data_1RAP # _model_server_result.job_id 00Tw5Uo5I1zDh1IXmaD1ZA _model_server_result.datetime_utc '2025-02-17 18:30:14' _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 1rap # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":104}' # _entry.id 1RAP # _exptl.entry_id 1RAP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 3 _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 1RAP _cell.length_a 36.38 _cell.length_b 36.38 _cell.length_c 137.63 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RAP _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 ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_465 y-1,x+1,-z 0 1 0 1 0 0 0 0 -1 -36.38 36.38 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 C PRO 76 A PRO 71 1_555 A N M3L 77 A M3L 72 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.318 ? covale ? covale2 A C M3L 77 A M3L 72 1_555 A N LYS 78 A LYS 73 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.322 ? metalc ? metalc1 A NE2 HIS 23 A HIS 18 1_555 C FE HEM . A HEM 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? metalc ? metalc2 A SD MET 85 A MET 80 1_555 C FE HEM . A HEM 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.316 ? # _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 # _atom_sites.entry_id 1RAP _atom_sites.fract_transf_matrix[1][1] 0.027488 _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] 0.027488 _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] 0.007266 _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 SO4 A 1 105 105 SO4 SO4 . C 3 HEM A 1 104 104 HEM HEM . D 4 HOH A 1 106 106 HOH HOH . D 4 HOH A 2 107 107 HOH HOH . D 4 HOH A 3 108 108 HOH HOH . D 4 HOH A 4 109 109 HOH HOH . D 4 HOH A 5 110 110 HOH HOH . D 4 HOH A 6 111 111 HOH HOH . D 4 HOH A 7 112 112 HOH HOH . D 4 HOH A 8 113 113 HOH HOH . D 4 HOH A 9 114 114 HOH HOH . D 4 HOH A 10 115 115 HOH HOH . D 4 HOH A 11 116 116 HOH HOH . D 4 HOH A 12 117 117 HOH HOH . D 4 HOH A 13 118 118 HOH HOH . D 4 HOH A 14 119 119 HOH HOH . D 4 HOH A 15 120 120 HOH HOH . D 4 HOH A 16 121 121 HOH HOH . D 4 HOH A 17 122 122 HOH HOH . D 4 HOH A 18 123 123 HOH HOH . D 4 HOH A 19 124 124 HOH HOH . D 4 HOH A 20 125 125 HOH HOH . D 4 HOH A 21 126 126 HOH HOH . D 4 HOH A 22 127 127 HOH HOH . D 4 HOH A 23 128 128 HOH HOH . D 4 HOH A 24 129 129 HOH HOH . D 4 HOH A 25 130 130 HOH HOH . D 4 HOH A 26 131 131 HOH HOH . D 4 HOH A 27 132 132 HOH HOH . D 4 HOH A 28 133 133 HOH HOH . D 4 HOH A 29 134 134 HOH HOH . D 4 HOH A 30 135 135 HOH HOH . D 4 HOH A 31 136 136 HOH HOH . D 4 HOH A 32 137 137 HOH HOH . D 4 HOH A 33 138 138 HOH HOH . D 4 HOH A 34 139 139 HOH HOH . D 4 HOH A 35 140 140 HOH HOH . D 4 HOH A 36 141 141 HOH HOH . D 4 HOH A 37 142 142 HOH HOH . D 4 HOH A 38 143 143 HOH HOH . D 4 HOH A 39 144 144 HOH HOH . D 4 HOH A 40 145 145 HOH HOH . D 4 HOH A 41 146 146 HOH HOH . D 4 HOH A 42 147 147 HOH HOH . D 4 HOH A 43 148 148 HOH HOH . D 4 HOH A 44 149 149 HOH HOH . D 4 HOH A 45 150 150 HOH HOH . D 4 HOH A 46 151 151 HOH HOH . D 4 HOH A 47 152 152 HOH HOH . D 4 HOH A 48 153 153 HOH HOH . D 4 HOH A 49 154 154 HOH HOH . D 4 HOH A 50 155 155 HOH HOH . D 4 HOH A 51 156 156 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 . . . C 3 4.937 18.671 14.221 1 11.43 ? CHA HEM 104 