data_7E6E # _model_server_result.job_id tLAH2NfcKJy3P9hEvy4d-A _model_server_result.datetime_utc '2024-10-11 03:13:39' _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 7e6e # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 7E6E # _exptl.entry_id 7E6E _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 248.173 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "4'-DEOXY-4'-AMINOPYRIDOXAL-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 120 _cell.entry_id 7E6E _cell.length_a 92.4 _cell.length_b 92.4 _cell.length_c 128.7 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7E6E _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _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,D,E,F,G,H,I,J,K,L,M,N _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' 6_554 -x,-x+y,-z-2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 -85.8 # _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 'C8 H13 N2 O5 P' _chem_comp.formula_weight 248.173 _chem_comp.id PMP _chem_comp.mon_nstd_flag . _chem_comp.name "4'-DEOXY-4'-AMINOPYRIDOXAL-5'-PHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "PYRIDOXAMINE-5'-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 PMP doub 315 n y N1 C6 PMP sing 316 n y C2 C2A PMP sing 317 n n C2 C3 PMP sing 318 n y C2A H2A1 PMP sing 319 n n C2A H2A2 PMP sing 320 n n C2A H2A3 PMP sing 321 n n C3 O3 PMP sing 322 n n C3 C4 PMP doub 323 n y O3 HO3 PMP sing 324 n n C4 C4A PMP sing 325 n n C4 C5 PMP sing 326 n y C4A N4A PMP sing 327 n n C4A H4A1 PMP sing 328 n n C4A H4A2 PMP sing 329 n n N4A HNA1 PMP sing 330 n n N4A HNA2 PMP sing 331 n n C5 C6 PMP doub 332 n y C5 C5A PMP sing 333 n n C6 H6 PMP sing 334 n n C5A O4P PMP sing 335 n n C5A H5A1 PMP sing 336 n n C5A H5A2 PMP sing 337 n n O4P P PMP sing 338 n n P O1P PMP doub 339 n n P O2P PMP sing 340 n n P O3P PMP sing 341 n n O2P HOP2 PMP sing 342 n n O3P HOP3 PMP sing 343 n n # _atom_sites.entry_id 7E6E _atom_sites.fract_transf_matrix[1][1] 0.010823 _atom_sites.fract_transf_matrix[1][2] 0.006248 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012497 _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] 0.00777 _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 PMP A 1 501 1 PMP PMP . C 3 PG4 A 1 502 1 PG4 PG4 . D 4 PEG A 1 503 1 PEG PEG . E 4 PEG A 1 504 2 PEG PEG . F 4 PEG A 1 505 3 PEG PEG . G 4 PEG A 1 506 4 PEG PEG . H 5 EDO A 1 507 1 EDO EDO . I 5 EDO A 1 508 2 EDO EDO . J 5 EDO A 1 509 3 EDO EDO . K 5 EDO A 1 510 4 EDO EDO . L 5 EDO A 1 511 5 EDO EDO . M 5 EDO A 1 512 6 EDO EDO . N 6 HOH A 1 601 69 HOH HOH . N 6 HOH A 2 602 95 HOH HOH . N 6 HOH A 3 603 81 HOH HOH . N 6 HOH A 4 604 76 HOH HOH . N 6 HOH A 5 605 53 HOH HOH . N 6 HOH A 6 606 22 HOH HOH . N 6 HOH A 7 607 86 HOH HOH . N 6 HOH A 8 608 16 HOH HOH . N 6 HOH A 9 609 85 HOH HOH . N 6 HOH A 10 610 40 HOH HOH . N 6 HOH A 11 611 87 HOH HOH . N 6 HOH A 12 612 24 HOH HOH . N 6 HOH A 13 613 45 HOH HOH . N 6 HOH A 14 614 88 HOH HOH . N 6 HOH A 15 615 42 HOH HOH . N 6 HOH A 16 616 78 HOH HOH . N 6 HOH A 17 617 84 HOH HOH . N 6 HOH A 18 618 50 HOH HOH . N 6 HOH A 19 619 30 HOH HOH . N 6 HOH A 20 620 31 HOH HOH . N 6 HOH A 21 621 20 HOH HOH . N 6 HOH A 22 622 93 HOH HOH . N 6 HOH A 23 623 51 HOH HOH . N 6 HOH A 24 624 11 HOH HOH . N 6 HOH A 25 625 9 HOH HOH . N 6 HOH A 26 626 77 HOH HOH . N 6 HOH A 27 627 83 HOH HOH . N 6 HOH A 28 628 37 HOH HOH . N 6 HOH A 29 629 79 HOH HOH . N 6 HOH A 30 630 80 HOH HOH . N 6 HOH A 31 631 23 HOH HOH . N 6 HOH A 32 632 25 HOH HOH . N 6 HOH A 33 633 65 HOH HOH . N 6 HOH A 34 634 33 HOH HOH . N 6 HOH A 35 635 59 HOH HOH . N 6 HOH A 36 636 60 HOH HOH . N 6 HOH A 37 637 12 HOH HOH . N 6 HOH A 38 638 41 HOH HOH . N 6 HOH A 39 639 49 HOH HOH . N 6 HOH A 40 640 19 HOH HOH . N 6 HOH A 41 641 58 HOH HOH . N 6 HOH A 42 642 38 HOH HOH . N 6 HOH A 43 643 8 HOH HOH . N 6 HOH A 44 644 56 HOH HOH . N 6 HOH A 45 645 44 HOH HOH . N 6 HOH A 46 646 28 HOH HOH . N 6 HOH A 47 647 73 HOH HOH . N 6 HOH A 48 648 21 HOH HOH . N 6 HOH A 49 649 3 HOH HOH . N 6 HOH A 50 650 39 HOH HOH . N 6 HOH A 51 651 17 HOH HOH . N 6 HOH A 52 652 35 HOH HOH . N 6 HOH A 53 653 64 HOH HOH . N 6 HOH A 54 654 71 HOH HOH . N 6 HOH A 55 655 62 HOH HOH . N 6 HOH A 56 656 61 HOH HOH . N 6 HOH A 57 657 5 HOH HOH . N 6 HOH A 58 658 27 HOH HOH . N 6 HOH A 59 659 82 HOH HOH . N 6 HOH A 60 660 68 HOH HOH . N 6 HOH A 61 661 2 HOH HOH . N 6 HOH A 62 662 74 HOH HOH . N 6 HOH A 63 663 91 HOH HOH . N 6 HOH A 64 664 47 HOH HOH . N 6 HOH A 65 665 75 HOH HOH . N 6 HOH A 66 666 52 HOH HOH . N 6 HOH A 67 667 54 HOH HOH . N 6 HOH A 68 668 34 HOH HOH . N 6 HOH A 69 669 46 HOH HOH . N 6 HOH A 70 670 26 HOH HOH . N 6 HOH A 71 671 63 HOH HOH . N 6 HOH A 72 672 92 HOH HOH . N 6 HOH A 73 673 1 HOH HOH . N 6 HOH A 74 674 32 HOH HOH . N 6 HOH A 75 675 67 HOH HOH . N 6 HOH A 76 676 55 HOH HOH . N 6 HOH A 77 677 7 HOH HOH . N 6 HOH A 78 678 72 HOH HOH . N 6 HOH A 79 679 43 HOH HOH . N 6 HOH A 80 680 90 HOH HOH . N 6 HOH A 81 681 4 HOH HOH . N 6 HOH A 82 682 36 HOH HOH . N 6 HOH A 83 683 66 HOH HOH . N 6 HOH A 84 684 14 HOH HOH . N 6 HOH A 85 685 48 HOH HOH . N 6 HOH A 86 686 18 HOH HOH . N 6 HOH A 87 687 13 HOH HOH . N 6 HOH A 88 688 10 HOH HOH . N 6 HOH A 89 689 70 HOH HOH . N 6 HOH A 90 690 15 HOH HOH . N 6 HOH A 91 691 6 HOH HOH . N 6 HOH A 92 692 29 HOH HOH . N 6 HOH A 93 693 57 HOH HOH . N 6 HOH A 94 694 94 HOH HOH . N 6 HOH A 95 695 89 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 PMP . . . B 2 33.47 -31.005 -34.146 1 47.65 ? N1 PMP 501 A 1 HETATM 2 C C2 PMP . . . B 2 34.693 -31.472 -33.916 1 55.24 ? C2 PMP 501 A 1 HETATM 3 C C2A PMP . . . B 2 35.394 -30.971 -32.694 1 52.01 ? C2A PMP 501 A 1 HETATM 4 C C3 PMP . . . B 2 35.284 -32.433 -34.786 1 54.16 ? C3 PMP 501 A 1 HETATM 5 O O3 PMP . . . B 2 36.506 -32.922 -34.462 1 57.27 ? O3 PMP 501 A 1 HETATM 6 C C4 PMP . . . B 2 34.587 -32.851 -35.94 1 51.95 ? C4 PMP 501 A 1 HETATM 7 C C4A PMP . . . B 2 35.099 -33.901 -36.905 1 48.29 ? C4A PMP 501 A 1 HETATM 8 N N4A PMP . . . B 2 36.528 -34.169 -37.068 1 60.3 ? N4A PMP 501 A 1 HETATM 9 C C5 PMP . . . B 2 33.311 -32.303 -36.156 1 50.24 ? C5 PMP 501 A 1 HETATM 10 C C6 PMP . . . B 2 32.813 -31.394 -35.244 1 50.38 ? C6 PMP 501 A 1 HETATM 11 C C5A PMP . . . B 2 32.491 -32.688 -37.341 1 50.74 ? C5A PMP 501 A 1 HETATM 12 O O4P PMP . . . B 2 32.127 -34.074 -37.133 1 46.86 ? O4P PMP 501 A 1 HETATM 13 P P PMP . . . B 2 31.643 -34.905 -38.383 1 45.15 ? P PMP 501 A 1 HETATM 14 O O1P PMP . . . B 2 32.567 -34.529 -39.534 1 45.83 ? O1P PMP 501 A 1 HETATM 15 O O2P PMP . . . B 2 30.214 -34.495 -38.651 1 44.79 ? O2P PMP 501 A 1 HETATM 16 O O3P PMP . . . B 2 31.835 -36.29 -37.861 1 44.35 ? O3P PMP 501 A 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 16 #