data_5QQZ # _model_server_result.job_id I8AjbyvhEVDDwLD3A9BgJw _model_server_result.datetime_utc '2024-11-16 05:53:20' _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 5qqz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":601}' # _entry.id 5QQZ # _exptl.entry_id 5QQZ _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 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 109.22 _cell.angle_gamma 90 _cell.entry_id 5QQZ _cell.length_a 125.868 _cell.length_b 108.524 _cell.length_c 75.776 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5QQZ _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 _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 ? 2 C N N ? 2 E N N # _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 293 n y N1 C6 PLP sing 294 n y C2 C2A PLP sing 295 n n C2 C3 PLP sing 296 n y C2A H2A1 PLP sing 297 n n C2A H2A2 PLP sing 298 n n C2A H2A3 PLP sing 299 n n C3 O3 PLP sing 300 n n C3 C4 PLP doub 301 n y O3 HO3 PLP sing 302 n n C4 C4A PLP sing 303 n n C4 C5 PLP sing 304 n y C4A O4A PLP doub 305 n n C4A H4A PLP sing 306 n n C5 C6 PLP doub 307 n y C5 C5A PLP sing 308 n n C6 H6 PLP sing 309 n n C5A O4P PLP sing 310 n n C5A H5A1 PLP sing 311 n n C5A H5A2 PLP sing 312 n n O4P P PLP sing 313 n n P O1P PLP doub 314 n n P O2P PLP sing 315 n n P O3P PLP sing 316 n n O2P HOP2 PLP sing 317 n n O3P HOP3 PLP sing 318 n n # _atom_sites.entry_id 5QQZ _atom_sites.fract_transf_matrix[1][1] 0.007945 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002769 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009215 _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] 0.013975 _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 PLP B 1 601 601 PLP PLP . D 3 NUJ B 1 602 901 NUJ LIG . E 2 PLP A 1 601 601 PLP PLP . F 4 HOH B 1 701 799 HOH HOH . F 4 HOH B 2 702 702 HOH HOH . F 4 HOH B 3 703 732 HOH HOH . F 4 HOH B 4 704 701 HOH HOH . F 4 HOH B 5 705 709 HOH HOH . F 4 HOH B 6 706 791 HOH HOH . F 4 HOH B 7 707 717 HOH HOH . F 4 HOH B 8 708 704 HOH HOH . F 4 HOH B 9 709 741 HOH HOH . F 4 HOH B 10 710 758 HOH HOH . F 4 HOH B 11 711 714 HOH HOH . F 4 HOH B 12 712 765 HOH HOH . F 4 HOH B 13 713 733 HOH HOH . F 4 HOH B 14 714 727 HOH HOH . F 4 HOH B 15 715 815 HOH HOH . F 4 HOH B 16 716 705 HOH HOH . F 4 HOH B 17 717 725 HOH HOH . F 4 HOH B 18 718 729 HOH HOH . F 4 HOH B 19 719 723 HOH HOH . F 4 HOH B 20 720 712 HOH HOH . F 4 HOH B 21 721 716 HOH HOH . F 4 HOH B 22 722 827 HOH HOH . F 4 HOH B 23 723 731 HOH HOH . F 4 HOH B 24 724 795 HOH HOH . F 4 HOH B 25 725 764 HOH HOH . F 4 HOH B 26 726 721 HOH HOH . F 4 HOH B 27 727 726 HOH HOH . F 4 HOH B 28 728 742 HOH HOH . F 4 HOH B 29 729 797 HOH HOH . F 4 HOH B 30 730 713 HOH HOH . F 4 HOH B 31 731 750 HOH HOH . F 4 HOH B 32 732 707 HOH HOH . F 4 HOH B 33 733 769 HOH HOH . F 4 HOH B 34 734 770 HOH HOH . F 4 HOH B 35 735 832 HOH HOH . F 4 HOH B 36 736 730 HOH HOH . F 4 HOH B 37 737 719 HOH HOH . F 4 HOH B 38 738 706 HOH HOH . F 4 HOH B 39 739 708 HOH HOH . F 4 HOH B 40 740 738 HOH HOH . F 4 HOH B 41 741 818 HOH HOH . F 4 HOH B 42 742 762 HOH HOH . F 4 HOH B 43 743 748 HOH HOH . F 4 HOH B 44 744 773 HOH HOH . F 4 HOH B 45 745 787 HOH HOH . F 4 HOH B 46 746 810 HOH HOH . F 4 HOH B 47 747 780 HOH HOH . F 4 HOH B 48 748 715 HOH HOH . F 4 HOH B 49 749 720 HOH HOH . F 4 HOH B 50 750 711 HOH HOH . F 4 HOH B 51 751 779 HOH HOH . F 4 HOH B 52 752 749 HOH HOH . F 4 HOH B 53 753 753 HOH HOH . F 4 HOH B 54 754 766 HOH HOH . F 4 HOH B 55 755 746 HOH HOH . F 4 HOH B 56 756 744 HOH HOH . F 4 HOH B 57 757 760 HOH HOH . F 4 HOH B 58 758 806 HOH HOH . F 4 HOH B 59 759 736 HOH HOH . F 4 HOH B 60 760 756 HOH HOH . F 4 HOH B 61 761 772 HOH HOH . F 4 HOH B 62 762 734 HOH HOH . F 4 HOH B 63 763 769 HOH HOH . F 4 HOH B 64 764 786 HOH HOH . F 4 HOH B 65 765 787 HOH HOH . F 4 HOH B 66 766 747 HOH HOH . F 4 HOH B 67 767 826 HOH HOH . F 4 HOH B 68 768 783 HOH HOH . F 4 HOH B 69 769 800 HOH HOH . F 4 HOH B 70 770 807 HOH HOH . F 4 HOH B 71 771 775 HOH HOH . F 4 HOH B 72 772 764 HOH HOH . F 4 HOH B 73 773 735 HOH HOH . F 4 HOH B 74 774 718 HOH HOH . F 4 HOH B 75 775 754 HOH HOH . F 4 HOH B 76 776 710 HOH HOH . F 4 HOH B 77 777 790 HOH HOH . F 4 HOH B 78 778 755 HOH HOH . F 4 HOH B 79 779 801 HOH HOH . F 4 HOH B 80 780 743 HOH HOH . F 4 HOH B 81 781 724 HOH HOH . F 4 HOH B 82 782 739 HOH HOH . F 4 HOH B 83 783 761 HOH HOH . F 4 HOH B 84 784 820 HOH HOH . F 4 HOH B 85 785 752 HOH HOH . F 4 HOH B 86 786 745 HOH HOH . F 4 HOH B 87 787 737 HOH HOH . F 4 HOH B 88 788 794 HOH HOH . F 4 HOH B 89 789 771 HOH HOH . F 4 HOH B 90 790 751 HOH HOH . F 4 HOH B 91 791 808 HOH HOH . F 4 HOH B 92 792 768 HOH HOH . F 4 HOH B 93 793 757 HOH HOH . F 4 HOH B 94 794 740 HOH HOH . F 4 HOH B 95 795 792 HOH HOH . F 4 HOH B 96 796 728 HOH HOH . F 4 HOH B 97 797 809 HOH HOH . F 4 HOH B 98 798 789 HOH HOH . F 4 HOH B 99 799 803 HOH HOH . F 4 HOH B 100 800 763 HOH HOH . F 4 HOH B 101 801 759 HOH HOH . F 4 HOH B 102 802 782 HOH HOH . F 4 HOH B 103 803 784 HOH HOH . F 4 HOH B 104 804 774 HOH HOH . F 4 HOH B 105 805 785 HOH HOH . F 4 HOH B 106 806 825 HOH HOH . F 4 HOH B 107 807 809 HOH HOH . F 4 HOH B 108 808 814 HOH HOH . F 4 HOH B 109 809 788 HOH HOH . F 4 HOH B 110 810 767 HOH HOH . F 4 HOH B 111 811 813 HOH HOH . F 4 HOH B 112 812 805 HOH HOH . F 4 HOH B 113 813 778 HOH HOH . F 4 HOH B 114 814 747 HOH HOH . F 4 HOH B 115 815 793 HOH HOH . F 4 HOH B 116 816 819 HOH HOH . F 4 HOH B 117 817 798 HOH HOH . F 4 HOH B 118 818 777 HOH HOH . F 4 HOH B 119 819 811 HOH HOH . F 4 HOH B 120 820 823 HOH HOH . F 4 HOH B 121 821 828 HOH HOH . F 4 HOH B 122 822 817 HOH HOH . F 4 HOH B 123 823 816 HOH HOH . F 4 HOH B 124 824 824 HOH HOH . F 4 HOH B 125 825 812 HOH HOH . F 4 HOH B 126 826 821 HOH HOH . F 4 HOH B 127 827 834 HOH HOH . F 4 HOH B 128 828 830 HOH HOH . F 4 HOH B 129 829 831 HOH HOH . F 4 HOH B 130 830 833 HOH HOH . F 4 HOH B 131 831 804 HOH HOH . F 4 HOH B 132 832 835 HOH HOH . G 4 HOH A 1 701 731 HOH HOH . G 4 HOH A 2 702 710 HOH HOH . G 4 HOH A 3 703 720 HOH HOH . G 4 HOH A 4 704 716 HOH HOH . G 4 HOH A 5 705 702 HOH HOH . G 4 HOH A 6 706 733 HOH HOH . G 4 HOH A 7 707 722 HOH HOH . G 4 HOH A 8 708 740 HOH HOH . G 4 HOH A 9 709 713 HOH HOH . G 4 HOH A 10 710 757 HOH HOH . G 4 HOH A 11 711 707 HOH HOH . G 4 HOH A 12 712 723 HOH HOH . G 4 HOH A 13 713 721 HOH HOH . G 4 HOH A 14 714 729 HOH HOH . G 4 HOH A 15 715 735 HOH HOH . G 4 HOH A 16 716 724 HOH HOH . G 4 HOH A 17 717 781 HOH HOH . G 4 HOH A 18 718 705 HOH HOH . G 4 HOH A 19 719 703 HOH HOH . G 4 HOH A 20 720 726 HOH HOH . G 4 HOH A 21 721 777 HOH HOH . G 4 HOH A 22 722 718 HOH HOH . G 4 HOH A 23 723 704 HOH HOH . G 4 HOH A 24 724 774 HOH HOH . G 4 HOH A 25 725 712 HOH HOH . G 4 HOH A 26 726 728 HOH HOH . G 4 HOH A 27 727 722 HOH HOH . G 4 HOH A 28 728 791 HOH HOH . G 4 HOH A 29 729 773 HOH HOH . G 4 HOH A 30 730 738 HOH HOH . G 4 HOH A 31 731 708 HOH HOH . G 4 HOH A 32 732 711 HOH HOH . G 4 HOH A 33 733 744 HOH HOH . G 4 HOH A 34 734 714 HOH HOH . G 4 HOH A 35 735 709 HOH HOH . G 4 HOH A 36 736 783 HOH HOH . G 4 HOH A 37 737 715 HOH HOH . G 4 HOH A 38 738 725 HOH HOH . G 4 HOH A 39 739 790 HOH HOH . G 4 HOH A 40 740 748 HOH HOH . G 4 HOH A 41 741 703 HOH HOH . G 4 HOH A 42 742 806 HOH HOH . G 4 HOH A 43 743 732 HOH HOH . G 4 HOH A 44 744 736 HOH HOH . G 4 HOH A 45 745 771 HOH HOH . G 4 HOH A 46 746 778 HOH HOH . G 4 HOH A 47 747 717 HOH HOH . G 4 HOH A 48 748 752 HOH HOH . G 4 HOH A 49 749 739 HOH HOH . G 4 HOH A 50 750 727 HOH HOH . G 4 HOH A 51 751 741 HOH HOH . G 4 HOH A 52 752 730 HOH HOH . G 4 HOH A 53 753 776 HOH HOH . G 4 HOH A 54 754 734 HOH HOH . G 4 HOH A 55 755 706 HOH HOH . G 4 HOH A 56 756 779 HOH HOH . G 4 HOH A 57 757 742 HOH HOH . G 4 HOH A 58 758 766 HOH HOH . G 4 HOH A 59 759 804 HOH HOH . G 4 HOH A 60 760 743 HOH HOH . G 4 HOH A 61 761 759 HOH HOH . G 4 HOH A 62 762 755 HOH HOH . G 4 HOH A 63 763 763 HOH HOH . G 4 HOH A 64 764 762 HOH HOH . G 4 HOH A 65 765 758 HOH HOH . G 4 HOH A 66 766 782 HOH HOH . G 4 HOH A 67 767 767 HOH HOH . G 4 HOH A 68 768 780 HOH HOH . G 4 HOH A 69 769 793 HOH HOH . G 4 HOH A 70 770 756 HOH HOH . G 4 HOH A 71 771 746 HOH HOH . G 4 HOH A 72 772 719 HOH HOH . G 4 HOH A 73 773 737 HOH HOH . G 4 HOH A 74 774 745 HOH HOH . G 4 HOH A 75 775 701 HOH HOH . G 4 HOH A 76 776 765 HOH HOH . G 4 HOH A 77 777 754 HOH HOH . G 4 HOH A 78 778 811 HOH HOH . G 4 HOH A 79 779 776 HOH HOH . G 4 HOH A 80 780 781 HOH HOH . G 4 HOH A 81 781 797 HOH HOH . G 4 HOH A 82 782 775 HOH HOH . G 4 HOH A 83 783 751 HOH HOH . G 4 HOH A 84 784 753 HOH HOH . G 4 HOH A 85 785 750 HOH HOH . G 4 HOH A 86 786 796 HOH HOH . G 4 HOH A 87 787 749 HOH HOH . G 4 HOH A 88 788 784 HOH HOH . G 4 HOH A 89 789 772 HOH HOH . G 4 HOH A 90 790 795 HOH HOH . G 4 HOH A 91 791 786 HOH HOH . G 4 HOH A 92 792 810 HOH HOH . G 4 HOH A 93 793 798 HOH HOH . G 4 HOH A 94 794 789 HOH HOH . G 4 HOH A 95 795 768 HOH HOH . G 4 HOH A 96 796 800 HOH HOH . G 4 HOH A 97 797 761 HOH HOH . G 4 HOH A 98 798 796 HOH HOH . G 4 HOH A 99 799 770 HOH HOH . G 4 HOH A 100 800 788 HOH HOH . G 4 HOH A 101 801 794 HOH HOH . G 4 HOH A 102 802 760 HOH HOH . G 4 HOH A 103 803 802 HOH HOH . G 4 HOH A 104 804 785 HOH HOH . G 4 HOH A 105 805 803 HOH HOH . G 4 HOH A 106 806 792 HOH HOH . G 4 HOH A 107 807 822 HOH HOH . G 4 HOH A 108 808 801 HOH HOH . G 4 HOH A 109 809 802 HOH HOH . G 4 HOH A 110 810 829 HOH HOH . G 4 HOH A 111 811 799 HOH HOH . G 4 HOH A 112 812 807 HOH HOH . G 4 HOH A 113 813 808 HOH HOH . G 4 HOH A 114 814 805 HOH HOH . G 4 HOH A 115 815 812 HOH HOH . G 4 HOH A 116 816 836 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 . . . C 2 28.635 -31.905 0.063 1 21.2 ? N1 PLP 601 B 1 HETATM 2 C C2 PLP . . . C 2 29.627 -32.175 -0.8 1 23.11 ? C2 PLP 601 B 1 HETATM 3 C C2A PLP . . . C 2 29.411 -33.158 -1.905 1 22.3 ? C2A PLP 601 B 1 HETATM 4 C C3 PLP . . . C 2 30.904 -31.589 -0.657 1 23.51 ? C3 PLP 601 B 1 HETATM 5 O O3 PLP . . . C 2 31.888 -31.928 -1.531 1 18.77 ? O3 PLP 601 B 1 HETATM 6 C C4 PLP . . . C 2 31.155 -30.673 0.381 1 24.62 ? C4 PLP 601 B 1 HETATM 7 C C4A PLP . . . C 2 32.519 -30.115 0.412 1 27.08 ? C4A PLP 601 B 1 HETATM 8 O O4A PLP . . . C 2 33.03 -29.409 1.241 1 34.57 ? O4A PLP 601 B 1 HETATM 9 C C5 PLP . . . C 2 30.082 -30.372 1.245 1 21.75 ? C5 PLP 601 B 1 HETATM 10 C C6 PLP . . . C 2 28.875 -31.006 1.053 1 22.93 ? C6 PLP 601 B 1 HETATM 11 C C5A PLP . . . C 2 30.231 -29.395 2.383 1 21.33 ? C5A PLP 601 B 1 HETATM 12 O O4P PLP . . . C 2 29.966 -27.991 2.015 1 16.88 ? O4P PLP 601 B 1 HETATM 13 P P PLP . . . C 2 31.048 -27.026 2.882 1 23.53 ? P PLP 601 B 1 HETATM 14 O O1P PLP . . . C 2 32.421 -27.065 2.223 1 25.07 ? O1P PLP 601 B 1 HETATM 15 O O2P PLP . . . C 2 31.213 -27.55 4.32 1 18.87 ? O2P PLP 601 B 1 HETATM 16 O O3P PLP . . . C 2 30.431 -25.558 2.809 1 19.18 ? O3P PLP 601 B 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 16 #