data_1NXF # _model_server_result.job_id fe5j7dxnHyeCajip5UUZxQ _model_server_result.datetime_utc '2024-10-14 06:16:18' _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 1nxf # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":147}' # _entry.id 1NXF # _exptl.entry_id 1NXF _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 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 90 _cell.entry_id 1NXF _cell.length_a 92.04 _cell.length_b 44.28 _cell.length_c 144.03 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NXF _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,H _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 ? 2 C N N ? 2 E 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 A NE2 HIS 101 A HIS 101 1_555 C FE HEM . A HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.078 ? metalc ? metalc2 C FE HEM . A HEM 147 1_555 D C CMO . A CMO 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.873 ? metalc ? metalc3 C FE HEM . A HEM 147 1_555 D O CMO . A CMO 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.092 ? metalc ? metalc4 B NE2 HIS 101 B HIS 101 1_555 E FE HEM . B HEM 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? metalc ? metalc5 E FE HEM . B HEM 147 1_555 F C CMO . B CMO 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.887 ? metalc ? metalc6 E FE HEM . B HEM 147 1_555 F O CMO . B CMO 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.105 ? # _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 130 n n CHA C4D HEM doub 131 n n CHA HHA HEM sing 132 n n CHB C4A HEM sing 133 n n CHB C1B HEM doub 134 n n CHB HHB HEM sing 135 n n CHC C4B HEM sing 136 n n CHC C1C HEM doub 137 n n CHC HHC HEM sing 138 n n CHD C4C HEM doub 139 n n CHD C1D HEM sing 140 n n CHD HHD HEM sing 141 n n C1A C2A HEM doub 142 n y C1A NA HEM sing 143 n y C2A C3A HEM sing 144 n y C2A CAA HEM sing 145 n n C3A C4A HEM doub 146 n y C3A CMA HEM sing 147 n n C4A NA HEM sing 148 n y CMA HMA HEM sing 149 n n CMA HMAA HEM sing 150 n n CMA HMAB HEM sing 151 n n CAA CBA HEM sing 152 n n CAA HAA HEM sing 153 n n CAA HAAA HEM sing 154 n n CBA CGA HEM sing 155 n n CBA HBA HEM sing 156 n n CBA HBAA HEM sing 157 n n CGA O1A HEM doub 158 n n CGA O2A HEM sing 159 n n C1B C2B HEM sing 160 n n C1B NB HEM sing 161 n n C2B C3B HEM doub 162 n n C2B CMB HEM sing 163 n n C3B C4B HEM sing 164 n n C3B CAB HEM sing 165 n n C4B NB HEM doub 166 n n CMB HMB HEM sing 167 n n CMB HMBA HEM sing 168 n n CMB HMBB HEM sing 169 n n CAB CBB HEM doub 170 n n CAB HAB HEM sing 171 n n CBB HBB HEM sing 172 n n CBB HBBA HEM sing 173 n n C1C C2C HEM sing 174 n y C1C NC HEM sing 175 n y C2C C3C HEM doub 176 n y C2C CMC HEM sing 177 n n C3C C4C HEM sing 178 n y C3C CAC HEM sing 179 n n C4C NC HEM sing 180 n y CMC HMC HEM sing 181 n n CMC HMCA HEM sing 182 n n CMC HMCB HEM sing 183 n n CAC CBC HEM doub 184 n n CAC HAC HEM sing 185 n n CBC HBC HEM sing 186 n n CBC HBCA HEM sing 187 n n C1D C2D HEM sing 188 n n C1D ND HEM doub 189 n n C2D C3D HEM doub 190 n n C2D CMD HEM sing 191 n n C3D C4D HEM sing 192 n n C3D CAD HEM sing 193 n n C4D ND HEM sing 194 n n CMD HMD HEM sing 195 n n CMD HMDA HEM sing 196 n n CMD HMDB HEM sing 197 n n CAD CBD HEM sing 198 n n CAD HAD HEM sing 199 n n CAD HADA HEM sing 200 n n CBD CGD HEM sing 201 n n CBD HBD HEM sing 202 n n CBD HBDA HEM sing 203 n n CGD O1D HEM doub 204 n n CGD O2D HEM sing 205 n n O2A H2A HEM sing 206 n n O2D H2D HEM sing 207 n n FE NA HEM sing 208 n n FE NB HEM sing 209 n n FE NC HEM sing 210 n n FE ND HEM sing 211 n n # _atom_sites.entry_id 1NXF _atom_sites.fract_transf_matrix[1][1] 0.010865 _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] 0.022584 _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] 0.006943 _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 C 2 HEM A 1 147 147 HEM HEM . D 3 CMO A 1 148 148 CMO CO . E 2 HEM B 1 147 147 HEM HEM . F 3 CMO B 1 148 148 CMO CO . G 4 HOH A 1 149 2 HOH TIP . G 4 HOH A 2 150 8 HOH TIP . G 4 HOH A 3 151 9 HOH TIP . G 4 HOH A 4 152 10 HOH TIP . G 4 HOH A 5 153 11 HOH TIP . G 4 HOH A 6 154 14 HOH TIP . G 4 HOH A 7 155 15 HOH TIP . G 4 HOH A 8 156 16 HOH TIP . G 4 HOH A 9 157 17 HOH TIP . G 4 HOH A 10 158 18 HOH TIP . G 4 HOH A 11 159 19 HOH TIP . G 4 HOH A 12 160 20 HOH TIP . G 4 HOH A 13 161 22 HOH TIP . G 4 HOH A 14 162 24 HOH TIP . G 4 HOH A 15 163 26 HOH TIP . G 4 HOH A 16 164 29 HOH TIP . G 4 HOH A 17 165 32 HOH TIP . G 4 HOH A 18 166 33 HOH TIP . G 4 HOH A 19 167 41 HOH TIP . G 4 HOH A 20 168 42 HOH TIP . G 4 HOH A 21 169 43 HOH TIP . G 4 HOH A 22 170 44 HOH TIP . G 4 HOH A 23 171 46 HOH TIP . G 4 HOH A 24 172 48 HOH TIP . G 4 HOH A 25 173 49 HOH TIP . G 4 HOH A 26 174 54 HOH TIP . G 4 HOH A 27 175 55 HOH TIP . G 4 HOH A 28 176 56 HOH TIP . G 4 HOH A 29 177 57 HOH TIP . G 4 HOH A 30 178 59 HOH TIP . G 4 HOH A 31 179 60 HOH TIP . G 4 HOH A 32 180 62 HOH TIP . G 4 HOH A 33 181 63 HOH TIP . G 4 HOH A 34 182 64 HOH TIP . G 4 HOH A 35 183 65 HOH TIP . G 4 HOH A 36 184 68 HOH TIP . G 4 HOH A 37 185 71 HOH TIP . G 4 HOH A 38 186 73 HOH TIP . G 4 HOH A 39 187 75 HOH TIP . G 4 HOH A 40 188 78 HOH TIP . G 4 HOH A 41 189 79 HOH TIP . G 4 HOH A 42 190 83 HOH TIP . G 4 HOH A 43 191 88 HOH TIP . G 4 HOH A 44 192 89 HOH TIP . G 4 HOH A 45 193 90 HOH TIP . G 4 HOH A 46 194 94 HOH TIP . G 4 HOH A 47 195 96 HOH TIP . G 4 HOH A 48 196 97 HOH TIP . G 4 HOH A 49 197 107 HOH TIP . G 4 HOH A 50 198 108 HOH TIP . G 4 HOH A 51 199 110 HOH TIP . G 4 HOH A 52 200 113 HOH TIP . G 4 HOH A 53 201 114 HOH TIP . G 4 HOH A 54 202 116 HOH TIP . G 4 HOH A 55 203 118 HOH TIP . G 4 HOH A 56 204 119 HOH TIP . G 4 HOH A 57 205 120 HOH TIP . G 4 HOH A 58 206 121 HOH TIP . G 4 HOH A 59 207 124 HOH TIP . G 4 HOH A 60 208 125 HOH TIP . G 4 HOH A 61 209 126 HOH TIP . G 4 HOH A 62 210 127 HOH TIP . H 4 HOH B 1 149 1 HOH TIP . H 4 HOH B 2 150 3 HOH TIP . H 4 HOH B 3 151 4 HOH TIP . H 4 HOH B 4 152 5 HOH TIP . H 4 HOH B 5 153 6 HOH TIP . H 4 HOH B 6 154 7 HOH TIP . H 4 HOH B 7 155 12 HOH TIP . H 4 HOH B 8 156 13 HOH TIP . H 4 HOH B 9 157 21 HOH TIP . H 4 HOH B 10 158 23 HOH TIP . H 4 HOH B 11 159 25 HOH TIP . H 4 HOH B 12 160 27 HOH TIP . H 4 HOH B 13 161 28 HOH TIP . H 4 HOH B 14 162 30 HOH TIP . H 4 HOH B 15 163 31 HOH TIP . H 4 HOH B 16 164 34 HOH TIP . H 4 HOH B 17 165 35 HOH TIP . H 4 HOH B 18 166 36 HOH TIP . H 4 HOH B 19 167 37 HOH TIP . H 4 HOH B 20 168 38 HOH TIP . H 4 HOH B 21 169 39 HOH TIP . H 4 HOH B 22 170 40 HOH TIP . H 4 HOH B 23 171 45 HOH TIP . H 4 HOH B 24 172 47 HOH TIP . H 4 HOH B 25 173 50 HOH TIP . H 4 HOH B 26 174 51 HOH TIP . H 4 HOH B 27 175 52 HOH TIP . H 4 HOH B 28 176 53 HOH TIP . H 4 HOH B 29 177 58 HOH TIP . H 4 HOH B 30 178 61 HOH TIP . H 4 HOH B 31 179 66 HOH TIP . H 4 HOH B 32 180 67 HOH TIP . H 4 HOH B 33 181 69 HOH TIP . H 4 HOH B 34 182 70 HOH TIP . H 4 HOH B 35 183 72 HOH TIP . H 4 HOH B 36 184 74 HOH TIP . H 4 HOH B 37 185 76 HOH TIP . H 4 HOH B 38 186 77 HOH TIP . H 4 HOH B 39 187 80 HOH TIP . H 4 HOH B 40 188 81 HOH TIP . H 4 HOH B 41 189 82 HOH TIP . H 4 HOH B 42 190 84 HOH TIP . H 4 HOH B 43 191 85 HOH TIP . H 4 HOH B 44 192 86 HOH TIP . H 4 HOH B 45 193 87 HOH TIP . H 4 HOH B 46 194 91 HOH TIP . H 4 HOH B 47 195 92 HOH TIP . H 4 HOH B 48 196 93 HOH TIP . H 4 HOH B 49 197 95 HOH TIP . H 4 HOH B 50 198 98 HOH TIP . H 4 HOH B 51 199 99 HOH TIP . H 4 HOH B 52 200 100 HOH TIP . H 4 HOH B 53 201 101 HOH TIP . H 4 HOH B 54 202 102 HOH TIP . H 4 HOH B 55 203 103 HOH TIP . H 4 HOH B 56 204 104 HOH TIP . H 4 HOH B 57 205 105 HOH TIP . H 4 HOH B 58 206 106 HOH TIP . H 4 HOH B 59 207 109 HOH TIP . H 4 HOH B 60 208 111 HOH TIP . H 4 HOH B 61 209 112 HOH TIP . H 4 HOH B 62 210 115 HOH TIP . H 4 HOH B 63 211 117 HOH TIP . H 4 HOH B 64 212 122 HOH TIP . H 4 HOH B 65 213 123 HOH TIP . # 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 . . . E 2 6.675 7.544 10.656 1 22.05 ? CHA HEM 147 B 1 HETATM 2 C CHB HEM . . . E 2 3.856 10.747 12.984 1 23.3 ? CHB HEM 147 B 1 HETATM 3 C CHC HEM . . . E 2 1.528 11.717 8.829 1 20.2 ? CHC HEM 147 B 1 HETATM 4 C CHD HEM . . . E 2 4.431 8.584 6.47 1 24.44 ? CHD HEM 147 B 1 HETATM 5 C C1A HEM . . . E 2 6.169 8.4 11.635 1 22.34 ? C1A HEM 147 B 1 HETATM 6 C C2A HEM . . . E 2 6.586 8.395 13.024 1 22.59 ? C2A HEM 147 B 1 HETATM 7 C C3A HEM . . . E 2 5.845 9.343 13.657 1 22.62 ? C3A HEM 147 B 1 HETATM 8 C C4A HEM . . . E 2 4.876 9.844 12.693 1 23.51 ? C4A HEM 147 B 1 HETATM 9 C CMA HEM . . . E 2 6.062 9.846 15.083 1 18.61 ? CMA HEM 147 B 1 HETATM 10 C CAA HEM . . . E 2 7.512 7.399 13.713 1 25.15 ? CAA HEM 147 B 1 HETATM 11 C CBA HEM . . . E 2 8.862 7.996 14.065 1 36.39 ? CBA HEM 147 B 1 HETATM 12 C CGA HEM . . . E 2 9.736 8.211 12.85 1 38.58 ? CGA HEM 147 B 1 HETATM 13 O O1A HEM . . . E 2 10.348 7.233 12.364 1 41.6 ? O1A HEM 147 B 1 HETATM 14 O O2A HEM . . . E 2 9.805 9.36 12.375 1 44.47 ? O2A HEM 147 B 1 HETATM 15 C C1B HEM . . . E 2 2.999 11.336 12.042 1 25 ? C1B HEM 147 B 1 HETATM 16 C C2B HEM . . . E 2 2.036 12.385 12.356 1 25.08 ? C2B HEM 147 B 1 HETATM 17 C C3B HEM . . . E 2 1.372 12.676 11.182 1 22.22 ? C3B HEM 147 B 1 HETATM 18 C C4B HEM . . . E 2 1.958 11.803 10.16 1 21.36 ? C4B HEM 147 B 1 HETATM 19 C CMB HEM . . . E 2 1.885 13.05 13.728 1 21.99 ? CMB HEM 147 B 1 HETATM 20 C CAB HEM . . . E 2 0.379 13.642 10.942 1 22.45 ? CAB HEM 147 B 1 HETATM 21 C CBB HEM . . . E 2 -0.556 14.181 11.899 1 22.49 ? CBB HEM 147 B 1 HETATM 22 C C1C HEM . . . E 2 2.1 10.931 7.834 1 21.82 ? C1C HEM 147 B 1 HETATM 23 C C2C HEM . . . E 2 1.595 10.829 6.483 1 21.51 ? C2C HEM 147 B 1 HETATM 24 C C3C HEM . . . E 2 2.468 10.041 5.793 1 24.01 ? C3C HEM 147 B 1 HETATM 25 C C4C HEM . . . E 2 3.46 9.57 6.741 1 22.37 ? C4C HEM 147 B 1 HETATM 26 C CMC HEM . . . E 2 0.288 11.436 5.968 1 21.84 ? CMC HEM 147 B 1 HETATM 27 C CAC HEM . . . E 2 2.516 9.851 4.412 1 27.59 ? CAC HEM 147 B 1 HETATM 28 C CBC HEM . . . E 2 1.61 9.048 3.664 1 30.58 ? CBC HEM 147 B 1 HETATM 29 C C1D HEM . . . E 2 5.263 7.989 7.416 1 27.37 ? C1D HEM 147 B 1 HETATM 30 C C2D HEM . . . E 2 6.165 6.879 7.151 1 27.96 ? C2D HEM 147 B 1 HETATM 31 C C3D HEM . . . E 2 6.738 6.534 8.337 1 26.54 ? C3D HEM 147 B 1 HETATM 32 C C4D HEM . . . E 2 6.248 7.496 9.331 1 22.35 ? C4D HEM 147 B 1 HETATM 33 C CMD HEM . . . E 2 6.373 6.192 5.798 1 30.12 ? CMD HEM 147 B 1 HETATM 34 C CAD HEM . . . E 2 7.531 5.253 8.632 1 30.35 ? CAD HEM 147 B 1 HETATM 35 C CBD HEM . . . E 2 6.615 4.119 9.095 1 33.35 ? CBD HEM 147 B 1 HETATM 36 C CGD HEM . . . E 2 7.373 2.849 9.438 1 40.08 ? CGD HEM 147 B 1 HETATM 37 O O1D HEM . . . E 2 8.1 2.332 8.56 1 41.19 ? O1D HEM 147 B 1 HETATM 38 O O2D HEM . . . E 2 7.237 2.367 10.583 1 41.5 ? O2D HEM 147 B 1 HETATM 39 N NA HEM . . . E 2 5.119 9.297 11.432 1 22.36 ? NA HEM 147 B 1 HETATM 40 N NB HEM . . . E 2 2.972 11.036 10.687 1 20.77 ? NB HEM 147 B 1 HETATM 41 N NC HEM . . . E 2 3.227 10.13 7.992 1 23.96 ? NC HEM 147 B 1 HETATM 42 N ND HEM . . . E 2 5.301 8.34 8.77 1 23.52 ? ND HEM 147 B 1 HETATM 43 FE FE HEM . . . E 2 4.176 9.737 9.706 1 24.7 ? FE HEM 147 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 43 #