data_5M7J # _model_server_result.job_id 7itnQPDXI6Gm5BsHfmeITA _model_server_result.datetime_utc '2024-11-08 13:23:02' _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 5m7j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":402}' # _entry.id 5M7J # _exptl.entry_id 5M7J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 5 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'HEME C' _entity.pdbx_number_of_molecules 4 _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 5M7J _cell.length_a 57.9 _cell.length_b 84.8 _cell.length_c 384.3 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5M7J _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 E N N ? 5 F N N ? 5 G N N ? 5 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 D C FME 1 D FME 1 1_555 D N TYR 2 D TYR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? metalc ? metalc1 A NE2 HIS 111 A HIS 91 1_555 E FE HEC . A HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.522 ? metalc ? metalc2 A NE2 HIS 144 A HIS 124 1_555 H FE HEC . A HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.415 ? metalc ? metalc3 A NE2 HIS 156 A HIS 136 1_555 F FE HEC . A HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.543 ? metalc ? metalc4 A NE2 HIS 268 A HIS 248 1_555 G FE HEC . A HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.461 ? metalc ? metalc5 A NE2 HIS 329 A HIS 309 1_555 H FE HEC . A HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.327 ? metalc ? metalc6 B NE2 HIS 191 B HIS 190 1_555 P FE FE2 . B FE2 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.503 ? metalc ? metalc7 B NE2 HIS 231 B HIS 230 1_555 P FE FE2 . B FE2 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.622 ? metalc ? metalc8 P FE FE2 . B FE2 307 1_555 C NE2 HIS 218 C HIS 217 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc9 P FE FE2 . B FE2 307 1_555 C OE1 GLU 233 C GLU 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc10 P FE FE2 . B FE2 307 1_555 C OE2 GLU 233 C GLU 232 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.538 ? metalc ? metalc11 P FE FE2 . B FE2 307 1_555 C NE2 HIS 265 C HIS 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.478 ? # _chem_comp.formula 'C34 H34 Fe N4 O4' _chem_comp.formula_weight 618.503 _chem_comp.id HEC _chem_comp.mon_nstd_flag . _chem_comp.name 'HEME C' _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 HEC sing 561 n n FE NB HEC sing 562 n n FE NC HEC sing 563 n n FE ND HEC sing 564 n n CHA C1A HEC doub 565 n n CHA C4D HEC sing 566 n n CHA HHA HEC sing 567 n n CHB C4A HEC doub 568 n n CHB C1B HEC sing 569 n n CHB HHB HEC sing 570 n n CHC C4B HEC doub 571 n n CHC C1C HEC sing 572 n n CHC HHC HEC sing 573 n n CHD C4C HEC doub 574 n n CHD C1D HEC sing 575 n n CHD HHD HEC sing 576 n n NA C1A HEC sing 577 n y NA C4A HEC sing 578 n y C1A C2A HEC sing 579 n y C2A C3A HEC doub 580 n y C2A CAA HEC sing 581 n n C3A C4A HEC sing 582 n y C3A CMA HEC sing 583 n n CMA HMA1 HEC sing 584 n n CMA HMA2 HEC sing 585 n n CMA HMA3 HEC sing 586 n n CAA CBA HEC sing 587 n n CAA HAA1 HEC sing 588 n n CAA HAA2 HEC sing 589 n n CBA CGA HEC sing 590 n n CBA HBA1 HEC sing 591 n n CBA HBA2 HEC sing 592 n n CGA O1A HEC doub 593 n n CGA O2A HEC sing 594 n n O2A H2A HEC sing 595 n n NB C1B HEC sing 596 n y NB C4B HEC sing 597 n y C1B C2B HEC doub 598 n y C2B C3B HEC sing 599 n y C2B CMB HEC sing 600 n n C3B C4B HEC sing 601 n y C3B CAB HEC doub 602 e n CMB HMB1 HEC sing 603 n n CMB HMB2 HEC sing 604 n n CMB HMB3 HEC sing 605 n n CAB CBB HEC sing 606 n n CAB HAB HEC sing 607 n n CBB HBB1 HEC sing 608 n n CBB HBB2 HEC sing 609 n n CBB HBB3 HEC sing 610 n n NC C1C HEC sing 611 n y NC C4C HEC sing 612 n y C1C C2C HEC doub 613 n y C2C C3C HEC sing 614 n y C2C CMC HEC sing 615 n n C3C C4C HEC sing 616 n y C3C CAC HEC doub 617 e n CMC HMC1 HEC sing 618 n n CMC HMC2 HEC sing 619 n n CMC HMC3 HEC sing 620 n n CAC CBC HEC sing 621 n n CAC HAC HEC sing 622 n n CBC HBC1 HEC sing 623 n n CBC HBC2 HEC sing 624 n n CBC HBC3 HEC sing 625 n n ND C1D HEC sing 626 n y ND C4D HEC sing 627 n y C1D C2D HEC doub 628 n y C2D C3D HEC sing 629 n y C2D CMD HEC sing 630 n n C3D C4D HEC doub 631 n y C3D CAD HEC sing 632 n n CMD HMD1 HEC sing 633 n n CMD HMD2 HEC sing 634 n n CMD HMD3 HEC sing 635 n n CAD CBD HEC sing 636 n n CAD HAD1 HEC sing 637 n n CAD HAD2 HEC sing 638 n n CBD CGD HEC sing 639 n n CBD HBD1 HEC sing 640 n n CBD HBD2 HEC sing 641 n n CGD O1D HEC doub 642 n n CGD O2D HEC sing 643 n n O2D H2D HEC sing 644 n n # _atom_sites.entry_id 5M7J _atom_sites.fract_transf_matrix[1][1] 0.017271 _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] 0.011792 _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] 0.002602 _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 E 5 HEC A 1 401 1333 HEC HEM . F 5 HEC A 1 402 1334 HEC HEM . G 5 HEC A 1 403 1335 HEC HEM . H 5 HEC A 1 404 1336 HEC HEM . I 6 DGA A 1 405 1278 DGA DGA . J 7 BCL B 1 301 1274 BCL BCL . K 7 BCL B 1 302 1275 BCL BCL . L 7 BCL B 1 303 1276 BCL BCL . M 8 BPB B 1 304 1277 BPB BPB . N 9 MPG B 1 305 1279 MPG MPG . O 9 MPG B 1 306 1280 MPG MPG . P 10 FE2 B 1 307 1326 FE2 FE2 . Q 7 BCL C 1 401 1324 BCL BCL . R 8 BPB C 1 402 1325 BPB BPB . S 11 MQ7 C 1 403 1327 MQ7 MQ7 . T 12 NS5 C 1 404 1328 NS5 NS5 . U 13 OTP C 1 405 1329 OTP OTP . V 9 MPG C 1 406 1330 MPG MPG . W 14 PO4 C 1 407 1331 PO4 PO4 . X 14 PO4 C 1 408 1332 PO4 PO4 . # 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 HEC . . . F 5 -8.453 -36.407 97.572 1 14.31 ? FE HEC 402 A 1 HETATM 2 C CHA HEC . . . F 5 -7.512 -39.643 96.864 1 32.96 ? CHA HEC 402 A 1 HETATM 3 C CHB HEC . . . F 5 -10.412 -37.534 100.138 1 28.44 ? CHB HEC 402 A 1 HETATM 4 C CHC HEC . . . F 5 -9.346 -33.181 98.298 1 30.8 ? CHC HEC 402 A 1 HETATM 5 C CHD HEC . . . F 5 -7.206 -35.388 94.562 1 31.01 ? CHD HEC 402 A 1 HETATM 6 N NA HEC . . . F 5 -8.867 -38.256 98.368 1 35.28 ? NA HEC 402 A 1 HETATM 7 C C1A HEC . . . F 5 -8.397 -39.472 97.908 1 31.31 ? C1A HEC 402 A 1 HETATM 8 C C2A HEC . . . F 5 -8.998 -40.509 98.723 1 28.05 ? C2A HEC 402 A 1 HETATM 9 C C3A HEC . . . F 5 -9.8 -39.927 99.618 1 31.44 ? C3A HEC 402 A 1 HETATM 10 C C4A HEC . . . F 5 -9.735 -38.495 99.418 1 35.31 ? C4A HEC 402 A 1 HETATM 11 C CMA HEC . . . F 5 -10.644 -40.65 100.686 1 32.15 ? CMA HEC 402 A 1 HETATM 12 C CAA HEC . . . F 5 -8.778 -42.026 98.571 1 27.03 ? CAA HEC 402 A 1 HETATM 13 C CBA HEC . . . F 5 -9.676 -42.477 97.426 1 30.97 ? CBA HEC 402 A 1 HETATM 14 C CGA HEC . . . F 5 -9.686 -43.975 97.317 1 30.52 ? CGA HEC 402 A 1 HETATM 15 O O1A HEC . . . F 5 -10.405 -44.626 98.116 1 33.46 ? O1A HEC 402 A 1 HETATM 16 O O2A HEC . . . F 5 -8.984 -44.514 96.425 1 34.43 ? O2A HEC 402 A 1 HETATM 17 N NB HEC . . . F 5 -9.824 -35.513 98.88 1 23.73 ? NB HEC 402 A 1 HETATM 18 C C1B HEC . . . F 5 -10.193 -36.181 100.029 1 26.47 ? C1B HEC 402 A 1 HETATM 19 C C2B HEC . . . F 5 -10.291 -35.225 101.108 1 33.51 ? C2B HEC 402 A 1 HETATM 20 C C3B HEC . . . F 5 -9.998 -34.01 100.605 1 38.78 ? C3B HEC 402 A 1 HETATM 21 C C4B HEC . . . F 5 -9.7 -34.174 99.192 1 33.08 ? C4B HEC 402 A 1 HETATM 22 C CMB HEC . . . F 5 -10.676 -35.632 102.55 1 32.14 ? CMB HEC 402 A 1 HETATM 23 C CAB HEC . . . F 5 -9.931 -32.638 101.319 1 27.19 ? CAB HEC 402 A 1 HETATM 24 C CBB HEC . . . F 5 -10.046 -32.452 102.64 1 27.3 ? CBB HEC 402 A 1 HETATM 25 N NC HEC . . . F 5 -8.42 -34.611 96.541 1 33.39 ? NC HEC 402 A 1 HETATM 26 C C1C HEC . . . F 5 -8.598 -33.388 97.156 1 31.33 ? C1C HEC 402 A 1 HETATM 27 C C2C HEC . . . F 5 -7.867 -32.387 96.399 1 28.55 ? C2C HEC 402 A 1 HETATM 28 C C3C HEC . . . F 5 -7.275 -33.007 95.354 1 30.44 ? C3C HEC 402 A 1 HETATM 29 C C4C HEC . . . F 5 -7.616 -34.412 95.44 1 31.75 ? C4C HEC 402 A 1 HETATM 30 C CMC HEC . . . F 5 -7.825 -30.891 96.788 1 25.58 ? CMC HEC 402 A 1 HETATM 31 C CAC HEC . . . F 5 -6.354 -32.464 94.225 1 33.51 ? CAC HEC 402 A 1 HETATM 32 C CBC HEC . . . F 5 -5.932 -31.2 94.095 1 36.75 ? CBC HEC 402 A 1 HETATM 33 N ND HEC . . . F 5 -7.544 -37.348 95.993 1 25.4 ? ND HEC 402 A 1 HETATM 34 C C1D HEC . . . F 5 -7.075 -36.724 94.855 1 23.46 ? C1D HEC 402 A 1 HETATM 35 C C2D HEC . . . F 5 -6.427 -37.72 94.029 1 35.56 ? C2D HEC 402 A 1 HETATM 36 C C3D HEC . . . F 5 -6.508 -38.896 94.663 1 49.32 ? C3D HEC 402 A 1 HETATM 37 C C4D HEC . . . F 5 -7.217 -38.688 95.912 1 35.97 ? C4D HEC 402 A 1 HETATM 38 C CMD HEC . . . F 5 -5.761 -37.456 92.659 1 35.45 ? CMD HEC 402 A 1 HETATM 39 C CAD HEC . . . F 5 -5.955 -40.246 94.154 1 39.62 ? CAD HEC 402 A 1 HETATM 40 C CBD HEC . . . F 5 -7.065 -40.949 93.386 1 31.51 ? CBD HEC 402 A 1 HETATM 41 C CGD HEC . . . F 5 -7.825 -41.831 94.336 1 33.22 ? CGD HEC 402 A 1 HETATM 42 O O1D HEC . . . F 5 -9.079 -41.765 94.326 1 37.42 ? O1D HEC 402 A 1 HETATM 43 O O2D HEC . . . F 5 -7.176 -42.58 95.112 1 33.47 ? O2D HEC 402 A 1 # _model_server_stats.io_time_ms 37 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 245 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #