data_5G5J # _model_server_result.job_id 0zzBdSiImwQcWXGWtdqeYQ _model_server_result.datetime_utc '2024-11-04 23:06:22' _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 5g5j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":700}' # _entry.id 5G5J # _exptl.entry_id 5G5J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 616.487 _entity.id 3 _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 90 _cell.entry_id 5G5J _cell.length_a 77 _cell.length_b 101.07 _cell.length_c 128.37 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5G5J _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 1,2 # 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_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 77 0 0 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 422 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 442 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id C _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 700 _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 2.26 _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 5G5J _atom_sites.fract_transf_matrix[1][1] 0.012987 _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] 0.009894 _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] 0.00779 _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 MF8 A 1 600 600 MF8 MF8 . C 3 HEM A 1 700 700 HEM HEM . D 4 HOH A 1 2002 2002 HOH HOH . D 4 HOH A 2 2004 2004 HOH HOH . D 4 HOH A 3 2005 2005 HOH HOH . D 4 HOH A 4 2006 2006 HOH HOH . D 4 HOH A 5 2008 2008 HOH HOH . D 4 HOH A 6 2009 2009 HOH HOH . D 4 HOH A 7 2010 2010 HOH HOH . D 4 HOH A 8 2012 2012 HOH HOH . D 4 HOH A 9 2013 2013 HOH HOH . D 4 HOH A 10 2014 2014 HOH HOH . D 4 HOH A 11 2015 2015 HOH HOH . D 4 HOH A 12 2016 2016 HOH HOH . D 4 HOH A 13 2017 2017 HOH HOH . D 4 HOH A 14 2018 2018 HOH HOH . D 4 HOH A 15 2019 2019 HOH HOH . D 4 HOH A 16 2020 2020 HOH HOH . D 4 HOH A 17 2021 2021 HOH HOH . D 4 HOH A 18 2022 2022 HOH HOH . D 4 HOH A 19 2023 2023 HOH HOH . D 4 HOH A 20 2025 2025 HOH HOH . D 4 HOH A 21 2026 2026 HOH HOH . D 4 HOH A 22 2027 2027 HOH HOH . D 4 HOH A 23 2028 2028 HOH HOH . D 4 HOH A 24 2029 2029 HOH HOH . D 4 HOH A 25 2030 2030 HOH HOH . D 4 HOH A 26 2031 2031 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 3 15.27 -19.905 9.553 1 40.38 ? CHA HEM 700 A 1 HETATM 2 C CHB HEM . . . C 3 16.067 -22.644 13.481 1 42.31 ? CHB HEM 700 A 1 HETATM 3 C CHC HEM . . . C 3 16.499 -26.632 10.627 1 40.65 ? CHC HEM 700 A 1 HETATM 4 C CHD HEM . . . C 3 15.408 -23.835 6.769 1 38.4 ? CHD HEM 700 A 1 HETATM 5 C C1A HEM . . . C 3 15.464 -20.339 10.833 1 41.79 ? C1A HEM 700 A 1 HETATM 6 C C2A HEM . . . C 3 15.446 -19.467 11.952 1 42.19 ? C2A HEM 700 A 1 HETATM 7 C C3A HEM . . . C 3 15.662 -20.22 13.038 1 42.74 ? C3A HEM 700 A 1 HETATM 8 C C4A HEM . . . C 3 15.805 -21.57 12.62 1 43.6 ? C4A HEM 700 A 1 HETATM 9 C CMA HEM . . . C 3 15.717 -19.703 14.441 1 42.15 ? CMA HEM 700 A 1 HETATM 10 C CAA HEM . . . C 3 15.206 -17.98 11.97 1 44.84 ? CAA HEM 700 A 1 HETATM 11 C CBA HEM . . . C 3 13.702 -17.662 12.075 1 47.33 ? CBA HEM 700 A 1 HETATM 12 C CGA HEM . . . C 3 13.461 -16.181 12.292 1 53.17 ? CGA HEM 700 A 1 HETATM 13 O O1A HEM . . . C 3 12.485 -15.819 13 1 54.75 ? O1A HEM 700 A 1 HETATM 14 O O2A HEM . . . C 3 14.229 -15.3 11.785 1 54.01 ? O2A HEM 700 A 1 HETATM 15 C C1B HEM . . . C 3 16.3 -23.968 13.031 1 41.57 ? C1B HEM 700 A 1 HETATM 16 C C2B HEM . . . C 3 16.64 -25.046 13.92 1 43.64 ? C2B HEM 700 A 1 HETATM 17 C C3B HEM . . . C 3 16.765 -26.179 13.14 1 42.25 ? C3B HEM 700 A 1 HETATM 18 C C4B HEM . . . C 3 16.511 -25.747 11.738 1 42.15 ? C4B HEM 700 A 1 HETATM 19 C CMB HEM . . . C 3 16.794 -24.91 15.424 1 39.39 ? CMB HEM 700 A 1 HETATM 20 C CAB HEM . . . C 3 17.106 -27.557 13.518 1 39.4 ? CAB HEM 700 A 1 HETATM 21 C CBB HEM . . . C 3 16.857 -28.019 14.718 1 41.6 ? CBB HEM 700 A 1 HETATM 22 C C1C HEM . . . C 3 16.119 -26.233 9.321 1 39.2 ? C1C HEM 700 A 1 HETATM 23 C C2C HEM . . . C 3 15.956 -27.086 8.201 1 38.44 ? C2C HEM 700 A 1 HETATM 24 C C3C HEM . . . C 3 15.653 -26.318 7.103 1 39.06 ? C3C HEM 700 A 1 HETATM 25 C C4C HEM . . . C 3 15.637 -24.941 7.558 1 39.99 ? C4C HEM 700 A 1 HETATM 26 C CMC HEM . . . C 3 16.044 -28.586 8.104 1 38.94 ? CMC HEM 700 A 1 HETATM 27 C CAC HEM . . . C 3 15.389 -26.978 5.793 1 37.43 ? CAC HEM 700 A 1 HETATM 28 C CBC HEM . . . C 3 15.247 -26.38 4.624 1 38.51 ? CBC HEM 700 A 1 HETATM 29 C C1D HEM . . . C 3 15.341 -22.543 7.27 1 38.1 ? C1D HEM 700 A 1 HETATM 30 C C2D HEM . . . C 3 15.115 -21.394 6.361 1 41.4 ? C2D HEM 700 A 1 HETATM 31 C C3D HEM . . . C 3 15.064 -20.296 7.136 1 39.13 ? C3D HEM 700 A 1 HETATM 32 C C4D HEM . . . C 3 15.258 -20.799 8.503 1 38.82 ? C4D HEM 700 A 1 HETATM 33 C CMD HEM . . . C 3 14.97 -21.431 4.837 1 37.68 ? CMD HEM 700 A 1 HETATM 34 C CAD HEM . . . C 3 14.849 -18.869 6.661 1 38.69 ? CAD HEM 700 A 1 HETATM 35 C CBD HEM . . . C 3 13.367 -18.514 6.492 1 44.4 ? CBD HEM 700 A 1 HETATM 36 C CGD HEM . . . C 3 13.132 -17.149 5.838 1 51.83 ? CGD HEM 700 A 1 HETATM 37 O O1D HEM . . . C 3 14.012 -16.248 5.791 1 52.14 ? O1D HEM 700 A 1 HETATM 38 O O2D HEM . . . C 3 12.017 -16.883 5.323 1 51.94 ? O2D HEM 700 A 1 HETATM 39 N NA HEM . . . C 3 15.686 -21.628 11.252 1 38.7 ? NA HEM 700 A 1 HETATM 40 N NB HEM . . . C 3 16.209 -24.434 11.776 1 39.35 ? NB HEM 700 A 1 HETATM 41 N NC HEM . . . C 3 15.902 -24.938 8.906 1 36.3 ? NC HEM 700 A 1 HETATM 42 N ND HEM . . . C 3 15.388 -22.149 8.553 1 40.42 ? ND HEM 700 A 1 HETATM 43 FE FE HEM . . . C 3 15.752 -23.246 10.097 1 42.11 ? FE HEM 700 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 43 #