data_7RY8 # _model_server_result.job_id SGLj_apaUbcwsjHbX9LUOg _model_server_result.datetime_utc '2024-10-12 23:24:18' _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 7ry8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 7RY8 # _exptl.entry_id 7RY8 _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 98.509 _cell.angle_gamma 90 _cell.entry_id 7RY8 _cell.length_a 77.79 _cell.length_b 66.863 _cell.length_c 80.878 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7RY8 _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,F _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 ? ? ? ? ? ? ? ? ? ? ? ? 2.438 ? metalc ? metalc2 B FE HEM . A HEM 601 1_555 C N8 VOR . A VOR 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? # _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 190 n n CHA C4D HEM doub 191 n n CHA HHA HEM sing 192 n n CHB C4A HEM sing 193 n n CHB C1B HEM doub 194 n n CHB HHB HEM sing 195 n n CHC C4B HEM sing 196 n n CHC C1C HEM doub 197 n n CHC HHC HEM sing 198 n n CHD C4C HEM doub 199 n n CHD C1D HEM sing 200 n n CHD HHD HEM sing 201 n n C1A C2A HEM doub 202 n y C1A NA HEM sing 203 n y C2A C3A HEM sing 204 n y C2A CAA HEM sing 205 n n C3A C4A HEM doub 206 n y C3A CMA HEM sing 207 n n C4A NA HEM sing 208 n y CMA HMA HEM sing 209 n n CMA HMAA HEM sing 210 n n CMA HMAB HEM sing 211 n n CAA CBA HEM sing 212 n n CAA HAA HEM sing 213 n n CAA HAAA HEM sing 214 n n CBA CGA HEM sing 215 n n CBA HBA HEM sing 216 n n CBA HBAA HEM sing 217 n n CGA O1A HEM doub 218 n n CGA O2A HEM sing 219 n n C1B C2B HEM sing 220 n n C1B NB HEM sing 221 n n C2B C3B HEM doub 222 n n C2B CMB HEM sing 223 n n C3B C4B HEM sing 224 n n C3B CAB HEM sing 225 n n C4B NB HEM doub 226 n n CMB HMB HEM sing 227 n n CMB HMBA HEM sing 228 n n CMB HMBB HEM sing 229 n n CAB CBB HEM doub 230 n n CAB HAB HEM sing 231 n n CBB HBB HEM sing 232 n n CBB HBBA HEM sing 233 n n C1C C2C HEM sing 234 n y C1C NC HEM sing 235 n y C2C C3C HEM doub 236 n y C2C CMC HEM sing 237 n n C3C C4C HEM sing 238 n y C3C CAC HEM sing 239 n n C4C NC HEM sing 240 n y CMC HMC HEM sing 241 n n CMC HMCA HEM sing 242 n n CMC HMCB HEM sing 243 n n CAC CBC HEM doub 244 n n CAC HAC HEM sing 245 n n CBC HBC HEM sing 246 n n CBC HBCA HEM sing 247 n n C1D C2D HEM sing 248 n n C1D ND HEM doub 249 n n C2D C3D HEM doub 250 n n C2D CMD HEM sing 251 n n C3D C4D HEM sing 252 n n C3D CAD HEM sing 253 n n C4D ND HEM sing 254 n n CMD HMD HEM sing 255 n n CMD HMDA HEM sing 256 n n CMD HMDB HEM sing 257 n n CAD CBD HEM sing 258 n n CAD HAD HEM sing 259 n n CAD HADA HEM sing 260 n n CBD CGD HEM sing 261 n n CBD HBD HEM sing 262 n n CBD HBDA HEM sing 263 n n CGD O1D HEM doub 264 n n CGD O2D HEM sing 265 n n O2A H2A HEM sing 266 n n O2D H2D HEM sing 267 n n FE NA HEM sing 268 n n FE NB HEM sing 269 n n FE NC HEM sing 270 n n FE ND HEM sing 271 n n # _atom_sites.entry_id 7RY8 _atom_sites.fract_transf_matrix[1][1] 0.012855 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001923 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014956 _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] 0.012502 _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 2 VOR VOR . D 4 BGC A 1 603 1 BGC BGC . E 5 1PE A 1 604 604 1PE 1PE . F 6 HOH A 1 701 55 HOH HOH . F 6 HOH A 2 702 258 HOH HOH . F 6 HOH A 3 703 98 HOH HOH . F 6 HOH A 4 704 6 HOH HOH . F 6 HOH A 5 705 189 HOH HOH . F 6 HOH A 6 706 67 HOH HOH . F 6 HOH A 7 707 29 HOH HOH . F 6 HOH A 8 708 284 HOH HOH . F 6 HOH A 9 709 27 HOH HOH . F 6 HOH A 10 710 118 HOH HOH . F 6 HOH A 11 711 203 HOH HOH . F 6 HOH A 12 712 281 HOH HOH . F 6 HOH A 13 713 185 HOH HOH . F 6 HOH A 14 714 12 HOH HOH . F 6 HOH A 15 715 20 HOH HOH . F 6 HOH A 16 716 270 HOH HOH . F 6 HOH A 17 717 21 HOH HOH . F 6 HOH A 18 718 196 HOH HOH . F 6 HOH A 19 719 60 HOH HOH . F 6 HOH A 20 720 85 HOH HOH . F 6 HOH A 21 721 257 HOH HOH . F 6 HOH A 22 722 17 HOH HOH . F 6 HOH A 23 723 245 HOH HOH . F 6 HOH A 24 724 309 HOH HOH . F 6 HOH A 25 725 46 HOH HOH . F 6 HOH A 26 726 49 HOH HOH . F 6 HOH A 27 727 33 HOH HOH . F 6 HOH A 28 728 86 HOH HOH . F 6 HOH A 29 729 288 HOH HOH . F 6 HOH A 30 730 51 HOH HOH . F 6 HOH A 31 731 232 HOH HOH . F 6 HOH A 32 732 10 HOH HOH . F 6 HOH A 33 733 255 HOH HOH . F 6 HOH A 34 734 30 HOH HOH . F 6 HOH A 35 735 87 HOH HOH . F 6 HOH A 36 736 38 HOH HOH . F 6 HOH A 37 737 266 HOH HOH . F 6 HOH A 38 738 173 HOH HOH . F 6 HOH A 39 739 233 HOH HOH . F 6 HOH A 40 740 254 HOH HOH . F 6 HOH A 41 741 32 HOH HOH . F 6 HOH A 42 742 18 HOH HOH . F 6 HOH A 43 743 22 HOH HOH . F 6 HOH A 44 744 177 HOH HOH . F 6 HOH A 45 745 92 HOH HOH . F 6 HOH A 46 746 201 HOH HOH . F 6 HOH A 47 747 31 HOH HOH . F 6 HOH A 48 748 2 HOH HOH . F 6 HOH A 49 749 217 HOH HOH . F 6 HOH A 50 750 13 HOH HOH . F 6 HOH A 51 751 301 HOH HOH . F 6 HOH A 52 752 178 HOH HOH . F 6 HOH A 53 753 25 HOH HOH . F 6 HOH A 54 754 134 HOH HOH . F 6 HOH A 55 755 290 HOH HOH . F 6 HOH A 56 756 11 HOH HOH . F 6 HOH A 57 757 195 HOH HOH . F 6 HOH A 58 758 39 HOH HOH . F 6 HOH A 59 759 218 HOH HOH . F 6 HOH A 60 760 84 HOH HOH . F 6 HOH A 61 761 19 HOH HOH . F 6 HOH A 62 762 316 HOH HOH . F 6 HOH A 63 763 78 HOH HOH . F 6 HOH A 64 764 225 HOH HOH . F 6 HOH A 65 765 53 HOH HOH . F 6 HOH A 66 766 210 HOH HOH . F 6 HOH A 67 767 63 HOH HOH . F 6 HOH A 68 768 229 HOH HOH . F 6 HOH A 69 769 58 HOH HOH . F 6 HOH A 70 770 181 HOH HOH . F 6 HOH A 71 771 7 HOH HOH . F 6 HOH A 72 772 238 HOH HOH . F 6 HOH A 73 773 24 HOH HOH . F 6 HOH A 74 774 298 HOH HOH . F 6 HOH A 75 775 26 HOH HOH . F 6 HOH A 76 776 15 HOH HOH . F 6 HOH A 77 777 70 HOH HOH . F 6 HOH A 78 778 16 HOH HOH . F 6 HOH A 79 779 28 HOH HOH . F 6 HOH A 80 780 234 HOH HOH . F 6 HOH A 81 781 100 HOH HOH . F 6 HOH A 82 782 34 HOH HOH . F 6 HOH A 83 783 9 HOH HOH . F 6 HOH A 84 784 35 HOH HOH . F 6 HOH A 85 785 283 HOH HOH . F 6 HOH A 86 786 79 HOH HOH . F 6 HOH A 87 787 256 HOH HOH . F 6 HOH A 88 788 57 HOH HOH . F 6 HOH A 89 789 8 HOH HOH . F 6 HOH A 90 790 209 HOH HOH . F 6 HOH A 91 791 224 HOH HOH . F 6 HOH A 92 792 223 HOH HOH . F 6 HOH A 93 793 253 HOH HOH . F 6 HOH A 94 794 23 HOH HOH . F 6 HOH A 95 795 219 HOH HOH . F 6 HOH A 96 796 107 HOH HOH . F 6 HOH A 97 797 222 HOH HOH . F 6 HOH A 98 798 36 HOH HOH . F 6 HOH A 99 799 272 HOH HOH . F 6 HOH A 100 800 174 HOH HOH . F 6 HOH A 101 801 129 HOH HOH . F 6 HOH A 102 802 156 HOH HOH . F 6 HOH A 103 803 236 HOH HOH . F 6 HOH A 104 804 278 HOH HOH . F 6 HOH A 105 805 37 HOH HOH . F 6 HOH A 106 806 263 HOH HOH . F 6 HOH A 107 807 48 HOH HOH . F 6 HOH A 108 808 246 HOH HOH . F 6 HOH A 109 809 286 HOH HOH . F 6 HOH A 110 810 128 HOH HOH . F 6 HOH A 111 811 274 HOH HOH . F 6 HOH A 112 812 317 HOH HOH . F 6 HOH A 113 813 133 HOH HOH . F 6 HOH A 114 814 297 HOH HOH . F 6 HOH A 115 815 261 HOH HOH . F 6 HOH A 116 816 212 HOH HOH . F 6 HOH A 117 817 108 HOH HOH . F 6 HOH A 118 818 239 HOH HOH . F 6 HOH A 119 819 205 HOH HOH . F 6 HOH A 120 820 303 HOH HOH . F 6 HOH A 121 821 264 HOH HOH . F 6 HOH A 122 822 269 HOH HOH . F 6 HOH A 123 823 271 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 27.116 8.331 18.535 1 35.11 ? CHA HEM 601 A 1 HETATM 2 C CHB HEM . . . B 2 26.623 11.452 22.248 1 33.22 ? CHB HEM 601 A 1 HETATM 3 C CHC HEM . . . B 2 29.163 14.817 19.924 1 36.28 ? CHC HEM 601 A 1 HETATM 4 C CHD HEM . . . B 2 29.482 11.819 16.13 1 34.88 ? CHD HEM 601 A 1 HETATM 5 C C1A HEM . . . B 2 26.764 8.881 19.758 1 38.32 ? C1A HEM 601 A 1 HETATM 6 C C2A HEM . . . B 2 25.993 8.231 20.797 1 37.4 ? C2A HEM 601 A 1 HETATM 7 C C3A HEM . . . B 2 25.858 9.096 21.816 1 36.63 ? C3A HEM 601 A 1 HETATM 8 C C4A HEM . . . B 2 26.529 10.325 21.455 1 36.57 ? C4A HEM 601 A 1 HETATM 9 C CMA HEM . . . B 2 25.11 8.836 23.154 1 37.86 ? CMA HEM 601 A 1 HETATM 10 C CAA HEM . . . B 2 25.443 6.782 20.736 1 38.05 ? CAA HEM 601 A 1 HETATM 11 C CBA HEM . . . B 2 24.224 6.718 19.825 1 37.12 ? CBA HEM 601 A 1 HETATM 12 C CGA HEM . . . B 2 23.512 5.386 19.951 1 38.08 ? CGA HEM 601 A 1 HETATM 13 O O1A HEM . . . B 2 22.443 5.221 19.299 1 38.45 ? O1A HEM 601 A 1 HETATM 14 O O2A HEM . . . B 2 23.995 4.473 20.689 1 39.17 ? O2A HEM 601 A 1 HETATM 15 C C1B HEM . . . B 2 27.258 12.629 21.951 1 35.59 ? C1B HEM 601 A 1 HETATM 16 C C2B HEM . . . B 2 27.349 13.791 22.807 1 40 ? C2B HEM 601 A 1 HETATM 17 C C3B HEM . . . B 2 28.05 14.719 22.139 1 37.46 ? C3B HEM 601 A 1 HETATM 18 C C4B HEM . . . B 2 28.439 14.16 20.878 1 37.23 ? C4B HEM 601 A 1 HETATM 19 C CMB HEM . . . B 2 26.731 13.867 24.238 1 35.48 ? CMB HEM 601 A 1 HETATM 20 C CAB HEM . . . B 2 28.503 16.146 22.531 1 42.35 ? CAB HEM 601 A 1 HETATM 21 C CBB HEM . . . B 2 28.289 16.692 23.727 1 44.77 ? CBB HEM 601 A 1 HETATM 22 C C1C HEM . . . B 2 29.504 14.289 18.704 1 37.52 ? C1C HEM 601 A 1 HETATM 23 C C2C HEM . . . B 2 30.369 14.918 17.72 1 36.35 ? C2C HEM 601 A 1 HETATM 24 C C3C HEM . . . B 2 30.429 14.092 16.661 1 39.96 ? C3C HEM 601 A 1 HETATM 25 C C4C HEM . . . B 2 29.645 12.907 16.961 1 37.94 ? C4C HEM 601 A 1 HETATM 26 C CMC HEM . . . B 2 31.02 16.307 17.918 1 34.08 ? CMC HEM 601 A 1 HETATM 27 C CAC HEM . . . B 2 31.245 14.241 15.347 1 43.74 ? CAC HEM 601 A 1 HETATM 28 C CBC HEM . . . B 2 32.393 14.93 15.312 1 44.32 ? CBC HEM 601 A 1 HETATM 29 C C1D HEM . . . B 2 28.926 10.592 16.458 1 37.36 ? C1D HEM 601 A 1 HETATM 30 C C2D HEM . . . B 2 28.957 9.385 15.651 1 40.51 ? C2D HEM 601 A 1 HETATM 31 C C3D HEM . . . B 2 28.302 8.414 16.316 1 37.55 ? C3D HEM 601 A 1 HETATM 32 C C4D HEM . . . B 2 27.833 8.98 17.56 1 36.94 ? C4D HEM 601 A 1 HETATM 33 C CMD HEM . . . B 2 29.623 9.262 14.248 1 35.21 ? CMD HEM 601 A 1 HETATM 34 C CAD HEM . . . B 2 28.108 6.946 15.841 1 36.28 ? CAD HEM 601 A 1 HETATM 35 C CBD HEM . . . B 2 26.662 6.553 15.603 1 37.8 ? CBD HEM 601 A 1 HETATM 36 C CGD HEM . . . B 2 26.553 5.06 15.418 1 39 ? CGD HEM 601 A 1 HETATM 37 O O1D HEM . . . B 2 27.601 4.353 15.388 1 40.88 ? O1D HEM 601 A 1 HETATM 38 O O2D HEM . . . B 2 25.404 4.553 15.313 1 40.44 ? O2D HEM 601 A 1 HETATM 39 N NA HEM . . . B 2 27.069 10.165 20.186 1 37.55 ? NA HEM 601 A 1 HETATM 40 N NB HEM . . . B 2 27.92 12.887 20.772 1 34.29 ? NB HEM 601 A 1 HETATM 41 N NC HEM . . . B 2 29.094 13.061 18.227 1 37.19 ? NC HEM 601 A 1 HETATM 42 N ND HEM . . . B 2 28.238 10.298 17.61 1 36.17 ? ND HEM 601 A 1 HETATM 43 FE FE HEM . . . B 2 28.076 11.622 19.178 1 36.06 ? FE HEM 601 A 1 # _model_server_stats.io_time_ms 74 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 19 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #