data_6MR6 # _model_server_result.job_id AxuR4wI02a-F09MPeDnSmg _model_server_result.datetime_utc '2024-11-01 11:26:10' _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 6mr6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 6MR6 # _exptl.entry_id 6MR6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _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 6MR6 _cell.length_a 127.016 _cell.length_b 127.016 _cell.length_c 133.687 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MR6 _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 dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 7_555 y,x,-z 0 1 0 1 0 0 0 0 -1 0 0 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 covale ? covale1 A NZ LYS 240 A LYS 226 1_555 B C4A PLP . A PLP 500 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale2 A C HIS 377 A HIS 363 1_555 A N CSS 378 A CSS 364 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.33 ? covale ? covale3 A C CSS 378 A CSS 364 1_555 A N ALA 379 A ALA 365 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? # _chem_comp.formula 'C8 H10 N O6 P' _chem_comp.formula_weight 247.142 _chem_comp.id PLP _chem_comp.mon_nstd_flag . _chem_comp.name "PYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'VITAMIN B6 Phosphate' # 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 N1 C2 PLP doub 274 n y N1 C6 PLP sing 275 n y C2 C2A PLP sing 276 n n C2 C3 PLP sing 277 n y C2A H2A1 PLP sing 278 n n C2A H2A2 PLP sing 279 n n C2A H2A3 PLP sing 280 n n C3 O3 PLP sing 281 n n C3 C4 PLP doub 282 n y O3 HO3 PLP sing 283 n n C4 C4A PLP sing 284 n n C4 C5 PLP sing 285 n y C4A O4A PLP doub 286 n n C4A H4A PLP sing 287 n n C5 C6 PLP doub 288 n y C5 C5A PLP sing 289 n n C6 H6 PLP sing 290 n n C5A O4P PLP sing 291 n n C5A H5A1 PLP sing 292 n n C5A H5A2 PLP sing 293 n n O4P P PLP sing 294 n n P O1P PLP doub 295 n n P O2P PLP sing 296 n n P O3P PLP sing 297 n n O2P HOP2 PLP sing 298 n n O3P HOP3 PLP sing 299 n n # _atom_sites.entry_id 6MR6 _atom_sites.fract_transf_matrix[1][1] 0.007873 _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] 0.007873 _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] 0.00748 _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 PLP A 1 500 500 PLP PLP . C 3 HOH A 1 601 601 HOH HOH . C 3 HOH A 2 602 602 HOH HOH . C 3 HOH A 3 603 582 HOH HOH . C 3 HOH A 4 604 553 HOH HOH . C 3 HOH A 5 605 586 HOH HOH . C 3 HOH A 6 606 536 HOH HOH . C 3 HOH A 7 607 590 HOH HOH . C 3 HOH A 8 608 626 HOH HOH . C 3 HOH A 9 609 521 HOH HOH . C 3 HOH A 10 610 567 HOH HOH . C 3 HOH A 11 611 640 HOH HOH . C 3 HOH A 12 612 595 HOH HOH . C 3 HOH A 13 613 589 HOH HOH . C 3 HOH A 14 614 605 HOH HOH . C 3 HOH A 15 615 544 HOH HOH . C 3 HOH A 16 616 540 HOH HOH . C 3 HOH A 17 617 561 HOH HOH . C 3 HOH A 18 618 591 HOH HOH . C 3 HOH A 19 619 621 HOH HOH . C 3 HOH A 20 620 607 HOH HOH . C 3 HOH A 21 621 624 HOH HOH . C 3 HOH A 22 622 585 HOH HOH . C 3 HOH A 23 623 635 HOH HOH . C 3 HOH A 24 624 587 HOH HOH . C 3 HOH A 25 625 559 HOH HOH . C 3 HOH A 26 626 634 HOH HOH . C 3 HOH A 27 627 548 HOH HOH . C 3 HOH A 28 628 614 HOH HOH . C 3 HOH A 29 629 564 HOH HOH . C 3 HOH A 30 630 552 HOH HOH . C 3 HOH A 31 631 617 HOH HOH . C 3 HOH A 32 632 571 HOH HOH . C 3 HOH A 33 633 611 HOH HOH . C 3 HOH A 34 634 543 HOH HOH . C 3 HOH A 35 635 515 HOH HOH . C 3 HOH A 36 636 630 HOH HOH . C 3 HOH A 37 637 520 HOH HOH . C 3 HOH A 38 638 538 HOH HOH . C 3 HOH A 39 639 523 HOH HOH . C 3 HOH A 40 640 535 HOH HOH . C 3 HOH A 41 641 507 HOH HOH . C 3 HOH A 42 642 510 HOH HOH . C 3 HOH A 43 643 509 HOH HOH . C 3 HOH A 44 644 517 HOH HOH . C 3 HOH A 45 645 563 HOH HOH . C 3 HOH A 46 646 615 HOH HOH . C 3 HOH A 47 647 551 HOH HOH . C 3 HOH A 48 648 529 HOH HOH . C 3 HOH A 49 649 511 HOH HOH . C 3 HOH A 50 650 525 HOH HOH . C 3 HOH A 51 651 631 HOH HOH . C 3 HOH A 52 652 597 HOH HOH . C 3 HOH A 53 653 577 HOH HOH . C 3 HOH A 54 654 531 HOH HOH . C 3 HOH A 55 655 637 HOH HOH . C 3 HOH A 56 656 588 HOH HOH . C 3 HOH A 57 657 636 HOH HOH . C 3 HOH A 58 658 580 HOH HOH . C 3 HOH A 59 659 572 HOH HOH . C 3 HOH A 60 660 618 HOH HOH . C 3 HOH A 61 661 556 HOH HOH . C 3 HOH A 62 662 516 HOH HOH . C 3 HOH A 63 663 560 HOH HOH . C 3 HOH A 64 664 568 HOH HOH . C 3 HOH A 65 665 578 HOH HOH . C 3 HOH A 66 666 533 HOH HOH . C 3 HOH A 67 667 610 HOH HOH . C 3 HOH A 68 668 620 HOH HOH . C 3 HOH A 69 669 554 HOH HOH . C 3 HOH A 70 670 616 HOH HOH . C 3 HOH A 71 671 639 HOH HOH . C 3 HOH A 72 672 566 HOH HOH . C 3 HOH A 73 673 581 HOH HOH . C 3 HOH A 74 674 613 HOH HOH . C 3 HOH A 75 675 593 HOH HOH . C 3 HOH A 76 676 627 HOH HOH . C 3 HOH A 77 677 633 HOH HOH . C 3 HOH A 78 678 576 HOH HOH . C 3 HOH A 79 679 599 HOH HOH . C 3 HOH A 80 680 524 HOH HOH . C 3 HOH A 81 681 608 HOH HOH . C 3 HOH A 82 682 545 HOH HOH . C 3 HOH A 83 683 558 HOH HOH . C 3 HOH A 84 684 574 HOH HOH . C 3 HOH A 85 685 628 HOH HOH . C 3 HOH A 86 686 518 HOH HOH . C 3 HOH A 87 687 547 HOH HOH . C 3 HOH A 88 688 555 HOH HOH . C 3 HOH A 89 689 514 HOH HOH . C 3 HOH A 90 690 541 HOH HOH . C 3 HOH A 91 691 562 HOH HOH . C 3 HOH A 92 692 546 HOH HOH . C 3 HOH A 93 693 532 HOH HOH . C 3 HOH A 94 694 550 HOH HOH . C 3 HOH A 95 695 623 HOH HOH . C 3 HOH A 96 696 622 HOH HOH . C 3 HOH A 97 697 573 HOH HOH . C 3 HOH A 98 698 506 HOH HOH . C 3 HOH A 99 699 565 HOH HOH . C 3 HOH A 100 700 505 HOH HOH . C 3 HOH A 101 701 557 HOH HOH . C 3 HOH A 102 702 569 HOH HOH . C 3 HOH A 103 703 604 HOH HOH . C 3 HOH A 104 704 629 HOH HOH . C 3 HOH A 105 705 508 HOH HOH . C 3 HOH A 106 706 575 HOH HOH . C 3 HOH A 107 707 598 HOH HOH . C 3 HOH A 108 708 632 HOH HOH . C 3 HOH A 109 709 579 HOH HOH . C 3 HOH A 110 710 549 HOH HOH . C 3 HOH A 111 711 603 HOH HOH . C 3 HOH A 112 712 539 HOH HOH . C 3 HOH A 113 713 592 HOH HOH . C 3 HOH A 114 714 537 HOH HOH . C 3 HOH A 115 715 519 HOH HOH . C 3 HOH A 116 716 512 HOH HOH . C 3 HOH A 117 717 570 HOH HOH . C 3 HOH A 118 718 522 HOH HOH . C 3 HOH A 119 719 513 HOH HOH . C 3 HOH A 120 720 528 HOH HOH . C 3 HOH A 121 721 526 HOH HOH . C 3 HOH A 122 722 1003 HOH HOH . C 3 HOH A 123 723 638 HOH HOH . C 3 HOH A 124 724 504 HOH HOH . C 3 HOH A 125 725 527 HOH HOH . C 3 HOH A 126 726 619 HOH HOH . C 3 HOH A 127 727 600 HOH HOH . C 3 HOH A 128 728 542 HOH HOH . C 3 HOH A 129 729 596 HOH HOH . C 3 HOH A 130 730 503 HOH HOH . C 3 HOH A 131 731 645 HOH HOH . C 3 HOH A 132 732 534 HOH HOH . C 3 HOH A 133 733 609 HOH HOH . C 3 HOH A 134 734 643 HOH HOH . C 3 HOH A 135 735 641 HOH HOH . C 3 HOH A 136 736 530 HOH HOH . C 3 HOH A 137 737 612 HOH HOH . C 3 HOH A 138 738 606 HOH HOH . C 3 HOH A 139 739 583 HOH HOH . C 3 HOH A 140 740 642 HOH HOH . C 3 HOH A 141 741 584 HOH HOH . C 3 HOH A 142 742 644 HOH HOH . C 3 HOH A 143 743 625 HOH HOH . C 3 HOH A 144 744 594 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 N N1 PLP . . . B 2 26.041 45.832 7.677 1 23.24 ? N1 PLP 500 A 1 HETATM 2 C C2 PLP . . . B 2 26.117 47.177 7.942 1 23.66 ? C2 PLP 500 A 1 HETATM 3 C C2A PLP . . . B 2 25.338 47.735 9.093 1 26.5 ? C2A PLP 500 A 1 HETATM 4 C C3 PLP . . . B 2 26.931 47.995 7.162 1 27.16 ? C3 PLP 500 A 1 HETATM 5 O O3 PLP . . . B 2 26.996 49.328 7.437 1 29.3 ? O3 PLP 500 A 1 HETATM 6 C C4 PLP . . . B 2 27.654 47.456 6.101 1 25 ? C4 PLP 500 A 1 HETATM 7 C C4A PLP . . . B 2 28.889 48.139 5.602 1 26.83 ? C4A PLP 500 A 1 HETATM 8 C C5 PLP . . . B 2 27.547 46.097 5.848 1 23.4 ? C5 PLP 500 A 1 HETATM 9 C C6 PLP . . . B 2 26.746 45.289 6.637 1 22.36 ? C6 PLP 500 A 1 HETATM 10 C C5A PLP . . . B 2 28.306 45.487 4.702 1 23.63 ? C5A PLP 500 A 1 HETATM 11 O O4P PLP . . . B 2 29.694 45.475 4.942 1 25.76 ? O4P PLP 500 A 1 HETATM 12 P P PLP . . . B 2 30.688 45.031 3.767 1 24.22 ? P PLP 500 A 1 HETATM 13 O O1P PLP . . . B 2 30.242 45.67 2.466 1 24.99 ? O1P PLP 500 A 1 HETATM 14 O O2P PLP . . . B 2 30.65 43.519 3.614 1 22.37 ? O2P PLP 500 A 1 HETATM 15 O O3P PLP . . . B 2 32.076 45.457 4.123 1 23.69 ? O3P PLP 500 A 1 HETATM 16 H H2A1 PLP . . . B 2 25.511 48.809 9.162 1 31.81 ? H2A1 PLP 500 A 1 HETATM 17 H H2A2 PLP . . . B 2 25.661 47.255 10.017 1 31.81 ? H2A2 PLP 500 A 1 HETATM 18 H H2A3 PLP . . . B 2 24.276 47.547 8.938 1 31.81 ? H2A3 PLP 500 A 1 HETATM 19 H HO3 PLP . . . B 2 27.045 49.833 6.599 1 35.17 ? HO3 PLP 500 A 1 HETATM 20 H H6 PLP . . . B 2 26.677 44.221 6.429 1 26.84 ? H6 PLP 500 A 1 HETATM 21 H H5A1 PLP . . . B 2 27.96 44.466 4.544 1 28.36 ? H5A1 PLP 500 A 1 HETATM 22 H H5A2 PLP . . . B 2 28.103 46.054 3.793 1 28.36 ? H5A2 PLP 500 A 1 # _model_server_stats.io_time_ms 48 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 323 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #