data_8YIN # _model_server_result.job_id oV4N8e0-mv3kfI56Ka0EEw _model_server_result.datetime_utc '2024-12-26 13:00:05' _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 8yin # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":404}' # _entry.id 8YIN # _exptl.entry_id 8YIN _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 616.487 _entity.id 14 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 6 _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 8YIN _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8YIN _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details eicosameric _pdbx_struct_assembly.oligomeric_count 20 _pdbx_struct_assembly.details author_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 _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 ? _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 ? 14 X N N ? 14 Y N N ? 14 CA N N ? 14 GA N N ? 14 JA N N ? 14 LA 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 disulf ? disulf1 E SG CYS 134 E CYS 164 1_555 E SG CYS 150 E CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.409 ? disulf ? disulf2 O SG CYS 134 P CYS 164 1_555 O SG CYS 150 P CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.41 ? metalc ? metalc1 B NE2 HIS 82 C HIS 82 1_555 X FE HEM . C HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.778 ? metalc ? metalc2 B NE2 HIS 96 C HIS 96 1_555 Y FE HEM . C HEM 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? metalc ? metalc3 B NE2 HIS 183 C HIS 183 1_555 X FE HEM . C HEM 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.706 ? metalc ? metalc4 B NE2 HIS 197 C HIS 197 1_555 Y FE HEM . C HEM 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.714 ? metalc ? metalc5 D NE2 HIS 44 D HIS 105 1_555 CA FE HEM . D HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? metalc ? metalc6 G NE2 HIS 82 N HIS 82 1_555 JA FE HEM . N HEM 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.785 ? metalc ? metalc7 G NE2 HIS 96 N HIS 96 1_555 GA FE HEM . N HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.708 ? metalc ? metalc8 G NE2 HIS 183 N HIS 183 1_555 JA FE HEM . N HEM 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.707 ? metalc ? metalc9 G NE2 HIS 197 N HIS 197 1_555 GA FE HEM . N HEM 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.711 ? metalc ? metalc10 M NE2 HIS 44 O HIS 105 1_555 LA FE HEM . O HEM 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.765 ? # _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 711 n n CHA C4D HEM doub 712 n n CHA HHA HEM sing 713 n n CHB C4A HEM sing 714 n n CHB C1B HEM doub 715 n n CHB HHB HEM sing 716 n n CHC C4B HEM sing 717 n n CHC C1C HEM doub 718 n n CHC HHC HEM sing 719 n n CHD C4C HEM doub 720 n n CHD C1D HEM sing 721 n n CHD HHD HEM sing 722 n n C1A C2A HEM doub 723 n y C1A NA HEM sing 724 n y C2A C3A HEM sing 725 n y C2A CAA HEM sing 726 n n C3A C4A HEM doub 727 n y C3A CMA HEM sing 728 n n C4A NA HEM sing 729 n y CMA HMA HEM sing 730 n n CMA HMAA HEM sing 731 n n CMA HMAB HEM sing 732 n n CAA CBA HEM sing 733 n n CAA HAA HEM sing 734 n n CAA HAAA HEM sing 735 n n CBA CGA HEM sing 736 n n CBA HBA HEM sing 737 n n CBA HBAA HEM sing 738 n n CGA O1A HEM doub 739 n n CGA O2A HEM sing 740 n n C1B C2B HEM sing 741 n n C1B NB HEM sing 742 n n C2B C3B HEM doub 743 n n C2B CMB HEM sing 744 n n C3B C4B HEM sing 745 n n C3B CAB HEM sing 746 n n C4B NB HEM doub 747 n n CMB HMB HEM sing 748 n n CMB HMBA HEM sing 749 n n CMB HMBB HEM sing 750 n n CAB CBB HEM doub 751 n n CAB HAB HEM sing 752 n n CBB HBB HEM sing 753 n n CBB HBBA HEM sing 754 n n C1C C2C HEM sing 755 n y C1C NC HEM sing 756 n y C2C C3C HEM doub 757 n y C2C CMC HEM sing 758 n n C3C C4C HEM sing 759 n y C3C CAC HEM sing 760 n n C4C NC HEM sing 761 n y CMC HMC HEM sing 762 n n CMC HMCA HEM sing 763 n n CMC HMCB HEM sing 764 n n CAC CBC HEM doub 765 n n CAC HAC HEM sing 766 n n CBC HBC HEM sing 767 n n CBC HBCA HEM sing 768 n n C1D C2D HEM sing 769 n n C1D ND HEM doub 770 n n C2D C3D HEM doub 771 n n C2D CMD HEM sing 772 n n C3D C4D HEM sing 773 n n C3D CAD HEM sing 774 n n C4D ND HEM sing 775 n n CMD HMD HEM sing 776 n n CMD HMDA HEM sing 777 n n CMD HMDB HEM sing 778 n n CAD CBD HEM sing 779 n n CAD HAD HEM sing 780 n n CAD HADA HEM sing 781 n n CBD CGD HEM sing 782 n n CBD HBD HEM sing 783 n n CBD HBDA HEM sing 784 n n CGD O1D HEM doub 785 n n CGD O2D HEM sing 786 n n O2A H2A HEM sing 787 n n O2D H2D HEM sing 788 n n FE NA HEM sing 789 n n FE NB HEM sing 790 n n FE NC HEM sing 791 n n FE ND HEM sing 792 n n # _atom_sites.entry_id 8YIN _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 U 11 6PH A 1 501 501 6PH 6PH . V 12 CN3 C 1 401 401 CN3 CN3 . W 13 9PE C 1 402 402 9PE 9PE . X 14 HEM C 1 403 403 HEM HEM . Y 14 HEM C 1 404 404 HEM HEM . Z 15 CN5 C 1 405 405 CN5 CN5 . AA 16 UQ6 C 1 406 406 UQ6 UQ6 . BA 17 A1D6O C 1 407 407 A1D6O A1D . CA 14 HEM D 1 401 401 HEM HEM . DA 11 6PH E 1 301 301 6PH 6PH . EA 18 8PE H 1 101 101 8PE 8PE . FA 12 CN3 N 1 401 404 CN3 CN3 . GA 14 HEM N 1 402 405 HEM HEM . HA 16 UQ6 N 1 403 401 UQ6 UQ6 . IA 13 9PE N 1 404 402 9PE 9PE . JA 14 HEM N 1 405 403 HEM HEM . KA 17 A1D6O N 1 406 406 A1D6O A1D . LA 14 HEM O 1 401 401 HEM HEM . MA 18 8PE S 1 101 101 8PE 8PE . # 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 . . . Y 14 136.521 150.249 150.116 1 37.37 ? CHA HEM 404 C 1 HETATM 2 C CHB HEM . . . Y 14 139.435 149.02 146.491 1 37.37 ? CHB HEM 404 C 1 HETATM 3 C CHC HEM . . . Y 14 137.162 152.229 143.697 1 37.37 ? CHC HEM 404 C 1 HETATM 4 C CHD HEM . . . Y 14 134.936 154.038 147.588 1 37.37 ? CHD HEM 404 C 1 HETATM 5 C C1A HEM . . . Y 14 137.429 149.542 149.368 1 37.37 ? C1A HEM 404 C 1 HETATM 6 C C2A HEM . . . Y 14 138.089 148.291 149.719 1 37.37 ? C2A HEM 404 C 1 HETATM 7 C C3A HEM . . . Y 14 138.891 147.976 148.712 1 37.37 ? C3A HEM 404 C 1 HETATM 8 C C4A HEM . . . Y 14 138.771 148.99 147.69 1 37.37 ? C4A HEM 404 C 1 HETATM 9 C CMA HEM . . . Y 14 139.787 146.726 148.652 1 37.37 ? CMA HEM 404 C 1 HETATM 10 C CAA HEM . . . Y 14 137.962 147.422 150.994 1 37.37 ? CAA HEM 404 C 1 HETATM 11 C CBA HEM . . . Y 14 136.546 147.047 151.422 1 37.37 ? CBA HEM 404 C 1 HETATM 12 C CGA HEM . . . Y 14 135.942 146.176 150.367 1 37.37 ? CGA HEM 404 C 1 HETATM 13 O O1A HEM . . . Y 14 134.763 146.396 150.001 1 37.37 ? O1A HEM 404 C 1 HETATM 14 O O2A HEM . . . Y 14 136.663 145.27 149.889 1 37.37 ? O2A HEM 404 C 1 HETATM 15 C C1B HEM . . . Y 14 139.08 149.793 145.413 1 37.37 ? C1B HEM 404 C 1 HETATM 16 C C2B HEM . . . Y 14 139.722 149.762 144.124 1 37.37 ? C2B HEM 404 C 1 HETATM 17 C C3B HEM . . . Y 14 139.093 150.654 143.33 1 37.37 ? C3B HEM 404 C 1 HETATM 18 C C4B HEM . . . Y 14 138.043 151.262 144.123 1 37.37 ? C4B HEM 404 C 1 HETATM 19 C CMB HEM . . . Y 14 140.91 148.81 143.856 1 37.37 ? CMB HEM 404 C 1 HETATM 20 C CAB HEM . . . Y 14 139.318 151.078 141.852 1 37.37 ? CAB HEM 404 C 1 HETATM 21 C CBB HEM . . . Y 14 140.267 150.658 141.009 1 37.37 ? CBB HEM 404 C 1 HETATM 22 C C1C HEM . . . Y 14 136.347 152.987 144.504 1 37.37 ? C1C HEM 404 C 1 HETATM 23 C C2C HEM . . . Y 14 135.454 154.03 144.061 1 37.37 ? C2C HEM 404 C 1 HETATM 24 C C3C HEM . . . Y 14 134.822 154.533 145.143 1 37.37 ? C3C HEM 404 C 1 HETATM 25 C C4C HEM . . . Y 14 135.323 153.821 146.29 1 37.37 ? C4C HEM 404 C 1 HETATM 26 C CMC HEM . . . Y 14 135.33 154.379 142.564 1 37.37 ? CMC HEM 404 C 1 HETATM 27 C CAC HEM . . . Y 14 133.772 155.657 145.335 1 37.37 ? CAC HEM 404 C 1 HETATM 28 C CBC HEM . . . Y 14 133.406 156.586 144.449 1 37.37 ? CBC HEM 404 C 1 HETATM 29 C C1D HEM . . . Y 14 135.154 153.16 148.617 1 37.37 ? C1D HEM 404 C 1 HETATM 30 C C2D HEM . . . Y 14 134.645 153.256 149.965 1 37.37 ? C2D HEM 404 C 1 HETATM 31 C C3D HEM . . . Y 14 135.092 152.205 150.643 1 37.37 ? C3D HEM 404 C 1 HETATM 32 C C4D HEM . . . Y 14 135.895 151.41 149.761 1 37.37 ? C4D HEM 404 C 1 HETATM 33 C CMD HEM . . . Y 14 133.745 154.37 150.53 1 37.37 ? CMD HEM 404 C 1 HETATM 34 C CAD HEM . . . Y 14 134.82 151.865 152.118 1 37.37 ? CAD HEM 404 C 1 HETATM 35 C CBD HEM . . . Y 14 133.652 150.899 152.204 1 37.37 ? CBD HEM 404 C 1 HETATM 36 C CGD HEM . . . Y 14 133.571 150.383 153.606 1 37.37 ? CGD HEM 404 C 1 HETATM 37 O O1D HEM . . . Y 14 134.64 150.255 154.246 1 37.37 ? O1D HEM 404 C 1 HETATM 38 O O2D HEM . . . Y 14 132.443 150.095 154.071 1 37.37 ? O2D HEM 404 C 1 HETATM 39 N NA HEM . . . Y 14 137.869 149.935 148.121 1 37.37 ? NA HEM 404 C 1 HETATM 40 N NB HEM . . . Y 14 138.061 150.715 145.383 1 37.37 ? NB HEM 404 C 1 HETATM 41 N NC HEM . . . Y 14 136.243 152.886 145.869 1 37.37 ? NC HEM 404 C 1 HETATM 42 N ND HEM . . . Y 14 135.918 152.016 148.528 1 37.37 ? ND HEM 404 C 1 HETATM 43 FE FE HEM . . . Y 14 137.025 151.373 146.927 1 37.37 ? FE HEM 404 C 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 42 _model_server_stats.query_time_ms 343 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 43 #