 HETATM 15 C CAA SRM . . . E 4 19.298 25.361 47.913 1 40.25 ? CAA SRM 557 A 1 HETATM 16 C CBA SRM . . . E 4 19.202 24.511 49.152 1 41.43 ? CBA SRM 557 A 1 HETATM 17 C CCA SRM . . . E 4 20.216 23.414 49.126 1 42.67 ? CCA SRM 557 A 1 HETATM 18 O O1A SRM . . . E 4 20.434 22.818 48.049 1 41.33 ? O1A SRM 557 A 1 HETATM 19 O O2A SRM . . . E 4 20.831 23.144 50.186 1 43.03 ? O2A SRM 557 A 1 HETATM 20 C C4A SRM . . . E 4 17.491 26.026 46.274 1 39.08 ? C4A SRM 557 A 1 HETATM 21 N NB SRM . . . E 4 17.207 26.454 43.427 1 35.16 ? NB SRM 557 A 1 HETATM 22 C C1B SRM . . . E 4 17.825 25.378 43.918 1 34.63 ? C1B SRM 557 A 1 HETATM 23 C C2B SRM . . . E 4 18.6 24.573 42.913 1 33.18 ? C2B SRM 557 A 1 HETATM 24 C CMB SRM . . . E 4 19.914 24.047 43.418 1 32.44 ? CMB SRM 557 A 1 HETATM 25 C CDB SRM . . . E 4 17.749 23.41 42.526 1 33.03 ? CDB SRM 557 A 1 HETATM 26 C CEB SRM . . . E 4 18.294 22.437 41.542 1 33.4 ? CEB SRM 557 A 1 HETATM 27 O O3B SRM . . . E 4 18.584 21.261 41.851 1 33.18 ? O3B SRM 557 A 1 HETATM 28 O O4B SRM . . . E 4 18.458 22.847 40.393 1 34.85 ? O4B SRM 557 A 1 HETATM 29 C C3B SRM . . . E 4 18.684 25.592 41.797 1 32.49 ? C3B SRM 557 A 1 HETATM 30 C CAB SRM . . . E 4 19.886 26.484 41.969 1 32.29 ? CAB SRM 557 A 1 HETATM 31 C CBB SRM . . . E 4 20.341 27.069 40.667 1 31.87 ? CBB SRM 557 A 1 HETATM 32 C CCB SRM . . . E 4 21.383 28.123 40.907 1 31.13 ? CCB SRM 557 A 1 HETATM 33 O O1B SRM . . . E 4 22.573 27.888 40.712 1 31.81 ? O1B SRM 557 A 1 HETATM 34 O O2B SRM . . . E 4 21.072 29.252 41.273 1 33.57 ? O2B SRM 557 A 1 HETATM 35 C C4B SRM . . . E 4 17.491 26.447 42.128 1 33.82 ? C4B SRM 557 A 1 HETATM 36 N NC SRM . . . E 4 15.114 28.028 42.741 1 33.63 ? NC SRM 557 A 1 HETATM 37 C C1C SRM . . . E 4 15.549 27.829 41.48 1 31.18 ? C1C SRM 557 A 1 HETATM 38 C C2C SRM . . . E 4 14.569 28.023 40.516 1 32.91 ? C2C SRM 557 A 1 HETATM 39 C CDC SRM . . . E 4 14.571 27.659 39.069 1 33.13 ? CDC SRM 557 A 1 HETATM 40 C CEC SRM . . . E 4 15.132 28.569 38.047 1 32.44 ? CEC SRM 557 A 1 HETATM 41 O O3C SRM . . . E 4 15.781 29.581 38.397 1 31.81 ? O3C SRM 557 A 1 HETATM 42 O O4C SRM . . . E 4 14.899 28.262 36.869 1 32.69 ? O4C SRM 557 A 1 HETATM 43 C C3C SRM . . . E 4 13.546 28.573 41.228 1 33.32 ? C3C SRM 557 A 1 HETATM 44 C CAC SRM . . . E 4 12.288 28.948 40.515 1 33.48 ? CAC SRM 557 A 1 HETATM 45 C CBC SRM . . . E 4 12.272 30.122 39.559 1 32.83 ? CBC SRM 557 A 1 HETATM 46 C CCC SRM . . . E 4 12.168 31.406 40.363 1 32.31 ? CCC SRM 557 A 1 HETATM 47 O O1C SRM . . . E 4 13.143 31.811 41.052 1 28.39 ? O1C SRM 557 A 1 HETATM 48 O O2C SRM . . . E 4 11.067 32.013 40.321 1 31.62 ? O2C SRM 557 A 1 HETATM 49 C C4C SRM . . . E 4 13.916 28.63 42.547 1 34.77 ? C4C SRM 557 A 1 HETATM 50 N ND SRM . . . E 4 14.908 29.1 45.286 1 37.36 ? ND SRM 557 A 1 HETATM 51 C C1D SRM . . . E 4 13.671 29.339 44.822 1 37 ? C1D SRM 557 A 1 HETATM 52 C C2D SRM . . . E 4 12.852 29.741 45.894 1 38.32 ? C2D SRM 557 A 1 HETATM 53 C CAD SRM . . . E 4 11.657 30.66 45.713 1 37.48 ? CAD SRM 557 A 1 HETATM 54 C CBD SRM . . . E 4 11.859 32.136 45.861 1 39.18 ? CBD SRM 557 A 1 HETATM 55 C CCD SRM . . . E 4 10.783 33.145 45.579 1 40.36 ? CCD SRM 557 A 1 HETATM 56 O O1D SRM . . . E 4 10.979 33.926 44.621 1 41.96 ? O1D SRM 557 A 1 HETATM 57 O O2D SRM . . . E 4 9.733 33.196 46.274 1 37.19 ? O2D SRM 557 A 1 HETATM 58 C C3D SRM . . . E 4 13.652 29.733 47.024 1 37.58 ? C3D SRM 557 A 1 HETATM 59 C CDD SRM . . . E 4 13.368 30.493 48.291 1 38.97 ? CDD SRM 557 A 1 HETATM 60 C CED SRM . . . E 4 13.592 31.983 48.426 1 39.54 ? CED SRM 557 A 1 HETATM 61 O O3D SRM . . . E 4 14.238 32.613 47.588 1 39.68 ? O3D SRM 557 A 1 HETATM 62 O O4D SRM . . . E 4 13.13 32.616 49.386 1 38.84 ? O4D SRM 557 A 1 HETATM 63 C C4D SRM . . . E 4 14.921 29.337 46.633 1 38.45 ? C4D SRM 557 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 63 #