data_8STW # _model_server_result.job_id vhWxiTSVfleMjctpwy4FFg _model_server_result.datetime_utc '2024-11-01 07:22:30' _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 8stw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":502}' # _entry.id 8STW # _exptl.entry_id 8STW _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'PROTOPORPHYRIN IX CONTAINING FE' _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 106.15 _cell.angle_beta 105.49 _cell.angle_gamma 107.47 _cell.entry_id 8STW _cell.length_a 89.462 _cell.length_b 90.189 _cell.length_c 104.224 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8STW _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X _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 ? 3 H N N ? 3 J N N ? 3 L N N ? 3 N N N ? 3 P N N ? 3 R 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 NZ LYS 76 A LYS 119 1_555 G C4A PLP . A PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.286 ? covale ? covale2 B NZ LYS 76 B LYS 119 1_555 I C4A PLP . B PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.274 ? covale ? covale3 C NZ LYS 76 C LYS 119 1_555 K C4A PLP . C PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.255 ? covale ? covale4 D NZ LYS 76 D LYS 119 1_555 M C4A PLP . D PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.254 ? covale ? covale5 E NZ LYS 76 E LYS 119 1_555 O C4A PLP . E PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.242 ? covale ? covale6 F NZ LYS 76 F LYS 119 1_555 Q C4A PLP . F PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.251 ? metalc ? metalc1 A SG CYS 9 A CYS 52 1_555 H FE HEM . A HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.329 ? metalc ? metalc2 A NE2 HIS 22 A HIS 65 1_555 H FE HEM . A HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? metalc ? metalc3 B SG CYS 9 B CYS 52 1_555 J FE HEM . B HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc4 B NE2 HIS 22 B HIS 65 1_555 J FE HEM . B HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.155 ? metalc ? metalc5 C SG CYS 9 C CYS 52 1_555 L FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.429 ? metalc ? metalc6 C NE2 HIS 22 C HIS 65 1_555 L FE HEM . C HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.977 ? metalc ? metalc7 D SG CYS 9 D CYS 52 1_555 N FE HEM . D HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.342 ? metalc ? metalc8 D NE2 HIS 22 D HIS 65 1_555 N FE HEM . D HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.097 ? metalc ? metalc9 E SG CYS 9 E CYS 52 1_555 P FE HEM . E HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.422 ? metalc ? metalc10 E NE2 HIS 22 E HIS 65 1_555 P FE HEM . E HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc11 F SG CYS 9 F CYS 52 1_555 R FE HEM . F HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.262 ? metalc ? metalc12 F NE2 HIS 22 F HIS 65 1_555 R FE HEM . F HEM 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? # _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 8STW _atom_sites.fract_transf_matrix[1][1] 0.011178 _atom_sites.fract_transf_matrix[1][2] 0.003519 _atom_sites.fract_transf_matrix[1][3] 0.004854 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011624 _atom_sites.fract_transf_matrix[2][3] 0.004922 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.010812 _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 G 2 PLP A 1 501 501 PLP PLP . H 3 HEM A 1 502 502 HEM HEM . I 2 PLP B 1 501 501 PLP PLP . J 3 HEM B 1 502 502 HEM HEM . K 2 PLP C 1 501 501 PLP PLP . L 3 HEM C 1 502 502 HEM HEM . M 2 PLP D 1 501 501 PLP PLP . N 3 HEM D 1 502 502 HEM HEM . O 2 PLP E 1 501 501 PLP PLP . P 3 HEM E 1 502 502 HEM HEM . Q 2 PLP F 1 501 501 PLP PLP . R 3 HEM F 1 502 502 HEM HEM . S 4 HOH A 1 601 81 HOH HOH . S 4 HOH A 2 602 19 HOH HOH . S 4 HOH A 3 603 78 HOH HOH . S 4 HOH A 4 604 22 HOH HOH . S 4 HOH A 5 605 59 HOH HOH . S 4 HOH A 6 606 36 HOH HOH . S 4 HOH A 7 607 38 HOH HOH . S 4 HOH A 8 608 37 HOH HOH . S 4 HOH A 9 609 66 HOH HOH . S 4 HOH A 10 610 74 HOH HOH . S 4 HOH A 11 611 15 HOH HOH . S 4 HOH A 12 612 35 HOH HOH . S 4 HOH A 13 613 34 HOH HOH . S 4 HOH A 14 614 14 HOH HOH . S 4 HOH A 15 615 29 HOH HOH . S 4 HOH A 16 616 10 HOH HOH . S 4 HOH A 17 617 80 HOH HOH . S 4 HOH A 18 618 75 HOH HOH . S 4 HOH A 19 619 71 HOH HOH . T 4 HOH B 1 601 47 HOH HOH . T 4 HOH B 2 602 25 HOH HOH . T 4 HOH B 3 603 43 HOH HOH . T 4 HOH B 4 604 60 HOH HOH . T 4 HOH B 5 605 84 HOH HOH . T 4 HOH B 6 606 39 HOH HOH . T 4 HOH B 7 607 83 HOH HOH . T 4 HOH B 8 608 56 HOH HOH . T 4 HOH B 9 609 77 HOH HOH . T 4 HOH B 10 610 69 HOH HOH . U 4 HOH C 1 601 50 HOH HOH . U 4 HOH C 2 602 33 HOH HOH . U 4 HOH C 3 603 68 HOH HOH . U 4 HOH C 4 604 48 HOH HOH . U 4 HOH C 5 605 4 HOH HOH . U 4 HOH C 6 606 1 HOH HOH . U 4 HOH C 7 607 11 HOH HOH . U 4 HOH C 8 608 6 HOH HOH . U 4 HOH C 9 609 42 HOH HOH . U 4 HOH C 10 610 16 HOH HOH . U 4 HOH C 11 611 51 HOH HOH . U 4 HOH C 12 612 62 HOH HOH . U 4 HOH C 13 613 45 HOH HOH . U 4 HOH C 14 614 7 HOH HOH . U 4 HOH C 15 615 18 HOH HOH . U 4 HOH C 16 616 24 HOH HOH . V 4 HOH D 1 601 41 HOH HOH . V 4 HOH D 2 602 44 HOH HOH . V 4 HOH D 3 603 9 HOH HOH . V 4 HOH D 4 604 8 HOH HOH . V 4 HOH D 5 605 26 HOH HOH . V 4 HOH D 6 606 2 HOH HOH . V 4 HOH D 7 607 31 HOH HOH . V 4 HOH D 8 608 27 HOH HOH . V 4 HOH D 9 609 55 HOH HOH . V 4 HOH D 10 610 13 HOH HOH . W 4 HOH E 1 601 64 HOH HOH . W 4 HOH E 2 602 67 HOH HOH . W 4 HOH E 3 603 3 HOH HOH . W 4 HOH E 4 604 23 HOH HOH . W 4 HOH E 5 605 63 HOH HOH . W 4 HOH E 6 606 70 HOH HOH . X 4 HOH F 1 601 72 HOH HOH . X 4 HOH F 2 602 58 HOH HOH . X 4 HOH F 3 603 76 HOH HOH . X 4 HOH F 4 604 28 HOH HOH . X 4 HOH F 5 605 49 HOH HOH . X 4 HOH F 6 606 5 HOH HOH . X 4 HOH F 7 607 65 HOH HOH . X 4 HOH F 8 608 54 HOH HOH . X 4 HOH F 9 609 46 HOH HOH . X 4 HOH F 10 610 40 HOH HOH . X 4 HOH F 11 611 79 HOH HOH . X 4 HOH F 12 612 53 HOH HOH . X 4 HOH F 13 613 21 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 . . . R 3 19.833 -37.84 59.59 1 39.93 ? CHA HEM 502 F 1 HETATM 2 C CHB HEM . . . R 3 22.491 -41.531 61.067 1 40.21 ? CHB HEM 502 F 1 HETATM 3 C CHC HEM . . . R 3 21.27 -43.888 56.968 1 40.56 ? CHC HEM 502 F 1 HETATM 4 C CHD HEM . . . R 3 19.275 -39.866 55.231 1 32.89 ? CHD HEM 502 F 1 HETATM 5 C C1A HEM . . . R 3 20.614 -38.669 60.348 1 40.12 ? C1A HEM 502 F 1 HETATM 6 C C2A HEM . . . R 3 21.124 -38.314 61.609 1 49.34 ? C2A HEM 502 F 1 HETATM 7 C C3A HEM . . . R 3 21.907 -39.369 62.027 1 49.08 ? C3A HEM 502 F 1 HETATM 8 C C4A HEM . . . R 3 21.826 -40.344 61.025 1 40.05 ? C4A HEM 502 F 1 HETATM 9 C CMA HEM . . . R 3 22.719 -39.477 63.327 1 43.6 ? CMA HEM 502 F 1 HETATM 10 C CAA HEM . . . R 3 20.982 -36.933 62.279 1 50.74 ? CAA HEM 502 F 1 HETATM 11 C CBA HEM . . . R 3 19.975 -36.576 63.356 1 54.9 ? CBA HEM 502 F 1 HETATM 12 C CGA HEM . . . R 3 20.456 -35.244 63.904 1 52.06 ? CGA HEM 502 F 1 HETATM 13 O O1A HEM . . . R 3 20.187 -34.168 63.34 1 48.47 ? O1A HEM 502 F 1 HETATM 14 O O2A HEM . . . R 3 21.137 -35.228 64.944 1 54.88 ? O2A HEM 502 F 1 HETATM 15 C C1B HEM . . . R 3 22.401 -42.477 60.064 1 40.34 ? C1B HEM 502 F 1 HETATM 16 C C2B HEM . . . R 3 23.057 -43.729 60.168 1 42.58 ? C2B HEM 502 F 1 HETATM 17 C C3B HEM . . . R 3 22.732 -44.451 59.024 1 41.16 ? C3B HEM 502 F 1 HETATM 18 C C4B HEM . . . R 3 21.829 -43.545 58.228 1 41.8 ? C4B HEM 502 F 1 HETATM 19 C CMB HEM . . . R 3 23.957 -44.148 61.308 1 39.9 ? CMB HEM 502 F 1 HETATM 20 C CAB HEM . . . R 3 23.174 -45.788 58.552 1 34.77 ? CAB HEM 502 F 1 HETATM 21 C CBB HEM . . . R 3 24.225 -46.43 59.011 1 36.4 ? CBB HEM 502 F 1 HETATM 22 C C1C HEM . . . R 3 20.598 -43.017 56.106 1 38.72 ? C1C HEM 502 F 1 HETATM 23 C C2C HEM . . . R 3 20.113 -43.334 54.816 1 35.06 ? C2C HEM 502 F 1 HETATM 24 C C3C HEM . . . R 3 19.52 -42.197 54.307 1 34.18 ? C3C HEM 502 F 1 HETATM 25 C C4C HEM . . . R 3 19.681 -41.174 55.31 1 32.03 ? C4C HEM 502 F 1 HETATM 26 C CMC HEM . . . R 3 20.237 -44.694 54.196 1 33.13 ? CMC HEM 502 F 1 HETATM 27 C CAC HEM . . . R 3 18.93 -42.005 52.958 1 35.11 ? CAC HEM 502 F 1 HETATM 28 C CBC HEM . . . R 3 18.988 -42.857 51.938 1 32.41 ? CBC HEM 502 F 1 HETATM 29 C C1D HEM . . . R 3 19.301 -38.978 56.318 1 31.19 ? C1D HEM 502 F 1 HETATM 30 C C2D HEM . . . R 3 18.746 -37.633 56.204 1 30.01 ? C2D HEM 502 F 1 HETATM 31 C C3D HEM . . . R 3 18.877 -37.08 57.453 1 31.11 ? C3D HEM 502 F 1 HETATM 32 C C4D HEM . . . R 3 19.502 -38.107 58.271 1 34.55 ? C4D HEM 502 F 1 HETATM 33 C CMD HEM . . . R 3 18.154 -36.994 54.943 1 27.46 ? CMD HEM 502 F 1 HETATM 34 C CAD HEM . . . R 3 18.505 -35.691 57.975 1 28.04 ? CAD HEM 502 F 1 HETATM 35 C CBD HEM . . . R 3 19.74 -34.779 57.98 1 30.47 ? CBD HEM 502 F 1 HETATM 36 C CGD HEM . . . R 3 19.577 -33.555 58.873 1 32.94 ? CGD HEM 502 F 1 HETATM 37 O O1D HEM . . . R 3 18.58 -33.485 59.667 1 29.6 ? O1D HEM 502 F 1 HETATM 38 O O2D HEM . . . R 3 20.485 -32.646 58.83 1 32.15 ? O2D HEM 502 F 1 HETATM 39 N NA HEM . . . R 3 21.037 -39.908 60.017 1 39.55 ? NA HEM 502 F 1 HETATM 40 N NB HEM . . . R 3 21.69 -42.409 58.926 1 38.85 ? NB HEM 502 F 1 HETATM 41 N NC HEM . . . R 3 20.347 -41.711 56.388 1 36.94 ? NC HEM 502 F 1 HETATM 42 N ND HEM . . . R 3 19.747 -39.204 57.57 1 33.6 ? ND HEM 502 F 1 HETATM 43 FE FE HEM . . . R 3 20.584 -40.763 58.265 1 28.99 ? FE HEM 502 F 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 27 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #