data_1BGY # _model_server_result.job_id PK5gyleu6HdGhwgXxnXKgQ _model_server_result.datetime_utc '2024-11-05 21:07:32' _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 1bgy # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":242}' # _entry.id 1BGY # _exptl.entry_id 1BGY _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 13 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'HEME C' _entity.pdbx_number_of_molecules 2 _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 120 _cell.entry_id 1BGY _cell.length_a 130.11 _cell.length_b 130.11 _cell.length_c 720.94 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1BGY _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 65' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details 22-meric _pdbx_struct_assembly.oligomeric_count 22 _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 _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 ? 13 Y N N ? 13 BA 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 H SG CYS 24 H CYS 24 1_555 H SG CYS 68 H CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 H SG CYS 40 H CYS 40 1_555 H SG CYS 54 H CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf3 P SG CYS 144 Q CYS 144 1_555 P SG CYS 160 Q CYS 160 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf4 S SG CYS 24 T CYS 24 1_555 S SG CYS 68 T CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 S SG CYS 40 T CYS 40 1_555 S SG CYS 54 T CYS 54 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? covale ? covale1 D SG CYS 37 D CYS 37 1_555 Y CAB HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.843 ? covale ? covale2 D SG CYS 40 D CYS 40 1_555 Y CAC HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.838 ? covale ? covale3 O SG CYS 37 P CYS 37 1_555 BA CAB HEC . P HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.867 ? covale ? covale4 O SG CYS 40 P CYS 40 1_555 BA CAC HEC . P HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.856 ? metalc ? metalc1 C NE2 HIS 83 C HIS 83 1_555 W FE HEM . C HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? metalc ? metalc2 C NE2 HIS 97 C HIS 97 1_555 X FE HEM . C HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc3 C NE2 HIS 182 C HIS 182 1_555 W FE HEM . C HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc4 C NE2 HIS 196 C HIS 196 1_555 X FE HEM . C HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.185 ? metalc ? metalc5 D NE2 HIS 41 D HIS 41 1_555 Y FE HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.919 ? metalc ? metalc6 D SD MET 160 D MET 160 1_555 Y FE HEC . D HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc7 N NE2 HIS 83 O HIS 83 1_555 Z FE HEM . O HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.122 ? metalc ? metalc8 N NE2 HIS 97 O HIS 97 1_555 AA FE HEM . O HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc9 N NE2 HIS 182 O HIS 182 1_555 Z FE HEM . O HEM 380 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc10 N NE2 HIS 196 O HIS 196 1_555 AA FE HEM . O HEM 381 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc11 O NE2 HIS 41 P HIS 41 1_555 BA FE HEC . P HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.961 ? metalc ? metalc12 O SD MET 160 P MET 160 1_555 BA FE HEC . P HEC 242 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.351 ? metalc ? metalc13 P SG CYS 139 Q CYS 139 1_555 CA FE1 FES . Q FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.287 ? metalc ? metalc14 P ND1 HIS 141 Q HIS 141 1_555 CA FE2 FES . Q FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.165 ? metalc ? metalc15 P SG CYS 158 Q CYS 158 1_555 CA FE1 FES . Q FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? metalc ? metalc16 P ND1 HIS 161 Q HIS 161 1_555 CA FE2 FES . Q FES 197 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.139 ? # _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 133 n n FE NB HEC sing 134 n n FE NC HEC sing 135 n n FE ND HEC sing 136 n n CHA C1A HEC doub 137 n n CHA C4D HEC sing 138 n n CHA HHA HEC sing 139 n n CHB C4A HEC doub 140 n n CHB C1B HEC sing 141 n n CHB HHB HEC sing 142 n n CHC C4B HEC doub 143 n n CHC C1C HEC sing 144 n n CHC HHC HEC sing 145 n n CHD C4C HEC doub 146 n n CHD C1D HEC sing 147 n n CHD HHD HEC sing 148 n n NA C1A HEC sing 149 n y NA C4A HEC sing 150 n y C1A C2A HEC sing 151 n y C2A C3A HEC doub 152 n y C2A CAA HEC sing 153 n n C3A C4A HEC sing 154 n y C3A CMA HEC sing 155 n n CMA HMA1 HEC sing 156 n n CMA HMA2 HEC sing 157 n n CMA HMA3 HEC sing 158 n n CAA CBA HEC sing 159 n n CAA HAA1 HEC sing 160 n n CAA HAA2 HEC sing 161 n n CBA CGA HEC sing 162 n n CBA HBA1 HEC sing 163 n n CBA HBA2 HEC sing 164 n n CGA O1A HEC doub 165 n n CGA O2A HEC sing 166 n n O2A H2A HEC sing 167 n n NB C1B HEC sing 168 n y NB C4B HEC sing 169 n y C1B C2B HEC doub 170 n y C2B C3B HEC sing 171 n y C2B CMB HEC sing 172 n n C3B C4B HEC sing 173 n y C3B CAB HEC doub 174 e n CMB HMB1 HEC sing 175 n n CMB HMB2 HEC sing 176 n n CMB HMB3 HEC sing 177 n n CAB CBB HEC sing 178 n n CAB HAB HEC sing 179 n n CBB HBB1 HEC sing 180 n n CBB HBB2 HEC sing 181 n n CBB HBB3 HEC sing 182 n n NC C1C HEC sing 183 n y NC C4C HEC sing 184 n y C1C C2C HEC doub 185 n y C2C C3C HEC sing 186 n y C2C CMC HEC sing 187 n n C3C C4C HEC sing 188 n y C3C CAC HEC doub 189 e n CMC HMC1 HEC sing 190 n n CMC HMC2 HEC sing 191 n n CMC HMC3 HEC sing 192 n n CAC CBC HEC sing 193 n n CAC HAC HEC sing 194 n n CBC HBC1 HEC sing 195 n n CBC HBC2 HEC sing 196 n n CBC HBC3 HEC sing 197 n n ND C1D HEC sing 198 n y ND C4D HEC sing 199 n y C1D C2D HEC doub 200 n y C2D C3D HEC sing 201 n y C2D CMD HEC sing 202 n n C3D C4D HEC doub 203 n y C3D CAD HEC sing 204 n n CMD HMD1 HEC sing 205 n n CMD HMD2 HEC sing 206 n n CMD HMD3 HEC sing 207 n n CAD CBD HEC sing 208 n n CAD HAD1 HEC sing 209 n n CAD HAD2 HEC sing 210 n n CBD CGD HEC sing 211 n n CBD HBD1 HEC sing 212 n n CBD HBD2 HEC sing 213 n n CGD O1D HEC doub 214 n n CGD O2D HEC sing 215 n n O2D H2D HEC sing 216 n n # _atom_sites.entry_id 1BGY _atom_sites.fract_transf_matrix[1][1] 0.007686 _atom_sites.fract_transf_matrix[1][2] 0.004437 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008875 _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] 0.001387 _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 W 12 HEM C 1 380 1 HEM HEM . X 12 HEM C 1 381 2 HEM HEM . Y 13 HEC D 1 242 3 HEC HEC . Z 12 HEM O 1 380 1 HEM HEM . AA 12 HEM O 1 381 2 HEM HEM . BA 13 HEC P 1 242 3 HEC HEC . CA 14 FES Q 1 197 4 FES FES . # 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 . . . Y 13 40.152 109.826 64.386 1 37.14 ? FE HEC 242 D 1 HETATM 2 C CHA HEC . . . Y 13 38.415 106.891 64.27 1 45.12 ? CHA HEC 242 D 1 HETATM 3 C CHB HEC . . . Y 13 37.882 111.273 62.305 1 36.26 ? CHB HEC 242 D 1 HETATM 4 C CHC HEC . . . Y 13 41.522 112.862 65.037 1 36.23 ? CHC HEC 242 D 1 HETATM 5 C CHD HEC . . . Y 13 42.649 108.294 66.106 1 35.99 ? CHD HEC 242 D 1 HETATM 6 N NA HEC . . . Y 13 38.557 109.177 63.356 1 40.51 ? NA HEC 242 D 1 HETATM 7 C C1A HEC . . . Y 13 37.89 107.987 63.61 1 44.71 ? C1A HEC 242 D 1 HETATM 8 C C2A HEC . . . Y 13 36.538 108.084 63.101 1 43.95 ? C2A HEC 242 D 1 HETATM 9 C C3A HEC . . . Y 13 36.378 109.286 62.565 1 41.38 ? C3A HEC 242 D 1 HETATM 10 C C4A HEC . . . Y 13 37.632 109.987 62.716 1 40.65 ? C4A HEC 242 D 1 HETATM 11 C CMA HEC . . . Y 13 35.127 109.901 61.908 1 44.54 ? CMA HEC 242 D 1 HETATM 12 C CAA HEC . . . Y 13 35.516 106.941 63.242 1 44.22 ? CAA HEC 242 D 1 HETATM 13 C CBA HEC . . . Y 13 34.966 106.422 61.927 1 43.01 ? CBA HEC 242 D 1 HETATM 14 C CGA HEC . . . Y 13 34.497 104.992 62.074 1 46.99 ? CGA HEC 242 D 1 HETATM 15 O O1A HEC . . . Y 13 35.413 104.14 62.152 1 44.75 ? O1A HEC 242 D 1 HETATM 16 O O2A HEC . . . Y 13 33.262 104.803 62.121 1 52.37 ? O2A HEC 242 D 1 HETATM 17 N NB HEC . . . Y 13 39.781 111.695 63.791 1 34.03 ? NB HEC 242 D 1 HETATM 18 C C1B HEC . . . Y 13 38.797 112.097 62.917 1 33.91 ? C1B HEC 242 D 1 HETATM 19 C C2B HEC . . . Y 13 38.882 113.528 62.741 1 34.42 ? C2B HEC 242 D 1 HETATM 20 C C3B HEC . . . Y 13 39.882 113.974 63.495 1 35.55 ? C3B HEC 242 D 1 HETATM 21 C C4B HEC . . . Y 13 40.463 112.836 64.162 1 34.26 ? C4B HEC 242 D 1 HETATM 22 C CMB HEC . . . Y 13 37.928 114.323 61.833 1 35.89 ? CMB HEC 242 D 1 HETATM 23 C CAB HEC . . . Y 13 40.388 115.437 63.645 1 35.37 ? CAB HEC 242 D 1 HETATM 24 C CBB HEC . . . Y 13 39.462 116.398 63.865 1 37.04 ? CBB HEC 242 D 1 HETATM 25 N NC HEC . . . Y 13 41.756 110.459 65.398 1 37.24 ? NC HEC 242 D 1 HETATM 26 C C1C HEC . . . Y 13 42.196 111.763 65.503 1 36.11 ? C1C HEC 242 D 1 HETATM 27 C C2C HEC . . . Y 13 43.47 111.776 66.176 1 36.11 ? C2C HEC 242 D 1 HETATM 28 C C3C HEC . . . Y 13 43.765 110.508 66.468 1 35.54 ? C3C HEC 242 D 1 HETATM 29 C C4C HEC . . . Y 13 42.714 109.66 65.992 1 35.45 ? C4C HEC 242 D 1 HETATM 30 C CMC HEC . . . Y 13 44.3 113.037 66.487 1 34.36 ? CMC HEC 242 D 1 HETATM 31 C CAC HEC . . . Y 13 45.06 110.057 67.191 1 32.93 ? CAC HEC 242 D 1 HETATM 32 C CBC HEC . . . Y 13 45.24 110.627 68.412 1 35.78 ? CBC HEC 242 D 1 HETATM 33 N ND HEC . . . Y 13 40.455 107.973 65.093 1 43.18 ? ND HEC 242 D 1 HETATM 34 C C1D HEC . . . Y 13 41.602 107.503 65.709 1 41.36 ? C1D HEC 242 D 1 HETATM 35 C C2D HEC . . . Y 13 41.491 106.065 65.86 1 44.43 ? C2D HEC 242 D 1 HETATM 36 C C3D HEC . . . Y 13 40.313 105.678 65.359 1 45.52 ? C3D HEC 242 D 1 HETATM 37 C C4D HEC . . . Y 13 39.648 106.87 64.875 1 44.37 ? C4D HEC 242 D 1 HETATM 38 C CMD HEC . . . Y 13 42.599 105.214 66.518 1 45.19 ? CMD HEC 242 D 1 HETATM 39 C CAD HEC . . . Y 13 39.639 104.293 65.248 1 45.54 ? CAD HEC 242 D 1 HETATM 40 C CBD HEC . . . Y 13 38.311 104.082 65.967 1 48.43 ? CBD HEC 242 D 1 HETATM 41 C CGD HEC . . . Y 13 37.894 102.65 66.179 1 50.72 ? CGD HEC 242 D 1 HETATM 42 O O1D HEC . . . Y 13 37.2 102.43 67.198 1 53.07 ? O1D HEC 242 D 1 HETATM 43 O O2D HEC . . . Y 13 38.3 101.848 65.296 1 53.31 ? O2D HEC 242 D 1 # _model_server_stats.io_time_ms 19 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 56 _model_server_stats.query_time_ms 340 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #