data_6MR2 # _model_server_result.job_id tD3utYB3UWknekkN1LhpJA _model_server_result.datetime_utc '2024-11-24 04:03:31' _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 6mr2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":500}' # _entry.id 6MR2 # _exptl.entry_id 6MR2 _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 6MR2 _cell.length_a 127.036 _cell.length_b 127.036 _cell.length_c 134.499 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6MR2 _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 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale2 A C HIS 377 A HIS 363 1_555 A N CSS 378 A CSS 364 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 A C CSS 378 A CSS 364 1_555 A N ALA 379 A ALA 365 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? # _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 6MR2 _atom_sites.fract_transf_matrix[1][1] 0.007872 _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] 0.007872 _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] 0.007435 _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 1 601 543 HOH HOH . C 3 HOH A 2 602 596 HOH HOH . C 3 HOH A 3 603 555 HOH HOH . C 3 HOH A 4 604 541 HOH HOH . C 3 HOH A 5 605 579 HOH HOH . C 3 HOH A 6 606 522 HOH HOH . C 3 HOH A 7 607 529 HOH HOH . C 3 HOH A 8 608 568 HOH HOH . C 3 HOH A 9 609 523 HOH HOH . C 3 HOH A 10 610 572 HOH HOH . C 3 HOH A 11 611 563 HOH HOH . C 3 HOH A 12 612 519 HOH HOH . C 3 HOH A 13 613 592 HOH HOH . C 3 HOH A 14 614 514 HOH HOH . C 3 HOH A 15 615 521 HOH HOH . C 3 HOH A 16 616 515 HOH HOH . C 3 HOH A 17 617 524 HOH HOH . C 3 HOH A 18 618 527 HOH HOH . C 3 HOH A 19 619 547 HOH HOH . C 3 HOH A 20 620 595 HOH HOH . C 3 HOH A 21 621 530 HOH HOH . C 3 HOH A 22 622 597 HOH HOH . C 3 HOH A 23 623 621 HOH HOH . C 3 HOH A 24 624 542 HOH HOH . C 3 HOH A 25 625 610 HOH HOH . C 3 HOH A 26 626 535 HOH HOH . C 3 HOH A 27 627 513 HOH HOH . C 3 HOH A 28 628 548 HOH HOH . C 3 HOH A 29 629 619 HOH HOH . C 3 HOH A 30 630 599 HOH HOH . C 3 HOH A 31 631 551 HOH HOH . C 3 HOH A 32 632 512 HOH HOH . C 3 HOH A 33 633 590 HOH HOH . C 3 HOH A 34 634 537 HOH HOH . C 3 HOH A 35 635 601 HOH HOH . C 3 HOH A 36 636 583 HOH HOH . C 3 HOH A 37 637 620 HOH HOH . C 3 HOH A 38 638 554 HOH HOH . C 3 HOH A 39 639 564 HOH HOH . C 3 HOH A 40 640 526 HOH HOH . C 3 HOH A 41 641 617 HOH HOH . C 3 HOH A 42 642 518 HOH HOH . C 3 HOH A 43 643 580 HOH HOH . C 3 HOH A 44 644 553 HOH HOH . C 3 HOH A 45 645 525 HOH HOH . C 3 HOH A 46 646 588 HOH HOH . C 3 HOH A 47 647 616 HOH HOH . C 3 HOH A 48 648 598 HOH HOH . C 3 HOH A 49 649 506 HOH HOH . C 3 HOH A 50 650 600 HOH HOH . C 3 HOH A 51 651 560 HOH HOH . C 3 HOH A 52 652 618 HOH HOH . C 3 HOH A 53 653 576 HOH HOH . C 3 HOH A 54 654 602 HOH HOH . C 3 HOH A 55 655 578 HOH HOH . C 3 HOH A 56 656 517 HOH HOH . C 3 HOH A 57 657 603 HOH HOH . C 3 HOH A 58 658 569 HOH HOH . C 3 HOH A 59 659 566 HOH HOH . C 3 HOH A 60 660 545 HOH HOH . C 3 HOH A 61 661 532 HOH HOH . C 3 HOH A 62 662 558 HOH HOH . C 3 HOH A 63 663 615 HOH HOH . C 3 HOH A 64 664 550 HOH HOH . C 3 HOH A 65 665 567 HOH HOH . C 3 HOH A 66 666 565 HOH HOH . C 3 HOH A 67 667 589 HOH HOH . C 3 HOH A 68 668 552 HOH HOH . C 3 HOH A 69 669 593 HOH HOH . C 3 HOH A 70 670 507 HOH HOH . C 3 HOH A 71 671 508 HOH HOH . C 3 HOH A 72 672 604 HOH HOH . C 3 HOH A 73 673 503 HOH HOH . C 3 HOH A 74 674 509 HOH HOH . C 3 HOH A 75 675 581 HOH HOH . C 3 HOH A 76 676 594 HOH HOH . C 3 HOH A 77 677 605 HOH HOH . C 3 HOH A 78 678 531 HOH HOH . C 3 HOH A 79 679 505 HOH HOH . C 3 HOH A 80 680 571 HOH HOH . C 3 HOH A 81 681 613 HOH HOH . C 3 HOH A 82 682 587 HOH HOH . C 3 HOH A 83 683 528 HOH HOH . C 3 HOH A 84 684 559 HOH HOH . C 3 HOH A 85 685 584 HOH HOH . C 3 HOH A 86 686 556 HOH HOH . C 3 HOH A 87 687 586 HOH HOH . C 3 HOH A 88 688 575 HOH HOH . C 3 HOH A 89 689 536 HOH HOH . C 3 HOH A 90 690 561 HOH HOH . C 3 HOH A 91 691 573 HOH HOH . C 3 HOH A 92 692 510 HOH HOH . C 3 HOH A 93 693 539 HOH HOH . C 3 HOH A 94 694 607 HOH HOH . C 3 HOH A 95 695 614 HOH HOH . C 3 HOH A 96 696 544 HOH HOH . C 3 HOH A 97 697 562 HOH HOH . C 3 HOH A 98 698 577 HOH HOH . C 3 HOH A 99 699 516 HOH HOH . C 3 HOH A 100 700 582 HOH HOH . C 3 HOH A 101 701 609 HOH HOH . C 3 HOH A 102 702 546 HOH HOH . C 3 HOH A 103 703 549 HOH HOH . C 3 HOH A 104 704 538 HOH HOH . C 3 HOH A 105 705 612 HOH HOH . C 3 HOH A 106 706 608 HOH HOH . C 3 HOH A 107 707 533 HOH HOH . C 3 HOH A 108 708 511 HOH HOH . C 3 HOH A 109 709 502 HOH HOH . C 3 HOH A 110 710 570 HOH HOH . C 3 HOH A 111 711 504 HOH HOH . C 3 HOH A 112 712 585 HOH HOH . C 3 HOH A 113 713 534 HOH HOH . C 3 HOH A 114 714 591 HOH HOH . C 3 HOH A 115 715 557 HOH HOH . C 3 HOH A 116 716 520 HOH HOH . C 3 HOH A 117 717 540 HOH HOH . C 3 HOH A 118 718 622 HOH HOH . C 3 HOH A 119 719 611 HOH HOH . C 3 HOH A 120 720 606 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 26.137 46.066 7.647 1 44.67 ? N1 PLP 500 A 1 HETATM 2 C C2 PLP . . . B 2 26.268 47.395 7.96 1 48.96 ? C2 PLP 500 A 1 HETATM 3 C C2A PLP . . . B 2 25.496 47.917 9.137 1 49.46 ? C2A PLP 500 A 1 HETATM 4 C C3 PLP . . . B 2 27.103 48.221 7.204 1 50.32 ? C3 PLP 500 A 1 HETATM 5 O O3 PLP . . . B 2 27.24 49.556 7.517 1 55.83 ? O3 PLP 500 A 1 HETATM 6 C C4 PLP . . . B 2 27.822 47.694 6.129 1 50.13 ? C4 PLP 500 A 1 HETATM 7 C C4A PLP . . . B 2 28.457 48.624 5.12 1 52.77 ? C4A PLP 500 A 1 HETATM 8 C C5 PLP . . . B 2 27.673 46.344 5.819 1 47.79 ? C5 PLP 500 A 1 HETATM 9 C C6 PLP . . . B 2 26.832 45.546 6.583 1 49.42 ? C6 PLP 500 A 1 HETATM 10 C C5A PLP . . . B 2 28.411 45.707 4.657 1 50.13 ? C5A PLP 500 A 1 HETATM 11 O O4P PLP . . . B 2 29.79 45.53 4.923 1 54.28 ? O4P PLP 500 A 1 HETATM 12 P P PLP . . . B 2 30.832 45.119 3.77 1 46.26 ? P PLP 500 A 1 HETATM 13 O O1P PLP . . . B 2 30.371 45.745 2.471 1 50.33 ? O1P PLP 500 A 1 HETATM 14 O O2P PLP . . . B 2 30.897 43.612 3.578 1 48.06 ? O2P PLP 500 A 1 HETATM 15 O O3P PLP . . . B 2 32.191 45.653 4.15 1 47.57 ? O3P PLP 500 A 1 HETATM 16 H H2A1 PLP . . . B 2 25.708 48.978 9.269 1 59.39 ? H2A1 PLP 500 A 1 HETATM 17 H H2A2 PLP . . . B 2 25.791 47.374 10.035 1 59.39 ? H2A2 PLP 500 A 1 HETATM 18 H H2A3 PLP . . . B 2 24.429 47.779 8.963 1 59.39 ? H2A3 PLP 500 A 1 HETATM 19 H HO3 PLP . . . B 2 27.831 49.986 6.864 1 67.03 ? HO3 PLP 500 A 1 HETATM 20 H H6 PLP . . . B 2 26.723 44.491 6.335 1 59.34 ? H6 PLP 500 A 1 HETATM 21 H H5A1 PLP . . . B 2 27.962 44.738 4.438 1 60.19 ? H5A1 PLP 500 A 1 HETATM 22 H H5A2 PLP . . . B 2 28.297 46.337 3.775 1 60.19 ? H5A2 PLP 500 A 1 # _model_server_stats.io_time_ms 52 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 227 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 22 #