A 1 HETATM 2 C CHB HEM . . . C 3 3.883 20.545 9.902 1 9.61 ? CHB HEM 104 A 1 HETATM 3 C CHC HEM . . . C 3 0.153 22.769 12.007 1 13.48 ? CHC HEM 104 A 1 HETATM 4 C CHD HEM . . . C 3 1.911 21.738 16.4 1 10.36 ? CHD HEM 104 A 1 HETATM 5 C C1A HEM . . . C 3 4.929 18.861 12.861 1 11.59 ? C1A HEM 104 A 1 HETATM 6 C C2A HEM . . . C 3 5.693 18.178 11.834 1 9.61 ? C2A HEM 104 A 1 HETATM 7 C C3A HEM . . . C 3 5.409 18.74 10.661 1 10.16 ? C3A HEM 104 A 1 HETATM 8 C C4A HEM . . . C 3 4.399 19.753 10.878 1 10.97 ? C4A HEM 104 A 1 HETATM 9 C CMA HEM . . . C 3 5.926 18.419 9.26 1 9.47 ? CMA HEM 104 A 1 HETATM 10 C CAA HEM . . . C 3 6.688 17.04 12.128 1 8.23 ? CAA HEM 104 A 1 HETATM 11 C CBA HEM . . . C 3 7.948 17.543 12.761 1 9.76 ? CBA HEM 104 A 1 HETATM 12 C CGA HEM . . . C 3 9.22 16.806 12.602 1 11.9 ? CGA HEM 104 A 1 HETATM 13 O O1A HEM . . . C 3 10.303 17.482 12.637 1 12.82 ? O1A HEM 104 A 1 HETATM 14 O O2A HEM . . . C 3 9.101 15.557 12.469 1 15.07 ? O2A HEM 104 A 1 HETATM 15 C C1B HEM . . . C 3 2.797 21.34 10.124 1 10.56 ? C1B HEM 104 A 1 HETATM 16 C C2B HEM . . . C 3 2.124 22.145 9.107 1 11.65 ? C2B HEM 104 A 1 HETATM 17 C C3B HEM . . . C 3 1.097 22.756 9.674 1 11.38 ? C3B HEM 104 A 1 HETATM 18 C C4B HEM . . . C 3 1.069 22.346 11.057 1 12.02 ? C4B HEM 104 A 1 HETATM 19 C CMB HEM . . . C 3 2.586 22.191 7.635 1 13.1 ? CMB HEM 104 A 1 HETATM 20 C CAB HEM . . . C 3 -0.01 23.671 9.1 1 11.11 ? CAB HEM 104 A 1 HETATM 21 C CBB HEM . . . C 3 -0.916 22.92 8.104 1 13.64 ? CBB HEM 104 A 1 HETATM 22 C C1C HEM . . . C 3 0.325 22.74 13.383 1 11.5 ? C1C HEM 104 A 1 HETATM 23 C C2C HEM . . . C 3 -0.448 23.501 14.314 1 10.89 ? C2C HEM 104 A 1 HETATM 24 C C3C HEM . . . C 3 0.048 23.17 15.523 1 11.56 ? C3C HEM 104 A 1 HETATM 25 C C4C HEM . . . C 3 1.154 22.259 15.35 1 10.54 ? C4C HEM 104 A 1 HETATM 26 C CMC HEM . . . C 3 -1.625 24.44 13.966 1 8.88 ? CMC HEM 104 A 1 HETATM 27 C CAC HEM . . . C 3 -0.38 23.763 16.895 1 10.8 ? CAC HEM 104 A 1 HETATM 28 C CBC HEM . . . C 3 -1.817 23.618 17.316 1 10.73 ? CBC HEM 104 A 1 HETATM 29 C C1D HEM . . . C 3 2.87 20.757 16.207 1 9.34 ? C1D HEM 104 A 1 HETATM 30 C C2D HEM . . . C 3 3.514 19.982 17.234 1 9.04 ? C2D HEM 104 A 1 HETATM 31 C C3D HEM . . . C 3 4.367 19.155 16.639 1 9.12 ? C3D HEM 104 A 1 HETATM 32 C C4D HEM . . . C 3 4.275 19.354 15.222 1 10.78 ? C4D HEM 104 A 1 HETATM 33 C CMD HEM . . . C 3 3.235 20.156 18.76 1 7.49 ? CMD HEM 104 A 1 HETATM 34 C CAD HEM . . . C 3 5.267 18.076 17.287 1 8.88 ? CAD HEM 104 A 1 HETATM 35 C CBD HEM . . . C 3 4.499 16.771 17.489 1 9.55 ? CBD HEM 104 A 1 HETATM 36 C CGD HEM . . . C 3 5.055 15.751 18.381 1 10.4 ? CGD HEM 104 A 1 HETATM 37 O O1D HEM . . . C 3 6.15 15.973 18.92 1 13.12 ? O1D HEM 104 A 1 HETATM 38 O O2D HEM . . . C 3 4.449 14.685 18.581 1 12.62 ? O2D HEM 104 A 1 HETATM 39 N NA HEM . . . C 3 4.134 19.831 12.277 1 11.94 ? NA HEM 104 A 1 HETATM 40 N NB HEM . . . C 3 2.106 21.482 11.322 1 10.97 ? NB HEM 104 A 1 HETATM 41 N NC HEM . . . C 3 1.309 22.015 14.016 1 9.49 ? NC HEM 104 A 1 HETATM 42 N ND HEM . . . C 3 3.365 20.368 14.971 1 11.44 ? ND HEM 104 A 1 HETATM 43 FE FE HEM . . . C 3 2.647 20.865 13.146 1 12.54 ? FE HEM 104 A 1 # _model_server_stats.io_time_ms 66 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #