data_7RY9 # _model_server_result.job_id mhTBjh1BrEnb9HeI0eVNsQ _model_server_result.datetime_utc '2024-10-12 21:15:53' _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 7ry9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 7RY9 # _exptl.entry_id 7RY9 _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 98.14 _cell.angle_gamma 90 _cell.entry_id 7RY9 _cell.length_a 76.79 _cell.length_b 66.31 _cell.length_c 80.73 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7RY9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 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,E _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 # 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 SG CYS 470 A CYS 470 1_555 B FE HEM . A HEM 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.43 ? metalc ? metalc2 B FE HEM . A HEM 601 1_555 C N8 VOR . A VOR 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.162 ? # _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 7RY9 _atom_sites.fract_transf_matrix[1][1] 0.013023 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001863 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015081 _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] 0.012513 _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 1 601 601 HEM HEM . C 3 VOR A 1 602 602 VOR VOR . D 4 PG4 A 1 603 1 PG4 PG4 . E 5 HOH A 1 701 6 HOH HOH . E 5 HOH A 2 702 4 HOH HOH . E 5 HOH A 3 703 7 HOH HOH . E 5 HOH A 4 704 2 HOH HOH . E 5 HOH A 5 705 10 HOH HOH . E 5 HOH A 6 706 8 HOH HOH . E 5 HOH A 7 707 9 HOH HOH . E 5 HOH A 8 708 51 HOH HOH . E 5 HOH A 9 709 43 HOH HOH . E 5 HOH A 10 710 39 HOH HOH . E 5 HOH A 11 711 49 HOH HOH . E 5 HOH A 12 712 20 HOH HOH . E 5 HOH A 13 713 60 HOH HOH . E 5 HOH A 14 714 47 HOH HOH . E 5 HOH A 15 715 33 HOH HOH . E 5 HOH A 16 716 35 HOH HOH . E 5 HOH A 17 717 102 HOH HOH . E 5 HOH A 18 718 21 HOH HOH . E 5 HOH A 19 719 37 HOH HOH . E 5 HOH A 20 720 40 HOH HOH . E 5 HOH A 21 721 93 HOH HOH . E 5 HOH A 22 722 32 HOH HOH . E 5 HOH A 23 723 57 HOH HOH . E 5 HOH A 24 724 13 HOH HOH . E 5 HOH A 25 725 56 HOH HOH . E 5 HOH A 26 726 55 HOH HOH . E 5 HOH A 27 727 5 HOH HOH . E 5 HOH A 28 728 18 HOH HOH . E 5 HOH A 29 729 25 HOH HOH . E 5 HOH A 30 730 38 HOH HOH . E 5 HOH A 31 731 27 HOH HOH . E 5 HOH A 32 732 44 HOH HOH . E 5 HOH A 33 733 19 HOH HOH . E 5 HOH A 34 734 45 HOH HOH . E 5 HOH A 35 735 48 HOH HOH . E 5 HOH A 36 736 17 HOH HOH . E 5 HOH A 37 737 71 HOH HOH . E 5 HOH A 38 738 65 HOH HOH . E 5 HOH A 39 739 16 HOH HOH . E 5 HOH A 40 740 95 HOH HOH . E 5 HOH A 41 741 78 HOH HOH . E 5 HOH A 42 742 68 HOH HOH . E 5 HOH A 43 743 59 HOH HOH . E 5 HOH A 44 744 3 HOH HOH . E 5 HOH A 45 745 54 HOH HOH . E 5 HOH A 46 746 22 HOH HOH . E 5 HOH A 47 747 36 HOH HOH . E 5 HOH A 48 748 87 HOH HOH . E 5 HOH A 49 749 99 HOH HOH . E 5 HOH A 50 750 104 HOH HOH . E 5 HOH A 51 751 14 HOH HOH . E 5 HOH A 52 752 24 HOH HOH . E 5 HOH A 53 753 64 HOH HOH . E 5 HOH A 54 754 101 HOH HOH . E 5 HOH A 55 755 46 HOH HOH . E 5 HOH A 56 756 103 HOH HOH . E 5 HOH A 57 757 31 HOH HOH . E 5 HOH A 58 758 62 HOH HOH . E 5 HOH A 59 759 50 HOH HOH . E 5 HOH A 60 760 41 HOH HOH . E 5 HOH A 61 761 63 HOH HOH . E 5 HOH A 62 762 91 HOH HOH . E 5 HOH A 63 763 73 HOH HOH . E 5 HOH A 64 764 66 HOH HOH . E 5 HOH A 65 765 1 HOH HOH . E 5 HOH A 66 766 70 HOH HOH . E 5 HOH A 67 767 92 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 26.79 7.949 18.604 1 27.6 ? CHA HEM 601 A 1 HETATM 2 C CHB HEM . . . B 2 26.289 11.034 22.354 1 26.74 ? CHB HEM 601 A 1 HETATM 3 C CHC HEM . . . B 2 28.783 14.378 19.917 1 26.94 ? CHC HEM 601 A 1 HETATM 4 C CHD HEM . . . B 2 29.138 11.384 16.107 1 24.58 ? CHD HEM 601 A 1 HETATM 5 C C1A HEM . . . B 2 26.451 8.478 19.83 1 30.3 ? C1A HEM 601 A 1 HETATM 6 C C2A HEM . . . B 2 25.715 7.791 20.879 1 27.57 ? C2A HEM 601 A 1 HETATM 7 C C3A HEM . . . B 2 25.586 8.65 21.913 1 28.16 ? C3A HEM 601 A 1 HETATM 8 C C4A HEM . . . B 2 26.225 9.905 21.553 1 26.36 ? C4A HEM 601 A 1 HETATM 9 C CMA HEM . . . B 2 24.887 8.387 23.274 1 25.4 ? CMA HEM 601 A 1 HETATM 10 C CAA HEM . . . B 2 25.199 6.335 20.804 1 25.19 ? CAA HEM 601 A 1 HETATM 11 C CBA HEM . . . B 2 23.985 6.277 19.881 1 28.77 ? CBA HEM 601 A 1 HETATM 12 C CGA HEM . . . B 2 23.255 4.951 20.006 1 34.73 ? CGA HEM 601 A 1 HETATM 13 O O1A HEM . . . B 2 22.146 4.805 19.424 1 35.64 ? O1A HEM 601 A 1 HETATM 14 O O2A HEM . . . B 2 23.751 4.026 20.706 1 34.32 ? O2A HEM 601 A 1 HETATM 15 C C1B HEM . . . B 2 26.942 12.202 22.045 1 25.17 ? C1B HEM 601 A 1 HETATM 16 C C2B HEM . . . B 2 27.132 13.344 22.916 1 29.8 ? C2B HEM 601 A 1 HETATM 17 C C3B HEM . . . B 2 27.818 14.265 22.197 1 30.11 ? C3B HEM 601 A 1 HETATM 18 C C4B HEM . . . B 2 28.081 13.732 20.89 1 25.58 ? C4B HEM 601 A 1 HETATM 19 C CMB HEM . . . B 2 26.607 13.403 24.376 1 26.02 ? CMB HEM 601 A 1 HETATM 20 C CAB HEM . . . B 2 28.335 15.674 22.53 1 31.84 ? CAB HEM 601 A 1 HETATM 21 C CBB HEM . . . B 2 27.992 16.322 23.631 1 36.06 ? CBB HEM 601 A 1 HETATM 22 C C1C HEM . . . B 2 29.123 13.831 18.699 1 31.59 ? C1C HEM 601 A 1 HETATM 23 C C2C HEM . . . B 2 29.953 14.495 17.709 1 27.88 ? C2C HEM 601 A 1 HETATM 24 C C3C HEM . . . B 2 30.044 13.68 16.644 1 27.68 ? C3C HEM 601 A 1 HETATM 25 C C4C HEM . . . B 2 29.301 12.463 16.944 1 29.8 ? C4C HEM 601 A 1 HETATM 26 C CMC HEM . . . B 2 30.552 15.897 17.948 1 27.78 ? CMC HEM 601 A 1 HETATM 27 C CAC HEM . . . B 2 30.837 13.893 15.344 1 30.44 ? CAC HEM 601 A 1 HETATM 28 C CBC HEM . . . B 2 31.9 14.708 15.344 1 34.33 ? CBC HEM 601 A 1 HETATM 29 C C1D HEM . . . B 2 28.577 10.19 16.493 1 25.93 ? C1D HEM 601 A 1 HETATM 30 C C2D HEM . . . B 2 28.648 8.958 15.726 1 28.67 ? C2D HEM 601 A 1 HETATM 31 C C3D HEM . . . B 2 28.009 7.994 16.406 1 24.92 ? C3D HEM 601 A 1 HETATM 32 C C4D HEM . . . B 2 27.505 8.604 17.626 1 27.79 ? C4D HEM 601 A 1 HETATM 33 C CMD HEM . . . B 2 29.37 8.855 14.367 1 21.04 ? CMD HEM 601 A 1 HETATM 34 C CAD HEM . . . B 2 27.838 6.508 16.013 1 24.32 ? CAD HEM 601 A 1 HETATM 35 C CBD HEM . . . B 2 26.378 6.119 15.816 1 28.16 ? CBD HEM 601 A 1 HETATM 36 C CGD HEM . . . B 2 26.252 4.656 15.456 1 32.54 ? CGD HEM 601 A 1 HETATM 37 O O1D HEM . . . B 2 27.234 3.888 15.587 1 29.69 ? O1D HEM 601 A 1 HETATM 38 O O2D HEM . . . B 2 25.139 4.236 15.041 1 36.16 ? O2D HEM 601 A 1 HETATM 39 N NA HEM . . . B 2 26.747 9.769 20.275 1 26.18 ? NA HEM 601 A 1 HETATM 40 N NB HEM . . . B 2 27.534 12.477 20.817 1 28.55 ? NB HEM 601 A 1 HETATM 41 N NC HEM . . . B 2 28.734 12.594 18.208 1 27.53 ? NC HEM 601 A 1 HETATM 42 N ND HEM . . . B 2 27.868 9.939 17.646 1 24.82 ? ND HEM 601 A 1 HETATM 43 FE FE HEM . . . B 2 27.755 11.189 19.29 1 27.88 ? FE HEM 601 A 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #