data_6X8X # _model_server_result.job_id IxnhlAXxNCb6X60vLfdlcA _model_server_result.datetime_utc '2024-11-16 15:40:32' _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 6x8x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 6X8X # _exptl.entry_id 6X8X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 618.503 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'HEME C' _entity.pdbx_number_of_molecules 1 _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 120 _cell.entry_id 6X8X _cell.length_a 82.172 _cell.length_b 82.172 _cell.length_c 48.072 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6X8X _symmetry.cell_setting ? _symmetry.Int_Tables_number 150 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 3 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,I _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3 # 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' 2_565 -y,x-y+1,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 -41.086 71.163039 0 3 'crystal symmetry operation' 3_455 -x+y-1,-x,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 -82.172 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 SG CYS 98 A CYS 98 1_555 B CAB HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.762 ? covale ? covale2 A SG CYS 101 A CYS 101 1_555 B CAC HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.766 ? metalc ? metalc1 A OE1 GLU 4 A GLU 4 1_555 F CA CA . A CA 205 5_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.92 ? metalc ? metalc2 A SD MET 7 A MET 7 1_555 B FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.397 ? metalc ? metalc3 A OE1 GLU 8 A GLU 8 1_555 E CA CA . A CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc4 A OE1 GLU 8 A GLU 8 1_555 E CA CA . A CA 204 5_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.275 ? metalc ? metalc5 A OE1 GLU 8 A GLU 8 1_555 F CA CA . A CA 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.947 ? metalc ? metalc6 A OD1 ASP 12 A ASP 12 1_555 H CA CA . A CA 207 5_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.975 ? metalc ? metalc7 A OD2 ASP 12 A ASP 12 1_555 H CA CA . A CA 207 5_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.585 ? metalc ? metalc8 A O LYS 19 A LYS 19 1_555 D CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.846 ? metalc ? metalc9 A O LYS 19 A LYS 19 1_555 D CA CA . A CA 203 5_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.846 ? metalc ? metalc10 A O LYS 19 A LYS 19 1_555 G CA CA . A CA 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.833 ? metalc ? metalc11 A O LYS 19 A LYS 19 1_555 G CA CA . A CA 206 5_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.833 ? metalc ? metalc12 A OD1 ASP 21 A ASP 21 1_555 D CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc13 A OD2 ASP 21 A ASP 21 1_555 D CA CA . A CA 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.003 ? metalc ? metalc14 A OD1 ASP 21 A ASP 21 1_555 D CA CA . A CA 203 5_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc15 A OD2 ASP 21 A ASP 21 1_555 D CA CA . A CA 203 5_556 ? ? ? ? ? ? ? ? ? ? ? ? 3.003 ? metalc ? metalc16 A OD1 ASP 21 A ASP 21 1_555 G CA CA . A CA 206 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc17 A OD1 ASP 21 A ASP 21 1_555 G CA CA . A CA 206 5_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.589 ? metalc ? metalc18 A NE2 HIS 73 A HIS 73 1_555 C CU CU . A CU 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.361 ? metalc ? metalc19 A NE2 HIS 73 A HIS 73 1_555 C CU CU . A CU 202 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.359 ? metalc ? metalc20 A NE2 HIS 77 A HIS 77 1_555 C CU CU . A CU 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc21 A NE2 HIS 77 A HIS 77 1_555 C CU CU . A CU 202 3_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.315 ? metalc ? metalc22 A NE2 HIS 102 A HIS 102 1_555 B FE HEC . A HEC 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.372 ? metalc ? metalc23 B O1A HEC . A HEC 201 1_555 E CA CA . A CA 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc24 B O1A HEC . A HEC 201 1_555 E CA CA . A CA 204 5_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc25 D CA CA . A CA 203 1_555 I O HOH . A HOH 317 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? metalc ? metalc26 D CA CA . A CA 203 1_555 I O HOH . A HOH 317 5_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.47 ? metalc ? metalc27 E CA CA . A CA 204 1_555 I O HOH . A HOH 303 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc28 E CA CA . A CA 204 1_555 I O HOH . A HOH 303 5_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.794 ? metalc ? metalc29 G CA CA . A CA 206 1_555 I O HOH . A HOH 319 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? metalc ? metalc30 G CA CA . A CA 206 1_555 I O HOH . A HOH 319 5_556 ? ? ? ? ? ? ? ? ? ? ? ? 2.602 ? # _chem_comp.formula 'C34 H34 Fe N4 O4' _chem_comp.formula_weight 618.503 _chem_comp.id HEC _chem_comp.mon_nstd_flag . _chem_comp.name 'HEME C' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 FE NA HEC sing 129 n n FE NB HEC sing 130 n n FE NC HEC sing 131 n n FE ND HEC sing 132 n n CHA C1A HEC doub 133 n n CHA C4D HEC sing 134 n n CHA HHA HEC sing 135 n n CHB C4A HEC doub 136 n n CHB C1B HEC sing 137 n n CHB HHB HEC sing 138 n n CHC C4B HEC doub 139 n n CHC C1C HEC sing 140 n n CHC HHC HEC sing 141 n n CHD C4C HEC doub 142 n n CHD C1D HEC sing 143 n n CHD HHD HEC sing 144 n n NA C1A HEC sing 145 n y NA C4A HEC sing 146 n y C1A C2A HEC sing 147 n y C2A C3A HEC doub 148 n y C2A CAA HEC sing 149 n n C3A C4A HEC sing 150 n y C3A CMA HEC sing 151 n n CMA HMA1 HEC sing 152 n n CMA HMA2 HEC sing 153 n n CMA HMA3 HEC sing 154 n n CAA CBA HEC sing 155 n n CAA HAA1 HEC sing 156 n n CAA HAA2 HEC sing 157 n n CBA CGA HEC sing 158 n n CBA HBA1 HEC sing 159 n n CBA HBA2 HEC sing 160 n n CGA O1A HEC doub 161 n n CGA O2A HEC sing 162 n n O2A H2A HEC sing 163 n n NB C1B HEC sing 164 n y NB C4B HEC sing 165 n y C1B C2B HEC doub 166 n y C2B C3B HEC sing 167 n y C2B CMB HEC sing 168 n n C3B C4B HEC sing 169 n y C3B CAB HEC doub 170 e n CMB HMB1 HEC sing 171 n n CMB HMB2 HEC sing 172 n n CMB HMB3 HEC sing 173 n n CAB CBB HEC sing 174 n n CAB HAB HEC sing 175 n n CBB HBB1 HEC sing 176 n n CBB HBB2 HEC sing 177 n n CBB HBB3 HEC sing 178 n n NC C1C HEC sing 179 n y NC C4C HEC sing 180 n y C1C C2C HEC doub 181 n y C2C C3C HEC sing 182 n y C2C CMC HEC sing 183 n n C3C C4C HEC sing 184 n y C3C CAC HEC doub 185 e n CMC HMC1 HEC sing 186 n n CMC HMC2 HEC sing 187 n n CMC HMC3 HEC sing 188 n n CAC CBC HEC sing 189 n n CAC HAC HEC sing 190 n n CBC HBC1 HEC sing 191 n n CBC HBC2 HEC sing 192 n n CBC HBC3 HEC sing 193 n n ND C1D HEC sing 194 n y ND C4D HEC sing 195 n y C1D C2D HEC doub 196 n y C2D C3D HEC sing 197 n y C2D CMD HEC sing 198 n n C3D C4D HEC doub 199 n y C3D CAD HEC sing 200 n n CMD HMD1 HEC sing 201 n n CMD HMD2 HEC sing 202 n n CMD HMD3 HEC sing 203 n n CAD CBD HEC sing 204 n n CAD HAD1 HEC sing 205 n n CAD HAD2 HEC sing 206 n n CBD CGD HEC sing 207 n n CBD HBD1 HEC sing 208 n n CBD HBD2 HEC sing 209 n n CGD O1D HEC doub 210 n n CGD O2D HEC sing 211 n n O2D H2D HEC sing 212 n n # _atom_sites.entry_id 6X8X _atom_sites.fract_transf_matrix[1][1] 0.01217 _atom_sites.fract_transf_matrix[1][2] 0.007026 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014052 _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] 0.020802 _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 B 2 HEC A 1 201 150 HEC HEM . C 3 CU A 1 202 1 CU CU . D 4 CA A 1 203 1 CA CA . E 4 CA A 1 204 3 CA CA . F 4 CA A 1 205 4 CA CA . G 4 CA A 1 206 5 CA CA . H 4 CA A 1 207 6 CA CA . I 5 HOH A 1 301 25 HOH HOH . I 5 HOH A 2 302 6 HOH HOH . I 5 HOH A 3 303 22 HOH HOH . I 5 HOH A 4 304 17 HOH HOH . I 5 HOH A 5 305 11 HOH HOH . I 5 HOH A 6 306 10 HOH HOH . I 5 HOH A 7 307 13 HOH HOH . I 5 HOH A 8 308 8 HOH HOH . I 5 HOH A 9 309 15 HOH HOH . I 5 HOH A 10 310 16 HOH HOH . I 5 HOH A 11 311 18 HOH HOH . I 5 HOH A 12 312 2 HOH HOH . I 5 HOH A 13 313 19 HOH HOH . I 5 HOH A 14 314 1 HOH HOH . I 5 HOH A 15 315 20 HOH HOH . I 5 HOH A 16 316 24 HOH HOH . I 5 HOH A 17 317 5 HOH HOH . I 5 HOH A 18 318 21 HOH HOH . I 5 HOH A 19 319 4 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 FE FE HEC . . . B 2 -37.278 5.796 0.683 1 37.74 ? FE HEC 201 A 1 HETATM 2 C CHA HEC . . . B 2 -35.452 3.878 -1.608 1 53.34 ? CHA HEC 201 A 1 HETATM 3 C CHB HEC . . . B 2 -35.966 3.939 3.267 1 46.65 ? CHB HEC 201 A 1 HETATM 4 C CHC HEC . . . B 2 -39.029 7.659 2.893 1 41.95 ? CHC HEC 201 A 1 HETATM 5 C CHD HEC . . . B 2 -38.616 7.501 -2.002 1 41.37 ? CHD HEC 201 A 1 HETATM 6 N NA HEC . . . B 2 -36.018 4.191 0.789 1 45.35 ? NA HEC 201 A 1 HETATM 7 C C1A HEC . . . B 2 -35.299 3.61 -0.252 1 51.19 ? C1A HEC 201 A 1 HETATM 8 C C2A HEC . . . B 2 -34.337 2.685 0.324 1 45.45 ? C2A HEC 201 A 1 HETATM 9 C C3A HEC . . . B 2 -34.5 2.713 1.655 1 50.56 ? C3A HEC 201 A 1 HETATM 10 C C4A HEC . . . B 2 -35.55 3.654 1.979 1 50.53 ? C4A HEC 201 A 1 HETATM 11 C CMA HEC . . . B 2 -33.715 1.904 2.714 1 45.65 ? CMA HEC 201 A 1 HETATM 12 C CAA HEC . . . B 2 -33.325 1.811 -0.457 1 46.59 ? CAA HEC 201 A 1 HETATM 13 C CBA HEC . . . B 2 -31.928 2.424 -0.471 1 44.57 ? CBA HEC 201 A 1 HETATM 14 C CGA HEC . . . B 2 -31.08 1.683 -1.467 1 51.47 ? CGA HEC 201 A 1 HETATM 15 O O1A HEC . . . B 2 -29.873 1.456 -1.213 1 51.59 ? O1A HEC 201 A 1 HETATM 16 O O2A HEC . . . B 2 -31.624 1.304 -2.538 1 65.79 ? O2A HEC 201 A 1 HETATM 17 N NB HEC . . . B 2 -37.438 5.803 2.771 1 46.59 ? NB HEC 201 A 1 HETATM 18 C C1B HEC . . . B 2 -36.857 4.915 3.63 1 41.49 ? C1B HEC 201 A 1 HETATM 19 C C2B HEC . . . B 2 -37.35 5.21 4.958 1 46.45 ? C2B HEC 201 A 1 HETATM 20 C C3B HEC . . . B 2 -38.229 6.229 4.869 1 45.82 ? C3B HEC 201 A 1 HETATM 21 C C4B HEC . . . B 2 -38.274 6.646 3.475 1 41.76 ? C4B HEC 201 A 1 HETATM 22 C CMB HEC . . . B 2 -36.943 4.413 6.222 1 43.5 ? CMB HEC 201 A 1 HETATM 23 C CAB HEC . . . B 2 -38.99 6.905 6.024 1 35.63 ? CAB HEC 201 A 1 HETATM 24 C CBB HEC . . . B 2 -38.305 7.307 7.072 1 36.14 ? CBB HEC 201 A 1 HETATM 25 N NC HEC . . . B 2 -38.553 7.269 0.48 1 41.35 ? NC HEC 201 A 1 HETATM 26 C C1C HEC . . . B 2 -39.174 7.931 1.529 1 47.03 ? C1C HEC 201 A 1 HETATM 27 C C2C HEC . . . B 2 -40.025 8.956 0.945 1 41.46 ? C2C HEC 201 A 1 HETATM 28 C C3C HEC . . . B 2 -39.911 8.888 -0.394 1 49.3 ? C3C HEC 201 A 1 HETATM 29 C C4C HEC . . . B 2 -38.979 7.836 -0.713 1 47.79 ? C4C HEC 201 A 1 HETATM 30 C CMC HEC . . . B 2 -40.908 9.921 1.754 1 41.49 ? CMC HEC 201 A 1 HETATM 31 C CAC HEC . . . B 2 -40.561 9.758 -1.517 1 46.76 ? CAC HEC 201 A 1 HETATM 32 C CBC HEC . . . B 2 -41.163 10.931 -1.25 1 43.93 ? CBC HEC 201 A 1 HETATM 33 N ND HEC . . . B 2 -37.077 5.688 -1.466 1 47.82 ? ND HEC 201 A 1 HETATM 34 C C1D HEC . . . B 2 -37.718 6.524 -2.348 1 43.98 ? C1D HEC 201 A 1 HETATM 35 C C2D HEC . . . B 2 -37.276 6.179 -3.678 1 53.53 ? C2D HEC 201 A 1 HETATM 36 C C3D HEC . . . B 2 -36.404 5.178 -3.575 1 54.29 ? C3D HEC 201 A 1 HETATM 37 C C4D HEC . . . B 2 -36.254 4.849 -2.17 1 47.56 ? C4D HEC 201 A 1 HETATM 38 C CMD HEC . . . B 2 -37.721 6.84 -5.002 1 46.38 ? CMD HEC 201 A 1 HETATM 39 C CAD HEC . . . B 2 -35.682 4.523 -4.768 1 48.3 ? CAD HEC 201 A 1 HETATM 40 C CBD HEC . . . B 2 -34.321 5.183 -4.899 1 52.63 ? CBD HEC 201 A 1 HETATM 41 C CGD HEC . . . B 2 -33.29 4.22 -5.431 1 64.95 ? CGD HEC 201 A 1 HETATM 42 O O1D HEC . . . B 2 -32.08 4.525 -5.224 1 67.87 ? O1D HEC 201 A 1 HETATM 43 O O2D HEC . . . B 2 -33.655 3.168 -6.045 1 60.78 ? O2D HEC 201 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 43 #