data_7RW3 # _model_server_result.job_id yFY27R3Myybf8eHjRe9nYA _model_server_result.datetime_utc '2024-11-27 22:02:50' _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 7rw3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 7RW3 # _exptl.entry_id 7RW3 _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 7RW3 _cell.length_a 124.76 _cell.length_b 124.76 _cell.length_c 137.27 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7RW3 _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 226 A LYS 226 1_555 B C4A PLP . A PLP 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.424 doub covale ? covale2 A C HIS 363 A HIS 363 1_555 A N CSS 364 A CSS 364 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.331 ? covale ? covale3 A C CSS 364 A CSS 364 1_555 A N ALA 365 A ALA 365 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? # _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 7RW3 _atom_sites.fract_transf_matrix[1][1] 0.008015 _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] 0.008015 _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] 0.007285 _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 1 501 501 PLP PLP . C 3 HOH A 1 601 532 HOH HOH . C 3 HOH A 2 602 505 HOH HOH . C 3 HOH A 3 603 550 HOH HOH . C 3 HOH A 4 604 523 HOH HOH . C 3 HOH A 5 605 548 HOH HOH . C 3 HOH A 6 606 563 HOH HOH . C 3 HOH A 7 607 535 HOH HOH . C 3 HOH A 8 608 529 HOH HOH . C 3 HOH A 9 609 552 HOH HOH . C 3 HOH A 10 610 553 HOH HOH . C 3 HOH A 11 611 538 HOH HOH . C 3 HOH A 12 612 517 HOH HOH . C 3 HOH A 13 613 515 HOH HOH . C 3 HOH A 14 614 504 HOH HOH . C 3 HOH A 15 615 565 HOH HOH . C 3 HOH A 16 616 568 HOH HOH . C 3 HOH A 17 617 567 HOH HOH . C 3 HOH A 18 618 564 HOH HOH . C 3 HOH A 19 619 511 HOH HOH . C 3 HOH A 20 620 547 HOH HOH . C 3 HOH A 21 621 524 HOH HOH . C 3 HOH A 22 622 540 HOH HOH . C 3 HOH A 23 623 520 HOH HOH . C 3 HOH A 24 624 555 HOH HOH . C 3 HOH A 25 625 533 HOH HOH . C 3 HOH A 26 626 528 HOH HOH . C 3 HOH A 27 627 542 HOH HOH . C 3 HOH A 28 628 509 HOH HOH . C 3 HOH A 29 629 506 HOH HOH . C 3 HOH A 30 630 554 HOH HOH . C 3 HOH A 31 631 530 HOH HOH . C 3 HOH A 32 632 513 HOH HOH . C 3 HOH A 33 633 549 HOH HOH . C 3 HOH A 34 634 559 HOH HOH . C 3 HOH A 35 635 507 HOH HOH . C 3 HOH A 36 636 537 HOH HOH . C 3 HOH A 37 637 514 HOH HOH . C 3 HOH A 38 638 544 HOH HOH . C 3 HOH A 39 639 560 HOH HOH . C 3 HOH A 40 640 527 HOH HOH . C 3 HOH A 41 641 558 HOH HOH . C 3 HOH A 42 642 556 HOH HOH . C 3 HOH A 43 643 546 HOH HOH . C 3 HOH A 44 644 561 HOH HOH . C 3 HOH A 45 645 534 HOH HOH . C 3 HOH A 46 646 539 HOH HOH . C 3 HOH A 47 647 525 HOH HOH . C 3 HOH A 48 648 536 HOH HOH . C 3 HOH A 49 649 512 HOH HOH . C 3 HOH A 50 650 566 HOH HOH . C 3 HOH A 51 651 541 HOH HOH . C 3 HOH A 52 652 518 HOH HOH . C 3 HOH A 53 653 503 HOH HOH . C 3 HOH A 54 654 531 HOH HOH . C 3 HOH A 55 655 516 HOH HOH . C 3 HOH A 56 656 545 HOH HOH . C 3 HOH A 57 657 502 HOH HOH . C 3 HOH A 58 658 510 HOH HOH . C 3 HOH A 59 659 526 HOH HOH . C 3 HOH A 60 660 543 HOH HOH . C 3 HOH A 61 661 557 HOH HOH . C 3 HOH A 62 662 551 HOH HOH . C 3 HOH A 63 663 508 HOH HOH . C 3 HOH A 64 664 521 HOH HOH . C 3 HOH A 65 665 522 HOH HOH . C 3 HOH A 66 666 569 HOH HOH . C 3 HOH A 67 667 519 HOH HOH . C 3 HOH A 68 668 571 HOH HOH . C 3 HOH A 69 669 562 HOH HOH . C 3 HOH A 70 670 572 HOH HOH . C 3 HOH A 71 671 570 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 25.787 45.134 7.647 0.96 29.23 ? N1 PLP 501 A 1 HETATM 2 C C2 PLP . . . B 2 25.829 46.418 7.913 0.96 31.46 ? C2 PLP 501 A 1 HETATM 3 C C2A PLP . . . B 2 24.993 46.966 9.07 0.96 32.86 ? C2A PLP 501 A 1 HETATM 4 C C3 PLP . . . B 2 26.634 47.255 7.156 0.96 33.35 ? C3 PLP 501 A 1 HETATM 5 O O3 PLP . . . B 2 26.703 48.62 7.438 0.96 32.83 ? O3 PLP 501 A 1 HETATM 6 C C4 PLP . . . B 2 27.384 46.696 6.127 0.96 32.63 ? C4 PLP 501 A 1 HETATM 7 C C4A PLP . . . B 2 28.295 47.535 5.244 0.96 34.4 ? C4A PLP 501 A 1 HETATM 8 C C5 PLP . . . B 2 27.295 45.342 5.869 0.96 33.13 ? C5 PLP 501 A 1 HETATM 9 C C6 PLP . . . B 2 26.469 44.567 6.674 0.96 32.3 ? C6 PLP 501 A 1 HETATM 10 C C5A PLP . . . B 2 28.107 44.721 4.743 0.96 33.87 ? C5A PLP 501 A 1 HETATM 11 O O4P PLP . . . B 2 29.443 44.711 5.158 0.96 37.08 ? O4P PLP 501 A 1 HETATM 12 P P PLP . . . B 2 30.65 44.319 4.108 0.96 35.38 ? P PLP 501 A 1 HETATM 13 O O1P PLP . . . B 2 30.739 45.363 3.047 0.96 40.24 ? O1P PLP 501 A 1 HETATM 14 O O2P PLP . . . B 2 31.952 44.171 4.872 0.96 38.62 -1 O2P PLP 501 A 1 HETATM 15 O O3P PLP . . . B 2 30.337 42.978 3.488 0.96 35.06 ? O3P PLP 501 A 1 # _model_server_stats.io_time_ms 18 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 15 #