data_5JKW # _model_server_result.job_id bVy3JjscWPxhay60fXE4MQ _model_server_result.datetime_utc '2024-12-02 04:26:17' _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 5jkw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":600}' # _entry.id 5JKW # _exptl.entry_id 5JKW _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 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 5JKW _cell.length_a 140.523 _cell.length_b 140.523 _cell.length_c 118.471 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5JKW _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _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 # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 437 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 437 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 600 _struct_conn.ptnr2_symmetry 1_555 _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 2.419 _struct_conn.pdbx_value_order ? # _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 5JKW _atom_sites.fract_transf_matrix[1][1] 0.007116 _atom_sites.fract_transf_matrix[1][2] 0.004109 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008217 _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] 0.008441 _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 HEM A 1 600 600 HEM HEM . C 3 TES A 1 601 601 TES TES . D 4 HOH A 1 701 4 HOH HOH . D 4 HOH A 2 702 1 HOH HOH . D 4 HOH A 3 703 2 HOH HOH . D 4 HOH A 4 704 3 HOH HOH . D 4 HOH A 5 705 7 HOH HOH . D 4 HOH A 6 706 6 HOH HOH . D 4 HOH A 7 707 5 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 . . . B 2 86.436 52.821 41.077 1 62.01 ? CHA HEM 600 A 1 HETATM 2 C CHB HEM . . . B 2 81.986 51.405 42.29 1 59.68 ? CHB HEM 600 A 1 HETATM 3 C CHC HEM . . . B 2 83.718 47.021 43.392 1 62.78 ? CHC HEM 600 A 1 HETATM 4 C CHD HEM . . . B 2 88.087 48.405 42.04 1 60.32 ? CHD HEM 600 A 1 HETATM 5 C C1A HEM . . . B 2 85.085 52.788 41.278 1 60.53 ? C1A HEM 600 A 1 HETATM 6 C C2A HEM . . . B 2 84.22 53.872 41.023 1 62.2 ? C2A HEM 600 A 1 HETATM 7 C C3A HEM . . . B 2 82.967 53.479 41.356 1 61 ? C3A HEM 600 A 1 HETATM 8 C C4A HEM . . . B 2 83.05 52.146 41.824 1 60.01 ? C4A HEM 600 A 1 HETATM 9 C CMA HEM . . . B 2 81.747 54.36 41.226 1 58.31 ? CMA HEM 600 A 1 HETATM 10 C CAA HEM . . . B 2 84.583 55.224 40.456 1 62.96 ? CAA HEM 600 A 1 HETATM 11 C CBA HEM . . . B 2 84.735 55.074 38.936 1 64.49 ? CBA HEM 600 A 1 HETATM 12 C CGA HEM . . . B 2 84.69 56.417 38.248 1 66.19 ? CGA HEM 600 A 1 HETATM 13 O O1A HEM . . . B 2 85.307 57.396 38.712 1 67.38 ? O1A HEM 600 A 1 HETATM 14 O O2A HEM . . . B 2 84.046 56.56 37.191 1 63.77 ? O2A HEM 600 A 1 HETATM 15 C C1B HEM . . . B 2 82.071 50.084 42.74 1 62.87 ? C1B HEM 600 A 1 HETATM 16 C C2B HEM . . . B 2 80.962 49.343 43.246 1 63.8 ? C2B HEM 600 A 1 HETATM 17 C C3B HEM . . . B 2 81.428 48.08 43.567 1 66.95 ? C3B HEM 600 A 1 HETATM 18 C C4B HEM . . . B 2 82.875 48.117 43.228 1 65.13 ? C4B HEM 600 A 1 HETATM 19 C CMB HEM . . . B 2 79.57 49.921 43.358 1 66.09 ? CMB HEM 600 A 1 HETATM 20 C CAB HEM . . . B 2 80.78 46.856 44.129 1 69.67 ? CAB HEM 600 A 1 HETATM 21 C CBB HEM . . . B 2 79.509 46.707 44.477 1 76.5 ? CBB HEM 600 A 1 HETATM 22 C C1C HEM . . . B 2 85.059 46.975 43.086 1 63.33 ? C1C HEM 600 A 1 HETATM 23 C C2C HEM . . . B 2 85.895 45.846 43.208 1 65.94 ? C2C HEM 600 A 1 HETATM 24 C C3C HEM . . . B 2 87.183 46.238 42.813 1 66.85 ? C3C HEM 600 A 1 HETATM 25 C C4C HEM . . . B 2 87.067 47.621 42.464 1 63.93 ? C4C HEM 600 A 1 HETATM 26 C CMC HEM . . . B 2 85.457 44.475 43.67 1 65.84 ? CMC HEM 600 A 1 HETATM 27 C CAC HEM . . . B 2 88.46 45.457 42.746 1 67.64 ? CAC HEM 600 A 1 HETATM 28 C CBC HEM . . . B 2 88.626 44.182 43.107 1 70.02 ? CBC HEM 600 A 1 HETATM 29 C C1D HEM . . . B 2 87.936 49.734 41.704 1 58.27 ? C1D HEM 600 A 1 HETATM 30 C C2D HEM . . . B 2 89.11 50.507 41.3 1 59.62 ? C2D HEM 600 A 1 HETATM 31 C C3D HEM . . . B 2 88.676 51.731 41.021 1 61.45 ? C3D HEM 600 A 1 HETATM 32 C C4D HEM . . . B 2 87.225 51.7 41.281 1 63.64 ? C4D HEM 600 A 1 HETATM 33 C CMD HEM . . . B 2 90.533 50.018 41.202 1 61.92 ? CMD HEM 600 A 1 HETATM 34 C CAD HEM . . . B 2 89.528 52.901 40.591 1 63.38 ? CAD HEM 600 A 1 HETATM 35 C CBD HEM . . . B 2 89.647 53.038 39.08 1 66.32 ? CBD HEM 600 A 1 HETATM 36 C CGD HEM . . . B 2 90.55 54.207 38.75 1 66.83 ? CGD HEM 600 A 1 HETATM 37 O O1D HEM . . . B 2 91.29 54.126 37.748 1 65.59 ? O1D HEM 600 A 1 HETATM 38 O O2D HEM . . . B 2 90.557 55.253 39.453 1 65.67 ? O2D HEM 600 A 1 HETATM 39 N NA HEM . . . B 2 84.35 51.731 41.755 1 59.23 ? NA HEM 600 A 1 HETATM 40 N NB HEM . . . B 2 83.153 49.318 42.732 1 64.09 ? NB HEM 600 A 1 HETATM 41 N NC HEM . . . B 2 85.779 48.027 42.632 1 63.8 ? NC HEM 600 A 1 HETATM 42 N ND HEM . . . B 2 86.814 50.467 41.658 1 63.07 ? ND HEM 600 A 1 HETATM 43 FE FE HEM . . . B 2 85.055 49.92 42.149 1 65.61 ? FE HEM 600 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 253 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 43 #