data_5WHQ # _model_server_result.job_id nVpwxzhz5KRu78vX6IST6g _model_server_result.datetime_utc '2025-03-21 18:06:34' _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 5whq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":801}' # _entry.id 5WHQ # _exptl.entry_id 5WHQ _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 5WHQ _cell.length_a 104.306 _cell.length_b 115.648 _cell.length_c 123.035 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5WHQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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,G,H _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 covale ? covale1 A CH2 TRP 105 A TRP 90 1_555 A CE2 TYR 253 A TYR 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale2 A CE1 TYR 253 A TYR 238 1_555 A SD MET 279 A MET 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.64 ? covale ? covale3 B CH2 TRP 105 B TRP 90 1_555 B CE2 TYR 253 B TYR 238 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.552 ? covale ? covale4 B CE1 TYR 253 B TYR 238 1_555 B SD MET 279 B MET 264 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.64 ? metalc ? metalc1 A OE1 GLU 122 A GLU 107 1_555 D K K . A K 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.982 ? metalc ? metalc2 A OE2 GLU 122 A GLU 107 1_555 D K K . A K 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.603 ? metalc ? metalc3 A NE2 HIS 294 A HIS 279 1_555 C FE HEM . A HEM 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.876 ? metalc ? metalc4 A O SER 509 A SER 494 1_555 D K K . A K 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.449 ? metalc ? metalc5 D K K . A K 802 1_555 G O HOH . A HOH 908 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc6 D K K . A K 802 1_555 G O HOH . A HOH 914 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.328 ? metalc ? metalc7 B OE1 GLU 122 B GLU 107 1_555 F K K . B K 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.14 ? metalc ? metalc8 B OE2 GLU 122 B GLU 107 1_555 F K K . B K 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.21 ? metalc ? metalc9 B NE2 HIS 294 B HIS 279 1_555 E FE HEM . B HEM 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.84 ? metalc ? metalc10 B O SER 509 B SER 494 1_555 F K K . B K 802 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.459 ? metalc ? metalc11 F K K . B K 802 1_555 H O HOH . B HOH 911 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.497 ? metalc ? metalc12 F K K . B K 802 1_555 H O HOH . B HOH 924 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.211 ? # _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 5WHQ _atom_sites.fract_transf_matrix[1][1] 0.009587 _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] 0.008647 _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] 0.008128 _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 1 801 800 HEM HEM . D 3 K A 1 802 900 K K . E 2 HEM B 1 801 800 HEM HEM . F 3 K B 1 802 900 K K . G 4 HOH A 1 901 78 HOH HOH . G 4 HOH A 2 902 38 HOH HOH . G 4 HOH A 3 903 68 HOH HOH . G 4 HOH A 4 904 41 HOH HOH . G 4 HOH A 5 905 57 HOH HOH . G 4 HOH A 6 906 4 HOH HOH . G 4 HOH A 7 907 34 HOH HOH . G 4 HOH A 8 908 29 HOH HOH . G 4 HOH A 9 909 70 HOH HOH . G 4 HOH A 10 910 32 HOH HOH . G 4 HOH A 11 911 8 HOH HOH . G 4 HOH A 12 912 1 HOH HOH . G 4 HOH A 13 913 62 HOH HOH . G 4 HOH A 14 914 28 HOH HOH . G 4 HOH A 15 915 22 HOH HOH . G 4 HOH A 16 916 18 HOH HOH . G 4 HOH A 17 917 9 HOH HOH . G 4 HOH A 18 918 63 HOH HOH . G 4 HOH A 19 919 6 HOH HOH . G 4 HOH A 20 920 42 HOH HOH . G 4 HOH A 21 921 40 HOH HOH . G 4 HOH A 22 922 21 HOH HOH . G 4 HOH A 23 923 65 HOH HOH . G 4 HOH A 24 924 51 HOH HOH . G 4 HOH A 25 925 27 HOH HOH . G 4 HOH A 26 926 37 HOH HOH . G 4 HOH A 27 927 17 HOH HOH . G 4 HOH A 28 928 44 HOH HOH . G 4 HOH A 29 929 19 HOH HOH . G 4 HOH A 30 930 48 HOH HOH . G 4 HOH A 31 931 15 HOH HOH . G 4 HOH A 32 932 69 HOH HOH . H 4 HOH B 1 901 30 HOH HOH . H 4 HOH B 2 902 49 HOH HOH . H 4 HOH B 3 903 23 HOH HOH . H 4 HOH B 4 904 2 HOH HOH . H 4 HOH B 5 905 36 HOH HOH . H 4 HOH B 6 906 56 HOH HOH . H 4 HOH B 7 907 3 HOH HOH . H 4 HOH B 8 908 53 HOH HOH . H 4 HOH B 9 909 67 HOH HOH . H 4 HOH B 10 910 77 HOH HOH . H 4 HOH B 11 911 52 HOH HOH . H 4 HOH B 12 912 11 HOH HOH . H 4 HOH B 13 913 55 HOH HOH . H 4 HOH B 14 914 64 HOH HOH . H 4 HOH B 15 915 5 HOH HOH . H 4 HOH B 16 916 59 HOH HOH . H 4 HOH B 17 917 46 HOH HOH . H 4 HOH B 18 918 33 HOH HOH . H 4 HOH B 19 919 14 HOH HOH . H 4 HOH B 20 920 76 HOH HOH . H 4 HOH B 21 921 39 HOH HOH . H 4 HOH B 22 922 12 HOH HOH . H 4 HOH B 23 923 50 HOH HOH . H 4 HOH B 24 924 45 HOH HOH . H 4 HOH B 25 925 54 HOH HOH . H 4 HOH B 26 926 7 HOH HOH . H 4 HOH B 27 927 31 HOH HOH . H 4 HOH B 28 928 75 HOH HOH . H 4 HOH B 29 929 43 HOH HOH . H 4 HOH B 30 930 71 HOH HOH . H 4 HOH B 31 931 35 HOH HOH . H 4 HOH B 32 932 79 HOH HOH . H 4 HOH B 33 933 60 HOH HOH . H 4 HOH B 34 934 20 HOH HOH . H 4 HOH B 35 935 24 HOH HOH . H 4 HOH B 36 936 47 HOH HOH . H 4 HOH B 37 937 72 HOH HOH . H 4 HOH B 38 938 16 HOH HOH . H 4 HOH B 39 939 74 HOH HOH . H 4 HOH B 40 940 26 HOH HOH . H 4 HOH B 41 941 13 HOH HOH . H 4 HOH B 42 942 25 HOH HOH . H 4 HOH B 43 943 61 HOH HOH . H 4 HOH B 44 944 80 HOH HOH . H 4 HOH B 45 945 73 HOH HOH . H 4 HOH B 46 946 10 HOH HOH . H 4 HOH B 47 947 66 HOH HOH . H 4 HOH B 48 948 58 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 -18.939 -2.18 -31.64 1 45.23 ? CHA HEM 801 A 1 HETATM 2 C CHB HEM . . . C 2 -16.852 0.558 -28.266 1 43.81 ? CHB HEM 801 A 1 HETATM 3 C CHC HEM . . . C 2 -20.185 -1.079 -25.131 1 44.68 ? CHC HEM 801 A 1 HETATM 4 C CHD HEM . . . C 2 -22.897 -2.432 -28.871 1 45.11 ? CHD HEM 801 A 1 HETATM 5 C C1A HEM . . . C 2 -18.068 -1.337 -30.997 1 45.14 ? C1A HEM 801 A 1 HETATM 6 C C2A HEM . . . C 2 -16.971 -0.672 -31.599 1 43.94 ? C2A HEM 801 A 1 HETATM 7 C C3A HEM . . . C 2 -16.378 0.102 -30.659 1 42.97 ? C3A HEM 801 A 1 HETATM 8 C C4A HEM . . . C 2 -17.131 -0.057 -29.467 1 43.74 ? C4A HEM 801 A 1 HETATM 9 C CMA HEM . . . C 2 -15.16 0.974 -30.857 1 40.24 ? CMA HEM 801 A 1 HETATM 10 C CAA HEM . . . C 2 -16.546 -0.827 -33.033 1 44.2 ? CAA HEM 801 A 1 HETATM 11 C CBA HEM . . . C 2 -17.592 -0.184 -33.958 1 43.86 ? CBA HEM 801 A 1 HETATM 12 C CGA HEM . . . C 2 -16.988 0.22 -35.27 1 42.13 ? CGA HEM 801 A 1 HETATM 13 O O1A HEM . . . C 2 -17.488 -0.149 -36.366 1 40.89 ? O1A HEM 801 A 1 HETATM 14 O O2A HEM . . . C 2 -15.984 0.928 -35.243 1 41.37 ? O2A HEM 801 A 1 HETATM 15 C C1B HEM . . . C 2 -17.57 0.307 -27.084 1 45.05 ? C1B HEM 801 A 1 HETATM 16 C C2B HEM . . . C 2 -17.175 0.776 -25.802 1 46.25 ? C2B HEM 801 A 1 HETATM 17 C C3B HEM . . . C 2 -18.092 0.32 -24.906 1 46.31 ? C3B HEM 801 A 1 HETATM 18 C C4B HEM . . . C 2 -19.071 -0.467 -25.681 1 44.66 ? C4B HEM 801 A 1 HETATM 19 C CMB HEM . . . C 2 -15.961 1.622 -25.507 1 48.56 ? CMB HEM 801 A 1 HETATM 20 C CAB HEM . . . C 2 -18.13 0.572 -23.453 1 49.39 ? CAB HEM 801 A 1 HETATM 21 C CBB HEM . . . C 2 -17.284 1.329 -22.762 1 50.2 ? CBB HEM 801 A 1 HETATM 22 C C1C HEM . . . C 2 -21.273 -1.529 -25.865 1 45.1 ? C1C HEM 801 A 1 HETATM 23 C C2C HEM . . . C 2 -22.589 -1.697 -25.371 1 44.13 ? C2C HEM 801 A 1 HETATM 24 C C3C HEM . . . C 2 -23.377 -2.069 -26.448 1 43.3 ? C3C HEM 801 A 1 HETATM 25 C C4C HEM . . . C 2 -22.532 -2.102 -27.597 1 45.29 ? C4C HEM 801 A 1 HETATM 26 C CMC HEM . . . C 2 -23.04 -1.508 -23.943 1 44.53 ? CMC HEM 801 A 1 HETATM 27 C CAC HEM . . . C 2 -24.819 -2.355 -26.44 1 41.34 ? CAC HEM 801 A 1 HETATM 28 C CBC HEM . . . C 2 -25.61 -2.212 -25.386 1 40.42 ? CBC HEM 801 A 1 HETATM 29 C C1D HEM . . . C 2 -21.981 -2.497 -29.923 1 45.41 ? C1D HEM 801 A 1 HETATM 30 C C2D HEM . . . C 2 -22.344 -3.092 -31.216 1 46.71 ? C2D HEM 801 A 1 HETATM 31 C C3D HEM . . . C 2 -21.236 -3.032 -31.987 1 48.22 ? C3D HEM 801 A 1 HETATM 32 C C4D HEM . . . C 2 -20.198 -2.426 -31.147 1 46.09 ? C4D HEM 801 A 1 HETATM 33 C CMD HEM . . . C 2 -23.693 -3.647 -31.615 1 45.84 ? CMD HEM 801 A 1 HETATM 34 C CAD HEM . . . C 2 -21.09 -3.512 -33.41 1 49.72 ? CAD HEM 801 A 1 HETATM 35 C CBD HEM . . . C 2 -20.849 -2.349 -34.36 1 52.02 ? CBD HEM 801 A 1 HETATM 36 C CGD HEM . . . C 2 -21.195 -2.763 -35.779 1 55.89 ? CGD HEM 801 A 1 HETATM 37 O O1D HEM . . . C 2 -21.279 -3.967 -36.124 1 56.65 ? O1D HEM 801 A 1 HETATM 38 O O2D HEM . . . C 2 -21.408 -1.885 -36.648 1 59.91 ? O2D HEM 801 A 1 HETATM 39 N NA HEM . . . C 2 -18.174 -0.911 -29.708 1 44.85 ? NA HEM 801 A 1 HETATM 40 N NB HEM . . . C 2 -18.682 -0.415 -26.944 1 44.16 ? NB HEM 801 A 1 HETATM 41 N NC HEM . . . C 2 -21.279 -1.753 -27.208 1 45.64 ? NC HEM 801 A 1 HETATM 42 N ND HEM . . . C 2 -20.684 -2.118 -29.933 1 45.82 ? ND HEM 801 A 1 HETATM 43 FE FE HEM . . . C 2 -19.716 -1.318 -28.504 1 49.49 ? FE HEM 801 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 311 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 43 #