data_4GGV # _model_server_result.job_id YDf0B9VQF43sBbhOBlDEmA _model_server_result.datetime_utc '2024-10-14 02:37:32' _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 4ggv # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 4GGV # _exptl.entry_id 4GGV _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 4GGV _cell.length_a 64.41 _cell.length_b 121.139 _cell.length_c 54.731 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4GGV _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 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 _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 # _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 4GGV _atom_sites.fract_transf_matrix[1][1] 0.015526 _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] 0.008255 _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] 0.018271 _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 1 401 1 HEM HEM . C 3 HOH A 1 501 1 HOH HOH . C 3 HOH A 2 502 2 HOH HOH . C 3 HOH A 3 503 3 HOH HOH . C 3 HOH A 4 504 4 HOH HOH . C 3 HOH A 5 505 5 HOH HOH . C 3 HOH A 6 506 6 HOH HOH . C 3 HOH A 7 507 7 HOH HOH . C 3 HOH A 8 508 8 HOH HOH . C 3 HOH A 9 509 9 HOH HOH . C 3 HOH A 10 510 10 HOH HOH . C 3 HOH A 11 511 11 HOH HOH . C 3 HOH A 12 512 12 HOH HOH . C 3 HOH A 13 513 13 HOH HOH . C 3 HOH A 14 514 14 HOH HOH . C 3 HOH A 15 515 15 HOH HOH . C 3 HOH A 16 516 16 HOH HOH . C 3 HOH A 17 517 17 HOH HOH . C 3 HOH A 18 518 18 HOH HOH . C 3 HOH A 19 519 19 HOH HOH . C 3 HOH A 20 520 20 HOH HOH . C 3 HOH A 21 521 21 HOH HOH . C 3 HOH A 22 522 22 HOH HOH . C 3 HOH A 23 523 23 HOH HOH . C 3 HOH A 24 524 24 HOH HOH . C 3 HOH A 25 525 25 HOH HOH . C 3 HOH A 26 526 26 HOH HOH . C 3 HOH A 27 527 27 HOH HOH . C 3 HOH A 28 528 28 HOH HOH . C 3 HOH A 29 529 29 HOH HOH . C 3 HOH A 30 530 30 HOH HOH . C 3 HOH A 31 531 31 HOH HOH . C 3 HOH A 32 532 32 HOH HOH . C 3 HOH A 33 533 33 HOH HOH . C 3 HOH A 34 534 34 HOH HOH . C 3 HOH A 35 535 35 HOH HOH . C 3 HOH A 36 536 36 HOH HOH . C 3 HOH A 37 537 37 HOH HOH . C 3 HOH A 38 538 38 HOH HOH . C 3 HOH A 39 539 39 HOH HOH . C 3 HOH A 40 540 40 HOH HOH . C 3 HOH A 41 541 41 HOH HOH . C 3 HOH A 42 542 42 HOH HOH . C 3 HOH A 43 543 43 HOH HOH . C 3 HOH A 44 544 45 HOH HOH . C 3 HOH A 45 545 46 HOH HOH . C 3 HOH A 46 546 47 HOH HOH . C 3 HOH A 47 547 48 HOH HOH . C 3 HOH A 48 548 49 HOH HOH . C 3 HOH A 49 549 50 HOH HOH . C 3 HOH A 50 550 51 HOH HOH . C 3 HOH A 51 551 52 HOH HOH . C 3 HOH A 52 552 53 HOH HOH . C 3 HOH A 53 553 54 HOH HOH . C 3 HOH A 54 554 55 HOH HOH . C 3 HOH A 55 555 56 HOH HOH . C 3 HOH A 56 556 57 HOH HOH . C 3 HOH A 57 557 58 HOH HOH . C 3 HOH A 58 558 59 HOH HOH . C 3 HOH A 59 559 60 HOH HOH . C 3 HOH A 60 560 61 HOH HOH . C 3 HOH A 61 561 63 HOH HOH . C 3 HOH A 62 562 64 HOH HOH . C 3 HOH A 63 563 65 HOH HOH . C 3 HOH A 64 564 66 HOH HOH . C 3 HOH A 65 565 67 HOH HOH . C 3 HOH A 66 566 68 HOH HOH . C 3 HOH A 67 567 69 HOH HOH . C 3 HOH A 68 568 70 HOH HOH . C 3 HOH A 69 569 71 HOH HOH . C 3 HOH A 70 570 72 HOH HOH . C 3 HOH A 71 571 73 HOH HOH . C 3 HOH A 72 572 74 HOH HOH . C 3 HOH A 73 573 75 HOH HOH . C 3 HOH A 74 574 76 HOH HOH . C 3 HOH A 75 575 77 HOH HOH . C 3 HOH A 76 576 78 HOH HOH . C 3 HOH A 77 577 79 HOH HOH . C 3 HOH A 78 578 80 HOH HOH . C 3 HOH A 79 579 81 HOH HOH . C 3 HOH A 80 580 82 HOH HOH . C 3 HOH A 81 581 83 HOH HOH . C 3 HOH A 82 582 84 HOH HOH . C 3 HOH A 83 583 85 HOH HOH . C 3 HOH A 84 584 86 HOH HOH . C 3 HOH A 85 585 87 HOH HOH . C 3 HOH A 86 586 89 HOH HOH . C 3 HOH A 87 587 90 HOH HOH . C 3 HOH A 88 588 91 HOH HOH . C 3 HOH A 89 589 92 HOH HOH . C 3 HOH A 90 590 93 HOH HOH . C 3 HOH A 91 591 95 HOH HOH . C 3 HOH A 92 592 96 HOH HOH . C 3 HOH A 93 593 97 HOH HOH . C 3 HOH A 94 594 98 HOH HOH . C 3 HOH A 95 595 99 HOH HOH . C 3 HOH A 96 596 100 HOH HOH . C 3 HOH A 97 597 101 HOH HOH . C 3 HOH A 98 598 102 HOH HOH . C 3 HOH A 99 599 103 HOH HOH . C 3 HOH A 100 600 104 HOH HOH . C 3 HOH A 101 601 106 HOH HOH . C 3 HOH A 102 602 107 HOH HOH . C 3 HOH A 103 603 108 HOH HOH . C 3 HOH A 104 604 109 HOH HOH . C 3 HOH A 105 605 110 HOH HOH . C 3 HOH A 106 606 116 HOH HOH . C 3 HOH A 107 607 117 HOH HOH . C 3 HOH A 108 608 118 HOH HOH . C 3 HOH A 109 609 123 HOH HOH . C 3 HOH A 110 610 124 HOH HOH . C 3 HOH A 111 611 125 HOH HOH . C 3 HOH A 112 612 126 HOH HOH . C 3 HOH A 113 613 129 HOH HOH . C 3 HOH A 114 614 130 HOH HOH . C 3 HOH A 115 615 131 HOH HOH . C 3 HOH A 116 616 134 HOH HOH . C 3 HOH A 117 617 135 HOH HOH . C 3 HOH A 118 618 136 HOH HOH . C 3 HOH A 119 619 137 HOH HOH . C 3 HOH A 120 620 138 HOH HOH . C 3 HOH A 121 621 139 HOH HOH . C 3 HOH A 122 622 140 HOH HOH . C 3 HOH A 123 623 142 HOH HOH . C 3 HOH A 124 624 144 HOH HOH . C 3 HOH A 125 625 145 HOH HOH . C 3 HOH A 126 626 146 HOH HOH . C 3 HOH A 127 627 147 HOH HOH . C 3 HOH A 128 628 148 HOH HOH . C 3 HOH A 129 629 151 HOH HOH . C 3 HOH A 130 630 152 HOH HOH . C 3 HOH A 131 631 155 HOH HOH . C 3 HOH A 132 632 156 HOH HOH . C 3 HOH A 133 633 158 HOH HOH . C 3 HOH A 134 634 159 HOH HOH . C 3 HOH A 135 635 162 HOH HOH . C 3 HOH A 136 636 163 HOH HOH . C 3 HOH A 137 637 164 HOH HOH . C 3 HOH A 138 638 165 HOH HOH . C 3 HOH A 139 639 166 HOH HOH . C 3 HOH A 140 640 167 HOH HOH . C 3 HOH A 141 641 168 HOH HOH . C 3 HOH A 142 642 169 HOH HOH . C 3 HOH A 143 643 170 HOH HOH . C 3 HOH A 144 644 171 HOH HOH . C 3 HOH A 145 645 172 HOH HOH . C 3 HOH A 146 646 173 HOH HOH . C 3 HOH A 147 647 174 HOH HOH . C 3 HOH A 148 648 175 HOH HOH . C 3 HOH A 149 649 176 HOH HOH . C 3 HOH A 150 650 177 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 54.42 45.534 31.19 1 21.27 ? CHA HEM 401 A 1 HETATM 2 C CHB HEM . . . B 2 49.653 44.774 31.881 1 24.24 ? CHB HEM 401 A 1 HETATM 3 C CHC HEM . . . B 2 50.696 41.837 35.625 1 22.46 ? CHC HEM 401 A 1 HETATM 4 C CHD HEM . . . B 2 55.342 43.27 35.468 1 24.82 ? CHD HEM 401 A 1 HETATM 5 C C1A HEM . . . B 2 53.049 45.532 30.997 1 18.65 ? C1A HEM 401 A 1 HETATM 6 C C2A HEM . . . B 2 52.329 46.092 29.864 1 29.43 ? C2A HEM 401 A 1 HETATM 7 C C3A HEM . . . B 2 51.02 45.885 30.053 1 28.38 ? C3A HEM 401 A 1 HETATM 8 C C4A HEM . . . B 2 50.85 45.178 31.315 1 24.13 ? C4A HEM 401 A 1 HETATM 9 C CMA HEM . . . B 2 49.887 46.319 29.093 1 16.97 ? CMA HEM 401 A 1 HETATM 10 C CAA HEM . . . B 2 52.964 46.815 28.653 1 19.41 ? CAA HEM 401 A 1 HETATM 11 C CBA HEM . . . B 2 53.305 48.241 29.094 1 18.37 ? CBA HEM 401 A 1 HETATM 12 C CGA HEM . . . B 2 53.783 49.087 27.942 1 22.37 ? CGA HEM 401 A 1 HETATM 13 O O1A HEM . . . B 2 53.854 48.576 26.79 1 20.2 ? O1A HEM 401 A 1 HETATM 14 O O2A HEM . . . B 2 54.096 50.286 28.176 1 21.37 ? O2A HEM 401 A 1 HETATM 15 C C1B HEM . . . B 2 49.506 43.844 32.894 1 24.34 ? C1B HEM 401 A 1 HETATM 16 C C2B HEM . . . B 2 48.294 43.118 33.256 1 27.15 ? C2B HEM 401 A 1 HETATM 17 C C3B HEM . . . B 2 48.585 42.318 34.303 1 30.28 ? C3B HEM 401 A 1 HETATM 18 C C4B HEM . . . B 2 49.995 42.492 34.622 1 26.33 ? C4B HEM 401 A 1 HETATM 19 C CMB HEM . . . B 2 46.925 43.291 32.556 1 24.23 ? CMB HEM 401 A 1 HETATM 20 C CAB HEM . . . B 2 47.673 41.323 35.073 1 23.53 ? CAB HEM 401 A 1 HETATM 21 C CBB HEM . . . B 2 46.554 40.768 34.586 1 29.07 ? CBB HEM 401 A 1 HETATM 22 C C1C HEM . . . B 2 52.039 41.972 35.945 1 24.53 ? C1C HEM 401 A 1 HETATM 23 C C2C HEM . . . B 2 52.747 41.339 37.054 1 33.72 ? C2C HEM 401 A 1 HETATM 24 C C3C HEM . . . B 2 54.04 41.729 37.008 1 30.03 ? C3C HEM 401 A 1 HETATM 25 C C4C HEM . . . B 2 54.183 42.634 35.874 1 29.25 ? C4C HEM 401 A 1 HETATM 26 C CMC HEM . . . B 2 52.08 40.374 38.068 1 24.89 ? CMC HEM 401 A 1 HETATM 27 C CAC HEM . . . B 2 55.223 41.359 37.949 1 29.77 ? CAC HEM 401 A 1 HETATM 28 C CBC HEM . . . B 2 55.127 40.739 39.136 1 32.63 ? CBC HEM 401 A 1 HETATM 29 C C1D HEM . . . B 2 55.522 44.059 34.344 1 28.21 ? C1D HEM 401 A 1 HETATM 30 C C2D HEM . . . B 2 56.723 44.812 34.031 1 32.64 ? C2D HEM 401 A 1 HETATM 31 C C3D HEM . . . B 2 56.437 45.518 32.697 1 33.08 ? C3D HEM 401 A 1 HETATM 32 C C4D HEM . . . B 2 55.092 45.126 32.329 1 25.17 ? C4D HEM 401 A 1 HETATM 33 C CMD HEM . . . B 2 58.02 44.895 34.864 1 19.92 ? CMD HEM 401 A 1 HETATM 34 C CAD HEM . . . B 2 57.389 46.447 31.915 1 20.62 ? CAD HEM 401 A 1 HETATM 35 C CBD HEM . . . B 2 58.148 45.604 30.891 1 23.78 ? CBD HEM 401 A 1 HETATM 36 C CGD HEM . . . B 2 58.926 46.507 29.972 1 23.22 ? CGD HEM 401 A 1 HETATM 37 O O1D HEM . . . B 2 59.816 46.004 29.234 1 20.18 ? O1D HEM 401 A 1 HETATM 38 O O2D HEM . . . B 2 58.65 47.735 29.972 1 22.37 ? O2D HEM 401 A 1 HETATM 39 N NA HEM . . . B 2 52.11 44.984 31.856 1 24.76 ? NA HEM 401 A 1 HETATM 40 N NB HEM . . . B 2 50.513 43.43 33.746 1 26.15 ? NB HEM 401 A 1 HETATM 41 N NC HEM . . . B 2 52.95 42.75 35.26 1 29.65 ? NC HEM 401 A 1 HETATM 42 N ND HEM . . . B 2 54.595 44.273 33.321 1 21.56 ? ND HEM 401 A 1 HETATM 43 FE FE HEM . . . B 2 52.528 43.735 33.496 1 22.22 ? FE HEM 401 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 280 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 43 #