data_3E4Y # _model_server_result.job_id 6pd66MaSP8TsU2r7v2dlLA _model_server_result.datetime_utc '2025-08-02 06:29:23' _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 3e4y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 3E4Y # _exptl.entry_id 3E4Y _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 90 _cell.entry_id 3E4Y _cell.length_a 69.604 _cell.length_b 92.68 _cell.length_c 165.499 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3E4Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 24 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 21 21 21' # _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 _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 # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id OH _struct_conn.ptnr1_label_comp_id TYR _struct_conn.ptnr1_label_seq_id 301 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id TYR _struct_conn.ptnr1_auth_seq_id 294 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 501 _struct_conn.ptnr2_symmetry 1_555 _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 2.469 _struct_conn.pdbx_value_order ? # _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 3E4Y _atom_sites.fract_transf_matrix[1][1] 0.014367 _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] 0.01079 _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] 0.006042 _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 GOL A 1 610 610 GOL GOL . D 3 GOL A 1 620 620 GOL GOL . E 4 PO4 A 1 710 710 PO4 PO4 . F 5 HOH A 1 711 1 HOH HOH . F 5 HOH A 2 712 2 HOH HOH . F 5 HOH A 3 713 3 HOH HOH . F 5 HOH A 4 714 4 HOH HOH . F 5 HOH A 5 715 5 HOH HOH . F 5 HOH A 6 716 6 HOH HOH . F 5 HOH A 7 717 7 HOH HOH . F 5 HOH A 8 718 8 HOH HOH . F 5 HOH A 9 719 9 HOH HOH . F 5 HOH A 10 720 10 HOH HOH . F 5 HOH A 11 721 11 HOH HOH . F 5 HOH A 12 722 12 HOH HOH . F 5 HOH A 13 723 13 HOH HOH . F 5 HOH A 14 724 14 HOH HOH . F 5 HOH A 15 725 15 HOH HOH . F 5 HOH A 16 726 16 HOH HOH . F 5 HOH A 17 727 17 HOH HOH . F 5 HOH A 18 728 18 HOH HOH . F 5 HOH A 19 729 19 HOH HOH . F 5 HOH A 20 730 20 HOH HOH . F 5 HOH A 21 731 21 HOH HOH . F 5 HOH A 22 732 22 HOH HOH . F 5 HOH A 23 733 23 HOH HOH . F 5 HOH A 24 734 24 HOH HOH . F 5 HOH A 25 735 25 HOH HOH . F 5 HOH A 26 736 26 HOH HOH . F 5 HOH A 27 737 27 HOH HOH . F 5 HOH A 28 738 28 HOH HOH . F 5 HOH A 29 739 29 HOH HOH . F 5 HOH A 30 740 30 HOH HOH . F 5 HOH A 31 741 31 HOH HOH . F 5 HOH A 32 742 32 HOH HOH . F 5 HOH A 33 743 33 HOH HOH . F 5 HOH A 34 744 34 HOH HOH . F 5 HOH A 35 745 35 HOH HOH . F 5 HOH A 36 746 36 HOH HOH . F 5 HOH A 37 747 37 HOH HOH . F 5 HOH A 38 748 38 HOH HOH . F 5 HOH A 39 749 39 HOH HOH . F 5 HOH A 40 750 40 HOH HOH . F 5 HOH A 41 751 41 HOH HOH . F 5 HOH A 42 752 42 HOH HOH . F 5 HOH A 43 753 43 HOH HOH . F 5 HOH A 44 754 44 HOH HOH . F 5 HOH A 45 755 45 HOH HOH . F 5 HOH A 46 756 46 HOH HOH . F 5 HOH A 47 757 47 HOH HOH . F 5 HOH A 48 758 48 HOH HOH . F 5 HOH A 49 759 49 HOH HOH . F 5 HOH A 50 760 50 HOH HOH . F 5 HOH A 51 761 51 HOH HOH . F 5 HOH A 52 762 52 HOH HOH . F 5 HOH A 53 763 53 HOH HOH . F 5 HOH A 54 764 54 HOH HOH . F 5 HOH A 55 765 55 HOH HOH . F 5 HOH A 56 766 56 HOH HOH . F 5 HOH A 57 767 57 HOH HOH . F 5 HOH A 58 768 58 HOH HOH . F 5 HOH A 59 769 59 HOH HOH . F 5 HOH A 60 770 60 HOH HOH . F 5 HOH A 61 771 61 HOH HOH . F 5 HOH A 62 772 62 HOH HOH . F 5 HOH A 63 773 63 HOH HOH . F 5 HOH A 64 774 64 HOH HOH . F 5 HOH A 65 775 65 HOH HOH . F 5 HOH A 66 776 66 HOH HOH . F 5 HOH A 67 777 67 HOH HOH . F 5 HOH A 68 778 68 HOH HOH . F 5 HOH A 69 779 69 HOH HOH . F 5 HOH A 70 780 70 HOH HOH . F 5 HOH A 71 781 71 HOH HOH . F 5 HOH A 72 782 72 HOH HOH . F 5 HOH A 73 783 73 HOH HOH . F 5 HOH A 74 784 74 HOH HOH . F 5 HOH A 75 785 75 HOH HOH . F 5 HOH A 76 786 76 HOH HOH . F 5 HOH A 77 787 77 HOH HOH . F 5 HOH A 78 788 78 HOH HOH . F 5 HOH A 79 789 79 HOH HOH . F 5 HOH A 80 790 80 HOH HOH . F 5 HOH A 81 791 81 HOH HOH . F 5 HOH A 82 792 82 HOH HOH . F 5 HOH A 83 793 83 HOH HOH . F 5 HOH A 84 794 84 HOH HOH . F 5 HOH A 85 795 85 HOH HOH . F 5 HOH A 86 796 86 HOH HOH . F 5 HOH A 87 797 87 HOH HOH . F 5 HOH A 88 798 88 HOH HOH . F 5 HOH A 89 799 89 HOH HOH . F 5 HOH A 90 800 90 HOH HOH . F 5 HOH A 91 801 91 HOH HOH . F 5 HOH A 92 802 92 HOH HOH . F 5 HOH A 93 803 93 HOH HOH . F 5 HOH A 94 804 94 HOH HOH . F 5 HOH A 95 805 95 HOH HOH . F 5 HOH A 96 806 96 HOH HOH . F 5 HOH A 97 807 97 HOH HOH . F 5 HOH A 98 808 98 HOH HOH . F 5 HOH A 99 809 99 HOH HOH . F 5 HOH A 100 810 100 HOH HOH . F 5 HOH A 101 811 101 HOH HOH . F 5 HOH A 102 812 102 HOH HOH . F 5 HOH A 103 813 103 HOH HOH . F 5 HOH A 104 814 104 HOH HOH . F 5 HOH A 105 815 105 HOH HOH . F 5 HOH A 106 816 106 HOH HOH . F 5 HOH A 107 817 107 HOH HOH . F 5 HOH A 108 818 108 HOH HOH . F 5 HOH A 109 819 109 HOH HOH . F 5 HOH A 110 820 110 HOH HOH . F 5 HOH A 111 821 111 HOH HOH . F 5 HOH A 112 822 112 HOH HOH . F 5 HOH A 113 823 113 HOH HOH . F 5 HOH A 114 824 114 HOH HOH . F 5 HOH A 115 825 115 HOH HOH . F 5 HOH A 116 826 116 HOH HOH . F 5 HOH A 117 827 117 HOH HOH . F 5 HOH A 118 828 118 HOH HOH . F 5 HOH A 119 829 119 HOH HOH . F 5 HOH A 120 830 120 HOH HOH . F 5 HOH A 121 831 121 HOH HOH . F 5 HOH A 122 832 122 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 29.391 -0.611 17.027 1 43.97 ? CHA HEM 501 A 1 HETATM 2 C CHB HEM . . . B 2 32.363 -3.812 19.021 1 46.94 ? CHB HEM 501 A 1 HETATM 3 C CHC HEM . . . B 2 35.868 -0.57 19.006 1 45.75 ? CHC HEM 501 A 1 HETATM 4 C CHD HEM . . . B 2 32.903 2.658 17.056 1 45.8 ? CHD HEM 501 A 1 HETATM 5 C C1A HEM . . . B 2 29.915 -1.779 17.546 1 45 ? C1A HEM 501 A 1 HETATM 6 C C2A HEM . . . B 2 29.21 -3.038 17.69 1 38.85 ? C2A HEM 501 A 1 HETATM 7 C C3A HEM . . . B 2 30.049 -3.916 18.259 1 43 ? C3A HEM 501 A 1 HETATM 8 C C4A HEM . . . B 2 31.273 -3.242 18.463 1 45.36 ? C4A HEM 501 A 1 HETATM 9 C CMA HEM . . . B 2 29.738 -5.38 18.614 1 32.96 ? CMA HEM 501 A 1 HETATM 10 C CAA HEM . . . B 2 27.777 -3.369 17.283 1 39.43 ? CAA HEM 501 A 1 HETATM 11 C CBA HEM . . . B 2 27.987 -3.876 15.788 1 28.23 ? CBA HEM 501 A 1 HETATM 12 C CGA HEM . . . B 2 26.774 -4.329 15 1 31.11 ? CGA HEM 501 A 1 HETATM 13 O O1A HEM . . . B 2 26.019 -5.143 15.412 1 34.86 ? O1A HEM 501 A 1 HETATM 14 O O2A HEM . . . B 2 26.552 -3.82 13.807 1 33.2 ? O2A HEM 501 A 1 HETATM 15 C C1B HEM . . . B 2 33.564 -3.197 19.211 1 45.91 ? C1B HEM 501 A 1 HETATM 16 C C2B HEM . . . B 2 34.671 -3.884 19.81 1 40.74 ? C2B HEM 501 A 1 HETATM 17 C C3B HEM . . . B 2 35.697 -3.025 19.835 1 37.87 ? C3B HEM 501 A 1 HETATM 18 C C4B HEM . . . B 2 35.153 -1.74 19.206 1 40.84 ? C4B HEM 501 A 1 HETATM 19 C CMB HEM . . . B 2 34.682 -5.329 20.317 1 35 ? CMB HEM 501 A 1 HETATM 20 C CAB HEM . . . B 2 37.061 -3.339 20.376 1 32.4 ? CAB HEM 501 A 1 HETATM 21 C CBB HEM . . . B 2 38.063 -3.84 19.672 1 44.97 ? CBB HEM 501 A 1 HETATM 22 C C1C HEM . . . B 2 35.389 0.595 18.45 1 44.83 ? C1C HEM 501 A 1 HETATM 23 C C2C HEM . . . B 2 36.161 1.798 18.252 1 41.48 ? C2C HEM 501 A 1 HETATM 24 C C3C HEM . . . B 2 35.33 2.735 17.698 1 42.32 ? C3C HEM 501 A 1 HETATM 25 C C4C HEM . . . B 2 34.03 2.078 17.557 1 47.17 ? C4C HEM 501 A 1 HETATM 26 C CMC HEM . . . B 2 37.633 2.011 18.596 1 39.39 ? CMC HEM 501 A 1 HETATM 27 C CAC HEM . . . B 2 35.722 4.153 17.329 1 40.91 ? CAC HEM 501 A 1 HETATM 28 C CBC HEM . . . B 2 35.654 4.656 16.101 1 42.03 ? CBC HEM 501 A 1 HETATM 29 C C1D HEM . . . B 2 31.669 2.033 16.908 1 46.3 ? C1D HEM 501 A 1 HETATM 30 C C2D HEM . . . B 2 30.481 2.741 16.362 1 39.69 ? C2D HEM 501 A 1 HETATM 31 C C3D HEM . . . B 2 29.496 1.874 16.338 1 37.27 ? C3D HEM 501 A 1 HETATM 32 C C4D HEM . . . B 2 30.08 0.58 16.886 1 41.55 ? C4D HEM 501 A 1 HETATM 33 C CMD HEM . . . B 2 30.418 4.198 15.916 1 36.65 ? CMD HEM 501 A 1 HETATM 34 C CAD HEM . . . B 2 28.075 2.196 15.852 1 31.14 ? CAD HEM 501 A 1 HETATM 35 C CBD HEM . . . B 2 27.55 1.345 14.7 1 32.06 ? CBD HEM 501 A 1 HETATM 36 C CGD HEM . . . B 2 26.132 1.746 14.325 1 28.26 ? CGD HEM 501 A 1 HETATM 37 O O1D HEM . . . B 2 25.528 2.644 14.883 1 22.35 ? O1D HEM 501 A 1 HETATM 38 O O2D HEM . . . B 2 25.526 1.085 13.361 1 33.49 ? O2D HEM 501 A 1 HETATM 39 N NA HEM . . . B 2 31.22 -1.913 18.008 1 48.93 ? NA HEM 501 A 1 HETATM 40 N NB HEM . . . B 2 33.854 -1.915 18.863 1 51.8 ? NB HEM 501 A 1 HETATM 41 N NC HEM . . . B 2 34.097 0.773 18.007 1 49.18 ? NC HEM 501 A 1 HETATM 42 N ND HEM . . . B 2 31.381 0.76 17.222 1 49.43 ? ND HEM 501 A 1 HETATM 43 FE FE HEM . . . B 2 32.647 -0.548 18.015 1 59 ? FE HEM 501 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #