data_4L40 # _model_server_result.job_id iVJRzDrLaES9wlC_DM6LgQ _model_server_result.datetime_utc '2024-10-19 12:39:06' _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 4l40 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 4L40 # _exptl.entry_id 4L40 _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 90 _cell.entry_id 4L40 _cell.length_a 59.63 _cell.length_b 59.63 _cell.length_c 244.17 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4L40 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _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 # _struct_conn.conn_type_id metalc _struct_conn.details ? _struct_conn.id metalc1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id SG _struct_conn.ptnr1_label_comp_id CYS _struct_conn.ptnr1_label_seq_id 365 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 365 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id FE _struct_conn.ptnr2_label_comp_id HEM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id HEM _struct_conn.ptnr2_auth_seq_id 501 _struct_conn.ptnr2_symmetry 1_555 _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 2.286 _struct_conn.pdbx_value_order ? # _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 4L40 _atom_sites.fract_transf_matrix[1][1] 0.01677 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01677 _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] 0.004096 _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 DCR A 1 502 601 DCR AQZ . 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 8 HOH HOH . D 4 HOH A 9 609 9 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 16 HOH HOH . D 4 HOH A 16 616 17 HOH HOH . D 4 HOH A 17 617 18 HOH HOH . D 4 HOH A 18 618 19 HOH HOH . D 4 HOH A 19 619 20 HOH HOH . D 4 HOH A 20 620 21 HOH HOH . D 4 HOH A 21 621 23 HOH HOH . D 4 HOH A 22 622 24 HOH HOH . D 4 HOH A 23 623 25 HOH HOH . D 4 HOH A 24 624 26 HOH HOH . D 4 HOH A 25 625 27 HOH HOH . D 4 HOH A 26 626 28 HOH HOH . D 4 HOH A 27 627 29 HOH HOH . D 4 HOH A 28 628 30 HOH HOH . D 4 HOH A 29 629 31 HOH HOH . D 4 HOH A 30 630 32 HOH HOH . D 4 HOH A 31 631 35 HOH HOH . D 4 HOH A 32 632 36 HOH HOH . D 4 HOH A 33 633 37 HOH HOH . D 4 HOH A 34 634 39 HOH HOH . D 4 HOH A 35 635 40 HOH HOH . D 4 HOH A 36 636 41 HOH HOH . D 4 HOH A 37 637 42 HOH HOH . D 4 HOH A 38 638 45 HOH HOH . D 4 HOH A 39 639 46 HOH HOH . D 4 HOH A 40 640 48 HOH HOH . D 4 HOH A 41 641 49 HOH HOH . D 4 HOH A 42 642 50 HOH HOH . D 4 HOH A 43 643 51 HOH HOH . D 4 HOH A 44 644 52 HOH HOH . D 4 HOH A 45 645 53 HOH HOH . D 4 HOH A 46 646 54 HOH HOH . D 4 HOH A 47 647 56 HOH HOH . D 4 HOH A 48 648 57 HOH HOH . D 4 HOH A 49 649 59 HOH HOH . D 4 HOH A 50 650 60 HOH HOH . D 4 HOH A 51 651 62 HOH HOH . D 4 HOH A 52 652 63 HOH HOH . D 4 HOH A 53 653 64 HOH HOH . D 4 HOH A 54 654 65 HOH HOH . D 4 HOH A 55 655 66 HOH HOH . D 4 HOH A 56 656 67 HOH HOH . D 4 HOH A 57 657 68 HOH HOH . D 4 HOH A 58 658 69 HOH HOH . D 4 HOH A 59 659 71 HOH HOH . D 4 HOH A 60 660 72 HOH HOH . D 4 HOH A 61 661 75 HOH HOH . D 4 HOH A 62 662 76 HOH HOH . D 4 HOH A 63 663 77 HOH HOH . D 4 HOH A 64 664 78 HOH HOH . D 4 HOH A 65 665 79 HOH HOH . D 4 HOH A 66 666 80 HOH HOH . D 4 HOH A 67 667 81 HOH HOH . D 4 HOH A 68 668 83 HOH HOH . D 4 HOH A 69 669 84 HOH HOH . D 4 HOH A 70 670 90 HOH HOH . D 4 HOH A 71 671 92 HOH HOH . D 4 HOH A 72 672 97 HOH HOH . D 4 HOH A 73 673 99 HOH HOH . D 4 HOH A 74 674 100 HOH HOH . D 4 HOH A 75 675 102 HOH HOH . D 4 HOH A 76 676 105 HOH HOH . D 4 HOH A 77 677 107 HOH HOH . D 4 HOH A 78 678 108 HOH HOH . D 4 HOH A 79 679 109 HOH HOH . D 4 HOH A 80 680 114 HOH HOH . D 4 HOH A 81 681 115 HOH HOH . D 4 HOH A 82 682 117 HOH HOH . D 4 HOH A 83 683 118 HOH HOH . D 4 HOH A 84 684 119 HOH HOH . D 4 HOH A 85 685 120 HOH HOH . D 4 HOH A 86 686 121 HOH HOH . D 4 HOH A 87 687 122 HOH HOH . D 4 HOH A 88 688 123 HOH HOH . D 4 HOH A 89 689 124 HOH HOH . D 4 HOH A 90 690 125 HOH HOH . D 4 HOH A 91 691 126 HOH HOH . D 4 HOH A 92 692 127 HOH HOH . D 4 HOH A 93 693 128 HOH HOH . D 4 HOH A 94 694 131 HOH HOH . D 4 HOH A 95 695 133 HOH HOH . D 4 HOH A 96 696 136 HOH HOH . D 4 HOH A 97 697 137 HOH HOH . D 4 HOH A 98 698 140 HOH HOH . D 4 HOH A 99 699 141 HOH HOH . D 4 HOH A 100 700 142 HOH HOH . D 4 HOH A 101 701 144 HOH HOH . D 4 HOH A 102 702 145 HOH HOH . D 4 HOH A 103 703 147 HOH HOH . D 4 HOH A 104 704 148 HOH HOH . D 4 HOH A 105 705 149 HOH HOH . D 4 HOH A 106 706 150 HOH HOH . D 4 HOH A 107 707 151 HOH HOH . D 4 HOH A 108 708 154 HOH HOH . D 4 HOH A 109 709 155 HOH HOH . D 4 HOH A 110 710 156 HOH HOH . D 4 HOH A 111 711 157 HOH HOH . D 4 HOH A 112 712 1 HOH HOH . D 4 HOH A 113 713 3 HOH HOH . D 4 HOH A 114 714 4 HOH HOH . D 4 HOH A 115 715 5 HOH HOH . D 4 HOH A 116 716 8 HOH HOH . D 4 HOH A 117 717 11 HOH HOH . D 4 HOH A 118 718 17 HOH HOH . D 4 HOH A 119 719 19 HOH HOH . D 4 HOH A 120 720 21 HOH HOH . D 4 HOH A 121 721 23 HOH HOH . D 4 HOH A 122 722 32 HOH HOH . D 4 HOH A 123 723 33 HOH HOH . D 4 HOH A 124 724 35 HOH HOH . D 4 HOH A 125 725 38 HOH HOH . D 4 HOH A 126 726 41 HOH HOH . D 4 HOH A 127 727 43 HOH HOH . D 4 HOH A 128 728 49 HOH HOH . D 4 HOH A 129 729 58 HOH HOH . D 4 HOH A 130 730 61 HOH HOH . D 4 HOH A 131 731 65 HOH HOH . D 4 HOH A 132 732 66 HOH HOH . D 4 HOH A 133 733 72 HOH HOH . D 4 HOH A 134 734 74 HOH HOH . D 4 HOH A 135 735 75 HOH HOH . D 4 HOH A 136 736 76 HOH HOH . D 4 HOH A 137 737 77 HOH HOH . D 4 HOH A 138 738 86 HOH HOH . D 4 HOH A 139 739 87 HOH HOH . D 4 HOH A 140 740 88 HOH HOH . D 4 HOH A 141 741 92 HOH HOH . D 4 HOH A 142 742 94 HOH HOH . D 4 HOH A 143 743 97 HOH HOH . D 4 HOH A 144 744 98 HOH HOH . D 4 HOH A 145 745 99 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 4.09 -27.424 19.659 1 13.25 ? CHA HEM 501 A 1 HETATM 2 C CHB HEM . . . B 2 5.174 -28.29 15.099 1 12.16 ? CHB HEM 501 A 1 HETATM 3 C CHC HEM . . . B 2 1.97 -24.973 13.595 1 11.26 ? CHC HEM 501 A 1 HETATM 4 C CHD HEM . . . B 2 1.135 -23.889 18.205 1 9.78 ? CHD HEM 501 A 1 HETATM 5 C C1A HEM . . . B 2 4.633 -27.963 18.545 1 13.47 ? C1A HEM 501 A 1 HETATM 6 C C2A HEM . . . B 2 5.606 -29.034 18.535 1 12.99 ? C2A HEM 501 A 1 HETATM 7 C C3A HEM . . . B 2 5.916 -29.311 17.267 1 12.76 ? C3A HEM 501 A 1 HETATM 8 C C4A HEM . . . B 2 5.121 -28.397 16.45 1 12.54 ? C4A HEM 501 A 1 HETATM 9 C CMA HEM . . . B 2 6.937 -30.388 16.846 1 8.83 ? CMA HEM 501 A 1 HETATM 10 C CAA HEM . . . B 2 6.176 -29.72 19.787 1 10.62 ? CAA HEM 501 A 1 HETATM 11 C CBA HEM . . . B 2 5.514 -31.049 20.072 1 9.43 ? CBA HEM 501 A 1 HETATM 12 C CGA HEM . . . B 2 6.063 -31.531 21.38 1 9.94 ? CGA HEM 501 A 1 HETATM 13 O O1A HEM . . . B 2 5.782 -32.699 21.765 1 12.29 ? O1A HEM 501 A 1 HETATM 14 O O2A HEM . . . B 2 6.772 -30.745 22.046 1 9.06 ? O2A HEM 501 A 1 HETATM 15 C C1B HEM . . . B 2 4.484 -27.377 14.343 1 11.35 ? C1B HEM 501 A 1 HETATM 16 C C2B HEM . . . B 2 4.715 -27.195 12.93 1 11.19 ? C2B HEM 501 A 1 HETATM 17 C C3B HEM . . . B 2 3.846 -26.277 12.483 1 12.09 ? C3B HEM 501 A 1 HETATM 18 C C4B HEM . . . B 2 3.022 -25.854 13.603 1 11.32 ? C4B HEM 501 A 1 HETATM 19 C CMB HEM . . . B 2 5.793 -27.901 12.085 1 4.91 ? CMB HEM 501 A 1 HETATM 20 C CAB HEM . . . B 2 3.853 -25.839 11.004 1 13.34 ? CAB HEM 501 A 1 HETATM 21 C CBB HEM . . . B 2 3.152 -24.824 10.555 1 15.52 ? CBB HEM 501 A 1 HETATM 22 C C1C HEM . . . B 2 1.411 -24.45 14.741 1 12.06 ? C1C HEM 501 A 1 HETATM 23 C C2C HEM . . . B 2 0.303 -23.503 14.803 1 13.77 ? C2C HEM 501 A 1 HETATM 24 C C3C HEM . . . B 2 0.093 -23.193 16.087 1 13.69 ? C3C HEM 501 A 1 HETATM 25 C C4C HEM . . . B 2 1.043 -23.947 16.857 1 10.58 ? C4C HEM 501 A 1 HETATM 26 C CMC HEM . . . B 2 -0.447 -22.973 13.581 1 14.24 ? CMC HEM 501 A 1 HETATM 27 C CAC HEM . . . B 2 -0.94 -22.254 16.737 1 14.58 ? CAC HEM 501 A 1 HETATM 28 C CBC HEM . . . B 2 -1.912 -21.696 16.021 1 16.88 ? CBC HEM 501 A 1 HETATM 29 C C1D HEM . . . B 2 1.949 -24.658 18.986 1 8.26 ? C1D HEM 501 A 1 HETATM 30 C C2D HEM . . . B 2 2.137 -24.433 20.392 1 6.41 ? C2D HEM 501 A 1 HETATM 31 C C3D HEM . . . B 2 3.063 -25.552 20.831 1 9.6 ? C3D HEM 501 A 1 HETATM 32 C C4D HEM . . . B 2 3.297 -26.316 19.638 1 11.97 ? C4D HEM 501 A 1 HETATM 33 C CMD HEM . . . B 2 1.563 -23.303 21.264 1 6.29 ? CMD HEM 501 A 1 HETATM 34 C CAD HEM . . . B 2 3.661 -25.842 22.22 1 9.74 ? CAD HEM 501 A 1 HETATM 35 C CBD HEM . . . B 2 2.604 -26.669 22.934 1 11.66 ? CBD HEM 501 A 1 HETATM 36 C CGD HEM . . . B 2 3.072 -27.102 24.285 1 12.11 ? CGD HEM 501 A 1 HETATM 37 O O1D HEM . . . B 2 2.214 -27.672 24.996 1 14.96 ? O1D HEM 501 A 1 HETATM 38 O O2D HEM . . . B 2 4.256 -26.893 24.635 1 12.08 ? O2D HEM 501 A 1 HETATM 39 N NA HEM . . . B 2 4.315 -27.601 17.262 1 11.76 ? NA HEM 501 A 1 HETATM 40 N NB HEM . . . B 2 3.439 -26.551 14.733 1 9.68 ? NB HEM 501 A 1 HETATM 41 N NC HEM . . . B 2 1.808 -24.726 16.029 1 9.05 ? NC HEM 501 A 1 HETATM 42 N ND HEM . . . B 2 2.611 -25.792 18.552 1 8.02 ? ND HEM 501 A 1 HETATM 43 FE FE HEM . . . B 2 2.979 -26.175 16.651 1 10.6 ? FE HEM 501 A 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 43 #