data_5OV5 # _model_server_result.job_id lpCmuASfltFiX1BYYnAWYw _model_server_result.datetime_utc '2024-12-02 08:41:19' _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 5ov5 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":401}' # _entry.id 5OV5 # _exptl.entry_id 5OV5 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 420.413 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid' _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 5OV5 _cell.length_a 49.16 _cell.length_b 62.7 _cell.length_c 91.83 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5OV5 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _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 242 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id CYS _struct_conn.ptnr1_auth_seq_id 241 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id CHA _struct_conn.ptnr2_label_comp_id DPM _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id DPM _struct_conn.ptnr2_auth_seq_id 401 _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 1.766 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C20 H24 N2 O8' _chem_comp.formula_weight 420.413 _chem_comp.id DPM _chem_comp.mon_nstd_flag . _chem_comp.name '3-[5-{[3-(2-carboxyethyl)-4-(carboxymethyl)-5-methyl-1H-pyrrol-2-yl]methyl}-4-(carboxymethyl)-1H-pyrrol-3-yl]propanoic acid' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'DIPYRROMETHANE COFACTOR' # 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 C1A C2A DPM doub 83 n y C1A CHA DPM sing 84 n n C1A NA DPM sing 85 n y C2A C3A DPM sing 86 n y C2A C5A DPM sing 87 n n C3A C4A DPM doub 88 n y C3A C7A DPM sing 89 n n C4A NA DPM sing 90 n y C4A CHB DPM sing 91 n n C5A C6A DPM sing 92 n n C6A O1A DPM doub 93 n n C6A O2A DPM sing 94 n n C7A C8A DPM sing 95 n n C8A C9A DPM sing 96 n n C9A O3A DPM doub 97 n n C9A O4A DPM sing 98 n n C1B C2B DPM doub 99 n y C1B CHB DPM sing 100 n n C1B NB DPM sing 101 n y C2B C3B DPM sing 102 n y C2B C5B DPM sing 103 n n C3B C4B DPM doub 104 n y C3B C7B DPM sing 105 n n C4B NB DPM sing 106 n y C5B C6B DPM sing 107 n n C6B O1B DPM doub 108 n n C6B O2B DPM sing 109 n n C7B C8B DPM sing 110 n n C8B C9B DPM sing 111 n n C9B O3B DPM doub 112 n n C9B O4B DPM sing 113 n n C5A H5A1 DPM sing 114 n n C5A H5A2 DPM sing 115 n n C7A H7A1 DPM sing 116 n n C7A H7A2 DPM sing 117 n n C8A H8A1 DPM sing 118 n n C8A H8A2 DPM sing 119 n n CHA HCA1 DPM sing 120 n n CHA HCA2 DPM sing 121 n n CHA HCA3 DPM sing 122 n n NA H10 DPM sing 123 n n O2A HOA2 DPM sing 124 n n O4A HOA4 DPM sing 125 n n C4B H4B1 DPM sing 126 n n C5B H5B1 DPM sing 127 n n C5B H5B2 DPM sing 128 n n C7B H7B1 DPM sing 129 n n C7B H7B2 DPM sing 130 n n C8B H8B1 DPM sing 131 n n C8B H8B2 DPM sing 132 n n CHB HCB1 DPM sing 133 n n CHB HCB2 DPM sing 134 n n NB H22 DPM sing 135 n n O2B HOB2 DPM sing 136 n n O4B HOB4 DPM sing 137 n n # _atom_sites.entry_id 5OV5 _atom_sites.fract_transf_matrix[1][1] 0.020342 _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] 0.015949 _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] 0.01089 _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 DPM A 1 401 401 DPM DPM . C 3 HOH A 1 501 626 HOH HOH . C 3 HOH A 2 502 648 HOH HOH . C 3 HOH A 3 503 624 HOH HOH . C 3 HOH A 4 504 637 HOH HOH . C 3 HOH A 5 505 578 HOH HOH . C 3 HOH A 6 506 531 HOH HOH . C 3 HOH A 7 507 621 HOH HOH . C 3 HOH A 8 508 620 HOH HOH . C 3 HOH A 9 509 642 HOH HOH . C 3 HOH A 10 510 598 HOH HOH . C 3 HOH A 11 511 580 HOH HOH . C 3 HOH A 12 512 567 HOH HOH . C 3 HOH A 13 513 560 HOH HOH . C 3 HOH A 14 514 539 HOH HOH . C 3 HOH A 15 515 512 HOH HOH . C 3 HOH A 16 516 640 HOH HOH . C 3 HOH A 17 517 505 HOH HOH . C 3 HOH A 18 518 563 HOH HOH . C 3 HOH A 19 519 516 HOH HOH . C 3 HOH A 20 520 538 HOH HOH . C 3 HOH A 21 521 657 HOH HOH . C 3 HOH A 22 522 529 HOH HOH . C 3 HOH A 23 523 628 HOH HOH . C 3 HOH A 24 524 561 HOH HOH . C 3 HOH A 25 525 593 HOH HOH . C 3 HOH A 26 526 558 HOH HOH . C 3 HOH A 27 527 502 HOH HOH . C 3 HOH A 28 528 503 HOH HOH . C 3 HOH A 29 529 568 HOH HOH . C 3 HOH A 30 530 566 HOH HOH . C 3 HOH A 31 531 579 HOH HOH . C 3 HOH A 32 532 619 HOH HOH . C 3 HOH A 33 533 524 HOH HOH . C 3 HOH A 34 534 519 HOH HOH . C 3 HOH A 35 535 518 HOH HOH . C 3 HOH A 36 536 547 HOH HOH . C 3 HOH A 37 537 555 HOH HOH . C 3 HOH A 38 538 552 HOH HOH . C 3 HOH A 39 539 508 HOH HOH . C 3 HOH A 40 540 525 HOH HOH . C 3 HOH A 41 541 591 HOH HOH . C 3 HOH A 42 542 514 HOH HOH . C 3 HOH A 43 543 532 HOH HOH . C 3 HOH A 44 544 582 HOH HOH . C 3 HOH A 45 545 551 HOH HOH . C 3 HOH A 46 546 604 HOH HOH . C 3 HOH A 47 547 509 HOH HOH . C 3 HOH A 48 548 559 HOH HOH . C 3 HOH A 49 549 506 HOH HOH . C 3 HOH A 50 550 520 HOH HOH . C 3 HOH A 51 551 515 HOH HOH . C 3 HOH A 52 552 565 HOH HOH . C 3 HOH A 53 553 511 HOH HOH . C 3 HOH A 54 554 589 HOH HOH . C 3 HOH A 55 555 585 HOH HOH . C 3 HOH A 56 556 665 HOH HOH . C 3 HOH A 57 557 522 HOH HOH . C 3 HOH A 58 558 549 HOH HOH . C 3 HOH A 59 559 623 HOH HOH . C 3 HOH A 60 560 517 HOH HOH . C 3 HOH A 61 561 501 HOH HOH . C 3 HOH A 62 562 663 HOH HOH . C 3 HOH A 63 563 670 HOH HOH . C 3 HOH A 64 564 649 HOH HOH . C 3 HOH A 65 565 556 HOH HOH . C 3 HOH A 66 566 540 HOH HOH . C 3 HOH A 67 567 669 HOH HOH . C 3 HOH A 68 568 533 HOH HOH . C 3 HOH A 69 569 507 HOH HOH . C 3 HOH A 70 570 571 HOH HOH . C 3 HOH A 71 571 535 HOH HOH . C 3 HOH A 72 572 573 HOH HOH . C 3 HOH A 73 573 553 HOH HOH . C 3 HOH A 74 574 510 HOH HOH . C 3 HOH A 75 575 536 HOH HOH . C 3 HOH A 76 576 504 HOH HOH . C 3 HOH A 77 577 513 HOH HOH . C 3 HOH A 78 578 586 HOH HOH . C 3 HOH A 79 579 526 HOH HOH . C 3 HOH A 80 580 574 HOH HOH . C 3 HOH A 81 581 576 HOH HOH . C 3 HOH A 82 582 564 HOH HOH . C 3 HOH A 83 583 530 HOH HOH . C 3 HOH A 84 584 587 HOH HOH . C 3 HOH A 85 585 653 HOH HOH . C 3 HOH A 86 586 546 HOH HOH . C 3 HOH A 87 587 562 HOH HOH . C 3 HOH A 88 588 655 HOH HOH . C 3 HOH A 89 589 544 HOH HOH . C 3 HOH A 90 590 588 HOH HOH . C 3 HOH A 91 591 577 HOH HOH . C 3 HOH A 92 592 612 HOH HOH . C 3 HOH A 93 593 650 HOH HOH . C 3 HOH A 94 594 651 HOH HOH . C 3 HOH A 95 595 521 HOH HOH . C 3 HOH A 96 596 569 HOH HOH . C 3 HOH A 97 597 605 HOH HOH . C 3 HOH A 98 598 630 HOH HOH . C 3 HOH A 99 599 615 HOH HOH . C 3 HOH A 100 600 607 HOH HOH . C 3 HOH A 101 601 590 HOH HOH . C 3 HOH A 102 602 664 HOH HOH . C 3 HOH A 103 603 545 HOH HOH . C 3 HOH A 104 604 523 HOH HOH . C 3 HOH A 105 605 541 HOH HOH . C 3 HOH A 106 606 527 HOH HOH . C 3 HOH A 107 607 534 HOH HOH . C 3 HOH A 108 608 528 HOH HOH . C 3 HOH A 109 609 609 HOH HOH . C 3 HOH A 110 610 638 HOH HOH . C 3 HOH A 111 611 599 HOH HOH . C 3 HOH A 112 612 654 HOH HOH . C 3 HOH A 113 613 636 HOH HOH . C 3 HOH A 114 614 537 HOH HOH . C 3 HOH A 115 615 542 HOH HOH . C 3 HOH A 116 616 572 HOH HOH . C 3 HOH A 117 617 583 HOH HOH . C 3 HOH A 118 618 666 HOH HOH . C 3 HOH A 119 619 627 HOH HOH . C 3 HOH A 120 620 614 HOH HOH . C 3 HOH A 121 621 543 HOH HOH . C 3 HOH A 122 622 617 HOH HOH . C 3 HOH A 123 623 575 HOH HOH . C 3 HOH A 124 624 548 HOH HOH . C 3 HOH A 125 625 618 HOH HOH . C 3 HOH A 126 626 592 HOH HOH . C 3 HOH A 127 627 603 HOH HOH . C 3 HOH A 128 628 554 HOH HOH . C 3 HOH A 129 629 570 HOH HOH . C 3 HOH A 130 630 671 HOH HOH . C 3 HOH A 131 631 629 HOH HOH . C 3 HOH A 132 632 613 HOH HOH . C 3 HOH A 133 633 606 HOH HOH . C 3 HOH A 134 634 639 HOH HOH . C 3 HOH A 135 635 632 HOH HOH . C 3 HOH A 136 636 616 HOH HOH . C 3 HOH A 137 637 550 HOH HOH . C 3 HOH A 138 638 668 HOH HOH . C 3 HOH A 139 639 646 HOH HOH . C 3 HOH A 140 640 581 HOH HOH . C 3 HOH A 141 641 643 HOH HOH . C 3 HOH A 142 642 601 HOH HOH . C 3 HOH A 143 643 644 HOH HOH . C 3 HOH A 144 644 596 HOH HOH . C 3 HOH A 145 645 611 HOH HOH . C 3 HOH A 146 646 645 HOH HOH . C 3 HOH A 147 647 659 HOH HOH . C 3 HOH A 148 648 672 HOH HOH . C 3 HOH A 149 649 608 HOH HOH . C 3 HOH A 150 650 610 HOH HOH . C 3 HOH A 151 651 622 HOH HOH . C 3 HOH A 152 652 661 HOH HOH . C 3 HOH A 153 653 658 HOH HOH . C 3 HOH A 154 654 656 HOH HOH . C 3 HOH A 155 655 625 HOH HOH . C 3 HOH A 156 656 600 HOH HOH . C 3 HOH A 157 657 602 HOH HOH . C 3 HOH A 158 658 635 HOH HOH . C 3 HOH A 159 659 557 HOH HOH . C 3 HOH A 160 660 633 HOH HOH . C 3 HOH A 161 661 667 HOH HOH . C 3 HOH A 162 662 595 HOH HOH . C 3 HOH A 163 663 597 HOH HOH . C 3 HOH A 164 664 631 HOH HOH . C 3 HOH A 165 665 652 HOH HOH . C 3 HOH A 166 666 634 HOH HOH . C 3 HOH A 167 667 641 HOH HOH . C 3 HOH A 168 668 584 HOH HOH . C 3 HOH A 169 669 660 HOH HOH . C 3 HOH A 170 670 594 HOH HOH . C 3 HOH A 171 671 662 HOH HOH . C 3 HOH A 172 672 647 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 C1A DPM . . . B 2 3.839 -8.252 -17.107 1 36.81 ? C1A DPM 401 A 1 HETATM 2 C C2A DPM . . . B 2 4.73 -9.155 -17.531 1 34.54 ? C2A DPM 401 A 1 HETATM 3 C C3A DPM . . . B 2 4.719 -10.168 -16.636 1 36.51 ? C3A DPM 401 A 1 HETATM 4 C C4A DPM . . . B 2 3.84 -9.841 -15.662 0.72 37.49 ? C4A DPM 401 A 1 HETATM 5 C C5A DPM . . . B 2 5.533 -9.045 -18.862 1 31.6 ? C5A DPM 401 A 1 HETATM 6 C C6A DPM . . . B 2 6.998 -8.523 -18.765 1 34.02 ? C6A DPM 401 A 1 HETATM 7 C C7A DPM . . . B 2 5.597 -11.458 -16.726 1 33.84 ? C7A DPM 401 A 1 HETATM 8 C C8A DPM . . . B 2 4.851 -12.626 -17.374 1 29.72 ? C8A DPM 401 A 1 HETATM 9 C C9A DPM . . . B 2 5.7 -13.925 -17.526 1 28.56 ? C9A DPM 401 A 1 HETATM 10 C CHA DPM . . . B 2 3.504 -6.926 -17.806 1 38.08 ? CHA DPM 401 A 1 HETATM 11 N NA DPM . . . B 2 3.293 -8.655 -15.953 1 35.17 ? NA DPM 401 A 1 HETATM 12 O O1A DPM . . . B 2 7.623 -8.73 -17.697 1 29.23 ? O1A DPM 401 A 1 HETATM 13 O O2A DPM . . . B 2 7.456 -7.948 -19.786 1 30.46 ? O2A DPM 401 A 1 HETATM 14 O O3A DPM . . . B 2 5.064 -14.98 -17.741 1 24.93 ? O3A DPM 401 A 1 HETATM 15 O O4A DPM . . . B 2 6.956 -13.852 -17.502 1 26.71 ? O4A DPM 401 A 1 HETATM 16 C C1B DPM . . . B 2 3.879 -9.818 -13.136 0.27 42.85 ? C1B DPM 401 A 1 HETATM 17 C C2B DPM . . . B 2 4.757 -10.189 -12.204 1 43.05 ? C2B DPM 401 A 1 HETATM 18 C C3B DPM . . . B 2 4.833 -9.195 -11.312 1 44.65 ? C3B DPM 401 A 1 HETATM 19 C C4B DPM . . . B 2 4.018 -8.21 -11.694 1 45.68 ? C4B DPM 401 A 1 HETATM 20 C C5B DPM . . . B 2 5.5 -11.541 -12.132 1 41.26 ? C5B DPM 401 A 1 HETATM 21 C C6B DPM . . . B 2 6.921 -11.615 -12.732 1 37.49 ? C6B DPM 401 A 1 HETATM 22 C C7B DPM . . . B 2 5.729 -9.205 -10.053 1 40.93 ? C7B DPM 401 A 1 HETATM 23 C C8B DPM . . . B 2 6.993 -8.299 -10.1 1 40.36 ? C8B DPM 401 A 1 HETATM 24 C C9B DPM . . . B 2 6.789 -6.764 -10.2 0 41.67 ? C9B DPM 401 A 1 HETATM 25 C CHB DPM . . . B 2 3.466 -10.637 -14.38 0.67 39.98 ? CHB DPM 401 A 1 HETATM 26 N NB DPM . . . B 2 3.426 -8.595 -12.837 1 45.6 ? NB DPM 401 A 1 HETATM 27 O O1B DPM . . . B 2 7.565 -12.658 -12.499 1 38.49 ? O1B DPM 401 A 1 HETATM 28 O O2B DPM . . . B 2 7.34 -10.66 -13.409 1 33.65 ? O2B DPM 401 A 1 HETATM 29 O O3B DPM . . . B 2 5.806 -6.299 -9.602 1 39.01 ? O3B DPM 401 A 1 HETATM 30 O O4B DPM . . . B 2 7.692 -6.073 -10.744 1 26.85 ? O4B DPM 401 A 1 # _model_server_stats.io_time_ms 58 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 488 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 30 #