data_4JE9 # _model_server_result.job_id DVeqaVBU1vT6Yf1DwCvU8Q _model_server_result.datetime_utc '2024-11-06 13:38:45' _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 4je9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":201}' # _entry.id 4JE9 # _exptl.entry_id 4JE9 _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 90 _cell.angle_gamma 90 _cell.entry_id 4JE9 _cell.length_a 56.166 _cell.length_b 87.788 _cell.length_c 96.046 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JE9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 3_554 -x,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -48.023 # 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 D 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 disulf ? disulf1 A SG CYS 81 A CYS 81 1_555 A SG CYS 81 A CYS 81 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? disulf ? disulf2 A SG CYS 96 A CYS 96 1_555 B SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.069 ? disulf ? disulf3 B SG CYS 81 B CYS 81 1_555 B SG CYS 81 B CYS 81 3_554 ? ? ? ? ? ? ? ? ? ? ? ? 2.101 ? metalc ? metalc1 A SD MET 7 A MET 7 1_555 C FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.407 ? metalc ? metalc2 A NE2 HIS 102 A HIS 102 1_555 C FE HEM . A HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? metalc ? metalc3 B SD MET 7 B MET 7 1_555 D FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.283 ? metalc ? metalc4 B NE2 HIS 102 B HIS 102 1_555 D FE HEM . B HEM 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.928 ? # _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 4JE9 _atom_sites.fract_transf_matrix[1][1] 0.017804 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011391 _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] 0.010412 _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 1 201 150 HEM HEM . D 2 HEM B 1 201 150 HEM HEM . E 3 HOH A 1 301 4 HOH HOH . E 3 HOH A 2 302 6 HOH HOH . E 3 HOH A 3 303 7 HOH HOH . E 3 HOH A 4 304 11 HOH HOH . E 3 HOH A 5 305 15 HOH HOH . E 3 HOH A 6 306 16 HOH HOH . E 3 HOH A 7 307 17 HOH HOH . E 3 HOH A 8 308 18 HOH HOH . E 3 HOH A 9 309 19 HOH HOH . E 3 HOH A 10 310 20 HOH HOH . E 3 HOH A 11 311 31 HOH HOH . E 3 HOH A 12 312 33 HOH HOH . E 3 HOH A 13 313 35 HOH HOH . E 3 HOH A 14 314 36 HOH HOH . E 3 HOH A 15 315 43 HOH HOH . E 3 HOH A 16 316 44 HOH HOH . E 3 HOH A 17 317 45 HOH HOH . E 3 HOH A 18 318 47 HOH HOH . F 3 HOH B 1 301 13 HOH HOH . F 3 HOH B 2 302 21 HOH HOH . F 3 HOH B 3 303 22 HOH HOH . F 3 HOH B 4 304 23 HOH HOH . F 3 HOH B 5 305 24 HOH HOH . F 3 HOH B 6 306 25 HOH HOH . F 3 HOH B 7 307 26 HOH HOH . F 3 HOH B 8 308 27 HOH HOH . F 3 HOH B 9 309 28 HOH HOH . F 3 HOH B 10 310 30 HOH HOH . F 3 HOH B 11 311 32 HOH HOH . F 3 HOH B 12 312 34 HOH HOH . F 3 HOH B 13 313 37 HOH HOH . F 3 HOH B 14 314 38 HOH HOH . F 3 HOH B 15 315 39 HOH HOH . F 3 HOH B 16 316 40 HOH HOH . F 3 HOH B 17 317 41 HOH HOH . F 3 HOH B 18 318 42 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 . . . D 2 -12.979 -22.859 -4.307 1 64.82 ? CHA HEM 201 B 1 HETATM 2 C CHB HEM . . . D 2 -10.234 -26.846 -4.871 1 55.72 ? CHB HEM 201 B 1 HETATM 3 C CHC HEM . . . D 2 -9.157 -25.276 -9.408 1 49.06 ? CHC HEM 201 B 1 HETATM 4 C CHD HEM . . . D 2 -11.715 -21.154 -8.779 1 60.66 ? CHD HEM 201 B 1 HETATM 5 C C1A HEM . . . D 2 -12.401 -24.107 -4.117 1 62.24 ? C1A HEM 201 B 1 HETATM 6 C C2A HEM . . . D 2 -12.677 -25.015 -3.017 1 62.64 ? C2A HEM 201 B 1 HETATM 7 C C3A HEM . . . D 2 -11.928 -26.122 -3.16 1 57.2 ? C3A HEM 201 B 1 HETATM 8 C C4A HEM . . . D 2 -11.165 -25.939 -4.358 1 56.17 ? C4A HEM 201 B 1 HETATM 9 C CMA HEM . . . D 2 -11.88 -27.399 -2.266 1 57.21 ? CMA HEM 201 B 1 HETATM 10 C CAA HEM . . . D 2 -13.75 -24.629 -1.964 1 66.09 ? CAA HEM 201 B 1 HETATM 11 C CBA HEM . . . D 2 -13.512 -24.992 -0.522 1 73.28 ? CBA HEM 201 B 1 HETATM 12 C CGA HEM . . . D 2 -12.376 -24.21 0.052 1 74.72 ? CGA HEM 201 B 1 HETATM 13 O O1A HEM . . . D 2 -12.627 -23.051 0.518 1 80.9 ? O1A HEM 201 B 1 HETATM 14 O O2A HEM . . . D 2 -11.256 -24.797 0.038 1 72.75 ? O2A HEM 201 B 1 HETATM 15 C C1B HEM . . . D 2 -9.69 -26.785 -6.164 1 53.44 ? C1B HEM 201 B 1 HETATM 16 C C2B HEM . . . D 2 -8.802 -27.743 -6.791 1 50.84 ? C2B HEM 201 B 1 HETATM 17 C C3B HEM . . . D 2 -8.546 -27.345 -8.014 1 50.58 ? C3B HEM 201 B 1 HETATM 18 C C4B HEM . . . D 2 -9.217 -26.051 -8.24 1 54.25 ? C4B HEM 201 B 1 HETATM 19 C CMB HEM . . . D 2 -8.249 -29.044 -6.19 1 53.12 ? CMB HEM 201 B 1 HETATM 20 C CAB HEM . . . D 2 -7.613 -28.095 -9.006 1 51.21 ? CAB HEM 201 B 1 HETATM 21 C CBB HEM . . . D 2 -7.812 -29.367 -9.447 1 48.38 ? CBB HEM 201 B 1 HETATM 22 C C1C HEM . . . D 2 -9.759 -24.037 -9.627 1 57.33 ? C1C HEM 201 B 1 HETATM 23 C C2C HEM . . . D 2 -9.648 -23.258 -10.856 1 57.32 ? C2C HEM 201 B 1 HETATM 24 C C3C HEM . . . D 2 -10.368 -22.14 -10.731 1 57.49 ? C3C HEM 201 B 1 HETATM 25 C C4C HEM . . . D 2 -10.927 -22.143 -9.386 1 58.9 ? C4C HEM 201 B 1 HETATM 26 C CMC HEM . . . D 2 -8.835 -23.771 -12.077 1 54.91 ? CMC HEM 201 B 1 HETATM 27 C CAC HEM . . . D 2 -10.566 -20.998 -11.796 1 59.14 ? CAC HEM 201 B 1 HETATM 28 C CBC HEM . . . D 2 -10.146 -21.098 -13.074 1 61.42 ? CBC HEM 201 B 1 HETATM 29 C C1D HEM . . . D 2 -12.284 -21.225 -7.511 1 63.02 ? C1D HEM 201 B 1 HETATM 30 C C2D HEM . . . D 2 -13.107 -20.188 -6.896 1 66.85 ? C2D HEM 201 B 1 HETATM 31 C C3D HEM . . . D 2 -13.514 -20.726 -5.503 1 65.98 ? C3D HEM 201 B 1 HETATM 32 C C4D HEM . . . D 2 -12.886 -22.016 -5.403 1 63.18 ? C4D HEM 201 B 1 HETATM 33 C CMD HEM . . . D 2 -13.484 -18.847 -7.558 1 66.87 ? CMD HEM 201 B 1 HETATM 34 C CAD HEM . . . D 2 -14.4 -20.054 -4.404 1 71.48 ? CAD HEM 201 B 1 HETATM 35 C CBD HEM . . . D 2 -15.869 -20.22 -4.789 1 70.67 ? CBD HEM 201 B 1 HETATM 36 C CGD HEM . . . D 2 -16.846 -19.874 -3.685 1 73.59 ? CGD HEM 201 B 1 HETATM 37 O O1D HEM . . . D 2 -17.993 -20.379 -3.766 1 74.74 ? O1D HEM 201 B 1 HETATM 38 O O2D HEM . . . D 2 -16.521 -19.113 -2.741 1 74.81 ? O2D HEM 201 B 1 HETATM 39 N NA HEM . . . D 2 -11.482 -24.7 -4.92 1 58.44 ? NA HEM 201 B 1 HETATM 40 N NB HEM . . . D 2 -9.928 -25.768 -7.079 1 52.18 ? NB HEM 201 B 1 HETATM 41 N NC HEM . . . D 2 -10.536 -23.301 -8.744 1 56.87 ? NC HEM 201 B 1 HETATM 42 N ND HEM . . . D 2 -12.191 -22.28 -6.588 1 61.71 ? ND HEM 201 B 1 HETATM 43 FE FE HEM . . . D 2 -11.078 -24.015 -6.793 1 57.57 ? FE HEM 201 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #