data_1NBB # _model_server_result.job_id SAiTUEBDmfkn5PIX-k3x-A _model_server_result.datetime_utc '2024-12-26 23:59:06' _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":"C","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 . . . C 2 24.831 16.841 26.353 1 19.89 ? CHA HEM 130 A 1 HETATM 2 C CHB HEM . . . C 2 27.686 20.616 27.319 1 14.25 ? CHB HEM 130 A 1 HETATM 3 C CHC HEM . . . C 2 29.782 18.096 30.742 1 13.6 ? CHC HEM 130 A 1 HETATM 4 C CHD HEM . . . C 2 27.259 14.188 29.629 1 14.41 ? CHD HEM 130 A 1 HETATM 5 C C1A HEM . . . C 2 25.476 18.071 26.222 1 18.8 ? C1A HEM 130 A 1 HETATM 6 C C2A HEM . . . C 2 25.171 19.109 25.294 1 19.52 ? C2A HEM 130 A 1 HETATM 7 C C3A HEM . . . C 2 25.899 20.19 25.669 1 18.57 ? C3A HEM 130 A 1 HETATM 8 C C4A HEM . . . C 2 26.721 19.796 26.751 1 17.02 ? C4A HEM 130 A 1 HETATM 9 C CMA HEM . . . C 2 25.73 21.63 25.201 1 17.29 ? CMA HEM 130 A 1 HETATM 10 C CAA HEM . . . C 2 24.042 19.213 24.35 1 26.24 ? CAA HEM 130 A 1 HETATM 11 C CBA HEM . . . C 2 23.821 18.186 23.27 1 42.52 ? CBA HEM 130 A 1 HETATM 12 C CGA HEM . . . C 2 24.552 18.512 21.982 1 48.93 ? CGA HEM 130 A 1 HETATM 13 O O1A HEM . . . C 2 24.154 19.484 21.294 1 51.96 ? O1A HEM 130 A 1 HETATM 14 O O2A HEM . . . C 2 25.511 17.78 21.649 1 55.2 ? O2A HEM 130 A 1 HETATM 15 C C1B HEM . . . C 2 28.454 20.278 28.377 1 8.77 ? C1B HEM 130 A 1 HETATM 16 C C2B HEM . . . C 2 29.473 21.126 28.969 1 8.63 ? C2B HEM 130 A 1 HETATM 17 C C3B HEM . . . C 2 30.114 20.421 29.915 1 12.32 ? C3B HEM 130 A 1 HETATM 18 C C4B HEM . . . C 2 29.405 19.128 29.925 1 12.27 ? C4B HEM 130 A 1 HETATM 19 C CMB HEM . . . C 2 29.943 22.471 28.491 1 4.69 ? CMB HEM 130 A 1 HETATM 20 C CAB HEM . . . C 2 31.325 20.873 30.752 1 10.17 ? CAB HEM 130 A 1 HETATM 21 C CBB HEM . . . C 2 31.083 22.152 31.571 1 7.54 ? CBB HEM 130 A 1 HETATM 22 C C1C HEM . . . C 2 29.291 16.822 30.701 1 12.71 ? C1C HEM 130 A 1 HETATM 23 C C2C HEM . . . C 2 29.608 15.848 31.728 1 12.13 ? C2C HEM 130 A 1 HETATM 24 C C3C HEM . . . C 2 28.878 14.745 31.438 1 15.4 ? C3C HEM 130 A 1 HETATM 25 C C4C HEM . . . C 2 28.052 15.106 30.277 1 12.75 ? C4C HEM 130 A 1 HETATM 26 C CMC HEM . . . C 2 30.454 16.028 32.966 1 13.92 ? CMC HEM 130 A 1 HETATM 27 C CAC HEM . . . C 2 28.983 13.283 31.965 1 18.34 ? CAC HEM 130 A 1 HETATM 28 C CBC HEM . . . C 2 29.196 13.097 33.454 1 16.11 ? CBC HEM 130 A 1 HETATM 29 C C1D HEM . . . C 2 26.447 14.538 28.573 1 16.45 ? C1D HEM 130 A 1 HETATM 30 C C2D HEM . . . C 2 25.435 13.662 28.076 1 17.84 ? C2D HEM 130 A 1 HETATM 31 C C3D HEM . . . C 2 24.68 14.45 27.225 1 22.13 ? C3D HEM 130 A 1 HETATM 32 C C4D HEM . . . C 2 25.252 15.778 27.186 1 20.94 ? C4D HEM 130 A 1 HETATM 33 C CMD HEM . . . C 2 25.271 12.173 28.417 1 16.84 ? CMD HEM 130 A 1 HETATM 34 C CAD HEM . . . C 2 23.474 14.052 26.391 1 24.83 ? CAD HEM 130 A 1 HETATM 35 C CBD HEM . . . C 2 22.158 14.312 27.098 1 27.76 ? CBD HEM 130 A 1 HETATM 36 C CGD HEM . . . C 2 20.962 14.169 26.176 1 32.8 ? CGD HEM 130 A 1 HETATM 37 O O1D HEM . . . C 2 21.131 14.342 24.945 1 29.5 ? O1D HEM 130 A 1 HETATM 38 O O2D HEM . . . C 2 19.847 13.892 26.687 1 33.7 ? O2D HEM 130 A 1 HETATM 39 N NA HEM . . . C 2 26.47 18.484 27.092 1 15.94 ? NA HEM 130 A 1 HETATM 40 N NB HEM . . . C 2 28.41 19.048 28.95 1 11.11 ? NB HEM 130 A 1 HETATM 41 N NC HEM . . . C 2 28.282 16.396 29.841 1 12.08 ? NC HEM 130 A 1 HETATM 42 N ND HEM . . . C 2 26.338 15.834 28.046 1 17.35 ? ND HEM 130 A 1 HETATM 43 FE FE HEM . . . C 2 27.346 17.453 28.435 1 15 ? FE HEM 130 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 279 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #