data_5O4C # _model_server_result.job_id j3KcdB3-YC1t_bVg5mITaw _model_server_result.datetime_utc '2024-11-27 21:53:15' _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 5o4c # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":402}' # _entry.id 5O4C # _exptl.entry_id 5O4C _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 5O4C _cell.length_a 226.4 _cell.length_b 226.4 _cell.length_c 113.7 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5O4C _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA _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 A SG CYS 1 C CYS 1 1_555 I CG3 DGA . C DGA 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.613 ? covale ? covale2 A SG CYS 87 C CYS 87 1_555 E CAB HEC . C HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.76 ? covale ? covale3 A SG CYS 90 C CYS 90 1_555 E CAC HEC . C HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.799 ? covale ? covale4 A SG CYS 132 C CYS 132 1_555 F CAB HEC . C HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.798 ? covale ? covale5 A SG CYS 135 C CYS 135 1_555 F CAC HEC . C HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.808 ? covale ? covale6 A SG CYS 244 C CYS 244 1_555 G CAB HEC . C HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.762 ? covale ? covale7 A SG CYS 247 C CYS 247 1_555 G CAC HEC . C HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.839 ? covale ? covale8 A SG CYS 305 C CYS 305 1_555 H CAB HEC . C HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.777 ? covale ? covale9 A SG CYS 308 C CYS 308 1_555 H CAC HEC . C HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.807 ? covale ? covale10 B C FME 1 H FME 1 1_555 B N TYR 2 H TYR 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.333 ? metalc ? metalc1 A SD MET 74 C MET 74 1_555 E FE HEC . C HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.378 ? metalc ? metalc2 A NE2 HIS 91 C HIS 91 1_555 E FE HEC . C HEC 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? metalc ? metalc3 A SD MET 110 C MET 110 1_555 F FE HEC . C HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.264 ? metalc ? metalc4 A NE2 HIS 124 C HIS 124 1_555 H FE HEC . C HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc5 A NE2 HIS 136 C HIS 136 1_555 F FE HEC . C HEC 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc6 A SD MET 233 C MET 233 1_555 G FE HEC . C HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.294 ? metalc ? metalc7 A NE2 HIS 248 C HIS 248 1_555 G FE HEC . C HEC 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? metalc ? metalc8 A NE2 HIS 309 C HIS 309 1_555 H FE HEC . C HEC 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? metalc ? metalc9 C NE2 HIS 190 L HIS 190 1_555 X FE FE2 . M FE2 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.13 ? metalc ? metalc10 C NE2 HIS 230 L HIS 230 1_555 X FE FE2 . M FE2 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.412 ? metalc ? metalc11 D NE2 HIS 217 M HIS 217 1_555 X FE FE2 . M FE2 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.221 ? metalc ? metalc12 D OE1 GLU 232 M GLU 232 1_555 X FE FE2 . M FE2 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.421 ? metalc ? metalc13 D OE2 GLU 232 M GLU 232 1_555 X FE FE2 . M FE2 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.15 ? metalc ? metalc14 D NE2 HIS 264 M HIS 264 1_555 X FE FE2 . M FE2 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.377 ? # _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 559 n n FE NB HEC sing 560 n n FE NC HEC sing 561 n n FE ND HEC sing 562 n n CHA C1A HEC doub 563 n n CHA C4D HEC sing 564 n n CHA HHA HEC sing 565 n n CHB C4A HEC doub 566 n n CHB C1B HEC sing 567 n n CHB HHB HEC sing 568 n n CHC C4B HEC doub 569 n n CHC C1C HEC sing 570 n n CHC HHC HEC sing 571 n n CHD C4C HEC doub 572 n n CHD C1D HEC sing 573 n n CHD HHD HEC sing 574 n n NA C1A HEC sing 575 n y NA C4A HEC sing 576 n y C1A C2A HEC sing 577 n y C2A C3A HEC doub 578 n y C2A CAA HEC sing 579 n n C3A C4A HEC sing 580 n y C3A CMA HEC sing 581 n n CMA HMA1 HEC sing 582 n n CMA HMA2 HEC sing 583 n n CMA HMA3 HEC sing 584 n n CAA CBA HEC sing 585 n n CAA HAA1 HEC sing 586 n n CAA HAA2 HEC sing 587 n n CBA CGA HEC sing 588 n n CBA HBA1 HEC sing 589 n n CBA HBA2 HEC sing 590 n n CGA O1A HEC doub 591 n n CGA O2A HEC sing 592 n n O2A H2A HEC sing 593 n n NB C1B HEC sing 594 n y NB C4B HEC sing 595 n y C1B C2B HEC doub 596 n y C2B C3B HEC sing 597 n y C2B CMB HEC sing 598 n n C3B C4B HEC sing 599 n y C3B CAB HEC doub 600 e n CMB HMB1 HEC sing 601 n n CMB HMB2 HEC sing 602 n n CMB HMB3 HEC sing 603 n n CAB CBB HEC sing 604 n n CAB HAB HEC sing 605 n n CBB HBB1 HEC sing 606 n n CBB HBB2 HEC sing 607 n n CBB HBB3 HEC sing 608 n n NC C1C HEC sing 609 n y NC C4C HEC sing 610 n y C1C C2C HEC doub 611 n y C2C C3C HEC sing 612 n y C2C CMC HEC sing 613 n n C3C C4C HEC sing 614 n y C3C CAC HEC doub 615 e n CMC HMC1 HEC sing 616 n n CMC HMC2 HEC sing 617 n n CMC HMC3 HEC sing 618 n n CAC CBC HEC sing 619 n n CAC HAC HEC sing 620 n n CBC HBC1 HEC sing 621 n n CBC HBC2 HEC sing 622 n n CBC HBC3 HEC sing 623 n n ND C1D HEC sing 624 n y ND C4D HEC sing 625 n y C1D C2D HEC doub 626 n y C2D C3D HEC sing 627 n y C2D CMD HEC sing 628 n n C3D C4D HEC doub 629 n y C3D CAD HEC sing 630 n n CMD HMD1 HEC sing 631 n n CMD HMD2 HEC sing 632 n n CMD HMD3 HEC sing 633 n n CAD CBD HEC sing 634 n n CAD HAD1 HEC sing 635 n n CAD HAD2 HEC sing 636 n n CBD CGD HEC sing 637 n n CBD HBD1 HEC sing 638 n n CBD HBD2 HEC sing 639 n n CGD O1D HEC doub 640 n n CGD O2D HEC sing 641 n n O2D H2D HEC sing 642 n n # _atom_sites.entry_id 5O4C _atom_sites.fract_transf_matrix[1][1] 0.004417 _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] 0.004417 _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] 0.008795 _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 C 1 401 401 HEC HEC . F 5 HEC C 1 402 402 HEC HEC . G 5 HEC C 1 403 403 HEC HEC . H 5 HEC C 1 404 404 HEC HEC . I 6 DGA C 1 405 1278 DGA DGA . J 7 SO4 C 1 406 7 SO4 SO4 . K 8 LDA H 1 701 701 LDA LDA . L 7 SO4 H 1 702 1 SO4 SO4 . M 7 SO4 H 1 703 10 SO4 SO4 . N 7 SO4 H 1 704 18 SO4 SO4 . O 7 SO4 H 1 705 21 SO4 SO4 . P 8 LDA H 1 706 1 LDA LDA . Q 8 LDA H 1 707 2 LDA LDA . R 9 HTO H 1 708 3 HTO HTO . S 10 BCB L 1 301 400 BCB BCB . T 10 BCB L 1 302 401 BCB BCB . U 11 BPB L 1 303 402 BPB BPB . V 8 LDA L 1 304 7 LDA LDA . W 9 HTO L 1 305 1 HTO HTO . X 12 FE2 M 1 401 500 FE2 FE2 . Y 13 MQ7 M 1 402 501 MQ7 MQ7 . Z 10 BCB M 1 403 400 BCB BCB . AA 10 BCB M 1 404 401 BCB BCB . BA 11 BPB M 1 405 402 BPB BPB . CA 14 NS5 M 1 406 600 NS5 NS5 . DA 7 SO4 M 1 407 3 SO4 SO4 . EA 7 SO4 M 1 408 5 SO4 SO4 . FA 7 SO4 M 1 409 6 SO4 SO4 . GA 7 SO4 M 1 410 9 SO4 SO4 . HA 7 SO4 M 1 411 15 SO4 SO4 . IA 7 SO4 M 1 412 19 SO4 SO4 . JA 7 SO4 M 1 413 20 SO4 SO4 . KA 15 HOH C 1 501 132 HOH HOH . KA 15 HOH C 2 502 67 HOH HOH . KA 15 HOH C 3 503 146 HOH HOH . LA 15 HOH H 1 801 140 HOH HOH . LA 15 HOH H 2 802 99 HOH HOH . MA 15 HOH L 1 401 52 HOH HOH . MA 15 HOH L 2 402 63 HOH HOH . MA 15 HOH L 3 403 41 HOH HOH . MA 15 HOH L 4 404 111 HOH HOH . NA 15 HOH M 1 501 42 HOH HOH . NA 15 HOH M 2 502 30 HOH HOH . NA 15 HOH M 3 503 110 HOH HOH . NA 15 HOH M 4 504 124 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 HEC . . . F 5 -21.447 -92.387 15.36 1 97.15 ? FE HEC 402 C 1 HETATM 2 C CHA HEC . . . F 5 -19.312 -94.294 13.374 1 100.19 ? CHA HEC 402 C 1 HETATM 3 C CHB HEC . . . F 5 -23.953 -94.616 14.808 1 86.63 ? CHB HEC 402 C 1 HETATM 4 C CHC HEC . . . F 5 -23.264 -90.765 17.667 1 92.27 ? CHC HEC 402 C 1 HETATM 5 C CHD HEC . . . F 5 -18.972 -89.972 15.616 1 99.46 ? CHD HEC 402 C 1 HETATM 6 N NA HEC . . . F 5 -21.597 -94.133 14.255 1 96.25 ? NA HEC 402 C 1 HETATM 7 C C1A HEC . . . F 5 -20.63 -94.709 13.468 1 95.14 ? C1A HEC 402 C 1 HETATM 8 C C2A HEC . . . F 5 -21.223 -95.889 12.852 1 95.28 ? C2A HEC 402 C 1 HETATM 9 C C3A HEC . . . F 5 -22.496 -95.978 13.248 1 92.89 ? C3A HEC 402 C 1 HETATM 10 C C4A HEC . . . F 5 -22.763 -94.866 14.139 1 91.65 ? C4A HEC 402 C 1 HETATM 11 C CMA HEC . . . F 5 -23.489 -97.06 12.835 1 94.69 ? CMA HEC 402 C 1 HETATM 12 C CAA HEC . . . F 5 -20.519 -96.849 11.899 1 98.77 ? CAA HEC 402 C 1 HETATM 13 C CBA HEC . . . F 5 -20.871 -96.378 10.483 1 94.92 ? CBA HEC 402 C 1 HETATM 14 C CGA HEC . . . F 5 -19.936 -96.93 9.377 1 98 ? CGA HEC 402 C 1 HETATM 15 O O1A HEC . . . F 5 -20.431 -97.23 8.277 1 99.12 ? O1A HEC 402 C 1 HETATM 16 O O2A HEC . . . F 5 -18.699 -97.055 9.573 1 103.57 ? O2A HEC 402 C 1 HETATM 17 N NB HEC . . . F 5 -23.299 -92.668 16.154 1 94.64 ? NB HEC 402 C 1 HETATM 18 C C1B HEC . . . F 5 -24.173 -93.662 15.801 1 88.78 ? C1B HEC 402 C 1 HETATM 19 C C2B HEC . . . F 5 -25.363 -93.481 16.607 1 87.95 ? C2B HEC 402 C 1 HETATM 20 C C3B HEC . . . F 5 -25.186 -92.405 17.41 1 87.33 ? C3B HEC 402 C 1 HETATM 21 C C4B HEC . . . F 5 -23.867 -91.869 17.113 1 90.27 ? C4B HEC 402 C 1 HETATM 22 C CMB HEC . . . F 5 -26.573 -94.404 16.505 1 90.88 ? CMB HEC 402 C 1 HETATM 23 C CAB HEC . . . F 5 -26.182 -91.834 18.447 1 85.2 ? CAB HEC 402 C 1 HETATM 24 C CBB HEC . . . F 5 -26.706 -92.897 19.426 1 83.36 ? CBB HEC 402 C 1 HETATM 25 N NC HEC . . . F 5 -21.154 -90.645 16.429 1 98.12 ? NC HEC 402 C 1 HETATM 26 C C1C HEC . . . F 5 -22.071 -90.151 17.326 1 92.98 ? C1C HEC 402 C 1 HETATM 27 C C2C HEC . . . F 5 -21.547 -88.902 17.875 1 86.7 ? C2C HEC 402 C 1 HETATM 28 C C3C HEC . . . F 5 -20.325 -88.672 17.301 1 89.74 ? C3C HEC 402 C 1 HETATM 29 C C4C HEC . . . F 5 -20.089 -89.781 16.382 1 95.66 ? C4C HEC 402 C 1 HETATM 30 C CMC HEC . . . F 5 -22.289 -88.049 18.921 1 85.39 ? CMC HEC 402 C 1 HETATM 31 C CAC HEC . . . F 5 -19.317 -87.497 17.491 1 86.53 ? CAC HEC 402 C 1 HETATM 32 C CBC HEC . . . F 5 -19.091 -87.21 18.974 1 92.33 ? CBC HEC 402 C 1 HETATM 33 N ND HEC . . . F 5 -19.499 -92.202 14.657 1 99.29 ? ND HEC 402 C 1 HETATM 34 C C1D HEC . . . F 5 -18.658 -91.129 14.909 1 101.36 ? C1D HEC 402 C 1 HETATM 35 C C2D HEC . . . F 5 -17.389 -91.397 14.279 1 96.94 ? C2D HEC 402 C 1 HETATM 36 C C3D HEC . . . F 5 -17.467 -92.601 13.651 1 102.36 ? C3D HEC 402 C 1 HETATM 37 C C4D HEC . . . F 5 -18.804 -93.117 13.876 1 102.29 ? C4D HEC 402 C 1 HETATM 38 C CMD HEC . . . F 5 -16.191 -90.457 14.334 1 95.08 ? CMD HEC 402 C 1 HETATM 39 C CAD HEC . . . F 5 -16.35 -93.296 12.87 1 98.11 ? CAD HEC 402 C 1 HETATM 40 C CBD HEC . . . F 5 -16.515 -93.193 11.35 1 105.66 ? CBD HEC 402 C 1 HETATM 41 C CGD HEC . . . F 5 -17.275 -94.4 10.829 1 114.71 ? CGD HEC 402 C 1 HETATM 42 O O1D HEC . . . F 5 -17.11 -95.511 11.401 1 109.35 ? O1D HEC 402 C 1 HETATM 43 O O2D HEC . . . F 5 -18.035 -94.206 9.843 1 131.85 ? O2D HEC 402 C 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 32 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #