data_5ESK # _model_server_result.job_id A7V4qe0--0OERimdiCx6eA _model_server_result.datetime_utc '2024-11-05 16:34:04' _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 5esk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":702}' # _entry.id 5ESK # _exptl.entry_id 5ESK _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 98.4 _cell.angle_gamma 90 _cell.entry_id 5ESK _cell.length_a 76.74 _cell.length_b 65.53 _cell.length_c 80.74 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ESK _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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 _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 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 metalc ? metalc1 A SG CYS 470 A CYS 470 1_555 C FE HEM . A HEM 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc2 B N39 1YN . A 1YN 701 1_555 C FE HEM . A HEM 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? # _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 222 n n CHA C4D HEM doub 223 n n CHA HHA HEM sing 224 n n CHB C4A HEM sing 225 n n CHB C1B HEM doub 226 n n CHB HHB HEM sing 227 n n CHC C4B HEM sing 228 n n CHC C1C HEM doub 229 n n CHC HHC HEM sing 230 n n CHD C4C HEM doub 231 n n CHD C1D HEM sing 232 n n CHD HHD HEM sing 233 n n C1A C2A HEM doub 234 n y C1A NA HEM sing 235 n y C2A C3A HEM sing 236 n y C2A CAA HEM sing 237 n n C3A C4A HEM doub 238 n y C3A CMA HEM sing 239 n n C4A NA HEM sing 240 n y CMA HMA HEM sing 241 n n CMA HMAA HEM sing 242 n n CMA HMAB HEM sing 243 n n CAA CBA HEM sing 244 n n CAA HAA HEM sing 245 n n CAA HAAA HEM sing 246 n n CBA CGA HEM sing 247 n n CBA HBA HEM sing 248 n n CBA HBAA HEM sing 249 n n CGA O1A HEM doub 250 n n CGA O2A HEM sing 251 n n C1B C2B HEM sing 252 n n C1B NB HEM sing 253 n n C2B C3B HEM doub 254 n n C2B CMB HEM sing 255 n n C3B C4B HEM sing 256 n n C3B CAB HEM sing 257 n n C4B NB HEM doub 258 n n CMB HMB HEM sing 259 n n CMB HMBA HEM sing 260 n n CMB HMBB HEM sing 261 n n CAB CBB HEM doub 262 n n CAB HAB HEM sing 263 n n CBB HBB HEM sing 264 n n CBB HBBA HEM sing 265 n n C1C C2C HEM sing 266 n y C1C NC HEM sing 267 n y C2C C3C HEM doub 268 n y C2C CMC HEM sing 269 n n C3C C4C HEM sing 270 n y C3C CAC HEM sing 271 n n C4C NC HEM sing 272 n y CMC HMC HEM sing 273 n n CMC HMCA HEM sing 274 n n CMC HMCB HEM sing 275 n n CAC CBC HEM doub 276 n n CAC HAC HEM sing 277 n n CBC HBC HEM sing 278 n n CBC HBCA HEM sing 279 n n C1D C2D HEM sing 280 n n C1D ND HEM doub 281 n n C2D C3D HEM doub 282 n n C2D CMD HEM sing 283 n n C3D C4D HEM sing 284 n n C3D CAD HEM sing 285 n n C4D ND HEM sing 286 n n CMD HMD HEM sing 287 n n CMD HMDA HEM sing 288 n n CMD HMDB HEM sing 289 n n CAD CBD HEM sing 290 n n CAD HAD HEM sing 291 n n CAD HADA HEM sing 292 n n CBD CGD HEM sing 293 n n CBD HBD HEM sing 294 n n CBD HBDA HEM sing 295 n n CGD O1D HEM doub 296 n n CGD O2D HEM sing 297 n n O2A H2A HEM sing 298 n n O2D H2D HEM sing 299 n n FE NA HEM sing 300 n n FE NB HEM sing 301 n n FE NC HEM sing 302 n n FE ND HEM sing 303 n n # _atom_sites.entry_id 5ESK _atom_sites.fract_transf_matrix[1][1] 0.013031 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001924 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01526 _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] 0.01252 _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 1YN A 1 701 701 1YN 1YN . C 3 HEM A 1 702 601 HEM HEM . D 4 HOH A 1 801 52 HOH HOH . D 4 HOH A 2 802 91 HOH HOH . D 4 HOH A 3 803 67 HOH HOH . D 4 HOH A 4 804 38 HOH HOH . D 4 HOH A 5 805 50 HOH HOH . D 4 HOH A 6 806 92 HOH HOH . D 4 HOH A 7 807 84 HOH HOH . D 4 HOH A 8 808 22 HOH HOH . D 4 HOH A 9 809 1 HOH HOH . D 4 HOH A 10 810 90 HOH HOH . D 4 HOH A 11 811 21 HOH HOH . D 4 HOH A 12 812 59 HOH HOH . D 4 HOH A 13 813 26 HOH HOH . D 4 HOH A 14 814 5 HOH HOH . D 4 HOH A 15 815 47 HOH HOH . D 4 HOH A 16 816 95 HOH HOH . D 4 HOH A 17 817 107 HOH HOH . D 4 HOH A 18 818 88 HOH HOH . D 4 HOH A 19 819 120 HOH HOH . D 4 HOH A 20 820 48 HOH HOH . D 4 HOH A 21 821 99 HOH HOH . D 4 HOH A 22 822 40 HOH HOH . D 4 HOH A 23 823 102 HOH HOH . D 4 HOH A 24 824 18 HOH HOH . D 4 HOH A 25 825 56 HOH HOH . D 4 HOH A 26 826 58 HOH HOH . D 4 HOH A 27 827 54 HOH HOH . D 4 HOH A 28 828 74 HOH HOH . D 4 HOH A 29 829 51 HOH HOH . D 4 HOH A 30 830 113 HOH HOH . D 4 HOH A 31 831 53 HOH HOH . D 4 HOH A 32 832 49 HOH HOH . D 4 HOH A 33 833 10 HOH HOH . D 4 HOH A 34 834 17 HOH HOH . D 4 HOH A 35 835 82 HOH HOH . D 4 HOH A 36 836 24 HOH HOH . D 4 HOH A 37 837 31 HOH HOH . D 4 HOH A 38 838 65 HOH HOH . D 4 HOH A 39 839 85 HOH HOH . D 4 HOH A 40 840 60 HOH HOH . D 4 HOH A 41 841 46 HOH HOH . D 4 HOH A 42 842 30 HOH HOH . D 4 HOH A 43 843 11 HOH HOH . D 4 HOH A 44 844 75 HOH HOH . D 4 HOH A 45 845 16 HOH HOH . D 4 HOH A 46 846 61 HOH HOH . D 4 HOH A 47 847 35 HOH HOH . D 4 HOH A 48 848 19 HOH HOH . D 4 HOH A 49 849 15 HOH HOH . D 4 HOH A 50 850 80 HOH HOH . D 4 HOH A 51 851 12 HOH HOH . D 4 HOH A 52 852 73 HOH HOH . D 4 HOH A 53 853 8 HOH HOH . D 4 HOH A 54 854 36 HOH HOH . D 4 HOH A 55 855 44 HOH HOH . D 4 HOH A 56 856 55 HOH HOH . D 4 HOH A 57 857 41 HOH HOH . D 4 HOH A 58 858 45 HOH HOH . D 4 HOH A 59 859 63 HOH HOH . D 4 HOH A 60 860 25 HOH HOH . D 4 HOH A 61 861 3 HOH HOH . D 4 HOH A 62 862 66 HOH HOH . D 4 HOH A 63 863 7 HOH HOH . D 4 HOH A 64 864 4 HOH HOH . D 4 HOH A 65 865 42 HOH HOH . D 4 HOH A 66 866 37 HOH HOH . D 4 HOH A 67 867 14 HOH HOH . D 4 HOH A 68 868 77 HOH HOH . D 4 HOH A 69 869 115 HOH HOH . D 4 HOH A 70 870 106 HOH HOH . D 4 HOH A 71 871 6 HOH HOH . D 4 HOH A 72 872 70 HOH HOH . D 4 HOH A 73 873 29 HOH HOH . D 4 HOH A 74 874 89 HOH HOH . D 4 HOH A 75 875 105 HOH HOH . D 4 HOH A 76 876 62 HOH HOH . D 4 HOH A 77 877 27 HOH HOH . D 4 HOH A 78 878 33 HOH HOH . D 4 HOH A 79 879 34 HOH HOH . D 4 HOH A 80 880 64 HOH HOH . D 4 HOH A 81 881 20 HOH HOH . D 4 HOH A 82 882 101 HOH HOH . D 4 HOH A 83 883 9 HOH HOH . D 4 HOH A 84 884 114 HOH HOH . D 4 HOH A 85 885 28 HOH HOH . D 4 HOH A 86 886 69 HOH HOH . D 4 HOH A 87 887 79 HOH HOH . D 4 HOH A 88 888 100 HOH HOH . D 4 HOH A 89 889 119 HOH HOH . D 4 HOH A 90 890 112 HOH HOH . D 4 HOH A 91 891 93 HOH HOH . D 4 HOH A 92 892 68 HOH HOH . D 4 HOH A 93 893 43 HOH HOH . D 4 HOH A 94 894 108 HOH HOH . D 4 HOH A 95 895 98 HOH HOH . D 4 HOH A 96 896 57 HOH HOH . D 4 HOH A 97 897 32 HOH HOH . D 4 HOH A 98 898 2 HOH HOH . D 4 HOH A 99 899 39 HOH HOH . D 4 HOH A 100 900 94 HOH HOH . D 4 HOH A 101 901 13 HOH HOH . D 4 HOH A 102 902 116 HOH HOH . D 4 HOH A 103 903 87 HOH HOH . D 4 HOH A 104 904 104 HOH HOH . D 4 HOH A 105 905 97 HOH HOH . D 4 HOH A 106 906 76 HOH HOH . D 4 HOH A 107 907 81 HOH HOH . D 4 HOH A 108 908 78 HOH HOH . D 4 HOH A 109 909 23 HOH HOH . D 4 HOH A 110 910 117 HOH HOH . D 4 HOH A 111 911 118 HOH HOH . D 4 HOH A 112 912 71 HOH HOH . D 4 HOH A 113 913 72 HOH HOH . D 4 HOH A 114 914 103 HOH HOH . D 4 HOH A 115 915 109 HOH HOH . D 4 HOH A 116 916 86 HOH HOH . D 4 HOH A 117 917 83 HOH HOH . D 4 HOH A 118 918 96 HOH HOH . D 4 HOH A 119 919 121 HOH HOH . D 4 HOH A 120 920 111 HOH HOH . D 4 HOH A 121 921 122 HOH HOH . D 4 HOH A 122 922 110 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 3 103.08 7.556 18.436 1 26.55 ? CHA HEM 702 A 1 HETATM 2 C CHB HEM . . . C 3 102.555 10.564 22.194 1 28.17 ? CHB HEM 702 A 1 HETATM 3 C CHC HEM . . . C 3 105.228 13.921 20.038 1 27.38 ? CHC HEM 702 A 1 HETATM 4 C CHD HEM . . . C 3 105.636 11.049 16.182 1 25.93 ? CHD HEM 702 A 1 HETATM 5 C C1A HEM . . . C 3 102.68 8.093 19.627 1 27.4 ? C1A HEM 702 A 1 HETATM 6 C C2A HEM . . . C 3 101.843 7.435 20.615 1 27.44 ? C2A HEM 702 A 1 HETATM 7 C C3A HEM . . . C 3 101.718 8.27 21.652 1 29.27 ? C3A HEM 702 A 1 HETATM 8 C C4A HEM . . . C 3 102.464 9.477 21.358 1 27.93 ? C4A HEM 702 A 1 HETATM 9 C CMA HEM . . . C 3 100.901 8.032 22.951 1 28.22 ? CMA HEM 702 A 1 HETATM 10 C CAA HEM . . . C 3 101.245 6.016 20.492 1 27.01 ? CAA HEM 702 A 1 HETATM 11 C CBA HEM . . . C 3 99.735 6.01 20.291 1 30.35 ? CBA HEM 702 A 1 HETATM 12 C CGA HEM . . . C 3 99.201 4.594 20.416 1 31.35 ? CGA HEM 702 A 1 HETATM 13 O O1A HEM . . . C 3 98.145 4.262 19.815 1 34.86 ? O1A HEM 702 A 1 HETATM 14 O O2A HEM . . . C 3 99.824 3.772 21.132 1 36.29 ? O2A HEM 702 A 1 HETATM 15 C C1B HEM . . . C 3 103.252 11.715 21.952 1 27.29 ? C1B HEM 702 A 1 HETATM 16 C C2B HEM . . . C 3 103.422 12.825 22.876 1 27.12 ? C2B HEM 702 A 1 HETATM 17 C C3B HEM . . . C 3 104.166 13.761 22.25 1 25.48 ? C3B HEM 702 A 1 HETATM 18 C C4B HEM . . . C 3 104.48 13.25 20.949 1 23.34 ? C4B HEM 702 A 1 HETATM 19 C CMB HEM . . . C 3 102.813 12.815 24.285 1 27.48 ? CMB HEM 702 A 1 HETATM 20 C CAB HEM . . . C 3 104.701 15.158 22.643 1 26.74 ? CAB HEM 702 A 1 HETATM 21 C CBB HEM . . . C 3 104.286 15.82 23.716 1 35.44 ? CBB HEM 702 A 1 HETATM 22 C C1C HEM . . . C 3 105.607 13.43 18.81 1 29.61 ? C1C HEM 702 A 1 HETATM 23 C C2C HEM . . . C 3 106.505 14.083 17.88 1 24.02 ? C2C HEM 702 A 1 HETATM 24 C C3C HEM . . . C 3 106.611 13.288 16.807 1 26.44 ? C3C HEM 702 A 1 HETATM 25 C C4C HEM . . . C 3 105.803 12.104 17.039 1 27.94 ? C4C HEM 702 A 1 HETATM 26 C CMC HEM . . . C 3 107.166 15.456 18.152 1 22.2 ? CMC HEM 702 A 1 HETATM 27 C CAC HEM . . . C 3 107.467 13.504 15.532 1 33.37 ? CAC HEM 702 A 1 HETATM 28 C CBC HEM . . . C 3 108.51 14.35 15.492 1 32.64 ? CBC HEM 702 A 1 HETATM 29 C C1D HEM . . . C 3 105.054 9.838 16.454 1 23.09 ? C1D HEM 702 A 1 HETATM 30 C C2D HEM . . . C 3 105.171 8.67 15.611 1 28.58 ? C2D HEM 702 A 1 HETATM 31 C C3D HEM . . . C 3 104.366 7.567 16.317 1 26.22 ? C3D HEM 702 A 1 HETATM 32 C C4D HEM . . . C 3 103.868 8.191 17.509 1 28.75 ? C4D HEM 702 A 1 HETATM 33 C CMD HEM . . . C 3 105.924 8.599 14.264 1 23.68 ? CMD HEM 702 A 1 HETATM 34 C CAD HEM . . . C 3 104.157 6.094 15.896 1 24.88 ? CAD HEM 702 A 1 HETATM 35 C CBD HEM . . . C 3 102.752 5.805 15.414 1 28.35 ? CBD HEM 702 A 1 HETATM 36 C CGD HEM . . . C 3 102.567 4.31 15.446 1 32.06 ? CGD HEM 702 A 1 HETATM 37 O O1D HEM . . . C 3 103.565 3.552 15.639 1 32.5 ? O1D HEM 702 A 1 HETATM 38 O O2D HEM . . . C 3 101.401 3.868 15.285 1 33.84 ? O2D HEM 702 A 1 HETATM 39 N NA HEM . . . C 3 103.049 9.335 20.106 1 30.78 ? NA HEM 702 A 1 HETATM 40 N NB HEM . . . C 3 103.916 12.006 20.783 1 27.33 ? NB HEM 702 A 1 HETATM 41 N NC HEM . . . C 3 105.198 12.228 18.271 1 29.12 ? NC HEM 702 A 1 HETATM 42 N ND HEM . . . C 3 104.291 9.517 17.547 1 28.21 ? ND HEM 702 A 1 HETATM 43 FE FE HEM . . . C 3 104.152 10.785 19.183 1 28.3 ? FE HEM 702 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 347 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #