data_1S5Y # _model_server_result.job_id h288CTTYakgoYDKb1U3QLw _model_server_result.datetime_utc '2024-10-23 22:26:16' _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":"F","auth_seq_id":400}' # _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 metalc ? metalc1 E FE HEM . A HEM 200 1_555 A NE2 HIS 89 A HIS 88 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 F FE HEM . B HEM 400 1_555 B NE2 HIS 63 B HIS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? metalc ? metalc4 F FE HEM . B HEM 400 1_555 B NE2 HIS 92 B HIS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.998 ? metalc ? metalc5 G FE HEM . C HEM 600 1_555 C NE2 HIS 89 C HIS 88 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 H FE HEM . D HEM 800 1_555 D NE2 HIS 63 D HIS 63 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.109 ? metalc ? metalc8 H FE HEM . D HEM 800 1_555 D NE2 HIS 92 D HIS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? 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 ? # _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 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 . . . F 3 -21.547 2.74 -11.478 1 35.39 ? CHA HEM 400 B 1 HETATM 2 C CHB HEM . . . F 3 -17.52 2.525 -14.153 1 32.13 ? CHB HEM 400 B 1 HETATM 3 C CHC HEM . . . F 3 -15.227 0.825 -10.358 1 30.08 ? CHC HEM 400 B 1 HETATM 4 C CHD HEM . . . F 3 -19.254 0.691 -7.772 1 33.56 ? CHD HEM 400 B 1 HETATM 5 C C1A HEM . . . F 3 -20.714 2.906 -12.59 1 36.19 ? C1A HEM 400 B 1 HETATM 6 C C2A HEM . . . F 3 -21.073 3.401 -13.922 1 37.33 ? C2A HEM 400 B 1 HETATM 7 C C3A HEM . . . F 3 -19.908 3.319 -14.677 1 35.93 ? C3A HEM 400 B 1 HETATM 8 C C4A HEM . . . F 3 -18.855 2.779 -13.811 1 34.25 ? C4A HEM 400 B 1 HETATM 9 C CMA HEM . . . F 3 -19.699 3.652 -16.13 1 37.07 ? CMA HEM 400 B 1 HETATM 10 C CAA HEM . . . F 3 -22.456 3.824 -14.41 1 38.93 ? CAA HEM 400 B 1 HETATM 11 C CBA HEM . . . F 3 -23.133 5.062 -13.818 1 44.5 ? CBA HEM 400 B 1 HETATM 12 C CGA HEM . . . F 3 -24.095 5.701 -14.645 1 47.89 ? CGA HEM 400 B 1 HETATM 13 O O1A HEM . . . F 3 -23.868 6.989 -14.757 1 49.04 ? O1A HEM 400 B 1 HETATM 14 O O2A HEM . . . F 3 -25.075 5.117 -15.225 1 49.11 ? O2A HEM 400 B 1 HETATM 15 C C1B HEM . . . F 3 -16.49 2.028 -13.343 1 30.52 ? C1B HEM 400 B 1 HETATM 16 C C2B HEM . . . F 3 -15.076 1.909 -13.737 1 30.79 ? C2B HEM 400 B 1 HETATM 17 C C3B HEM . . . F 3 -14.44 1.466 -12.631 1 28.89 ? C3B HEM 400 B 1 HETATM 18 C C4B HEM . . . F 3 -15.47 1.289 -11.628 1 29.4 ? C4B HEM 400 B 1 HETATM 19 C CMB HEM . . . F 3 -14.414 2.284 -15.095 1 31.73 ? CMB HEM 400 B 1 HETATM 20 C CAB HEM . . . F 3 -12.95 1.267 -12.458 1 26.32 ? CAB HEM 400 B 1 HETATM 21 C CBB HEM . . . F 3 -12.226 -0.04 -12.72 1 26.72 ? CBB HEM 400 B 1 HETATM 22 C C1C HEM . . . F 3 -16.045 0.605 -9.311 1 30.79 ? C1C HEM 400 B 1 HETATM 23 C C2C HEM . . . F 3 -15.635 0.021 -8.049 1 31.09 ? C2C HEM 400 B 1 HETATM 24 C C3C HEM . . . F 3 -16.797 -0.03 -7.34 1 31.96 ? C3C HEM 400 B 1 HETATM 25 C C4C HEM . . . F 3 -17.89 0.531 -8.119 1 32.52 ? C4C HEM 400 B 1 HETATM 26 C CMC HEM . . . F 3 -14.232 -0.442 -7.669 1 29.63 ? CMC HEM 400 B 1 HETATM 27 C CAC HEM . . . F 3 -16.95 -0.603 -5.954 1 31.51 ? CAC HEM 400 B 1 HETATM 28 C CBC HEM . . . F 3 -16.971 -2.155 -6.064 1 33.06 ? CBC HEM 400 B 1 HETATM 29 C C1D HEM . . . F 3 -20.307 1.265 -8.535 1 33.51 ? C1D HEM 400 B 1 HETATM 30 C C2D HEM . . . F 3 -21.715 1.415 -8.1 1 35.12 ? C2D HEM 400 B 1 HETATM 31 C C3D HEM . . . F 3 -22.35 2.003 -9.161 1 35.83 ? C3D HEM 400 B 1 HETATM 32 C C4D HEM . . . F 3 -21.325 2.2 -10.202 1 35.14 ? C4D HEM 400 B 1 HETATM 33 C CMD HEM . . . F 3 -22.283 0.97 -6.749 1 32.72 ? CMD HEM 400 B 1 HETATM 34 C CAD HEM . . . F 3 -23.808 2.384 -9.347 1 37.33 ? CAD HEM 400 B 1 HETATM 35 C CBD HEM . . . F 3 -24.676 1.149 -9.88 1 41.71 ? CBD HEM 400 B 1 HETATM 36 C CGD HEM . . . F 3 -24.731 0.861 -11.299 1 44.32 ? CGD HEM 400 B 1 HETATM 37 O O1D HEM . . . F 3 -25.226 1.751 -12.095 1 46.97 ? O1D HEM 400 B 1 HETATM 38 O O2D HEM . . . F 3 -24.373 -0.265 -11.807 1 43.17 ? O2D HEM 400 B 1 HETATM 39 N NA HEM . . . F 3 -19.383 2.525 -12.534 1 35.43 ? NA HEM 400 B 1 HETATM 40 N NB HEM . . . F 3 -16.721 1.661 -12.035 1 31.1 ? NB HEM 400 B 1 HETATM 41 N NC HEM . . . F 3 -17.425 0.917 -9.367 1 32.78 ? NC HEM 400 B 1 HETATM 42 N ND HEM . . . F 3 -20.116 1.742 -9.823 1 33.84 ? ND HEM 400 B 1 HETATM 43 FE FE HEM . . . F 3 -18.445 1.724 -10.938 1 31.01 ? FE HEM 400 B 1 # _model_server_stats.io_time_ms 37 _model_server_stats.parse_time_ms 84 _model_server_stats.create_model_time_ms 113 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 43 #