data_1NBB # _model_server_result.job_id oYEmaGUcuPZTWp7dKV178g _model_server_result.datetime_utc '2024-10-18 11:21:48' _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 1nbb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":130}' # _entry.id 1NBB # _exptl.entry_id 1NBB _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 87.02 _cell.angle_gamma 90 _cell.entry_id 1NBB _cell.length_a 47.734 _cell.length_b 70.535 _cell.length_c 89.652 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1NBB _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 covale ? covale1 A SG CYS 118 A CYS 118 1_555 C CAB HEM . A HEM 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.791 ? covale ? covale2 A SG CYS 121 A CYS 121 1_555 C CAC HEM . A HEM 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.787 ? covale ? covale3 B SG CYS 118 B CYS 118 1_555 E CAB HEM . B HEM 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.804 ? covale ? covale4 B SG CYS 121 B CYS 121 1_555 E CAC HEM . B HEM 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.768 ? metalc ? metalc1 A NE2 HIS 122 A HIS 122 1_555 C FE HEM . A HEM 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.98 ? metalc ? metalc2 C FE HEM . A HEM 130 1_555 D C NBN . A NBN 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? metalc ? metalc3 C FE HEM . A HEM 130 1_555 D N NBN . A NBN 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.056 ? metalc ? metalc4 B NE2 HIS 122 B HIS 122 1_555 E FE HEM . B HEM 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? metalc ? metalc5 E FE HEM . B HEM 130 1_555 F C NBN . B NBN 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.901 ? metalc ? metalc6 E FE HEM . B HEM 130 1_555 F N NBN . B NBN 131 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.036 ? # _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 129 n n CHA C4D HEM doub 130 n n CHA HHA HEM sing 131 n n CHB C4A HEM sing 132 n n CHB C1B HEM doub 133 n n CHB HHB HEM sing 134 n n CHC C4B HEM sing 135 n n CHC C1C HEM doub 136 n n CHC HHC HEM sing 137 n n CHD C4C HEM doub 138 n n CHD C1D HEM sing 139 n n CHD HHD HEM sing 140 n n C1A C2A HEM doub 141 n y C1A NA HEM sing 142 n y C2A C3A HEM sing 143 n y C2A CAA HEM sing 144 n n C3A C4A HEM doub 145 n y C3A CMA HEM sing 146 n n C4A NA HEM sing 147 n y CMA HMA HEM sing 148 n n CMA HMAA HEM sing 149 n n CMA HMAB HEM sing 150 n n CAA CBA HEM sing 151 n n CAA HAA HEM sing 152 n n CAA HAAA HEM sing 153 n n CBA CGA HEM sing 154 n n CBA HBA HEM sing 155 n n CBA HBAA HEM sing 156 n n CGA O1A HEM doub 157 n n CGA O2A HEM sing 158 n n C1B C2B HEM sing 159 n n C1B NB HEM sing 160 n n C2B C3B HEM doub 161 n n C2B CMB HEM sing 162 n n C3B C4B HEM sing 163 n n C3B CAB HEM sing 164 n n C4B NB HEM doub 165 n n CMB HMB HEM sing 166 n n CMB HMBA HEM sing 167 n n CMB HMBB HEM sing 168 n n CAB CBB HEM doub 169 n n CAB HAB HEM sing 170 n n CBB HBB HEM sing 171 n n CBB HBBA HEM sing 172 n n C1C C2C HEM sing 173 n y C1C NC HEM sing 174 n y C2C C3C HEM doub 175 n y C2C CMC HEM sing 176 n n C3C C4C HEM sing 177 n y C3C CAC HEM sing 178 n n C4C NC HEM sing 179 n y CMC HMC HEM sing 180 n n CMC HMCA HEM sing 181 n n CMC HMCB HEM sing 182 n n CAC CBC HEM doub 183 n n CAC HAC HEM sing 184 n n CBC HBC HEM sing 185 n n CBC HBCA HEM sing 186 n n C1D C2D HEM sing 187 n n C1D ND HEM doub 188 n n C2D C3D HEM doub 189 n n C2D CMD HEM sing 190 n n C3D C4D HEM sing 191 n n C3D CAD HEM sing 192 n n C4D ND HEM sing 193 n n CMD HMD HEM sing 194 n n CMD HMDA HEM sing 195 n n CMD HMDB HEM sing 196 n n CAD CBD HEM sing 197 n n CAD HAD HEM sing 198 n n CAD HADA HEM sing 199 n n CBD CGD HEM sing 200 n n CBD HBD HEM sing 201 n n CBD HBDA HEM sing 202 n n CGD O1D HEM doub 203 n n CGD O2D HEM sing 204 n n O2A H2A HEM sing 205 n n O2D H2D HEM sing 206 n n FE NA HEM sing 207 n n FE NB HEM sing 208 n n FE NC HEM sing 209 n n FE ND HEM sing 210 n n # _atom_sites.entry_id 1NBB _atom_sites.fract_transf_matrix[1][1] 0.020949 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] -0.001091 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014177 _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] 0.011169 _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 1 130 1 HEM HEM . D 3 NBN A 1 131 2 NBN NBN . E 2 HEM B 1 130 1 HEM HEM . F 3 NBN B 1 131 2 NBN NBN . G 4 HOH A 1 132 2 HOH HOH . G 4 HOH A 2 133 4 HOH HOH . G 4 HOH A 3 134 5 HOH HOH . G 4 HOH A 4 135 7 HOH HOH . G 4 HOH A 5 136 8 HOH HOH . G 4 HOH A 6 137 9 HOH HOH . G 4 HOH A 7 138 10 HOH HOH . G 4 HOH A 8 139 12 HOH HOH . G 4 HOH A 9 140 13 HOH HOH . G 4 HOH A 10 141 14 HOH HOH . G 4 HOH A 11 142 22 HOH HOH . G 4 HOH A 12 143 24 HOH HOH . G 4 HOH A 13 144 29 HOH HOH . G 4 HOH A 14 145 31 HOH HOH . G 4 HOH A 15 146 32 HOH HOH . G 4 HOH A 16 147 33 HOH HOH . G 4 HOH A 17 148 35 HOH HOH . G 4 HOH A 18 149 36 HOH HOH . G 4 HOH A 19 150 38 HOH HOH . G 4 HOH A 20 151 39 HOH HOH . G 4 HOH A 21 152 41 HOH HOH . G 4 HOH A 22 153 42 HOH HOH . G 4 HOH A 23 154 47 HOH HOH . G 4 HOH A 24 155 60 HOH HOH . G 4 HOH A 25 156 61 HOH HOH . G 4 HOH A 26 157 62 HOH HOH . G 4 HOH A 27 158 65 HOH HOH . G 4 HOH A 28 159 66 HOH HOH . G 4 HOH A 29 160 67 HOH HOH . G 4 HOH A 30 161 68 HOH HOH . G 4 HOH A 31 162 70 HOH HOH . G 4 HOH A 32 163 73 HOH HOH . G 4 HOH A 33 164 81 HOH HOH . G 4 HOH A 34 165 90 HOH HOH . G 4 HOH A 35 166 91 HOH HOH . G 4 HOH A 36 167 92 HOH HOH . G 4 HOH A 37 168 97 HOH HOH . G 4 HOH A 38 169 99 HOH HOH . G 4 HOH A 39 170 100 HOH HOH . G 4 HOH A 40 171 102 HOH HOH . G 4 HOH A 41 172 104 HOH HOH . G 4 HOH A 42 173 109 HOH HOH . G 4 HOH A 43 174 113 HOH HOH . G 4 HOH A 44 175 115 HOH HOH . G 4 HOH A 45 176 116 HOH HOH . G 4 HOH A 46 177 122 HOH HOH . G 4 HOH A 47 178 125 HOH HOH . G 4 HOH A 48 179 126 HOH HOH . G 4 HOH A 49 180 138 HOH HOH . H 4 HOH B 1 132 1 HOH HOH . H 4 HOH B 2 133 3 HOH HOH . H 4 HOH B 3 134 6 HOH HOH . H 4 HOH B 4 135 11 HOH HOH . H 4 HOH B 5 136 15 HOH HOH . H 4 HOH B 6 137 16 HOH HOH . H 4 HOH B 7 138 17 HOH HOH . H 4 HOH B 8 139 18 HOH HOH . H 4 HOH B 9 140 23 HOH HOH . H 4 HOH B 10 141 25 HOH HOH . H 4 HOH B 11 142 26 HOH HOH . H 4 HOH B 12 143 27 HOH HOH . H 4 HOH B 13 144 43 HOH HOH . H 4 HOH B 14 145 44 HOH HOH . H 4 HOH B 15 146 46 HOH HOH . H 4 HOH B 16 147 48 HOH HOH . H 4 HOH B 17 148 49 HOH HOH . H 4 HOH B 18 149 50 HOH HOH . H 4 HOH B 19 150 51 HOH HOH . H 4 HOH B 20 151 52 HOH HOH . H 4 HOH B 21 152 53 HOH HOH . H 4 HOH B 22 153 54 HOH HOH . H 4 HOH B 23 154 55 HOH HOH . H 4 HOH B 24 155 56 HOH HOH . H 4 HOH B 25 156 57 HOH HOH . H 4 HOH B 26 157 58 HOH HOH . H 4 HOH B 27 158 59 HOH HOH . H 4 HOH B 28 159 63 HOH HOH . H 4 HOH B 29 160 77 HOH HOH . H 4 HOH B 30 161 78 HOH HOH . H 4 HOH B 31 162 79 HOH HOH . H 4 HOH B 32 163 82 HOH HOH . H 4 HOH B 33 164 85 HOH HOH . H 4 HOH B 34 165 86 HOH HOH . H 4 HOH B 35 166 87 HOH HOH . H 4 HOH B 36 167 88 HOH HOH . H 4 HOH B 37 168 93 HOH HOH . H 4 HOH B 38 169 94 HOH HOH . H 4 HOH B 39 170 106 HOH HOH . H 4 HOH B 40 171 108 HOH HOH . H 4 HOH B 41 172 110 HOH HOH . H 4 HOH B 42 173 114 HOH HOH . H 4 HOH B 43 174 119 HOH HOH . H 4 HOH B 44 175 120 HOH HOH . H 4 HOH B 45 176 131 HOH HOH . H 4 HOH B 46 177 133 HOH HOH . H 4 HOH B 47 178 134 HOH HOH . H 4 HOH B 48 179 135 HOH HOH . H 4 HOH B 49 180 136 HOH HOH . H 4 HOH B 50 181 137 HOH HOH . H 4 HOH B 51 182 139 HOH HOH . H 4 HOH B 52 183 140 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 . . . E 2 25.077 51.179 25.731 1 19.87 ? CHA HEM 130 B 1 HETATM 2 C CHB HEM . . . E 2 22.458 47.233 26.851 1 17.27 ? CHB HEM 130 B 1 HETATM 3 C CHC HEM . . . E 2 20.228 49.862 30.189 1 12.04 ? CHC HEM 130 B 1 HETATM 4 C CHD HEM . . . E 2 22.833 53.771 29.116 1 17.5 ? CHD HEM 130 B 1 HETATM 5 C C1A HEM . . . E 2 24.541 49.882 25.733 1 18.59 ? C1A HEM 130 B 1 HETATM 6 C C2A HEM . . . E 2 24.928 48.832 24.821 1 19.49 ? C2A HEM 130 B 1 HETATM 7 C C3A HEM . . . E 2 24.211 47.727 25.187 1 17.82 ? C3A HEM 130 B 1 HETATM 8 C C4A HEM . . . E 2 23.366 48.1 26.275 1 16.81 ? C4A HEM 130 B 1 HETATM 9 C CMA HEM . . . E 2 24.183 46.368 24.498 1 13.75 ? CMA HEM 130 B 1 HETATM 10 C CAA HEM . . . E 2 25.897 48.932 23.655 1 25.5 ? CAA HEM 130 B 1 HETATM 11 C CBA HEM . . . E 2 25.743 49.981 22.526 1 41.77 ? CBA HEM 130 B 1 HETATM 12 C CGA HEM . . . E 2 24.739 49.595 21.424 1 45.99 ? CGA HEM 130 B 1 HETATM 13 O O1A HEM . . . E 2 24.283 50.498 20.673 1 49.33 ? O1A HEM 130 B 1 HETATM 14 O O2A HEM . . . E 2 24.424 48.392 21.291 1 46.09 ? O2A HEM 130 B 1 HETATM 15 C C1B HEM . . . E 2 21.626 47.603 27.856 1 16.36 ? C1B HEM 130 B 1 HETATM 16 C C2B HEM . . . E 2 20.526 46.802 28.345 1 14.2 ? C2B HEM 130 B 1 HETATM 17 C C3B HEM . . . E 2 19.908 47.529 29.311 1 16 ? C3B HEM 130 B 1 HETATM 18 C C4B HEM . . . E 2 20.629 48.798 29.381 1 12.71 ? C4B HEM 130 B 1 HETATM 19 C CMB HEM . . . E 2 20.011 45.507 27.777 1 14.46 ? CMB HEM 130 B 1 HETATM 20 C CAB HEM . . . E 2 18.692 47.218 30.222 1 15.54 ? CAB HEM 130 B 1 HETATM 21 C CBB HEM . . . E 2 18.883 46.057 31.166 1 10.42 ? CBB HEM 130 B 1 HETATM 22 C C1C HEM . . . E 2 20.657 51.148 30.151 1 10.78 ? C1C HEM 130 B 1 HETATM 23 C C2C HEM . . . E 2 20.185 52.152 31.085 1 14.22 ? C2C HEM 130 B 1 HETATM 24 C C3C HEM . . . E 2 20.982 53.312 30.871 1 15.69 ? C3C HEM 130 B 1 HETATM 25 C C4C HEM . . . E 2 21.924 52.905 29.74 1 16.92 ? C4C HEM 130 B 1 HETATM 26 C CMC HEM . . . E 2 19.045 51.952 32.067 1 6.22 ? CMC HEM 130 B 1 HETATM 27 C CAC HEM . . . E 2 20.865 54.747 31.443 1 11.95 ? CAC HEM 130 B 1 HETATM 28 C CBC HEM . . . E 2 20.414 54.862 32.869 1 16.89 ? CBC HEM 130 B 1 HETATM 29 C C1D HEM . . . E 2 23.633 53.44 28.067 1 18.63 ? C1D HEM 130 B 1 HETATM 30 C C2D HEM . . . E 2 24.514 54.349 27.381 1 18.85 ? C2D HEM 130 B 1 HETATM 31 C C3D HEM . . . E 2 25.256 53.588 26.492 1 20.52 ? C3D HEM 130 B 1 HETATM 32 C C4D HEM . . . E 2 24.696 52.241 26.553 1 19.4 ? C4D HEM 130 B 1 HETATM 33 C CMD HEM . . . E 2 24.525 55.874 27.606 1 20.15 ? CMD HEM 130 B 1 HETATM 34 C CAD HEM . . . E 2 26.54 53.969 25.714 1 20.64 ? CAD HEM 130 B 1 HETATM 35 C CBD HEM . . . E 2 27.804 53.53 26.444 1 20.19 ? CBD HEM 130 B 1 HETATM 36 C CGD HEM . . . E 2 29.087 53.79 25.662 1 27.36 ? CGD HEM 130 B 1 HETATM 37 O O1D HEM . . . E 2 29.101 53.591 24.408 1 25.09 ? O1D HEM 130 B 1 HETATM 38 O O2D HEM . . . E 2 30.097 54.173 26.314 1 21.81 ? O2D HEM 130 B 1 HETATM 39 N NA HEM . . . E 2 23.553 49.44 26.631 1 18.81 ? NA HEM 130 B 1 HETATM 40 N NB HEM . . . E 2 21.642 48.873 28.449 1 15.61 ? NB HEM 130 B 1 HETATM 41 N NC HEM . . . E 2 21.715 51.59 29.358 1 13.8 ? NC HEM 130 B 1 HETATM 42 N ND HEM . . . E 2 23.69 52.159 27.533 1 20.83 ? ND HEM 130 B 1 HETATM 43 FE FE HEM . . . E 2 22.615 50.555 28.023 1 16.79 ? FE HEM 130 B 1 # _model_server_stats.io_time_ms 20 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 271 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #