data_4MGJ # _model_server_result.job_id ov4Nlrn7moQmjxqdwZw5Uw _model_server_result.datetime_utc '2024-11-24 08:21:39' _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 4mgj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 4MGJ # _exptl.entry_id 4MGJ _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 90 _cell.angle_gamma 120 _cell.entry_id 4MGJ _cell.length_a 91.49 _cell.length_b 91.49 _cell.length_c 150.38 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4MGJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 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 _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 417 A CYS 436 1_555 B FE HEM . A HEM 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.481 ? metalc ? metalc2 B FE HEM . A HEM 501 1_555 C N1 CPZ . A CPZ 502 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.188 ? # _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 149 n n CHA C4D HEM doub 150 n n CHA HHA HEM sing 151 n n CHB C4A HEM sing 152 n n CHB C1B HEM doub 153 n n CHB HHB HEM sing 154 n n CHC C4B HEM sing 155 n n CHC C1C HEM doub 156 n n CHC HHC HEM sing 157 n n CHD C4C HEM doub 158 n n CHD C1D HEM sing 159 n n CHD HHD HEM sing 160 n n C1A C2A HEM doub 161 n y C1A NA HEM sing 162 n y C2A C3A HEM sing 163 n y C2A CAA HEM sing 164 n n C3A C4A HEM doub 165 n y C3A CMA HEM sing 166 n n C4A NA HEM sing 167 n y CMA HMA HEM sing 168 n n CMA HMAA HEM sing 169 n n CMA HMAB HEM sing 170 n n CAA CBA HEM sing 171 n n CAA HAA HEM sing 172 n n CAA HAAA HEM sing 173 n n CBA CGA HEM sing 174 n n CBA HBA HEM sing 175 n n CBA HBAA HEM sing 176 n n CGA O1A HEM doub 177 n n CGA O2A HEM sing 178 n n C1B C2B HEM sing 179 n n C1B NB HEM sing 180 n n C2B C3B HEM doub 181 n n C2B CMB HEM sing 182 n n C3B C4B HEM sing 183 n n C3B CAB HEM sing 184 n n C4B NB HEM doub 185 n n CMB HMB HEM sing 186 n n CMB HMBA HEM sing 187 n n CMB HMBB HEM sing 188 n n CAB CBB HEM doub 189 n n CAB HAB HEM sing 190 n n CBB HBB HEM sing 191 n n CBB HBBA HEM sing 192 n n C1C C2C HEM sing 193 n y C1C NC HEM sing 194 n y C2C C3C HEM doub 195 n y C2C CMC HEM sing 196 n n C3C C4C HEM sing 197 n y C3C CAC HEM sing 198 n n C4C NC HEM sing 199 n y CMC HMC HEM sing 200 n n CMC HMCA HEM sing 201 n n CMC HMCB HEM sing 202 n n CAC CBC HEM doub 203 n n CAC HAC HEM sing 204 n n CBC HBC HEM sing 205 n n CBC HBCA HEM sing 206 n n C1D C2D HEM sing 207 n n C1D ND HEM doub 208 n n C2D C3D HEM doub 209 n n C2D CMD HEM sing 210 n n C3D C4D HEM sing 211 n n C3D CAD HEM sing 212 n n C4D ND HEM sing 213 n n CMD HMD HEM sing 214 n n CMD HMDA HEM sing 215 n n CMD HMDB HEM sing 216 n n CAD CBD HEM sing 217 n n CAD HAD HEM sing 218 n n CAD HADA HEM sing 219 n n CBD CGD HEM sing 220 n n CBD HBD HEM sing 221 n n CBD HBDA HEM sing 222 n n CGD O1D HEM doub 223 n n CGD O2D HEM sing 224 n n O2A H2A HEM sing 225 n n O2D H2D HEM sing 226 n n FE NA HEM sing 227 n n FE NB HEM sing 228 n n FE NC HEM sing 229 n n FE ND HEM sing 230 n n # _atom_sites.entry_id 4MGJ _atom_sites.fract_transf_matrix[1][1] 0.01093 _atom_sites.fract_transf_matrix[1][2] 0.006311 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012621 _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] 0.00665 _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 1 501 500 HEM HEM . C 3 CPZ A 1 502 600 CPZ CPZ . D 4 HOH A 1 601 1 HOH HOH . D 4 HOH A 2 602 2 HOH HOH . D 4 HOH A 3 603 3 HOH HOH . D 4 HOH A 4 604 4 HOH HOH . D 4 HOH A 5 605 5 HOH HOH . D 4 HOH A 6 606 6 HOH HOH . D 4 HOH A 7 607 7 HOH HOH . D 4 HOH A 8 608 9 HOH HOH . D 4 HOH A 9 609 10 HOH HOH . D 4 HOH A 10 610 11 HOH HOH . D 4 HOH A 11 611 12 HOH HOH . D 4 HOH A 12 612 13 HOH HOH . D 4 HOH A 13 613 14 HOH HOH . D 4 HOH A 14 614 15 HOH HOH . D 4 HOH A 15 615 17 HOH HOH . D 4 HOH A 16 616 18 HOH HOH . D 4 HOH A 17 617 19 HOH HOH . D 4 HOH A 18 618 20 HOH HOH . D 4 HOH A 19 619 21 HOH HOH . D 4 HOH A 20 620 23 HOH HOH . D 4 HOH A 21 621 24 HOH HOH . D 4 HOH A 22 622 25 HOH HOH . D 4 HOH A 23 623 27 HOH HOH . D 4 HOH A 24 624 28 HOH HOH . D 4 HOH A 25 625 29 HOH HOH . D 4 HOH A 26 626 32 HOH HOH . D 4 HOH A 27 627 34 HOH HOH . D 4 HOH A 28 628 35 HOH HOH . D 4 HOH A 29 629 37 HOH HOH . D 4 HOH A 30 630 38 HOH HOH . D 4 HOH A 31 631 39 HOH HOH . D 4 HOH A 32 632 40 HOH HOH . D 4 HOH A 33 633 42 HOH HOH . D 4 HOH A 34 634 43 HOH HOH . D 4 HOH A 35 635 46 HOH HOH . D 4 HOH A 36 636 48 HOH HOH . D 4 HOH A 37 637 49 HOH HOH . D 4 HOH A 38 638 50 HOH HOH . D 4 HOH A 39 639 51 HOH HOH . D 4 HOH A 40 640 52 HOH HOH . D 4 HOH A 41 641 53 HOH HOH . D 4 HOH A 42 642 55 HOH HOH . D 4 HOH A 43 643 57 HOH HOH . D 4 HOH A 44 644 58 HOH HOH . D 4 HOH A 45 645 59 HOH HOH . D 4 HOH A 46 646 60 HOH HOH . D 4 HOH A 47 647 61 HOH HOH . D 4 HOH A 48 648 65 HOH HOH . D 4 HOH A 49 649 66 HOH HOH . D 4 HOH A 50 650 68 HOH HOH . D 4 HOH A 51 651 69 HOH HOH . D 4 HOH A 52 652 71 HOH HOH . D 4 HOH A 53 653 73 HOH HOH . D 4 HOH A 54 654 74 HOH HOH . D 4 HOH A 55 655 75 HOH HOH . D 4 HOH A 56 656 76 HOH HOH . D 4 HOH A 57 657 77 HOH HOH . D 4 HOH A 58 658 78 HOH HOH . D 4 HOH A 59 659 80 HOH HOH . D 4 HOH A 60 660 84 HOH HOH . D 4 HOH A 61 661 86 HOH HOH . D 4 HOH A 62 662 89 HOH HOH . D 4 HOH A 63 663 95 HOH HOH . D 4 HOH A 64 664 99 HOH HOH . D 4 HOH A 65 665 100 HOH HOH . D 4 HOH A 66 666 101 HOH HOH . D 4 HOH A 67 667 106 HOH HOH . D 4 HOH A 68 668 108 HOH HOH . D 4 HOH A 69 669 110 HOH HOH . D 4 HOH A 70 670 111 HOH HOH . D 4 HOH A 71 671 118 HOH HOH . D 4 HOH A 72 672 120 HOH HOH . D 4 HOH A 73 673 121 HOH HOH . D 4 HOH A 74 674 123 HOH HOH . D 4 HOH A 75 675 127 HOH HOH . D 4 HOH A 76 676 128 HOH HOH . D 4 HOH A 77 677 129 HOH HOH . D 4 HOH A 78 678 131 HOH HOH . D 4 HOH A 79 679 134 HOH HOH . D 4 HOH A 80 680 136 HOH HOH . D 4 HOH A 81 681 138 HOH HOH . D 4 HOH A 82 682 145 HOH HOH . D 4 HOH A 83 683 147 HOH HOH . D 4 HOH A 84 684 158 HOH HOH . D 4 HOH A 85 685 159 HOH HOH . D 4 HOH A 86 686 162 HOH HOH . D 4 HOH A 87 687 165 HOH HOH . D 4 HOH A 88 688 166 HOH HOH . D 4 HOH A 89 689 167 HOH HOH . D 4 HOH A 90 690 174 HOH HOH . D 4 HOH A 91 691 175 HOH HOH . D 4 HOH A 92 692 176 HOH HOH . D 4 HOH A 93 693 180 HOH HOH . D 4 HOH A 94 694 191 HOH HOH . D 4 HOH A 95 695 193 HOH HOH . D 4 HOH A 96 696 195 HOH HOH . D 4 HOH A 97 697 206 HOH HOH . D 4 HOH A 98 698 210 HOH HOH . D 4 HOH A 99 699 211 HOH HOH . D 4 HOH A 100 700 212 HOH HOH . D 4 HOH A 101 701 219 HOH HOH . D 4 HOH A 102 702 220 HOH HOH . D 4 HOH A 103 703 225 HOH HOH . D 4 HOH A 104 704 229 HOH HOH . D 4 HOH A 105 705 230 HOH HOH . D 4 HOH A 106 706 231 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 39.666 -0.651 10.52 1 50.16 ? CHA HEM 501 A 1 HETATM 2 C CHB HEM . . . B 2 41.934 -1.932 6.376 1 50.21 ? CHB HEM 501 A 1 HETATM 3 C CHC HEM . . . B 2 43.602 -5.968 8.639 1 53.97 ? CHC HEM 501 A 1 HETATM 4 C CHD HEM . . . B 2 41.318 -4.731 12.822 1 52.15 ? CHD HEM 501 A 1 HETATM 5 C C1A HEM . . . B 2 40.112 -0.647 9.209 1 51.18 ? C1A HEM 501 A 1 HETATM 6 C C2A HEM . . . B 2 39.744 0.31 8.169 1 49.2 ? C2A HEM 501 A 1 HETATM 7 C C3A HEM . . . B 2 40.394 -0.012 7.018 1 48.55 ? C3A HEM 501 A 1 HETATM 8 C C4A HEM . . . B 2 41.162 -1.228 7.271 1 50.02 ? C4A HEM 501 A 1 HETATM 9 C CMA HEM . . . B 2 40.35 0.757 5.686 1 46.99 ? CMA HEM 501 A 1 HETATM 10 C CAA HEM . . . B 2 38.799 1.496 8.416 1 48.56 ? CAA HEM 501 A 1 HETATM 11 C CBA HEM . . . B 2 39.478 2.569 9.249 1 48.7 ? CBA HEM 501 A 1 HETATM 12 C CGA HEM . . . B 2 38.552 3.741 9.307 1 52.8 ? CGA HEM 501 A 1 HETATM 13 O O1A HEM . . . B 2 37.398 3.59 9.804 1 53.76 ? O1A HEM 501 A 1 HETATM 14 O O2A HEM . . . B 2 38.907 4.864 8.859 1 57.46 ? O2A HEM 501 A 1 HETATM 15 C C1B HEM . . . B 2 42.556 -3.155 6.598 1 50.39 ? C1B HEM 501 A 1 HETATM 16 C C2B HEM . . . B 2 43.338 -3.923 5.632 1 46.74 ? C2B HEM 501 A 1 HETATM 17 C C3B HEM . . . B 2 43.809 -5.054 6.255 1 49.56 ? C3B HEM 501 A 1 HETATM 18 C C4B HEM . . . B 2 43.361 -5.014 7.653 1 50.87 ? C4B HEM 501 A 1 HETATM 19 C CMB HEM . . . B 2 43.488 -3.445 4.186 1 39.65 ? CMB HEM 501 A 1 HETATM 20 C CAB HEM . . . B 2 44.685 -6.206 5.678 1 49.19 ? CAB HEM 501 A 1 HETATM 21 C CBB HEM . . . B 2 45.453 -6.084 4.604 1 43.94 ? CBB HEM 501 A 1 HETATM 22 C C1C HEM . . . B 2 43.147 -5.988 9.964 1 55.05 ? C1C HEM 501 A 1 HETATM 23 C C2C HEM . . . B 2 43.561 -6.929 11.012 1 53.72 ? C2C HEM 501 A 1 HETATM 24 C C3C HEM . . . B 2 42.928 -6.58 12.183 1 52.04 ? C3C HEM 501 A 1 HETATM 25 C C4C HEM . . . B 2 42.109 -5.407 11.907 1 52.31 ? C4C HEM 501 A 1 HETATM 26 C CMC HEM . . . B 2 44.531 -8.095 10.73 1 51.84 ? CMC HEM 501 A 1 HETATM 27 C CAC HEM . . . B 2 42.939 -7.269 13.581 1 51.72 ? CAC HEM 501 A 1 HETATM 28 C CBC HEM . . . B 2 44.001 -7.904 14.067 1 51.35 ? CBC HEM 501 A 1 HETATM 29 C C1D HEM . . . B 2 40.644 -3.544 12.599 1 51.19 ? C1D HEM 501 A 1 HETATM 30 C C2D HEM . . . B 2 39.76 -2.89 13.542 1 53.42 ? C2D HEM 501 A 1 HETATM 31 C C3D HEM . . . B 2 39.217 -1.642 12.804 1 52.56 ? C3D HEM 501 A 1 HETATM 32 C C4D HEM . . . B 2 39.866 -1.62 11.506 1 51.85 ? C4D HEM 501 A 1 HETATM 33 C CMD HEM . . . B 2 39.399 -3.378 14.953 1 52.57 ? CMD HEM 501 A 1 HETATM 34 C CAD HEM . . . B 2 38.282 -0.565 13.358 1 54.26 ? CAD HEM 501 A 1 HETATM 35 C CBD HEM . . . B 2 39.134 0.516 13.986 1 58.77 ? CBD HEM 501 A 1 HETATM 36 C CGD HEM . . . B 2 38.269 1.524 14.699 1 61.4 ? CGD HEM 501 A 1 HETATM 37 O O1D HEM . . . B 2 38.714 2.159 15.71 1 61.27 ? O1D HEM 501 A 1 HETATM 38 O O2D HEM . . . B 2 37.091 1.708 14.27 1 60.41 ? O2D HEM 501 A 1 HETATM 39 N NA HEM . . . B 2 40.949 -1.596 8.604 1 54.1 ? NA HEM 501 A 1 HETATM 40 N NB HEM . . . B 2 42.594 -3.852 7.806 1 52.39 ? NB HEM 501 A 1 HETATM 41 N NC HEM . . . B 2 42.281 -5.061 10.565 1 52.83 ? NC HEM 501 A 1 HETATM 42 N ND HEM . . . B 2 40.704 -2.746 11.444 1 52.6 ? ND HEM 501 A 1 HETATM 43 FE FE HEM . . . B 2 41.605 -3.287 9.603 1 54.09 ? FE HEM 501 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 227 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 43 #