data_3NMJ # _model_server_result.job_id FqeK9bcJU-pwF7_mWn1aqg _model_server_result.datetime_utc '2024-11-12 20:56:55' _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 3nmj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":150}' # _entry.id 3NMJ # _exptl.entry_id 3NMJ _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 4 _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 120 _cell.entry_id 3NMJ _cell.length_a 99.291 _cell.length_b 99.291 _cell.length_c 109.317 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3NMJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 170 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 PISA monomeric 1 author_and_software_defined_assembly 3 PISA monomeric 1 author_and_software_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,E,F,O 1 1 B,G,H,I,P 2 1 C,J,K,L 3 1 D,M,N,Q 4 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 E N N ? 2 G N N ? 2 K N N ? 2 M 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 SD MET 7 A MET 7 1_555 E FE HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.295 ? metalc ? metalc2 A NE2 HIS 102 A HIS 102 1_555 E FE HEM . A HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.852 ? metalc ? metalc3 O O HOH . A HOH 107 1_555 J NI NI . C NI 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.564 ? metalc ? metalc4 F NAJ PXX . A PXX 151 1_555 J NI NI . C NI 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.083 ? metalc ? metalc5 F NAK PXX . A PXX 151 1_555 J NI NI . C NI 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? metalc ? metalc6 B SD MET 7 B MET 7 1_555 G FE HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc7 B NE2 HIS 102 B HIS 102 1_555 G FE HEM . B HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.87 ? metalc ? metalc8 H NAK PXX . B PXX 151 1_555 I NI NI . B NI 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc9 H NAJ PXX . B PXX 151 1_555 I NI NI . B NI 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.111 ? metalc ? metalc10 I NI NI . B NI 152 1_555 Q O HOH . D HOH 107 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.581 ? metalc ? metalc11 I NI NI . B NI 152 1_555 N NAK PXX . D PXX 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.089 ? metalc ? metalc12 I NI NI . B NI 152 1_555 N NAJ PXX . D PXX 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc13 C SD MET 7 C MET 7 1_555 K FE HEM . C HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.293 ? metalc ? metalc14 C NE2 HIS 102 C HIS 102 1_555 K FE HEM . C HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.871 ? metalc ? metalc15 L NAK PXX . C PXX 151 1_555 J NI NI . C NI 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc16 L NAJ PXX . C PXX 151 1_555 J NI NI . C NI 152 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.11 ? metalc ? metalc17 D SD MET 7 D MET 7 1_555 M FE HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc18 D NE2 HIS 102 D HIS 102 1_555 M FE HEM . D HEM 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.855 ? # _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 3NMJ _atom_sites.fract_transf_matrix[1][1] 0.010071 _atom_sites.fract_transf_matrix[1][2] 0.005815 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011629 _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] 0.009148 _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 2 HEM A 1 150 150 HEM HEM . F 3 PXX A 1 151 151 PXX PXX . G 2 HEM B 1 150 150 HEM HEM . H 3 PXX B 1 151 151 PXX PXX . I 4 NI B 1 152 152 NI NI . J 4 NI C 1 152 152 NI NI . K 2 HEM C 1 150 150 HEM HEM . L 3 PXX C 1 151 151 PXX PXX . M 2 HEM D 1 150 150 HEM HEM . N 3 PXX D 1 151 151 PXX PXX . O 5 HOH A 1 107 1 HOH HOH . P 5 HOH B 1 107 5 HOH HOH . Q 5 HOH D 1 107 2 HOH HOH . Q 5 HOH D 2 108 4 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 . . . G 2 35.613 -57.381 6.682 1 59.74 ? CHA HEM 150 B 1 HETATM 2 C CHB HEM . . . G 2 32.388 -59.209 3.555 1 51.9 ? CHB HEM 150 B 1 HETATM 3 C CHC HEM . . . G 2 30.451 -54.801 2.989 1 44.15 ? CHC HEM 150 B 1 HETATM 4 C CHD HEM . . . G 2 33.7 -52.931 6.051 1 46.68 ? CHD HEM 150 B 1 HETATM 5 C C1A HEM . . . G 2 34.946 -58.241 5.838 1 59.03 ? C1A HEM 150 B 1 HETATM 6 C C2A HEM . . . G 2 35.294 -59.631 5.6 1 61.12 ? C2A HEM 150 B 1 HETATM 7 C C3A HEM . . . G 2 34.407 -60.137 4.739 1 57.2 ? C3A HEM 150 B 1 HETATM 8 C C4A HEM . . . G 2 33.456 -59.091 4.414 1 53.87 ? C4A HEM 150 B 1 HETATM 9 C CMA HEM . . . G 2 34.42 -61.57 4.157 1 52.67 ? CMA HEM 150 B 1 HETATM 10 C CAA HEM . . . G 2 36.542 -60.359 6.148 1 63.96 ? CAA HEM 150 B 1 HETATM 11 C CBA HEM . . . G 2 36.8 -59.96 7.595 1 69.03 ? CBA HEM 150 B 1 HETATM 12 C CGA HEM . . . G 2 37.023 -61.222 8.387 1 76.5 ? CGA HEM 150 B 1 HETATM 13 O O1A HEM . . . G 2 36.234 -61.49 9.334 1 75.44 ? O1A HEM 150 B 1 HETATM 14 O O2A HEM . . . G 2 37.965 -61.986 8.038 1 78.71 ? O2A HEM 150 B 1 HETATM 15 C C1B HEM . . . G 2 31.584 -58.177 3.124 1 48.83 ? C1B HEM 150 B 1 HETATM 16 C C2B HEM . . . G 2 30.543 -58.267 2.117 1 46.89 ? C2B HEM 150 B 1 HETATM 17 C C3B HEM . . . G 2 30.007 -57.05 1.973 1 45.52 ? C3B HEM 150 B 1 HETATM 18 C C4B HEM . . . G 2 30.717 -56.142 2.846 1 44.16 ? C4B HEM 150 B 1 HETATM 19 C CMB HEM . . . G 2 30.149 -59.548 1.344 1 42.05 ? CMB HEM 150 B 1 HETATM 20 C CAB HEM . . . G 2 28.887 -56.632 0.994 1 48 ? CAB HEM 150 B 1 HETATM 21 C CBB HEM . . . G 2 27.802 -57.393 0.825 1 50.67 ? CBB HEM 150 B 1 HETATM 22 C C1C HEM . . . G 2 31.159 -53.923 3.77 1 43.36 ? C1C HEM 150 B 1 HETATM 23 C C2C HEM . . . G 2 30.947 -52.492 3.838 1 41.78 ? C2C HEM 150 B 1 HETATM 24 C C3C HEM . . . G 2 31.878 -51.976 4.641 1 44.58 ? C3C HEM 150 B 1 HETATM 25 C C4C HEM . . . G 2 32.69 -53.062 5.137 1 43.85 ? C4C HEM 150 B 1 HETATM 26 C CMC HEM . . . G 2 29.837 -51.702 3.12 1 34.76 ? CMC HEM 150 B 1 HETATM 27 C CAC HEM . . . G 2 31.996 -50.5 5.074 1 43.8 ? CAC HEM 150 B 1 HETATM 28 C CBC HEM . . . G 2 30.96 -49.677 4.899 1 43.67 ? CBC HEM 150 B 1 HETATM 29 C C1D HEM . . . G 2 34.474 -53.949 6.557 1 50.87 ? C1D HEM 150 B 1 HETATM 30 C C2D HEM . . . G 2 35.479 -53.78 7.586 1 51.8 ? C2D HEM 150 B 1 HETATM 31 C C3D HEM . . . G 2 36.054 -55.177 7.81 1 53.74 ? C3D HEM 150 B 1 HETATM 32 C C4D HEM . . . G 2 35.375 -56.036 6.856 1 53.88 ? C4D HEM 150 B 1 HETATM 33 C CMD HEM . . . G 2 35.868 -52.487 8.338 1 49.07 ? CMD HEM 150 B 1 HETATM 34 C CAD HEM . . . G 2 37.216 -55.531 8.76 1 55.21 ? CAD HEM 150 B 1 HETATM 35 C CBD HEM . . . G 2 36.683 -56.224 10.006 1 60.17 ? CBD HEM 150 B 1 HETATM 36 C CGD HEM . . . G 2 37.771 -56.215 11.044 1 62.01 ? CGD HEM 150 B 1 HETATM 37 O O1D HEM . . . G 2 38.963 -56.308 10.651 1 61.14 ? O1D HEM 150 B 1 HETATM 38 O O2D HEM . . . G 2 37.454 -56.024 12.247 1 64.03 ? O2D HEM 150 B 1 HETATM 39 N NA HEM . . . G 2 33.812 -57.949 5.108 1 51.67 ? NA HEM 150 B 1 HETATM 40 N NB HEM . . . G 2 31.66 -56.863 3.552 1 46.01 ? NB HEM 150 B 1 HETATM 41 N NC HEM . . . G 2 32.236 -54.241 4.578 1 44.4 ? NC HEM 150 B 1 HETATM 42 N ND HEM . . . G 2 34.46 -55.279 6.136 1 49.3 ? ND HEM 150 B 1 HETATM 43 FE FE HEM . . . G 2 33.065 -56.096 4.823 1 45.64 ? FE HEM 150 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #