data_7RKW # _model_server_result.job_id oTFb484_-3p7_szAcuqV6Q _model_server_result.datetime_utc '2024-10-13 03:24:56' _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 7rkw # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 7RKW # _exptl.entry_id 7RKW _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 100.14 _cell.angle_gamma 90 _cell.entry_id 7RKW _cell.length_a 121.29 _cell.length_b 55.28 _cell.length_c 72.06 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7RKW _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 405 A CYS 405 1_555 B FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.322 ? metalc ? metalc2 B FE HEM . A HEM 501 1_555 C N2 5TV . A 5TV 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? # _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 182 n n CHA C4D HEM doub 183 n n CHA HHA HEM sing 184 n n CHB C4A HEM sing 185 n n CHB C1B HEM doub 186 n n CHB HHB HEM sing 187 n n CHC C4B HEM sing 188 n n CHC C1C HEM doub 189 n n CHC HHC HEM sing 190 n n CHD C4C HEM doub 191 n n CHD C1D HEM sing 192 n n CHD HHD HEM sing 193 n n C1A C2A HEM doub 194 n y C1A NA HEM sing 195 n y C2A C3A HEM sing 196 n y C2A CAA HEM sing 197 n n C3A C4A HEM doub 198 n y C3A CMA HEM sing 199 n n C4A NA HEM sing 200 n y CMA HMA HEM sing 201 n n CMA HMAA HEM sing 202 n n CMA HMAB HEM sing 203 n n CAA CBA HEM sing 204 n n CAA HAA HEM sing 205 n n CAA HAAA HEM sing 206 n n CBA CGA HEM sing 207 n n CBA HBA HEM sing 208 n n CBA HBAA HEM sing 209 n n CGA O1A HEM doub 210 n n CGA O2A HEM sing 211 n n C1B C2B HEM sing 212 n n C1B NB HEM sing 213 n n C2B C3B HEM doub 214 n n C2B CMB HEM sing 215 n n C3B C4B HEM sing 216 n n C3B CAB HEM sing 217 n n C4B NB HEM doub 218 n n CMB HMB HEM sing 219 n n CMB HMBA HEM sing 220 n n CMB HMBB HEM sing 221 n n CAB CBB HEM doub 222 n n CAB HAB HEM sing 223 n n CBB HBB HEM sing 224 n n CBB HBBA HEM sing 225 n n C1C C2C HEM sing 226 n y C1C NC HEM sing 227 n y C2C C3C HEM doub 228 n y C2C CMC HEM sing 229 n n C3C C4C HEM sing 230 n y C3C CAC HEM sing 231 n n C4C NC HEM sing 232 n y CMC HMC HEM sing 233 n n CMC HMCA HEM sing 234 n n CMC HMCB HEM sing 235 n n CAC CBC HEM doub 236 n n CAC HAC HEM sing 237 n n CBC HBC HEM sing 238 n n CBC HBCA HEM sing 239 n n C1D C2D HEM sing 240 n n C1D ND HEM doub 241 n n C2D C3D HEM doub 242 n n C2D CMD HEM sing 243 n n C3D C4D HEM sing 244 n n C3D CAD HEM sing 245 n n C4D ND HEM sing 246 n n CMD HMD HEM sing 247 n n CMD HMDA HEM sing 248 n n CMD HMDB HEM sing 249 n n CAD CBD HEM sing 250 n n CAD HAD HEM sing 251 n n CAD HADA HEM sing 252 n n CBD CGD HEM sing 253 n n CBD HBD HEM sing 254 n n CBD HBDA HEM sing 255 n n CGD O1D HEM doub 256 n n CGD O2D HEM sing 257 n n O2A H2A HEM sing 258 n n O2D H2D HEM sing 259 n n FE NA HEM sing 260 n n FE NB HEM sing 261 n n FE NC HEM sing 262 n n FE ND HEM sing 263 n n # _atom_sites.entry_id 7RKW _atom_sites.fract_transf_matrix[1][1] 0.008245 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001474 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01809 _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] 0.014097 _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 1 501 501 HEM HEM . C 3 5TV A 1 502 502 5TV L46 . D 4 GOL A 1 503 1 GOL GOL . E 5 HOH A 1 601 60 HOH HOH . E 5 HOH A 2 602 215 HOH HOH . E 5 HOH A 3 603 184 HOH HOH . E 5 HOH A 4 604 62 HOH HOH . E 5 HOH A 5 605 15 HOH HOH . E 5 HOH A 6 606 110 HOH HOH . E 5 HOH A 7 607 216 HOH HOH . E 5 HOH A 8 608 26 HOH HOH . E 5 HOH A 9 609 46 HOH HOH . E 5 HOH A 10 610 209 HOH HOH . E 5 HOH A 11 611 12 HOH HOH . E 5 HOH A 12 612 4 HOH HOH . E 5 HOH A 13 613 23 HOH HOH . E 5 HOH A 14 614 7 HOH HOH . E 5 HOH A 15 615 22 HOH HOH . E 5 HOH A 16 616 30 HOH HOH . E 5 HOH A 17 617 190 HOH HOH . E 5 HOH A 18 618 191 HOH HOH . E 5 HOH A 19 619 87 HOH HOH . E 5 HOH A 20 620 45 HOH HOH . E 5 HOH A 21 621 2 HOH HOH . E 5 HOH A 22 622 183 HOH HOH . E 5 HOH A 23 623 49 HOH HOH . E 5 HOH A 24 624 54 HOH HOH . E 5 HOH A 25 625 208 HOH HOH . E 5 HOH A 26 626 203 HOH HOH . E 5 HOH A 27 627 50 HOH HOH . E 5 HOH A 28 628 5 HOH HOH . E 5 HOH A 29 629 38 HOH HOH . E 5 HOH A 30 630 90 HOH HOH . E 5 HOH A 31 631 61 HOH HOH . E 5 HOH A 32 632 69 HOH HOH . E 5 HOH A 33 633 196 HOH HOH . E 5 HOH A 34 634 55 HOH HOH . E 5 HOH A 35 635 8 HOH HOH . E 5 HOH A 36 636 1 HOH HOH . E 5 HOH A 37 637 10 HOH HOH . E 5 HOH A 38 638 187 HOH HOH . E 5 HOH A 39 639 70 HOH HOH . E 5 HOH A 40 640 77 HOH HOH . E 5 HOH A 41 641 181 HOH HOH . E 5 HOH A 42 642 17 HOH HOH . E 5 HOH A 43 643 189 HOH HOH . E 5 HOH A 44 644 182 HOH HOH . E 5 HOH A 45 645 193 HOH HOH . E 5 HOH A 46 646 48 HOH HOH . E 5 HOH A 47 647 200 HOH HOH . E 5 HOH A 48 648 42 HOH HOH . E 5 HOH A 49 649 14 HOH HOH . E 5 HOH A 50 650 186 HOH HOH . E 5 HOH A 51 651 195 HOH HOH . E 5 HOH A 52 652 197 HOH HOH . E 5 HOH A 53 653 219 HOH HOH . E 5 HOH A 54 654 202 HOH HOH . E 5 HOH A 55 655 217 HOH HOH . E 5 HOH A 56 656 198 HOH HOH . E 5 HOH A 57 657 188 HOH HOH . E 5 HOH A 58 658 180 HOH HOH . E 5 HOH A 59 659 207 HOH HOH . E 5 HOH A 60 660 220 HOH HOH . E 5 HOH A 61 661 192 HOH HOH . E 5 HOH A 62 662 185 HOH HOH . E 5 HOH A 63 663 25 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 17.211 -5.737 23.874 1 37.92 ? CHA HEM 501 A 1 HETATM 2 C CHB HEM . . . B 2 16 -1.383 22.164 1 37.56 ? CHB HEM 501 A 1 HETATM 3 C CHC HEM . . . B 2 20.633 -0.163 21.843 1 37.03 ? CHC HEM 501 A 1 HETATM 4 C CHD HEM . . . B 2 21.862 -4.657 23.045 1 38.09 ? CHD HEM 501 A 1 HETATM 5 C C1A HEM . . . B 2 16.548 -4.625 23.505 1 39.58 ? C1A HEM 501 A 1 HETATM 6 C C2A HEM . . . B 2 15.151 -4.561 23.483 1 38.8 ? C2A HEM 501 A 1 HETATM 7 C C3A HEM . . . B 2 14.796 -3.363 22.964 1 41.48 ? C3A HEM 501 A 1 HETATM 8 C C4A HEM . . . B 2 15.98 -2.656 22.657 1 41.48 ? C4A HEM 501 A 1 HETATM 9 C CMA HEM . . . B 2 13.363 -2.907 22.729 1 47.12 ? CMA HEM 501 A 1 HETATM 10 C CAA HEM . . . B 2 14.168 -5.62 23.904 1 42.79 ? CAA HEM 501 A 1 HETATM 11 C CBA HEM . . . B 2 13.984 -6.65 22.759 1 42.62 ? CBA HEM 501 A 1 HETATM 12 C CGA HEM . . . B 2 13.046 -7.797 23.225 1 48.19 ? CGA HEM 501 A 1 HETATM 13 O O1A HEM . . . B 2 12.745 -8.707 22.426 1 41.12 ? O1A HEM 501 A 1 HETATM 14 O O2A HEM . . . B 2 12.575 -7.906 24.403 1 47.97 ? O2A HEM 501 A 1 HETATM 15 C C1B HEM . . . B 2 17.149 -0.625 21.942 1 35.72 ? C1B HEM 501 A 1 HETATM 16 C C2B HEM . . . B 2 17.13 0.756 21.5 1 37.17 ? C2B HEM 501 A 1 HETATM 17 C C3B HEM . . . B 2 18.474 1.136 21.374 1 43.36 ? C3B HEM 501 A 1 HETATM 18 C C4B HEM . . . B 2 19.257 -0.107 21.755 1 36.81 ? C4B HEM 501 A 1 HETATM 19 C CMB HEM . . . B 2 15.911 1.538 21.144 1 39.57 ? CMB HEM 501 A 1 HETATM 20 C CAB HEM . . . B 2 19.136 2.434 21.058 1 38.06 ? CAB HEM 501 A 1 HETATM 21 C CBB HEM . . . B 2 18.521 3.608 21.268 1 42.39 ? CBB HEM 501 A 1 HETATM 22 C C1C HEM . . . B 2 21.378 -1.264 22.164 1 42.45 ? C1C HEM 501 A 1 HETATM 23 C C2C HEM . . . B 2 22.748 -1.294 22.172 1 39.49 ? C2C HEM 501 A 1 HETATM 24 C C3C HEM . . . B 2 23.107 -2.598 22.494 1 38.26 ? C3C HEM 501 A 1 HETATM 25 C C4C HEM . . . B 2 21.915 -3.341 22.701 1 43.23 ? C4C HEM 501 A 1 HETATM 26 C CMC HEM . . . B 2 23.613 -0.05 21.881 1 45.11 ? CMC HEM 501 A 1 HETATM 27 C CAC HEM . . . B 2 24.454 -3.224 22.646 1 52.36 ? CAC HEM 501 A 1 HETATM 28 C CBC HEM . . . B 2 25.573 -2.643 22.259 1 50.23 ? CBC HEM 501 A 1 HETATM 29 C C1D HEM . . . B 2 20.647 -5.266 23.363 1 36.15 ? C1D HEM 501 A 1 HETATM 30 C C2D HEM . . . B 2 20.661 -6.634 23.801 1 41.95 ? C2D HEM 501 A 1 HETATM 31 C C3D HEM . . . B 2 19.41 -6.932 24.058 1 45.54 ? C3D HEM 501 A 1 HETATM 32 C C4D HEM . . . B 2 18.6 -5.761 23.708 1 38.54 ? C4D HEM 501 A 1 HETATM 33 C CMD HEM . . . B 2 21.879 -7.513 23.912 1 41.33 ? CMD HEM 501 A 1 HETATM 34 C CAD HEM . . . B 2 18.923 -8.277 24.476 1 47.07 ? CAD HEM 501 A 1 HETATM 35 C CBD HEM . . . B 2 18.6 -8.32 25.94 1 56.37 ? CBD HEM 501 A 1 HETATM 36 C CGD HEM . . . B 2 18.236 -9.78 26.316 1 66.04 ? CGD HEM 501 A 1 HETATM 37 O O1D HEM . . . B 2 18.657 -10.257 27.403 1 65.65 ? O1D HEM 501 A 1 HETATM 38 O O2D HEM . . . B 2 17.483 -10.489 25.593 1 56.01 ? O2D HEM 501 A 1 HETATM 39 N NA HEM . . . B 2 17.06 -3.432 23.005 1 36.48 ? NA HEM 501 A 1 HETATM 40 N NB HEM . . . B 2 18.404 -1.062 22.088 1 37.67 ? NB HEM 501 A 1 HETATM 41 N NC HEM . . . B 2 20.879 -2.518 22.467 1 38.18 ? NC HEM 501 A 1 HETATM 42 N ND HEM . . . B 2 19.412 -4.757 23.336 1 42.1 ? ND HEM 501 A 1 HETATM 43 FE FE HEM . . . B 2 18.934 -2.977 22.754 1 37.82 ? FE HEM 501 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 275 _model_server_stats.encode_time_ms 13 _model_server_stats.element_count 43 #