data_3ZJS # _model_server_result.job_id lJGFsOG6votjPFefqBMiHw _model_server_result.datetime_utc '2025-09-12 09:34:09' _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 3zjs # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":200}' # _entry.id 3ZJS # _exptl.entry_id 3ZJS _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 94.61 _cell.angle_gamma 90 _cell.entry_id 3ZJS _cell.length_a 50.98 _cell.length_b 48.12 _cell.length_c 80.49 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ZJS _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1 21 1' # _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,E,F,G,H,I,J _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 ? 2 C N N ? 2 F 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 A NE2 HIS 120 A HIS 120 1_555 C FE HEM . A HEM 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? metalc ? metalc2 C FE HEM . A HEM 200 1_555 D N1 AZI . A AZI 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.756 ? metalc ? metalc3 B NE2 HIS 120 B HIS 120 1_555 F FE HEM . B HEM 200 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? metalc ? metalc4 F FE HEM . B HEM 200 1_555 G N1 AZI . B AZI 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.783 ? # _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 131 n n CHA C4D HEM doub 132 n n CHA HHA HEM sing 133 n n CHB C4A HEM sing 134 n n CHB C1B HEM doub 135 n n CHB HHB HEM sing 136 n n CHC C4B HEM sing 137 n n CHC C1C HEM doub 138 n n CHC HHC HEM sing 139 n n CHD C4C HEM doub 140 n n CHD C1D HEM sing 141 n n CHD HHD HEM sing 142 n n C1A C2A HEM doub 143 n y C1A NA HEM sing 144 n y C2A C3A HEM sing 145 n y C2A CAA HEM sing 146 n n C3A C4A HEM doub 147 n y C3A CMA HEM sing 148 n n C4A NA HEM sing 149 n y CMA HMA HEM sing 150 n n CMA HMAA HEM sing 151 n n CMA HMAB HEM sing 152 n n CAA CBA HEM sing 153 n n CAA HAA HEM sing 154 n n CAA HAAA HEM sing 155 n n CBA CGA HEM sing 156 n n CBA HBA HEM sing 157 n n CBA HBAA HEM sing 158 n n CGA O1A HEM doub 159 n n CGA O2A HEM sing 160 n n C1B C2B HEM sing 161 n n C1B NB HEM sing 162 n n C2B C3B HEM doub 163 n n C2B CMB HEM sing 164 n n C3B C4B HEM sing 165 n n C3B CAB HEM sing 166 n n C4B NB HEM doub 167 n n CMB HMB HEM sing 168 n n CMB HMBA HEM sing 169 n n CMB HMBB HEM sing 170 n n CAB CBB HEM doub 171 n n CAB HAB HEM sing 172 n n CBB HBB HEM sing 173 n n CBB HBBA HEM sing 174 n n C1C C2C HEM sing 175 n y C1C NC HEM sing 176 n y C2C C3C HEM doub 177 n y C2C CMC HEM sing 178 n n C3C C4C HEM sing 179 n y C3C CAC HEM sing 180 n n C4C NC HEM sing 181 n y CMC HMC HEM sing 182 n n CMC HMCA HEM sing 183 n n CMC HMCB HEM sing 184 n n CAC CBC HEM doub 185 n n CAC HAC HEM sing 186 n n CBC HBC HEM sing 187 n n CBC HBCA HEM sing 188 n n C1D C2D HEM sing 189 n n C1D ND HEM doub 190 n n C2D C3D HEM doub 191 n n C2D CMD HEM sing 192 n n C3D C4D HEM sing 193 n n C3D CAD HEM sing 194 n n C4D ND HEM sing 195 n n CMD HMD HEM sing 196 n n CMD HMDA HEM sing 197 n n CMD HMDB HEM sing 198 n n CAD CBD HEM sing 199 n n CAD HAD HEM sing 200 n n CAD HADA HEM sing 201 n n CBD CGD HEM sing 202 n n CBD HBD HEM sing 203 n n CBD HBDA HEM sing 204 n n CGD O1D HEM doub 205 n n CGD O2D HEM sing 206 n n O2A H2A HEM sing 207 n n O2D H2D HEM sing 208 n n FE NA HEM sing 209 n n FE NB HEM sing 210 n n FE NC HEM sing 211 n n FE ND HEM sing 212 n n # _atom_sites.entry_id 3ZJS _atom_sites.fract_transf_matrix[1][1] 0.019616 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001582 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020781 _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] 0.012464 _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 1 200 200 HEM HEM . D 3 AZI A 1 201 201 AZI AZI . E 4 XE A 1 1196 1196 XE XE . F 2 HEM B 1 200 200 HEM HEM . G 3 AZI B 1 201 201 AZI AZI . H 4 XE B 1 1196 1196 XE XE . I 5 HOH A 1 2001 2001 HOH HOH . I 5 HOH A 2 2002 2002 HOH HOH . I 5 HOH A 3 2003 2003 HOH HOH . I 5 HOH A 4 2004 2004 HOH HOH . I 5 HOH A 5 2006 2006 HOH HOH . I 5 HOH A 6 2007 2007 HOH HOH . I 5 HOH A 7 2008 2008 HOH HOH . I 5 HOH A 8 2009 2009 HOH HOH . I 5 HOH A 9 2010 2010 HOH HOH . I 5 HOH A 10 2012 2012 HOH HOH . I 5 HOH A 11 2013 2013 HOH HOH . I 5 HOH A 12 2014 2014 HOH HOH . I 5 HOH A 13 2015 2015 HOH HOH . I 5 HOH A 14 2016 2016 HOH HOH . I 5 HOH A 15 2017 2017 HOH HOH . I 5 HOH A 16 2018 2018 HOH HOH . I 5 HOH A 17 2019 2019 HOH HOH . I 5 HOH A 18 2020 2020 HOH HOH . I 5 HOH A 19 2021 2021 HOH HOH . I 5 HOH A 20 2022 2022 HOH HOH . I 5 HOH A 21 2023 2023 HOH HOH . I 5 HOH A 22 2024 2024 HOH HOH . I 5 HOH A 23 2025 2025 HOH HOH . I 5 HOH A 24 2026 2026 HOH HOH . I 5 HOH A 25 2027 2027 HOH HOH . I 5 HOH A 26 2028 2028 HOH HOH . I 5 HOH A 27 2029 2029 HOH HOH . I 5 HOH A 28 2030 2030 HOH HOH . I 5 HOH A 29 2031 2031 HOH HOH . I 5 HOH A 30 2032 2032 HOH HOH . I 5 HOH A 31 2033 2033 HOH HOH . I 5 HOH A 32 2034 2034 HOH HOH . I 5 HOH A 33 2035 2035 HOH HOH . I 5 HOH A 34 2037 2037 HOH HOH . I 5 HOH A 35 2038 2038 HOH HOH . I 5 HOH A 36 2039 2039 HOH HOH . I 5 HOH A 37 2040 2040 HOH HOH . I 5 HOH A 38 2041 2041 HOH HOH . I 5 HOH A 39 2042 2042 HOH HOH . I 5 HOH A 40 2043 2043 HOH HOH . I 5 HOH A 41 2044 2044 HOH HOH . I 5 HOH A 42 2045 2045 HOH HOH . I 5 HOH A 43 2046 2046 HOH HOH . I 5 HOH A 44 2047 2047 HOH HOH . I 5 HOH A 45 2048 2048 HOH HOH . I 5 HOH A 46 2049 2049 HOH HOH . I 5 HOH A 47 2050 2050 HOH HOH . I 5 HOH A 48 2051 2051 HOH HOH . I 5 HOH A 49 2052 2052 HOH HOH . I 5 HOH A 50 2053 2053 HOH HOH . I 5 HOH A 51 2054 2054 HOH HOH . I 5 HOH A 52 2055 2055 HOH HOH . I 5 HOH A 53 2056 2056 HOH HOH . I 5 HOH A 54 2057 2057 HOH HOH . I 5 HOH A 55 2058 2058 HOH HOH . I 5 HOH A 56 2059 2059 HOH HOH . I 5 HOH A 57 2060 2060 HOH HOH . I 5 HOH A 58 2061 2061 HOH HOH . I 5 HOH A 59 2062 2062 HOH HOH . I 5 HOH A 60 2063 2063 HOH HOH . I 5 HOH A 61 2064 2064 HOH HOH . J 5 HOH B 1 2001 2001 HOH HOH . J 5 HOH B 2 2002 2002 HOH HOH . J 5 HOH B 3 2003 2003 HOH HOH . J 5 HOH B 4 2004 2004 HOH HOH . J 5 HOH B 5 2005 2005 HOH HOH . J 5 HOH B 6 2006 2006 HOH HOH . J 5 HOH B 7 2007 2007 HOH HOH . J 5 HOH B 8 2008 2008 HOH HOH . J 5 HOH B 9 2010 2010 HOH HOH . J 5 HOH B 10 2011 2011 HOH HOH . J 5 HOH B 11 2012 2012 HOH HOH . J 5 HOH B 12 2013 2013 HOH HOH . J 5 HOH B 13 2014 2014 HOH HOH . J 5 HOH B 14 2015 2015 HOH HOH . J 5 HOH B 15 2016 2016 HOH HOH . J 5 HOH B 16 2017 2017 HOH HOH . J 5 HOH B 17 2018 2018 HOH HOH . J 5 HOH B 18 2019 2019 HOH HOH . J 5 HOH B 19 2020 2020 HOH HOH . J 5 HOH B 20 2021 2021 HOH HOH . J 5 HOH B 21 2022 2022 HOH HOH . J 5 HOH B 22 2023 2023 HOH HOH . J 5 HOH B 23 2024 2024 HOH HOH . J 5 HOH B 24 2025 2025 HOH HOH . J 5 HOH B 25 2026 2026 HOH HOH . J 5 HOH B 26 2027 2027 HOH HOH . J 5 HOH B 27 2028 2028 HOH HOH . J 5 HOH B 28 2029 2029 HOH HOH . J 5 HOH B 29 2030 2030 HOH HOH . J 5 HOH B 30 2031 2031 HOH HOH . J 5 HOH B 31 2032 2032 HOH HOH . J 5 HOH B 32 2033 2033 HOH HOH . J 5 HOH B 33 2034 2034 HOH HOH . J 5 HOH B 34 2035 2035 HOH HOH . J 5 HOH B 35 2036 2036 HOH HOH . J 5 HOH B 36 2037 2037 HOH HOH . J 5 HOH B 37 2038 2038 HOH HOH . J 5 HOH B 38 2039 2039 HOH HOH . J 5 HOH B 39 2040 2040 HOH HOH . J 5 HOH B 40 2041 2041 HOH HOH . J 5 HOH B 41 2042 2042 HOH HOH . J 5 HOH B 42 2043 2043 HOH HOH . J 5 HOH B 43 2044 2044 HOH HOH . J 5 HOH B 44 2045 2045 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 -11.774 -2.613 7.637 1 10.73 ? CHA HEM 200 A 1 HETATM 2 C CHB HEM . . . C 2 -10.654 1.048 10.634 1 8.34 ? CHB HEM 200 A 1 HETATM 3 C CHC HEM . . . C 2 -6.127 -0.615 10.78 1 10.32 ? CHC HEM 200 A 1 HETATM 4 C CHD HEM . . . C 2 -7.089 -2.256 6.283 1 12.09 ? CHD HEM 200 A 1 HETATM 5 C C1A HEM . . . C 2 -11.949 -1.523 8.472 1 12.64 ? C1A HEM 200 A 1 HETATM 6 C C2A HEM . . . C 2 -13.201 -0.941 8.954 1 15.59 ? C2A HEM 200 A 1 HETATM 7 C C3A HEM . . . C 2 -12.878 0.069 9.781 1 13.57 ? C3A HEM 200 A 1 HETATM 8 C C4A HEM . . . C 2 -11.422 0.181 9.85 1 13.3 ? C4A HEM 200 A 1 HETATM 9 C CMA HEM . . . C 2 -13.891 0.961 10.545 1 14.06 ? CMA HEM 200 A 1 HETATM 10 C CAA HEM . . . C 2 -14.653 -1.367 8.545 1 10.98 ? CAA HEM 200 A 1 HETATM 11 C CBA HEM . . . C 2 -15.15 -2.453 9.503 1 15.4 ? CBA HEM 200 A 1 HETATM 12 C CGA HEM . . . C 2 -16.528 -2.955 9.134 1 17.62 ? CGA HEM 200 A 1 HETATM 13 O O1A HEM . . . C 2 -17.56 -2.351 9.565 1 16.14 ? O1A HEM 200 A 1 HETATM 14 O O2A HEM . . . C 2 -16.593 -4.02 8.472 1 21.54 ? O2A HEM 200 A 1 HETATM 15 C C1B HEM . . . C 2 -9.338 0.875 11.067 1 3.07 ? C1B HEM 200 A 1 HETATM 16 C C2B HEM . . . C 2 -8.59 1.594 12.112 1 8.09 ? C2B HEM 200 A 1 HETATM 17 C C3B HEM . . . C 2 -7.342 1.111 12.16 1 10.1 ? C3B HEM 200 A 1 HETATM 18 C C4B HEM . . . C 2 -7.248 0.094 11.141 1 10.78 ? C4B HEM 200 A 1 HETATM 19 C CMB HEM . . . C 2 -9.159 2.708 13.017 1 4.38 ? CMB HEM 200 A 1 HETATM 20 C CAB HEM . . . C 2 -6.175 1.476 13.119 1 11.19 ? CAB HEM 200 A 1 HETATM 21 C CBB HEM . . . C 2 -6.26 2.548 13.923 1 7.62 ? CBB HEM 200 A 1 HETATM 22 C C1C HEM . . . C 2 -5.954 -1.114 9.496 1 12.74 ? C1C HEM 200 A 1 HETATM 23 C C2C HEM . . . C 2 -4.702 -1.461 8.842 1 14.45 ? C2C HEM 200 A 1 HETATM 24 C C3C HEM . . . C 2 -4.979 -1.876 7.608 1 8.91 ? C3C HEM 200 A 1 HETATM 25 C C4C HEM . . . C 2 -6.409 -1.858 7.426 1 15.95 ? C4C HEM 200 A 1 HETATM 26 C CMC HEM . . . C 2 -3.293 -1.354 9.469 1 14.16 ? CMC HEM 200 A 1 HETATM 27 C CAC HEM . . . C 2 -3.971 -2.235 6.52 1 16.04 ? CAC HEM 200 A 1 HETATM 28 C CBC HEM . . . C 2 -4.059 -1.494 5.408 1 11.1 ? CBC HEM 200 A 1 HETATM 29 C C1D HEM . . . C 2 -8.398 -2.71 6.283 1 13.66 ? C1D HEM 200 A 1 HETATM 30 C C2D HEM . . . C 2 -8.982 -3.74 5.441 1 18.18 ? C2D HEM 200 A 1 HETATM 31 C C3D HEM . . . C 2 -10.422 -3.906 5.94 1 16.74 ? C3D HEM 200 A 1 HETATM 32 C C4D HEM . . . C 2 -10.588 -2.925 6.989 1 15.06 ? C4D HEM 200 A 1 HETATM 33 C CMD HEM . . . C 2 -8.302 -4.582 4.345 1 13.22 ? CMD HEM 200 A 1 HETATM 34 C CAD HEM . . . C 2 -11.481 -4.889 5.419 1 11.5 ? CAD HEM 200 A 1 HETATM 35 C CBD HEM . . . C 2 -11.338 -6.161 6.245 1 14.62 ? CBD HEM 200 A 1 HETATM 36 C CGD HEM . . . C 2 -12.356 -7.164 5.766 1 14.5 ? CGD HEM 200 A 1 HETATM 37 O O1D HEM . . . C 2 -12.097 -7.824 4.726 1 12.61 ? O1D HEM 200 A 1 HETATM 38 O O2D HEM . . . C 2 -13.458 -7.229 6.364 1 16.56 ? O2D HEM 200 A 1 HETATM 39 N NA HEM . . . C 2 -10.913 -0.854 9.091 1 12.21 ? NA HEM 200 A 1 HETATM 40 N NB HEM . . . C 2 -8.478 -0.021 10.525 1 8.88 ? NB HEM 200 A 1 HETATM 41 N NC HEM . . . C 2 -6.972 -1.411 8.618 1 8.66 ? NC HEM 200 A 1 HETATM 42 N ND HEM . . . C 2 -9.388 -2.256 7.135 1 11.89 ? ND HEM 200 A 1 HETATM 43 FE FE HEM . . . C 2 -8.941 -1.13 8.886 1 11.05 ? FE HEM 200 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #