data_4DAA # _model_server_result.job_id MkvgslzxY-NymSM8JEAQ-Q _model_server_result.datetime_utc '2024-10-16 10:27:28' _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 4daa # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":285}' # _entry.id 4DAA # _exptl.entry_id 4DAA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 247.142 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "PYRIDOXAL-5'-PHOSPHATE" _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 119.5 _cell.angle_gamma 90 _cell.entry_id 4DAA _cell.length_a 141.1 _cell.length_b 68.9 _cell.length_c 87.4 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4DAA _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'C 1 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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 D N N ? 3 F N 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 145 A LYS 145 1_555 D C4A PLP . A PLP 285 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? covale ? covale2 B NZ LYS 145 B LYS 145 1_555 F C4A PLP . B PLP 285 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' # _atom_sites.entry_id 4DAA _atom_sites.fract_transf_matrix[1][1] 0.007087 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00401 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.014514 _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] 0.013146 _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 C 2 SO4 A 1 287 287 SO4 SO4 . D 3 PLP A 1 285 285 PLP PLP . E 2 SO4 B 1 287 287 SO4 SO4 . F 3 PLP B 1 285 285 PLP PLP . G 4 HOH A 1 603 603 HOH HOH . G 4 HOH A 2 604 604 HOH HOH . G 4 HOH A 3 605 605 HOH HOH . G 4 HOH A 4 607 607 HOH HOH . G 4 HOH A 5 608 608 HOH HOH . G 4 HOH A 6 610 610 HOH HOH . G 4 HOH A 7 611 611 HOH HOH . G 4 HOH A 8 614 614 HOH HOH . G 4 HOH A 9 615 615 HOH HOH . G 4 HOH A 10 617 617 HOH HOH . G 4 HOH A 11 618 618 HOH HOH . G 4 HOH A 12 619 619 HOH HOH . G 4 HOH A 13 621 621 HOH HOH . G 4 HOH A 14 622 622 HOH HOH . G 4 HOH A 15 624 624 HOH HOH . G 4 HOH A 16 625 625 HOH HOH . G 4 HOH A 17 626 626 HOH HOH . G 4 HOH A 18 629 629 HOH HOH . G 4 HOH A 19 630 630 HOH HOH . G 4 HOH A 20 631 631 HOH HOH . G 4 HOH A 21 634 634 HOH HOH . G 4 HOH A 22 636 636 HOH HOH . G 4 HOH A 23 637 637 HOH HOH . G 4 HOH A 24 638 638 HOH HOH . G 4 HOH A 25 639 639 HOH HOH . G 4 HOH A 26 640 640 HOH HOH . G 4 HOH A 27 641 641 HOH HOH . G 4 HOH A 28 643 643 HOH HOH . G 4 HOH A 29 644 644 HOH HOH . G 4 HOH A 30 646 646 HOH HOH . G 4 HOH A 31 647 647 HOH HOH . G 4 HOH A 32 650 650 HOH HOH . G 4 HOH A 33 651 651 HOH HOH . G 4 HOH A 34 652 652 HOH HOH . G 4 HOH A 35 653 653 HOH HOH . G 4 HOH A 36 655 655 HOH HOH . G 4 HOH A 37 657 657 HOH HOH . G 4 HOH A 38 658 658 HOH HOH . G 4 HOH A 39 659 659 HOH HOH . G 4 HOH A 40 663 663 HOH HOH . G 4 HOH A 41 664 664 HOH HOH . G 4 HOH A 42 668 668 HOH HOH . G 4 HOH A 43 669 669 HOH HOH . G 4 HOH A 44 672 672 HOH HOH . G 4 HOH A 45 675 675 HOH HOH . H 4 HOH B 1 601 601 HOH HOH . H 4 HOH B 2 602 602 HOH HOH . H 4 HOH B 3 606 606 HOH HOH . H 4 HOH B 4 609 609 HOH HOH . H 4 HOH B 5 612 612 HOH HOH . H 4 HOH B 6 613 613 HOH HOH . H 4 HOH B 7 616 616 HOH HOH . H 4 HOH B 8 620 620 HOH HOH . H 4 HOH B 9 623 623 HOH HOH . H 4 HOH B 10 627 627 HOH HOH . H 4 HOH B 11 628 628 HOH HOH . H 4 HOH B 12 632 632 HOH HOH . H 4 HOH B 13 633 633 HOH HOH . H 4 HOH B 14 635 635 HOH HOH . H 4 HOH B 15 642 642 HOH HOH . H 4 HOH B 16 645 645 HOH HOH . H 4 HOH B 17 648 648 HOH HOH . H 4 HOH B 18 649 649 HOH HOH . H 4 HOH B 19 654 654 HOH HOH . H 4 HOH B 20 656 656 HOH HOH . H 4 HOH B 21 660 660 HOH HOH . H 4 HOH B 22 661 661 HOH HOH . H 4 HOH B 23 662 662 HOH HOH . H 4 HOH B 24 665 665 HOH HOH . H 4 HOH B 25 666 666 HOH HOH . H 4 HOH B 26 667 667 HOH HOH . H 4 HOH B 27 670 670 HOH HOH . H 4 HOH B 28 671 671 HOH HOH . H 4 HOH B 29 673 673 HOH HOH . H 4 HOH B 30 674 674 HOH HOH . H 4 HOH B 31 676 676 HOH HOH . H 4 HOH B 32 677 677 HOH HOH . H 4 HOH B 33 678 678 HOH HOH . H 4 HOH B 34 679 679 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 . . . D 3 18.105 -4.026 16.063 1 15.99 ? N1 PLP 285 A 1 HETATM 2 C C2 PLP . . . D 3 16.864 -3.963 16.617 1 22.06 ? C2 PLP 285 A 1 HETATM 3 C C2A PLP . . . D 3 15.88 -2.938 16.061 1 7.55 ? C2A PLP 285 A 1 HETATM 4 C C3 PLP . . . D 3 16.584 -4.866 17.683 1 26.45 ? C3 PLP 285 A 1 HETATM 5 O O3 PLP . . . D 3 15.337 -4.758 18.202 1 34.76 ? O3 PLP 285 A 1 HETATM 6 C C4 PLP . . . D 3 17.542 -5.794 18.154 1 26.96 ? C4 PLP 285 A 1 HETATM 7 C C4A PLP . . . D 3 17.214 -6.709 19.277 1 24.52 ? C4A PLP 285 A 1 HETATM 8 C C5 PLP . . . D 3 18.821 -5.756 17.467 1 25.23 ? C5 PLP 285 A 1 HETATM 9 C C6 PLP . . . D 3 19.075 -4.879 16.447 1 23.98 ? C6 PLP 285 A 1 HETATM 10 C C5A PLP . . . D 3 20.006 -6.695 17.821 1 15.38 ? C5A PLP 285 A 1 HETATM 11 O O4P PLP . . . D 3 20.558 -6.491 19.09 1 11.44 ? O4P PLP 285 A 1 HETATM 12 P P PLP . . . D 3 21.338 -7.69 19.698 1 13.27 ? P PLP 285 A 1 HETATM 13 O O1P PLP . . . D 3 20.602 -8.941 19.448 1 8.37 ? O1P PLP 285 A 1 HETATM 14 O O2P PLP . . . D 3 21.491 -7.451 21.221 1 12.22 ? O2P PLP 285 A 1 HETATM 15 O O3P PLP . . . D 3 22.648 -7.691 19.035 1 22.19 ? O3P PLP 285 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 264 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 15 #