data_1DM1 # _model_server_result.job_id ZlefywKMP97M-YgZVgc6VA _model_server_result.datetime_utc '2024-11-05 00:40:55' _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 1dm1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":148}' # _entry.id 1DM1 # _exptl.entry_id 1DM1 _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 1 _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 1DM1 _cell.length_a 89.73 _cell.length_b 89.73 _cell.length_c 92.08 _cell.Z_PDB 9 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1DM1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 146 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'H 3' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 95 A HIS 95 1_555 B FE HEM . A HEM 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.146 ? metalc ? metalc2 B FE HEM . A HEM 148 1_555 C O HOH . A HOH 172 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.242 ? # _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 116 n n CHA C4D HEM doub 117 n n CHA HHA HEM sing 118 n n CHB C4A HEM sing 119 n n CHB C1B HEM doub 120 n n CHB HHB HEM sing 121 n n CHC C4B HEM sing 122 n n CHC C1C HEM doub 123 n n CHC HHC HEM sing 124 n n CHD C4C HEM doub 125 n n CHD C1D HEM sing 126 n n CHD HHD HEM sing 127 n n C1A C2A HEM doub 128 n y C1A NA HEM sing 129 n y C2A C3A HEM sing 130 n y C2A CAA HEM sing 131 n n C3A C4A HEM doub 132 n y C3A CMA HEM sing 133 n n C4A NA HEM sing 134 n y CMA HMA HEM sing 135 n n CMA HMAA HEM sing 136 n n CMA HMAB HEM sing 137 n n CAA CBA HEM sing 138 n n CAA HAA HEM sing 139 n n CAA HAAA HEM sing 140 n n CBA CGA HEM sing 141 n n CBA HBA HEM sing 142 n n CBA HBAA HEM sing 143 n n CGA O1A HEM doub 144 n n CGA O2A HEM sing 145 n n C1B C2B HEM sing 146 n n C1B NB HEM sing 147 n n C2B C3B HEM doub 148 n n C2B CMB HEM sing 149 n n C3B C4B HEM sing 150 n n C3B CAB HEM sing 151 n n C4B NB HEM doub 152 n n CMB HMB HEM sing 153 n n CMB HMBA HEM sing 154 n n CMB HMBB HEM sing 155 n n CAB CBB HEM doub 156 n n CAB HAB HEM sing 157 n n CBB HBB HEM sing 158 n n CBB HBBA HEM sing 159 n n C1C C2C HEM sing 160 n y C1C NC HEM sing 161 n y C2C C3C HEM doub 162 n y C2C CMC HEM sing 163 n n C3C C4C HEM sing 164 n y C3C CAC HEM sing 165 n n C4C NC HEM sing 166 n y CMC HMC HEM sing 167 n n CMC HMCA HEM sing 168 n n CMC HMCB HEM sing 169 n n CAC CBC HEM doub 170 n n CAC HAC HEM sing 171 n n CBC HBC HEM sing 172 n n CBC HBCA HEM sing 173 n n C1D C2D HEM sing 174 n n C1D ND HEM doub 175 n n C2D C3D HEM doub 176 n n C2D CMD HEM sing 177 n n C3D C4D HEM sing 178 n n C3D CAD HEM sing 179 n n C4D ND HEM sing 180 n n CMD HMD HEM sing 181 n n CMD HMDA HEM sing 182 n n CMD HMDB HEM sing 183 n n CAD CBD HEM sing 184 n n CAD HAD HEM sing 185 n n CAD HADA HEM sing 186 n n CBD CGD HEM sing 187 n n CBD HBD HEM sing 188 n n CBD HBDA HEM sing 189 n n CGD O1D HEM doub 190 n n CGD O2D HEM sing 191 n n O2A H2A HEM sing 192 n n O2D H2D HEM sing 193 n n FE NA HEM sing 194 n n FE NB HEM sing 195 n n FE NC HEM sing 196 n n FE ND HEM sing 197 n n # _atom_sites.entry_id 1DM1 _atom_sites.fract_transf_matrix[1][1] 0.01114 _atom_sites.fract_transf_matrix[1][2] 0.00643 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01287 _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] 0.01086 _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 B 2 HEM A 1 148 148 HEM HEM . C 3 HOH A 1 149 1 HOH WAT . C 3 HOH A 2 150 2 HOH WAT . C 3 HOH A 3 151 3 HOH WAT . C 3 HOH A 4 152 4 HOH WAT . C 3 HOH A 5 153 5 HOH WAT . C 3 HOH A 6 154 6 HOH WAT . C 3 HOH A 7 155 7 HOH WAT . C 3 HOH A 8 156 8 HOH WAT . C 3 HOH A 9 157 9 HOH WAT . C 3 HOH A 10 158 10 HOH WAT . C 3 HOH A 11 159 11 HOH WAT . C 3 HOH A 12 160 12 HOH WAT . C 3 HOH A 13 161 13 HOH WAT . C 3 HOH A 14 162 14 HOH WAT . C 3 HOH A 15 163 15 HOH WAT . C 3 HOH A 16 164 16 HOH WAT . C 3 HOH A 17 165 17 HOH WAT . C 3 HOH A 18 166 18 HOH WAT . C 3 HOH A 19 167 19 HOH WAT . C 3 HOH A 20 168 20 HOH WAT . C 3 HOH A 21 169 21 HOH WAT . C 3 HOH A 22 170 22 HOH WAT . C 3 HOH A 23 171 23 HOH WAT . C 3 HOH A 24 172 24 HOH WAT . C 3 HOH A 25 173 25 HOH WAT . C 3 HOH A 26 174 26 HOH WAT . C 3 HOH A 27 175 27 HOH WAT . C 3 HOH A 28 176 28 HOH WAT . C 3 HOH A 29 177 29 HOH WAT . C 3 HOH A 30 178 30 HOH WAT . C 3 HOH A 31 179 31 HOH WAT . C 3 HOH A 32 180 32 HOH WAT . C 3 HOH A 33 181 33 HOH WAT . C 3 HOH A 34 182 34 HOH WAT . C 3 HOH A 35 183 35 HOH WAT . C 3 HOH A 36 184 36 HOH WAT . C 3 HOH A 37 185 37 HOH WAT . C 3 HOH A 38 186 38 HOH WAT . C 3 HOH A 39 187 39 HOH WAT . C 3 HOH A 40 188 40 HOH WAT . C 3 HOH A 41 189 41 HOH WAT . C 3 HOH A 42 190 42 HOH WAT . C 3 HOH A 43 191 43 HOH WAT . C 3 HOH A 44 192 44 HOH WAT . C 3 HOH A 45 193 45 HOH WAT . C 3 HOH A 46 194 46 HOH WAT . C 3 HOH A 47 195 47 HOH WAT . C 3 HOH A 48 196 48 HOH WAT . C 3 HOH A 49 197 49 HOH WAT . C 3 HOH A 50 198 50 HOH WAT . C 3 HOH A 51 199 51 HOH WAT . C 3 HOH A 52 200 52 HOH WAT . C 3 HOH A 53 201 53 HOH WAT . C 3 HOH A 54 202 54 HOH WAT . C 3 HOH A 55 203 55 HOH WAT . C 3 HOH A 56 204 56 HOH WAT . C 3 HOH A 57 205 57 HOH WAT . C 3 HOH A 58 206 58 HOH WAT . C 3 HOH A 59 207 59 HOH WAT . C 3 HOH A 60 208 60 HOH WAT . C 3 HOH A 61 209 61 HOH WAT . C 3 HOH A 62 210 62 HOH WAT . C 3 HOH A 63 211 63 HOH WAT . C 3 HOH A 64 212 64 HOH WAT . C 3 HOH A 65 213 65 HOH WAT . C 3 HOH A 66 214 66 HOH WAT . C 3 HOH A 67 215 67 HOH WAT . C 3 HOH A 68 216 68 HOH WAT . C 3 HOH A 69 217 69 HOH WAT . C 3 HOH A 70 218 70 HOH WAT . C 3 HOH A 71 219 71 HOH WAT . C 3 HOH A 72 220 72 HOH WAT . C 3 HOH A 73 221 73 HOH WAT . C 3 HOH A 74 222 74 HOH WAT . C 3 HOH A 75 223 75 HOH WAT . C 3 HOH A 76 224 76 HOH WAT . C 3 HOH A 77 225 77 HOH WAT . # 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 . . . B 2 -21.582 21.644 -6.456 1 26.05 ? CHA HEM 148 A 1 HETATM 2 C CHB HEM . . . B 2 -22.512 23.374 -2.023 1 21.75 ? CHB HEM 148 A 1 HETATM 3 C CHC HEM . . . B 2 -24.868 27.059 -4.01 1 24.16 ? CHC HEM 148 A 1 HETATM 4 C CHD HEM . . . B 2 -23.566 25.524 -8.437 1 25.14 ? CHD HEM 148 A 1 HETATM 5 C C1A HEM . . . B 2 -21.62 21.819 -5.091 1 28.58 ? C1A HEM 148 A 1 HETATM 6 C C2A HEM . . . B 2 -21.006 20.953 -4.149 1 28.1 ? C2A HEM 148 A 1 HETATM 7 C C3A HEM . . . B 2 -21.247 21.431 -2.933 1 27.03 ? C3A HEM 148 A 1 HETATM 8 C C4A HEM . . . B 2 -22.038 22.606 -3.062 1 26.39 ? C4A HEM 148 A 1 HETATM 9 C CMA HEM . . . B 2 -20.78 20.82 -1.594 1 25.84 ? CMA HEM 148 A 1 HETATM 10 C CAA HEM . . . B 2 -20.188 19.696 -4.558 1 30.74 ? CAA HEM 148 A 1 HETATM 11 C CBA HEM . . . B 2 -18.873 19.812 -4.808 1 38.73 ? CBA HEM 148 A 1 HETATM 12 C CGA HEM . . . B 2 -18.009 18.764 -5.277 1 44.87 ? CGA HEM 148 A 1 HETATM 13 O O1A HEM . . . B 2 -18.43 17.673 -5.373 1 47.76 ? O1A HEM 148 A 1 HETATM 14 O O2A HEM . . . B 2 -16.956 19.018 -5.652 1 49.32 ? O2A HEM 148 A 1 HETATM 15 C C1B HEM . . . B 2 -23.249 24.524 -2.177 1 21.66 ? C1B HEM 148 A 1 HETATM 16 C C2B HEM . . . B 2 -23.809 25.313 -1.087 1 21.52 ? C2B HEM 148 A 1 HETATM 17 C C3B HEM . . . B 2 -24.477 26.307 -1.657 1 24.21 ? C3B HEM 148 A 1 HETATM 18 C C4B HEM . . . B 2 -24.342 26.186 -3.108 1 22.35 ? C4B HEM 148 A 1 HETATM 19 C CMB HEM . . . B 2 -23.62 24.967 0.408 1 20.39 ? CMB HEM 148 A 1 HETATM 20 C CAB HEM . . . B 2 -25.235 27.437 -0.958 1 24.64 ? CAB HEM 148 A 1 HETATM 21 C CBB HEM . . . B 2 -26.462 27.678 -1.384 1 30.15 ? CBB HEM 148 A 1 HETATM 22 C C1C HEM . . . B 2 -24.641 26.955 -5.375 1 27.17 ? C1C HEM 148 A 1 HETATM 23 C C2C HEM . . . B 2 -25.15 27.878 -6.337 1 26.67 ? C2C HEM 148 A 1 HETATM 24 C C3C HEM . . . B 2 -24.8 27.452 -7.531 1 26.31 ? C3C HEM 148 A 1 HETATM 25 C C4C HEM . . . B 2 -24.076 26.238 -7.352 1 26.64 ? C4C HEM 148 A 1 HETATM 26 C CMC HEM . . . B 2 -25.994 29.125 -6.004 1 25.72 ? CMC HEM 148 A 1 HETATM 27 C CAC HEM . . . B 2 -25.085 28.021 -8.94 1 27.74 ? CAC HEM 148 A 1 HETATM 28 C CBC HEM . . . B 2 -26.117 28.797 -9.195 1 33.01 ? CBC HEM 148 A 1 HETATM 29 C C1D HEM . . . B 2 -22.972 24.317 -8.264 1 26.52 ? C1D HEM 148 A 1 HETATM 30 C C2D HEM . . . B 2 -22.601 23.423 -9.365 1 28 ? C2D HEM 148 A 1 HETATM 31 C C3D HEM . . . B 2 -22.049 22.369 -8.805 1 26.93 ? C3D HEM 148 A 1 HETATM 32 C C4D HEM . . . B 2 -22.057 22.537 -7.382 1 25.23 ? C4D HEM 148 A 1 HETATM 33 C CMD HEM . . . B 2 -22.833 23.769 -10.838 1 26.11 ? CMD HEM 148 A 1 HETATM 34 C CAD HEM . . . B 2 -21.515 21.106 -9.519 1 26.27 ? CAD HEM 148 A 1 HETATM 35 C CBD HEM . . . B 2 -22.703 20.133 -9.692 1 25.87 ? CBD HEM 148 A 1 HETATM 36 C CGD HEM . . . B 2 -22.309 18.811 -10.302 1 26.74 ? CGD HEM 148 A 1 HETATM 37 O O1D HEM . . . B 2 -22.152 18.834 -11.534 1 27.75 ? O1D HEM 148 A 1 HETATM 38 O O2D HEM . . . B 2 -22.241 17.819 -9.551 1 28.27 ? O2D HEM 148 A 1 HETATM 39 N NA HEM . . . B 2 -22.28 22.848 -4.41 1 25.05 ? NA HEM 148 A 1 HETATM 40 N NB HEM . . . B 2 -23.618 25.084 -3.376 1 22.59 ? NB HEM 148 A 1 HETATM 41 N NC HEM . . . B 2 -23.991 25.922 -6.026 1 24.72 ? NC HEM 148 A 1 HETATM 42 N ND HEM . . . B 2 -22.655 23.726 -7.094 1 27.04 ? ND HEM 148 A 1 HETATM 43 FE FE HEM . . . B 2 -22.928 24.481 -5.217 1 27.15 ? FE HEM 148 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #