data_1S5Y # _model_server_result.job_id -uxa302S6MyOapSshdYF6A _model_server_result.datetime_utc '2025-01-05 05:53:31' _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 1s5y # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":800}' # _entry.id 1S5Y # _exptl.entry_id 1S5Y _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 4 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 77.06 _cell.angle_beta 69.79 _cell.angle_gamma 84.17 _cell.entry_id 1S5Y _cell.length_a 55.993 _cell.length_b 62.98 _cell.length_c 63.502 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1S5Y _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_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 _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 ? 3 E N N ? 3 F N N ? 3 G N N ? 3 H 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 covale ? covale1 A C ACE 1 A ACE 0 1_555 A N SER 2 A SER 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? covale ? covale2 C C ACE 1 C ACE 0 1_555 C N SER 2 C SER 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? metalc ? metalc1 A NE2 HIS 89 A HIS 88 1_555 E FE HEM . A HEM 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? metalc ? metalc2 E FE HEM . A HEM 200 1_555 I O HOH . A HOH 850 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? metalc ? metalc3 B NE2 HIS 63 B HIS 63 1_555 F FE HEM . B HEM 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc4 B NE2 HIS 92 B HIS 92 1_555 F FE HEM . B HEM 400 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc5 C NE2 HIS 89 C HIS 88 1_555 G FE HEM . C HEM 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? metalc ? metalc6 G FE HEM . C HEM 600 1_555 K O HOH . C HOH 900 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc7 D NE2 HIS 63 D HIS 63 1_555 H FE HEM . D HEM 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc8 D NE2 HIS 92 D HIS 92 1_555 H FE HEM . D HEM 800 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? # _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 135 n n CHA C4D HEM doub 136 n n CHA HHA HEM sing 137 n n CHB C4A HEM sing 138 n n CHB C1B HEM doub 139 n n CHB HHB HEM sing 140 n n CHC C4B HEM sing 141 n n CHC C1C HEM doub 142 n n CHC HHC HEM sing 143 n n CHD C4C HEM doub 144 n n CHD C1D HEM sing 145 n n CHD HHD HEM sing 146 n n C1A C2A HEM doub 147 n y C1A NA HEM sing 148 n y C2A C3A HEM sing 149 n y C2A CAA HEM sing 150 n n C3A C4A HEM doub 151 n y C3A CMA HEM sing 152 n n C4A NA HEM sing 153 n y CMA HMA HEM sing 154 n n CMA HMAA HEM sing 155 n n CMA HMAB HEM sing 156 n n CAA CBA HEM sing 157 n n CAA HAA HEM sing 158 n n CAA HAAA HEM sing 159 n n CBA CGA HEM sing 160 n n CBA HBA HEM sing 161 n n CBA HBAA HEM sing 162 n n CGA O1A HEM doub 163 n n CGA O2A HEM sing 164 n n C1B C2B HEM sing 165 n n C1B NB HEM sing 166 n n C2B C3B HEM doub 167 n n C2B CMB HEM sing 168 n n C3B C4B HEM sing 169 n n C3B CAB HEM sing 170 n n C4B NB HEM doub 171 n n CMB HMB HEM sing 172 n n CMB HMBA HEM sing 173 n n CMB HMBB HEM sing 174 n n CAB CBB HEM doub 175 n n CAB HAB HEM sing 176 n n CBB HBB HEM sing 177 n n CBB HBBA HEM sing 178 n n C1C C2C HEM sing 179 n y C1C NC HEM sing 180 n y C2C C3C HEM doub 181 n y C2C CMC HEM sing 182 n n C3C C4C HEM sing 183 n y C3C CAC HEM sing 184 n n C4C NC HEM sing 185 n y CMC HMC HEM sing 186 n n CMC HMCA HEM sing 187 n n CMC HMCB HEM sing 188 n n CAC CBC HEM doub 189 n n CAC HAC HEM sing 190 n n CBC HBC HEM sing 191 n n CBC HBCA HEM sing 192 n n C1D C2D HEM sing 193 n n C1D ND HEM doub 194 n n C2D C3D HEM doub 195 n n C2D CMD HEM sing 196 n n C3D C4D HEM sing 197 n n C3D CAD HEM sing 198 n n C4D ND HEM sing 199 n n CMD HMD HEM sing 200 n n CMD HMDA HEM sing 201 n n CMD HMDB HEM sing 202 n n CAD CBD HEM sing 203 n n CAD HAD HEM sing 204 n n CAD HADA HEM sing 205 n n CBD CGD HEM sing 206 n n CBD HBD HEM sing 207 n n CBD HBDA HEM sing 208 n n CGD O1D HEM doub 209 n n CGD O2D HEM sing 210 n n O2A H2A HEM sing 211 n n O2D H2D HEM sing 212 n n FE NA HEM sing 213 n n FE NB HEM sing 214 n n FE NC HEM sing 215 n n FE ND HEM sing 216 n n # _atom_sites.entry_id 1S5Y _atom_sites.fract_transf_matrix[1][1] 0.01786 _atom_sites.fract_transf_matrix[1][2] -0.00182 _atom_sites.fract_transf_matrix[1][3] -0.00634 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01596 _atom_sites.fract_transf_matrix[2][3] -0.0033 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.01713 _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 E 3 HEM A 1 200 200 HEM HEM . F 3 HEM B 1 400 400 HEM HEM . G 3 HEM C 1 600 600 HEM HEM . H 3 HEM D 1 800 800 HEM HEM . I 4 HOH A 1 850 850 HOH HOH . I 4 HOH A 2 1002 1002 HOH HOH . I 4 HOH A 3 1007 1007 HOH HOH . I 4 HOH A 4 1009 1009 HOH HOH . I 4 HOH A 5 1010 1010 HOH HOH . I 4 HOH A 6 1012 1012 HOH HOH . I 4 HOH A 7 1014 1014 HOH HOH . I 4 HOH A 8 1017 1017 HOH HOH . I 4 HOH A 9 1018 1018 HOH HOH . I 4 HOH A 10 1019 1019 HOH HOH . I 4 HOH A 11 1025 1025 HOH HOH . I 4 HOH A 12 1026 1026 HOH HOH . I 4 HOH A 13 1032 1032 HOH HOH . I 4 HOH A 14 1033 1033 HOH HOH . I 4 HOH A 15 1042 1042 HOH HOH . I 4 HOH A 16 1043 1043 HOH HOH . I 4 HOH A 17 1044 1044 HOH HOH . I 4 HOH A 18 1045 1045 HOH HOH . I 4 HOH A 19 1047 1047 HOH HOH . I 4 HOH A 20 1054 1054 HOH HOH . I 4 HOH A 21 1057 1057 HOH HOH . I 4 HOH A 22 1059 1059 HOH HOH . I 4 HOH A 23 1064 1064 HOH HOH . I 4 HOH A 24 1066 1066 HOH HOH . I 4 HOH A 25 1073 1073 HOH HOH . I 4 HOH A 26 1075 1075 HOH HOH . I 4 HOH A 27 1076 1076 HOH HOH . I 4 HOH A 28 1081 1081 HOH HOH . I 4 HOH A 29 1082 1082 HOH HOH . J 4 HOH B 1 1004 1004 HOH HOH . J 4 HOH B 2 1008 1008 HOH HOH . J 4 HOH B 3 1029 1029 HOH HOH . J 4 HOH B 4 1030 1030 HOH HOH . J 4 HOH B 5 1031 1031 HOH HOH . J 4 HOH B 6 1034 1034 HOH HOH . J 4 HOH B 7 1039 1039 HOH HOH . J 4 HOH B 8 1041 1041 HOH HOH . J 4 HOH B 9 1051 1051 HOH HOH . J 4 HOH B 10 1056 1056 HOH HOH . J 4 HOH B 11 1061 1061 HOH HOH . J 4 HOH B 12 1065 1065 HOH HOH . J 4 HOH B 13 1068 1068 HOH HOH . J 4 HOH B 14 1069 1069 HOH HOH . J 4 HOH B 15 1070 1070 HOH HOH . J 4 HOH B 16 1074 1074 HOH HOH . J 4 HOH B 17 1080 1080 HOH HOH . K 4 HOH C 1 900 900 HOH HOH . K 4 HOH C 2 1003 1003 HOH HOH . K 4 HOH C 3 1011 1011 HOH HOH . K 4 HOH C 4 1015 1015 HOH HOH . K 4 HOH C 5 1022 1022 HOH HOH . K 4 HOH C 6 1027 1027 HOH HOH . K 4 HOH C 7 1035 1035 HOH HOH . K 4 HOH C 8 1036 1036 HOH HOH . K 4 HOH C 9 1038 1038 HOH HOH . K 4 HOH C 10 1048 1048 HOH HOH . K 4 HOH C 11 1050 1050 HOH HOH . K 4 HOH C 12 1052 1052 HOH HOH . K 4 HOH C 13 1053 1053 HOH HOH . K 4 HOH C 14 1055 1055 HOH HOH . K 4 HOH C 15 1062 1062 HOH HOH . K 4 HOH C 16 1072 1072 HOH HOH . K 4 HOH C 17 1077 1077 HOH HOH . L 4 HOH D 1 1006 1006 HOH HOH . L 4 HOH D 2 1013 1013 HOH HOH . L 4 HOH D 3 1016 1016 HOH HOH . L 4 HOH D 4 1020 1020 HOH HOH . L 4 HOH D 5 1021 1021 HOH HOH . L 4 HOH D 6 1023 1023 HOH HOH . L 4 HOH D 7 1024 1024 HOH HOH . L 4 HOH D 8 1028 1028 HOH HOH . L 4 HOH D 9 1037 1037 HOH HOH . L 4 HOH D 10 1040 1040 HOH HOH . L 4 HOH D 11 1046 1046 HOH HOH . L 4 HOH D 12 1049 1049 HOH HOH . L 4 HOH D 13 1058 1058 HOH HOH . L 4 HOH D 14 1060 1060 HOH HOH . L 4 HOH D 15 1063 1063 HOH HOH . L 4 HOH D 16 1067 1067 HOH HOH . L 4 HOH D 17 1071 1071 HOH HOH . L 4 HOH D 18 1078 1078 HOH HOH . L 4 HOH D 19 1079 1079 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 . . . H 3 21.391 11.669 -2.769 1 51.05 ? CHA HEM 800 D 1 HETATM 2 C CHB HEM . . . H 3 17.284 14.279 -2.45 1 48.35 ? CHB HEM 800 D 1 HETATM 3 C CHC HEM . . . H 3 15.025 10.399 -0.847 1 47.82 ? CHC HEM 800 D 1 HETATM 4 C CHD HEM . . . H 3 19.016 7.865 -0.976 1 50.68 ? CHD HEM 800 D 1 HETATM 5 C C1A HEM . . . H 3 20.515 12.791 -2.845 1 51.81 ? C1A HEM 800 D 1 HETATM 6 C C2A HEM . . . H 3 20.841 14.145 -3.278 1 54.06 ? C2A HEM 800 D 1 HETATM 7 C C3A HEM . . . H 3 19.664 14.862 -3.17 1 52.5 ? C3A HEM 800 D 1 HETATM 8 C C4A HEM . . . H 3 18.631 13.955 -2.672 1 50.11 ? C4A HEM 800 D 1 HETATM 9 C CMA HEM . . . H 3 19.427 16.324 -3.475 1 54.5 ? CMA HEM 800 D 1 HETATM 10 C CAA HEM . . . H 3 22.238 14.642 -3.722 1 56.69 ? CAA HEM 800 D 1 HETATM 11 C CBA HEM . . . H 3 22.495 14.68 -5.262 1 61.2 ? CBA HEM 800 D 1 HETATM 12 C CGA HEM . . . H 3 23.833 14.603 -5.774 1 63.72 ? CGA HEM 800 D 1 HETATM 13 O O1A HEM . . . H 3 23.969 14.715 -7.085 1 64.95 ? O1A HEM 800 D 1 HETATM 14 O O2A HEM . . . H 3 24.851 14.418 -5.051 1 64.32 ? O2A HEM 800 D 1 HETATM 15 C C1B HEM . . . H 3 16.261 13.437 -2.006 1 46.92 ? C1B HEM 800 D 1 HETATM 16 C C2B HEM . . . H 3 14.819 13.808 -1.896 1 47.21 ? C2B HEM 800 D 1 HETATM 17 C C3B HEM . . . H 3 14.188 12.677 -1.483 1 46.85 ? C3B HEM 800 D 1 HETATM 18 C C4B HEM . . . H 3 15.254 11.681 -1.307 1 47.18 ? C4B HEM 800 D 1 HETATM 19 C CMB HEM . . . H 3 14.145 15.149 -2.229 1 44.7 ? CMB HEM 800 D 1 HETATM 20 C CAB HEM . . . H 3 12.697 12.425 -1.27 1 46.49 ? CAB HEM 800 D 1 HETATM 21 C CBB HEM . . . H 3 11.99 12.876 0.021 1 47.95 ? CBB HEM 800 D 1 HETATM 22 C C1C HEM . . . H 3 15.86 9.363 -0.665 1 47.99 ? C1C HEM 800 D 1 HETATM 23 C C2C HEM . . . H 3 15.475 8.055 -0.132 1 49.45 ? C2C HEM 800 D 1 HETATM 24 C C3C HEM . . . H 3 16.63 7.346 -0.148 1 49.47 ? C3C HEM 800 D 1 HETATM 25 C C4C HEM . . . H 3 17.677 8.194 -0.71 1 49.45 ? C4C HEM 800 D 1 HETATM 26 C CMC HEM . . . H 3 14.089 7.594 0.338 1 48.39 ? CMC HEM 800 D 1 HETATM 27 C CAC HEM . . . H 3 16.794 5.89 0.332 1 49.66 ? CAC HEM 800 D 1 HETATM 28 C CBC HEM . . . H 3 17.172 5.902 1.841 1 48.46 ? CBC HEM 800 D 1 HETATM 29 C C1D HEM . . . H 3 20.071 8.637 -1.532 1 50.27 ? C1D HEM 800 D 1 HETATM 30 C C2D HEM . . . H 3 21.437 8.157 -1.715 1 51.14 ? C2D HEM 800 D 1 HETATM 31 C C3D HEM . . . H 3 22.102 9.241 -2.18 1 51.55 ? C3D HEM 800 D 1 HETATM 32 C C4D HEM . . . H 3 21.136 10.342 -2.335 1 49.83 ? C4D HEM 800 D 1 HETATM 33 C CMD HEM . . . H 3 21.943 6.772 -1.343 1 51 ? CMD HEM 800 D 1 HETATM 34 C CAD HEM . . . H 3 23.588 9.388 -2.415 1 53.54 ? CAD HEM 800 D 1 HETATM 35 C CBD HEM . . . H 3 24.211 9.631 -0.942 1 55.56 ? CBD HEM 800 D 1 HETATM 36 C CGD HEM . . . H 3 25.005 10.765 -0.727 1 57.22 ? CGD HEM 800 D 1 HETATM 37 O O1D HEM . . . H 3 26.279 10.581 -0.857 1 58.94 ? O1D HEM 800 D 1 HETATM 38 O O2D HEM . . . H 3 24.509 11.896 -0.366 1 56.47 ? O2D HEM 800 D 1 HETATM 39 N NA HEM . . . H 3 19.18 12.687 -2.453 1 50.25 ? NA HEM 800 D 1 HETATM 40 N NB HEM . . . H 3 16.527 12.106 -1.666 1 47.52 ? NB HEM 800 D 1 HETATM 41 N NC HEM . . . H 3 17.226 9.453 -0.993 1 48.73 ? NC HEM 800 D 1 HETATM 42 N ND HEM . . . H 3 19.928 9.951 -1.898 1 48.84 ? ND HEM 800 D 1 HETATM 43 FE FE HEM . . . H 3 18.277 11.016 -1.714 1 46.29 ? FE HEM 800 D 1 # _model_server_stats.io_time_ms 17 _model_server_stats.parse_time_ms 31 _model_server_stats.create_model_time_ms 44 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 43 #