data_8FGD # _model_server_result.job_id EacBjfvVKI-ACwl5L99HAg _model_server_result.datetime_utc '2024-11-13 08:21:45' _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 8fgd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":801}' # _entry.id 8FGD # _exptl.entry_id 8FGD _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 8FGD _cell.length_a 49.16 _cell.length_b 114.703 _cell.length_c 164.447 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8FGD _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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' 3_455 -x-1,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 -49.16 0 82.2235 # _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 # 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 metalc ? metalc1 A SG CYS 30 A CYS 326 1_555 F ZN ZN . A ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.17 ? metalc ? metalc2 A SG CYS 30 A CYS 326 1_555 F ZN ZN . A ZN 805 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.627 ? metalc ? metalc3 A SG CYS 35 A CYS 331 1_555 F ZN ZN . A ZN 805 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? metalc ? metalc4 A SG CYS 35 A CYS 331 1_555 F ZN ZN . A ZN 805 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc5 A SG CYS 119 A CYS 415 1_555 B FE HEM . A HEM 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.273 ? # _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 168 n n CHA C4D HEM doub 169 n n CHA HHA HEM sing 170 n n CHB C4A HEM sing 171 n n CHB C1B HEM doub 172 n n CHB HHB HEM sing 173 n n CHC C4B HEM sing 174 n n CHC C1C HEM doub 175 n n CHC HHC HEM sing 176 n n CHD C4C HEM doub 177 n n CHD C1D HEM sing 178 n n CHD HHD HEM sing 179 n n C1A C2A HEM doub 180 n y C1A NA HEM sing 181 n y C2A C3A HEM sing 182 n y C2A CAA HEM sing 183 n n C3A C4A HEM doub 184 n y C3A CMA HEM sing 185 n n C4A NA HEM sing 186 n y CMA HMA HEM sing 187 n n CMA HMAA HEM sing 188 n n CMA HMAB HEM sing 189 n n CAA CBA HEM sing 190 n n CAA HAA HEM sing 191 n n CAA HAAA HEM sing 192 n n CBA CGA HEM sing 193 n n CBA HBA HEM sing 194 n n CBA HBAA HEM sing 195 n n CGA O1A HEM doub 196 n n CGA O2A HEM sing 197 n n C1B C2B HEM sing 198 n n C1B NB HEM sing 199 n n C2B C3B HEM doub 200 n n C2B CMB HEM sing 201 n n C3B C4B HEM sing 202 n n C3B CAB HEM sing 203 n n C4B NB HEM doub 204 n n CMB HMB HEM sing 205 n n CMB HMBA HEM sing 206 n n CMB HMBB HEM sing 207 n n CAB CBB HEM doub 208 n n CAB HAB HEM sing 209 n n CBB HBB HEM sing 210 n n CBB HBBA HEM sing 211 n n C1C C2C HEM sing 212 n y C1C NC HEM sing 213 n y C2C C3C HEM doub 214 n y C2C CMC HEM sing 215 n n C3C C4C HEM sing 216 n y C3C CAC HEM sing 217 n n C4C NC HEM sing 218 n y CMC HMC HEM sing 219 n n CMC HMCA HEM sing 220 n n CMC HMCB HEM sing 221 n n CAC CBC HEM doub 222 n n CAC HAC HEM sing 223 n n CBC HBC HEM sing 224 n n CBC HBCA HEM sing 225 n n C1D C2D HEM sing 226 n n C1D ND HEM doub 227 n n C2D C3D HEM doub 228 n n C2D CMD HEM sing 229 n n C3D C4D HEM sing 230 n n C3D CAD HEM sing 231 n n C4D ND HEM sing 232 n n CMD HMD HEM sing 233 n n CMD HMDA HEM sing 234 n n CMD HMDB HEM sing 235 n n CAD CBD HEM sing 236 n n CAD HAD HEM sing 237 n n CAD HADA HEM sing 238 n n CBD CGD HEM sing 239 n n CBD HBD HEM sing 240 n n CBD HBDA HEM sing 241 n n CGD O1D HEM doub 242 n n CGD O2D HEM sing 243 n n O2A H2A HEM sing 244 n n O2D H2D HEM sing 245 n n FE NA HEM sing 246 n n FE NB HEM sing 247 n n FE NC HEM sing 248 n n FE ND HEM sing 249 n n # _atom_sites.entry_id 8FGD _atom_sites.fract_transf_matrix[1][1] 0.020342 _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] 0.008718 _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] 0.006081 _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 1 801 750 HEM HEM . C 3 H4B A 1 802 760 H4B BH4 . D 4 XVF A 1 803 800 XVF 8V8 . E 5 ACT A 1 804 860 ACT ACT . F 6 ZN A 1 805 900 ZN ZN . G 7 HOH A 1 901 34 HOH HOH . G 7 HOH A 2 902 18 HOH HOH . G 7 HOH A 3 903 31 HOH HOH . G 7 HOH A 4 904 36 HOH HOH . G 7 HOH A 5 905 37 HOH HOH . G 7 HOH A 6 906 45 HOH HOH . G 7 HOH A 7 907 23 HOH HOH . G 7 HOH A 8 908 5 HOH HOH . G 7 HOH A 9 909 38 HOH HOH . G 7 HOH A 10 910 13 HOH HOH . G 7 HOH A 11 911 30 HOH HOH . G 7 HOH A 12 912 3 HOH HOH . G 7 HOH A 13 913 19 HOH HOH . G 7 HOH A 14 914 20 HOH HOH . G 7 HOH A 15 915 14 HOH HOH . G 7 HOH A 16 916 41 HOH HOH . G 7 HOH A 17 917 43 HOH HOH . G 7 HOH A 18 918 22 HOH HOH . G 7 HOH A 19 919 6 HOH HOH . G 7 HOH A 20 920 42 HOH HOH . G 7 HOH A 21 921 29 HOH HOH . G 7 HOH A 22 922 40 HOH HOH . G 7 HOH A 23 923 28 HOH HOH . G 7 HOH A 24 924 32 HOH HOH . G 7 HOH A 25 925 2 HOH HOH . G 7 HOH A 26 926 17 HOH HOH . G 7 HOH A 27 927 26 HOH HOH . G 7 HOH A 28 928 33 HOH HOH . G 7 HOH A 29 929 11 HOH HOH . G 7 HOH A 30 930 21 HOH HOH . G 7 HOH A 31 931 46 HOH HOH . G 7 HOH A 32 932 16 HOH HOH . G 7 HOH A 33 933 10 HOH HOH . G 7 HOH A 34 934 8 HOH HOH . G 7 HOH A 35 935 44 HOH HOH . G 7 HOH A 36 936 9 HOH HOH . G 7 HOH A 37 937 12 HOH HOH . G 7 HOH A 38 938 39 HOH HOH . G 7 HOH A 39 939 24 HOH HOH . G 7 HOH A 40 940 35 HOH HOH . G 7 HOH A 41 941 4 HOH HOH . G 7 HOH A 42 942 25 HOH HOH . G 7 HOH A 43 943 1 HOH HOH . G 7 HOH A 44 944 7 HOH HOH . G 7 HOH A 45 945 15 HOH HOH . G 7 HOH A 46 946 27 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 -25.443 -4.507 26.442 1 43.44 ? CHA HEM 801 A 1 HETATM 2 C CHB HEM . . . B 2 -28.367 -0.645 25.894 1 50.6 ? CHB HEM 801 A 1 HETATM 3 C CHC HEM . . . B 2 -29.583 -2.4 21.496 1 47.05 ? CHC HEM 801 A 1 HETATM 4 C CHD HEM . . . B 2 -27.31 -6.573 22.469 1 42.93 ? CHD HEM 801 A 1 HETATM 5 C C1A HEM . . . B 2 -26.035 -3.267 26.598 1 52.94 ? C1A HEM 801 A 1 HETATM 6 C C2A HEM . . . B 2 -25.657 -2.273 27.58 1 56.5 ? C2A HEM 801 A 1 HETATM 7 C C3A HEM . . . B 2 -26.446 -1.202 27.431 1 55.98 ? C3A HEM 801 A 1 HETATM 8 C C4A HEM . . . B 2 -27.378 -1.477 26.36 1 49.74 ? C4A HEM 801 A 1 HETATM 9 C CMA HEM . . . B 2 -26.39 0.091 28.272 1 51.77 ? CMA HEM 801 A 1 HETATM 10 C CAA HEM . . . B 2 -24.508 -2.425 28.598 1 54.41 ? CAA HEM 801 A 1 HETATM 11 C CBA HEM . . . B 2 -23.254 -2.292 27.75 1 63.87 ? CBA HEM 801 A 1 HETATM 12 C CGA HEM . . . B 2 -22.081 -1.778 28.519 1 60.25 ? CGA HEM 801 A 1 HETATM 13 O O1A HEM . . . B 2 -22.293 -1.246 29.63 1 45.8 ? O1A HEM 801 A 1 HETATM 14 O O2A HEM . . . B 2 -20.944 -1.887 28.003 1 62.65 ? O2A HEM 801 A 1 HETATM 15 C C1B HEM . . . B 2 -28.954 -0.786 24.65 1 47.23 ? C1B HEM 801 A 1 HETATM 16 C C2B HEM . . . B 2 -29.862 0.168 24.042 1 36.67 ? C2B HEM 801 A 1 HETATM 17 C C3B HEM . . . B 2 -30.206 -0.321 22.834 1 46.85 ? C3B HEM 801 A 1 HETATM 18 C C4B HEM . . . B 2 -29.513 -1.592 22.629 1 47.39 ? C4B HEM 801 A 1 HETATM 19 C CMB HEM . . . B 2 -30.375 1.5 24.641 1 40.87 ? CMB HEM 801 A 1 HETATM 20 C CAB HEM . . . B 2 -31.165 0.413 21.873 1 54.16 ? CAB HEM 801 A 1 HETATM 21 C CBB HEM . . . B 2 -31.82 -0.225 20.905 1 60.96 ? CBB HEM 801 A 1 HETATM 22 C C1C HEM . . . B 2 -29.044 -3.653 21.353 1 47.47 ? C1C HEM 801 A 1 HETATM 23 C C2C HEM . . . B 2 -29.106 -4.481 20.16 1 45.98 ? C2C HEM 801 A 1 HETATM 24 C C3C HEM . . . B 2 -28.471 -5.644 20.423 1 40.85 ? C3C HEM 801 A 1 HETATM 25 C C4C HEM . . . B 2 -27.996 -5.585 21.789 1 39.57 ? C4C HEM 801 A 1 HETATM 26 C CMC HEM . . . B 2 -29.8 -3.999 18.871 1 40.03 ? CMC HEM 801 A 1 HETATM 27 C CAC HEM . . . B 2 -28.252 -6.875 19.511 1 43.15 ? CAC HEM 801 A 1 HETATM 28 C CBC HEM . . . B 2 -28.92 -7.071 18.368 1 49.68 ? CBC HEM 801 A 1 HETATM 29 C C1D HEM . . . B 2 -26.578 -6.386 23.62 1 45.92 ? C1D HEM 801 A 1 HETATM 30 C C2D HEM . . . B 2 -25.652 -7.334 24.201 1 46.33 ? C2D HEM 801 A 1 HETATM 31 C C3D HEM . . . B 2 -25.122 -6.761 25.325 1 41.31 ? C3D HEM 801 A 1 HETATM 32 C C4D HEM . . . B 2 -25.709 -5.446 25.45 1 37.51 ? C4D HEM 801 A 1 HETATM 33 C CMD HEM . . . B 2 -25.407 -8.732 23.579 1 46.39 ? CMD HEM 801 A 1 HETATM 34 C CAD HEM . . . B 2 -24.101 -7.277 26.375 1 47.58 ? CAD HEM 801 A 1 HETATM 35 C CBD HEM . . . B 2 -23.104 -8.345 25.962 1 59.31 ? CBD HEM 801 A 1 HETATM 36 C CGD HEM . . . B 2 -22.609 -9.065 27.197 1 62.17 ? CGD HEM 801 A 1 HETATM 37 O O1D HEM . . . B 2 -22.918 -10.273 27.365 1 54.77 ? O1D HEM 801 A 1 HETATM 38 O O2D HEM . . . B 2 -21.892 -8.432 28.002 1 66.88 ? O2D HEM 801 A 1 HETATM 39 N NA HEM . . . B 2 -27.093 -2.737 25.87 1 47.84 ? NA HEM 801 A 1 HETATM 40 N NB HEM . . . B 2 -28.752 -1.85 23.764 1 42.43 ? NB HEM 801 A 1 HETATM 41 N NC HEM . . . B 2 -28.366 -4.355 22.315 1 38.06 ? NC HEM 801 A 1 HETATM 42 N ND HEM . . . B 2 -26.593 -5.248 24.41 1 38.11 ? ND HEM 801 A 1 HETATM 43 FE FE HEM . . . B 2 -27.999 -3.753 24.36 1 44.22 ? FE HEM 801 A 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 14 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 293 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #