data_8STW # _model_server_result.job_id -E0x-w68GL1C3BLsawKFhQ _model_server_result.datetime_utc '2024-11-01 07:29:34' _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 8stw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"P","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 . . . P 3 -18.313 -65.291 15.977 1 57.53 ? CHA HEM 502 E 1 HETATM 2 C CHB HEM . . . P 3 -18.166 -63.306 20.366 1 41.46 ? CHB HEM 502 E 1 HETATM 3 C CHC HEM . . . P 3 -18.137 -67.84 22.156 1 52.89 ? CHC HEM 502 E 1 HETATM 4 C CHD HEM . . . P 3 -19.616 -69.467 17.925 1 60.33 ? CHD HEM 502 E 1 HETATM 5 C C1A HEM . . . P 3 -18.247 -64.383 17.012 1 50.57 ? C1A HEM 502 E 1 HETATM 6 C C2A HEM . . . P 3 -18.301 -62.986 16.833 1 42.53 ? C2A HEM 502 E 1 HETATM 7 C C3A HEM . . . P 3 -18.286 -62.424 18.07 1 40.96 ? C3A HEM 502 E 1 HETATM 8 C C4A HEM . . . P 3 -18.252 -63.474 19.009 1 42.02 ? C4A HEM 502 E 1 HETATM 9 C CMA HEM . . . P 3 -18.287 -60.95 18.417 1 40.35 ? CMA HEM 502 E 1 HETATM 10 C CAA HEM . . . P 3 -18.377 -62.311 15.495 1 44.91 ? CAA HEM 502 E 1 HETATM 11 C CBA HEM . . . P 3 -19.823 -62.48 14.98 1 50.15 ? CBA HEM 502 E 1 HETATM 12 C CGA HEM . . . P 3 -20.013 -61.958 13.57 1 53.47 ? CGA HEM 502 E 1 HETATM 13 O O1A HEM . . . P 3 -21.181 -61.905 13.076 1 48.8 ? O1A HEM 502 E 1 HETATM 14 O O2A HEM . . . P 3 -19.001 -61.558 12.929 1 55.17 ? O2A HEM 502 E 1 HETATM 15 C C1B HEM . . . P 3 -18.084 -64.401 21.227 1 46.37 ? C1B HEM 502 E 1 HETATM 16 C C2B HEM . . . P 3 -17.827 -64.239 22.62 1 47.02 ? C2B HEM 502 E 1 HETATM 17 C C3B HEM . . . P 3 -17.798 -65.491 23.13 1 52.95 ? C3B HEM 502 E 1 HETATM 18 C C4B HEM . . . P 3 -18.036 -66.461 22.009 1 50.12 ? C4B HEM 502 E 1 HETATM 19 C CMB HEM . . . P 3 -17.592 -62.999 23.46 1 39.43 ? CMB HEM 502 E 1 HETATM 20 C CAB HEM . . . P 3 -17.611 -65.669 24.577 1 66.87 ? CAB HEM 502 E 1 HETATM 21 C CBB HEM . . . P 3 -17.804 -66.835 25.17 1 86.21 ? CBB HEM 502 E 1 HETATM 22 C C1C HEM . . . P 3 -18.639 -68.74 21.231 1 53.14 ? C1C HEM 502 E 1 HETATM 23 C C2C HEM . . . P 3 -19.145 -70.093 21.439 1 53.5 ? C2C HEM 502 E 1 HETATM 24 C C3C HEM . . . P 3 -19.592 -70.491 20.185 1 60.74 ? C3C HEM 502 E 1 HETATM 25 C C4C HEM . . . P 3 -19.342 -69.408 19.274 1 57.05 ? C4C HEM 502 E 1 HETATM 26 C CMC HEM . . . P 3 -19.23 -70.985 22.681 1 43.89 ? CMC HEM 502 E 1 HETATM 27 C CAC HEM . . . P 3 -20.1 -71.827 19.752 1 68.23 ? CAC HEM 502 E 1 HETATM 28 C CBC HEM . . . P 3 -19.952 -72.969 20.437 1 73.84 ? CBC HEM 502 E 1 HETATM 29 C C1D HEM . . . P 3 -19.32 -68.446 17.025 1 57.1 ? C1D HEM 502 E 1 HETATM 30 C C2D HEM . . . P 3 -19.461 -68.602 15.574 1 57.81 ? C2D HEM 502 E 1 HETATM 31 C C3D HEM . . . P 3 -19.08 -67.416 15.031 1 62.85 ? C3D HEM 502 E 1 HETATM 32 C C4D HEM . . . P 3 -18.708 -66.597 16.183 1 58.23 ? C4D HEM 502 E 1 HETATM 33 C CMD HEM . . . P 3 -19.941 -69.855 14.879 1 57.46 ? CMD HEM 502 E 1 HETATM 34 C CAD HEM . . . P 3 -18.946 -66.861 13.605 1 67.28 ? CAD HEM 502 E 1 HETATM 35 C CBD HEM . . . P 3 -19.341 -67.751 12.424 1 76.15 ? CBD HEM 502 E 1 HETATM 36 C CGD HEM . . . P 3 -19.065 -67.021 11.125 1 79.29 ? CGD HEM 502 E 1 HETATM 37 O O1D HEM . . . P 3 -17.977 -66.419 11.054 1 77.66 ? O1D HEM 502 E 1 HETATM 38 O O2D HEM . . . P 3 -19.88 -67.009 10.151 1 71.51 ? O2D HEM 502 E 1 HETATM 39 N NA HEM . . . P 3 -18.232 -64.678 18.353 1 46.93 ? NA HEM 502 E 1 HETATM 40 N NB HEM . . . P 3 -18.19 -65.73 20.922 1 49.37 ? NB HEM 502 E 1 HETATM 41 N NC HEM . . . P 3 -18.779 -68.365 19.94 1 50.85 ? NC HEM 502 E 1 HETATM 42 N ND HEM . . . P 3 -18.886 -67.228 17.333 1 55.77 ? ND HEM 502 E 1 HETATM 43 FE FE HEM . . . P 3 -18.526 -66.521 19.026 1 42.91 ? FE HEM 502 E 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 320 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #