data_3KOH # _model_server_result.job_id ILNJiMRM0sNgsAlAT8rUcQ _model_server_result.datetime_utc '2024-11-25 02:54:17' _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 3koh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":500}' # _entry.id 3KOH # _exptl.entry_id 3KOH _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 3KOH _cell.length_a 71.185 _cell.length_b 71.185 _cell.length_c 224.862 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KOH _symmetry.cell_setting ? _symmetry.Int_Tables_number 78 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,G 1 1 B,E,F,H 2 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 metalc ? metalc1 D N14 OIO . A OIO 1 1_555 C FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.588 ? metalc ? metalc2 A SG CYS 416 A CYS 437 1_555 C FE HEM . A HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.426 ? metalc ? metalc3 F N14 OIO . B OIO 1 1_555 E FE HEM . B HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.523 ? metalc ? metalc4 B SG CYS 416 B CYS 437 1_555 E FE HEM . B HEM 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? # _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 3KOH _atom_sites.fract_transf_matrix[1][1] 0.014048 _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] 0.014048 _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] 0.004447 _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 1 500 500 HEM HEM . D 3 OIO A 1 1 1 OIO OIO . E 2 HEM B 1 500 500 HEM HEM . F 3 OIO B 1 1 1 OIO OIO . G 4 HOH A 1 7 7 HOH HOH . G 4 HOH A 2 9 9 HOH HOH . G 4 HOH A 3 15 15 HOH HOH . G 4 HOH A 4 498 498 HOH HOH . G 4 HOH A 5 499 499 HOH HOH . G 4 HOH A 6 501 501 HOH HOH . H 4 HOH B 1 498 498 HOH HOH . H 4 HOH B 2 499 499 HOH HOH . H 4 HOH B 3 501 501 HOH HOH . H 4 HOH B 4 502 502 HOH HOH . H 4 HOH B 5 503 503 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 -6.058 6.067 6.34 1 30.86 ? CHA HEM 500 A 1 HETATM 2 C CHB HEM . . . C 2 -3.308 2.181 7.224 1 33.09 ? CHB HEM 500 A 1 HETATM 3 C CHC HEM . . . C 2 0.344 5.133 8.386 1 28.92 ? CHC HEM 500 A 1 HETATM 4 C CHD HEM . . . C 2 -2.34 9.058 7.532 1 29.5 ? CHD HEM 500 A 1 HETATM 5 C C1A HEM . . . C 2 -5.652 4.768 6.437 1 32 ? C1A HEM 500 A 1 HETATM 6 C C2A HEM . . . C 2 -6.428 3.574 6.111 1 34.23 ? C2A HEM 500 A 1 HETATM 7 C C3A HEM . . . C 2 -5.651 2.52 6.363 1 34.36 ? C3A HEM 500 A 1 HETATM 8 C C4A HEM . . . C 2 -4.372 2.997 6.85 1 34.28 ? C4A HEM 500 A 1 HETATM 9 C CMA HEM . . . C 2 -6.062 1.046 6.169 1 34.46 ? CMA HEM 500 A 1 HETATM 10 C CAA HEM . . . C 2 -7.898 3.451 5.615 1 35.21 ? CAA HEM 500 A 1 HETATM 11 C CBA HEM . . . C 2 -8.16 3.89 4.19 1 37.75 ? CBA HEM 500 A 1 HETATM 12 C CGA HEM . . . C 2 -9.569 3.506 3.799 1 40.09 ? CGA HEM 500 A 1 HETATM 13 O O1A HEM . . . C 2 -9.747 2.936 2.69 1 41.55 ? O1A HEM 500 A 1 HETATM 14 O O2A HEM . . . C 2 -10.535 3.77 4.562 1 40.93 ? O2A HEM 500 A 1 HETATM 15 C C1B HEM . . . C 2 -2.048 2.625 7.573 1 30.81 ? C1B HEM 500 A 1 HETATM 16 C C2B HEM . . . C 2 -0.834 1.833 7.73 1 28.92 ? C2B HEM 500 A 1 HETATM 17 C C3B HEM . . . C 2 0.152 2.681 8.061 1 29.06 ? C3B HEM 500 A 1 HETATM 18 C C4B HEM . . . C 2 -0.391 4.016 8.105 1 30.2 ? C4B HEM 500 A 1 HETATM 19 C CMB HEM . . . C 2 -0.689 0.308 7.539 1 26.97 ? CMB HEM 500 A 1 HETATM 20 C CAB HEM . . . C 2 1.636 2.369 8.324 1 26.98 ? CAB HEM 500 A 1 HETATM 21 C CBB HEM . . . C 2 2.164 2.454 9.538 1 25.87 ? CBB HEM 500 A 1 HETATM 22 C C1C HEM . . . C 2 -0.037 6.43 8.179 1 28.94 ? C1C HEM 500 A 1 HETATM 23 C C2C HEM . . . C 2 0.867 7.542 8.222 1 28.22 ? C2C HEM 500 A 1 HETATM 24 C C3C HEM . . . C 2 0.178 8.651 8.007 1 29.55 ? C3C HEM 500 A 1 HETATM 25 C C4C HEM . . . C 2 -1.23 8.264 7.806 1 29.85 ? C4C HEM 500 A 1 HETATM 26 C CMC HEM . . . C 2 2.379 7.436 8.478 1 27.87 ? CMC HEM 500 A 1 HETATM 27 C CAC HEM . . . C 2 0.864 10.046 7.985 1 29.97 ? CAC HEM 500 A 1 HETATM 28 C CBC HEM . . . C 2 0.327 11.139 7.418 1 31.27 ? CBC HEM 500 A 1 HETATM 29 C C1D HEM . . . C 2 -3.629 8.626 7.182 1 29.36 ? C1D HEM 500 A 1 HETATM 30 C C2D HEM . . . C 2 -4.802 9.465 7.015 1 27.05 ? C2D HEM 500 A 1 HETATM 31 C C3D HEM . . . C 2 -5.933 8.533 6.644 1 28.69 ? C3D HEM 500 A 1 HETATM 32 C C4D HEM . . . C 2 -5.359 7.214 6.633 1 29.75 ? C4D HEM 500 A 1 HETATM 33 C CMD HEM . . . C 2 -4.923 10.99 7.172 1 27.01 ? CMD HEM 500 A 1 HETATM 34 C CAD HEM . . . C 2 -7.397 8.932 6.352 1 33.45 ? CAD HEM 500 A 1 HETATM 35 C CBD HEM . . . C 2 -7.813 8.454 4.957 1 36.4 ? CBD HEM 500 A 1 HETATM 36 C CGD HEM . . . C 2 -8.851 9.407 4.428 1 37.6 ? CGD HEM 500 A 1 HETATM 37 O O1D HEM . . . C 2 -8.421 10.395 3.753 1 35.86 ? O1D HEM 500 A 1 HETATM 38 O O2D HEM . . . C 2 -10.07 9.157 4.701 1 36.12 ? O2D HEM 500 A 1 HETATM 39 N NA HEM . . . C 2 -4.417 4.389 6.872 1 32.14 ? NA HEM 500 A 1 HETATM 40 N NB HEM . . . C 2 -1.742 3.953 7.812 1 30.82 ? NB HEM 500 A 1 HETATM 41 N NC HEM . . . C 2 -1.306 6.893 7.923 1 29.57 ? NC HEM 500 A 1 HETATM 42 N ND HEM . . . C 2 -4.019 7.307 6.953 1 30.09 ? ND HEM 500 A 1 HETATM 43 FE FE HEM . . . C 2 -2.909 5.644 7.376 1 33.67 ? FE HEM 500 A 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 43 #