data_3QM4 # _model_server_result.job_id pI7nPJJKWI2bbjOCdAwaWw _model_server_result.datetime_utc '2024-11-24 19:46:49' _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 3qm4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":502}' # _entry.id 3QM4 # _exptl.entry_id 3QM4 _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 134.97 _cell.angle_gamma 90 _cell.entry_id 3QM4 _cell.length_a 194.54 _cell.length_b 55.07 _cell.length_c 145.87 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3QM4 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 SG CYS 421 A CYS 443 1_555 C FE HEM . A HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.34 ? metalc ? metalc2 C FE HEM . A HEM 502 1_555 D N2 PN0 . A PN0 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.205 ? metalc ? metalc3 B NE2 HIS 236 B HIS 258 1_555 G NI NI . B NI 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc4 B OD1 ASP 248 B ASP 270 1_555 G NI NI . B NI 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? metalc ? metalc5 B OE1 GLU 251 B GLU 273 1_555 G NI NI . B NI 600 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.991 ? metalc ? metalc6 B SG CYS 421 B CYS 443 1_555 E FE HEM . B HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.336 ? metalc ? metalc7 E FE HEM . B HEM 502 1_555 F N2 PN0 . B PN0 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? # _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 3QM4 _atom_sites.fract_transf_matrix[1][1] 0.00514 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005135 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.018159 _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] 0.00969 _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 1 502 500 HEM HEM . D 3 PN0 A 1 503 501 PN0 PN0 . E 2 HEM B 1 502 500 HEM HEM . F 3 PN0 B 1 503 501 PN0 PN0 . G 4 NI B 1 600 600 NI NI . H 5 HOH A 1 701 701 HOH HOH . H 5 HOH A 2 702 702 HOH HOH . H 5 HOH A 3 703 703 HOH HOH . I 5 HOH B 1 704 704 HOH HOH . I 5 HOH B 2 705 705 HOH HOH . I 5 HOH B 3 706 706 HOH HOH . I 5 HOH B 4 707 707 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 -10.148 -18.114 35.56 1 39.18 ? CHA HEM 502 A 1 HETATM 2 C CHB HEM . . . C 2 -14.781 -18.985 35.528 1 42.11 ? CHB HEM 502 A 1 HETATM 3 C CHC HEM . . . C 2 -15.405 -15.464 38.497 1 43.13 ? CHC HEM 502 A 1 HETATM 4 C CHD HEM . . . C 2 -10.78 -14.945 38.911 1 41.95 ? CHD HEM 502 A 1 HETATM 5 C C1A HEM . . . C 2 -11.352 -18.717 35.204 1 41.41 ? C1A HEM 502 A 1 HETATM 6 C C2A HEM . . . C 2 -11.552 -19.828 34.344 1 40.11 ? C2A HEM 502 A 1 HETATM 7 C C3A HEM . . . C 2 -12.892 -20.071 34.365 1 41.06 ? C3A HEM 502 A 1 HETATM 8 C C4A HEM . . . C 2 -13.446 -19.119 35.22 1 42.52 ? C4A HEM 502 A 1 HETATM 9 C CMA HEM . . . C 2 -13.684 -21.194 33.593 1 45.5 ? CMA HEM 502 A 1 HETATM 10 C CAA HEM . . . C 2 -10.478 -20.569 33.578 1 38.91 ? CAA HEM 502 A 1 HETATM 11 C CBA HEM . . . C 2 -9.856 -21.709 34.294 1 40.96 ? CBA HEM 502 A 1 HETATM 12 C CGA HEM . . . C 2 -8.807 -22.407 33.463 1 46.3 ? CGA HEM 502 A 1 HETATM 13 O O1A HEM . . . C 2 -7.831 -21.77 33.022 1 45.86 ? O1A HEM 502 A 1 HETATM 14 O O2A HEM . . . C 2 -8.924 -23.607 33.202 1 49.17 ? O2A HEM 502 A 1 HETATM 15 C C1B HEM . . . C 2 -15.472 -17.898 36.023 1 42.39 ? C1B HEM 502 A 1 HETATM 16 C C2B HEM . . . C 2 -16.871 -17.826 36.189 1 41.79 ? C2B HEM 502 A 1 HETATM 17 C C3B HEM . . . C 2 -17.073 -16.777 37.124 1 41.43 ? C3B HEM 502 A 1 HETATM 18 C C4B HEM . . . C 2 -15.751 -16.301 37.437 1 42.95 ? C4B HEM 502 A 1 HETATM 19 C CMB HEM . . . C 2 -17.859 -18.714 35.487 1 43.09 ? CMB HEM 502 A 1 HETATM 20 C CAB HEM . . . C 2 -18.274 -16.277 37.657 1 38.6 ? CAB HEM 502 A 1 HETATM 21 C CBB HEM . . . C 2 -19.552 -16.964 37.929 1 39.81 ? CBB HEM 502 A 1 HETATM 22 C C1C HEM . . . C 2 -14.216 -14.794 38.774 1 42.92 ? C1C HEM 502 A 1 HETATM 23 C C2C HEM . . . C 2 -14.052 -13.791 39.724 1 43.43 ? C2C HEM 502 A 1 HETATM 24 C C3C HEM . . . C 2 -12.671 -13.583 39.833 1 43.39 ? C3C HEM 502 A 1 HETATM 25 C C4C HEM . . . C 2 -12.097 -14.498 38.923 1 42.83 ? C4C HEM 502 A 1 HETATM 26 C CMC HEM . . . C 2 -15.187 -13.043 40.511 1 44.68 ? CMC HEM 502 A 1 HETATM 27 C CAC HEM . . . C 2 -11.922 -12.726 40.598 1 45.45 ? CAC HEM 502 A 1 HETATM 28 C CBC HEM . . . C 2 -11.82 -12.621 42.013 1 50.2 ? CBC HEM 502 A 1 HETATM 29 C C1D HEM . . . C 2 -10.17 -15.781 38.06 1 41.26 ? C1D HEM 502 A 1 HETATM 30 C C2D HEM . . . C 2 -8.788 -15.88 37.883 1 38.27 ? C2D HEM 502 A 1 HETATM 31 C C3D HEM . . . C 2 -8.568 -16.899 37.003 1 36.8 ? C3D HEM 502 A 1 HETATM 32 C C4D HEM . . . C 2 -9.861 -17.378 36.672 1 39.42 ? C4D HEM 502 A 1 HETATM 33 C CMD HEM . . . C 2 -7.712 -15.027 38.542 1 37.68 ? CMD HEM 502 A 1 HETATM 34 C CAD HEM . . . C 2 -7.218 -17.409 36.493 1 33.55 ? CAD HEM 502 A 1 HETATM 35 C CBD HEM . . . C 2 -6.658 -18.533 37.41 1 34.08 ? CBD HEM 502 A 1 HETATM 36 C CGD HEM . . . C 2 -5.285 -19.132 37.031 1 37.48 ? CGD HEM 502 A 1 HETATM 37 O O1D HEM . . . C 2 -4.628 -19.714 37.85 1 42.37 ? O1D HEM 502 A 1 HETATM 38 O O2D HEM . . . C 2 -4.843 -18.994 35.87 1 36.68 ? O2D HEM 502 A 1 HETATM 39 N NA HEM . . . C 2 -12.531 -18.319 35.714 1 41.82 ? NA HEM 502 A 1 HETATM 40 N NB HEM . . . C 2 -14.847 -16.976 36.775 1 41.26 ? NB HEM 502 A 1 HETATM 41 N NC HEM . . . C 2 -13.066 -15.203 38.307 1 41.57 ? NC HEM 502 A 1 HETATM 42 N ND HEM . . . C 2 -10.784 -16.676 37.332 1 40.91 ? ND HEM 502 A 1 HETATM 43 FE FE HEM . . . C 2 -12.824 -16.785 37.045 1 42.93 ? FE HEM 502 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #