data_5QR2 # _model_server_result.job_id eme_IPXhpcO37setdslAmQ _model_server_result.datetime_utc '2024-11-21 22:55:12' _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 5qr2 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":601}' # _entry.id 5QR2 # _exptl.entry_id 5QR2 _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 109.11 _cell.angle_gamma 90 _cell.entry_id 5QR2 _cell.length_a 125.522 _cell.length_b 108.137 _cell.length_c 75.521 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5QR2 _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 D 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 289 n y N1 C6 PLP sing 290 n y C2 C2A PLP sing 291 n n C2 C3 PLP sing 292 n y C2A H2A1 PLP sing 293 n n C2A H2A2 PLP sing 294 n n C2A H2A3 PLP sing 295 n n C3 O3 PLP sing 296 n n C3 C4 PLP doub 297 n y O3 HO3 PLP sing 298 n n C4 C4A PLP sing 299 n n C4 C5 PLP sing 300 n y C4A O4A PLP doub 301 n n C4A H4A PLP sing 302 n n C5 C6 PLP doub 303 n y C5 C5A PLP sing 304 n n C6 H6 PLP sing 305 n n C5A O4P PLP sing 306 n n C5A H5A1 PLP sing 307 n n C5A H5A2 PLP sing 308 n n O4P P PLP sing 309 n n P O1P PLP doub 310 n n P O2P PLP sing 311 n n P O3P PLP sing 312 n n O2P HOP2 PLP sing 313 n n O3P HOP3 PLP sing 314 n n # _atom_sites.entry_id 5QR2 _atom_sites.fract_transf_matrix[1][1] 0.007967 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00276 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009248 _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] 0.014013 _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 2 PLP A 1 601 601 PLP PLP . E 3 NTG A 1 602 901 NTG LIG . F 4 HOH B 1 701 799 HOH HOH . F 4 HOH B 2 702 702 HOH HOH . F 4 HOH B 3 703 738 HOH HOH . F 4 HOH B 4 704 705 HOH HOH . F 4 HOH B 5 705 717 HOH HOH . F 4 HOH B 6 706 732 HOH HOH . F 4 HOH B 7 707 701 HOH HOH . F 4 HOH B 8 708 795 HOH HOH . F 4 HOH B 9 709 709 HOH HOH . F 4 HOH B 10 710 791 HOH HOH . F 4 HOH B 11 711 729 HOH HOH . F 4 HOH B 12 712 714 HOH HOH . F 4 HOH B 13 713 741 HOH HOH . F 4 HOH B 14 714 712 HOH HOH . F 4 HOH B 15 715 704 HOH HOH . F 4 HOH B 16 716 733 HOH HOH . F 4 HOH B 17 717 706 HOH HOH . F 4 HOH B 18 718 716 HOH HOH . F 4 HOH B 19 719 770 HOH HOH . F 4 HOH B 20 720 730 HOH HOH . F 4 HOH B 21 721 727 HOH HOH . F 4 HOH B 22 722 764 HOH HOH . F 4 HOH B 23 723 750 HOH HOH . F 4 HOH B 24 724 787 HOH HOH . F 4 HOH B 25 725 758 HOH HOH . F 4 HOH B 26 726 707 HOH HOH . F 4 HOH B 27 727 715 HOH HOH . F 4 HOH B 28 728 731 HOH HOH . F 4 HOH B 29 729 721 HOH HOH . F 4 HOH B 30 730 815 HOH HOH . F 4 HOH B 31 731 742 HOH HOH . F 4 HOH B 32 732 765 HOH HOH . F 4 HOH B 33 733 710 HOH HOH . F 4 HOH B 34 734 779 HOH HOH . F 4 HOH B 35 735 713 HOH HOH . F 4 HOH B 36 736 734 HOH HOH . F 4 HOH B 37 737 749 HOH HOH . F 4 HOH B 38 738 818 HOH HOH . F 4 HOH B 39 739 768 HOH HOH . F 4 HOH B 40 740 769 HOH HOH . F 4 HOH B 41 741 786 HOH HOH . F 4 HOH B 42 742 708 HOH HOH . F 4 HOH B 43 743 756 HOH HOH . F 4 HOH B 44 744 723 HOH HOH . F 4 HOH B 45 745 827 HOH HOH . F 4 HOH B 46 746 797 HOH HOH . F 4 HOH B 47 747 747 HOH HOH . F 4 HOH B 48 748 753 HOH HOH . F 4 HOH B 49 749 748 HOH HOH . F 4 HOH B 50 750 718 HOH HOH . F 4 HOH B 51 751 725 HOH HOH . F 4 HOH B 52 752 711 HOH HOH . F 4 HOH B 53 753 780 HOH HOH . F 4 HOH B 54 754 704 HOH HOH . F 4 HOH B 55 755 772 HOH HOH . F 4 HOH B 56 756 810 HOH HOH . F 4 HOH B 57 757 755 HOH HOH . F 4 HOH B 58 758 762 HOH HOH . F 4 HOH B 59 759 766 HOH HOH . F 4 HOH B 60 760 807 HOH HOH . F 4 HOH B 61 761 719 HOH HOH . F 4 HOH B 62 762 735 HOH HOH . F 4 HOH B 63 763 790 HOH HOH . F 4 HOH B 64 764 746 HOH HOH . F 4 HOH B 65 765 720 HOH HOH . F 4 HOH B 66 766 767 HOH HOH . F 4 HOH B 67 767 806 HOH HOH . F 4 HOH B 68 768 787 HOH HOH . F 4 HOH B 69 769 754 HOH HOH . F 4 HOH B 70 770 736 HOH HOH . F 4 HOH B 71 771 760 HOH HOH . F 4 HOH B 72 772 744 HOH HOH . F 4 HOH B 73 773 764 HOH HOH . F 4 HOH B 74 774 783 HOH HOH . F 4 HOH B 75 775 776 HOH HOH . F 4 HOH B 76 776 759 HOH HOH . F 4 HOH B 77 777 775 HOH HOH . F 4 HOH B 78 778 801 HOH HOH . F 4 HOH B 79 779 739 HOH HOH . F 4 HOH B 80 780 792 HOH HOH . F 4 HOH B 81 781 743 HOH HOH . F 4 HOH B 82 782 751 HOH HOH . F 4 HOH B 83 783 773 HOH HOH . F 4 HOH B 84 784 740 HOH HOH . F 4 HOH B 85 785 761 HOH HOH . F 4 HOH B 86 786 752 HOH HOH . F 4 HOH B 87 787 800 HOH HOH . F 4 HOH B 88 788 769 HOH HOH . F 4 HOH B 89 789 826 HOH HOH . F 4 HOH B 90 790 777 HOH HOH . F 4 HOH B 91 791 737 HOH HOH . F 4 HOH B 92 792 808 HOH HOH . F 4 HOH B 93 793 728 HOH HOH . F 4 HOH B 94 794 724 HOH HOH . F 4 HOH B 95 795 763 HOH HOH . F 4 HOH B 96 796 809 HOH HOH . F 4 HOH B 97 797 794 HOH HOH . F 4 HOH B 98 798 814 HOH HOH . F 4 HOH B 99 799 771 HOH HOH . F 4 HOH B 100 800 832 HOH HOH . F 4 HOH B 101 801 782 HOH HOH . F 4 HOH B 102 802 820 HOH HOH . F 4 HOH B 103 803 784 HOH HOH . F 4 HOH B 104 804 778 HOH HOH . F 4 HOH B 105 805 803 HOH HOH . F 4 HOH B 106 806 825 HOH HOH . F 4 HOH B 107 807 811 HOH HOH . F 4 HOH B 108 808 821 HOH HOH . F 4 HOH B 109 809 785 HOH HOH . F 4 HOH B 110 810 789 HOH HOH . F 4 HOH B 111 811 788 HOH HOH . F 4 HOH B 112 812 823 HOH HOH . F 4 HOH B 113 813 813 HOH HOH . F 4 HOH B 114 814 798 HOH HOH . F 4 HOH B 115 815 817 HOH HOH . F 4 HOH B 116 816 774 HOH HOH . F 4 HOH B 117 817 819 HOH HOH . F 4 HOH B 118 818 793 HOH HOH . F 4 HOH B 119 819 812 HOH HOH . F 4 HOH B 120 820 805 HOH HOH . F 4 HOH B 121 821 745 HOH HOH . F 4 HOH B 122 822 828 HOH HOH . F 4 HOH B 123 823 816 HOH HOH . F 4 HOH B 124 824 829 HOH HOH . F 4 HOH B 125 825 831 HOH HOH . F 4 HOH B 126 826 830 HOH HOH . F 4 HOH B 127 827 834 HOH HOH . F 4 HOH B 128 828 824 HOH HOH . F 4 HOH B 129 829 833 HOH HOH . F 4 HOH B 130 830 804 HOH HOH . F 4 HOH B 131 831 835 HOH HOH . G 4 HOH A 1 701 733 HOH HOH . G 4 HOH A 2 702 740 HOH HOH . G 4 HOH A 3 703 731 HOH HOH . G 4 HOH A 4 704 777 HOH HOH . G 4 HOH A 5 705 707 HOH HOH . G 4 HOH A 6 706 703 HOH HOH . G 4 HOH A 7 707 720 HOH HOH . G 4 HOH A 8 708 716 HOH HOH . G 4 HOH A 9 709 702 HOH HOH . G 4 HOH A 10 710 723 HOH HOH . G 4 HOH A 11 711 724 HOH HOH . G 4 HOH A 12 712 729 HOH HOH . G 4 HOH A 13 713 721 HOH HOH . G 4 HOH A 14 714 722 HOH HOH . G 4 HOH A 15 715 735 HOH HOH . G 4 HOH A 16 716 710 HOH HOH . G 4 HOH A 17 717 766 HOH HOH . G 4 HOH A 18 718 726 HOH HOH . G 4 HOH A 19 719 705 HOH HOH . G 4 HOH A 20 720 713 HOH HOH . G 4 HOH A 21 721 757 HOH HOH . G 4 HOH A 22 722 754 HOH HOH . G 4 HOH A 23 723 718 HOH HOH . G 4 HOH A 24 724 708 HOH HOH . G 4 HOH A 25 725 732 HOH HOH . G 4 HOH A 26 726 726 HOH HOH . G 4 HOH A 27 727 791 HOH HOH . G 4 HOH A 28 728 730 HOH HOH . G 4 HOH A 29 729 804 HOH HOH . G 4 HOH A 30 730 781 HOH HOH . G 4 HOH A 31 731 738 HOH HOH . G 4 HOH A 32 732 752 HOH HOH . G 4 HOH A 33 733 714 HOH HOH . G 4 HOH A 34 734 722 HOH HOH . G 4 HOH A 35 735 780 HOH HOH . G 4 HOH A 36 736 711 HOH HOH . G 4 HOH A 37 737 773 HOH HOH . G 4 HOH A 38 738 709 HOH HOH . G 4 HOH A 39 739 728 HOH HOH . G 4 HOH A 40 740 712 HOH HOH . G 4 HOH A 41 741 759 HOH HOH . G 4 HOH A 42 742 748 HOH HOH . G 4 HOH A 43 743 774 HOH HOH . G 4 HOH A 44 744 742 HOH HOH . G 4 HOH A 45 745 727 HOH HOH . G 4 HOH A 46 746 779 HOH HOH . G 4 HOH A 47 747 717 HOH HOH . G 4 HOH A 48 748 771 HOH HOH . G 4 HOH A 49 749 797 HOH HOH . G 4 HOH A 50 750 701 HOH HOH . G 4 HOH A 51 751 790 HOH HOH . G 4 HOH A 52 752 725 HOH HOH . G 4 HOH A 53 753 756 HOH HOH . G 4 HOH A 54 754 706 HOH HOH . G 4 HOH A 55 755 741 HOH HOH . G 4 HOH A 56 756 736 HOH HOH . G 4 HOH A 57 757 719 HOH HOH . G 4 HOH A 58 758 744 HOH HOH . G 4 HOH A 59 759 793 HOH HOH . G 4 HOH A 60 760 782 HOH HOH . G 4 HOH A 61 761 778 HOH HOH . G 4 HOH A 62 762 776 HOH HOH . G 4 HOH A 63 763 755 HOH HOH . G 4 HOH A 64 764 743 HOH HOH . G 4 HOH A 65 765 767 HOH HOH . G 4 HOH A 66 766 745 HOH HOH . G 4 HOH A 67 767 734 HOH HOH . G 4 HOH A 68 768 737 HOH HOH . G 4 HOH A 69 769 809 HOH HOH . G 4 HOH A 70 770 746 HOH HOH . G 4 HOH A 71 771 758 HOH HOH . G 4 HOH A 72 772 802 HOH HOH . G 4 HOH A 73 773 811 HOH HOH . G 4 HOH A 74 774 750 HOH HOH . G 4 HOH A 75 775 796 HOH HOH . G 4 HOH A 76 776 763 HOH HOH . G 4 HOH A 77 777 703 HOH HOH . G 4 HOH A 78 778 757 HOH HOH . G 4 HOH A 79 779 781 HOH HOH . G 4 HOH A 80 780 762 HOH HOH . G 4 HOH A 81 781 715 HOH HOH . G 4 HOH A 82 782 753 HOH HOH . G 4 HOH A 83 783 806 HOH HOH . G 4 HOH A 84 784 784 HOH HOH . G 4 HOH A 85 785 765 HOH HOH . G 4 HOH A 86 786 786 HOH HOH . G 4 HOH A 87 787 783 HOH HOH . G 4 HOH A 88 788 772 HOH HOH . G 4 HOH A 89 789 739 HOH HOH . G 4 HOH A 90 790 761 HOH HOH . G 4 HOH A 91 791 789 HOH HOH . G 4 HOH A 92 792 768 HOH HOH . G 4 HOH A 93 793 795 HOH HOH . G 4 HOH A 94 794 800 HOH HOH . G 4 HOH A 95 795 796 HOH HOH . G 4 HOH A 96 796 798 HOH HOH . G 4 HOH A 97 797 749 HOH HOH . G 4 HOH A 98 798 775 HOH HOH . G 4 HOH A 99 799 751 HOH HOH . G 4 HOH A 100 800 747 HOH HOH . G 4 HOH A 101 801 794 HOH HOH . G 4 HOH A 102 802 770 HOH HOH . G 4 HOH A 103 803 810 HOH HOH . G 4 HOH A 104 804 822 HOH HOH . G 4 HOH A 105 805 785 HOH HOH . G 4 HOH A 106 806 788 HOH HOH . G 4 HOH A 107 807 792 HOH HOH . G 4 HOH A 108 808 760 HOH HOH . G 4 HOH A 109 809 801 HOH HOH . G 4 HOH A 110 810 802 HOH HOH . G 4 HOH A 111 811 799 HOH HOH . G 4 HOH A 112 812 807 HOH HOH . G 4 HOH A 113 813 803 HOH HOH . G 4 HOH A 114 814 808 HOH HOH . G 4 HOH A 115 815 812 HOH HOH . G 4 HOH A 116 816 805 HOH HOH . G 4 HOH A 117 817 836 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 . . . D 2 30.388 -24.135 23.863 1 25.59 ? N1 PLP 601 A 1 HETATM 2 C C2 PLP . . . D 2 29.66 -23.244 24.543 1 27.8 ? C2 PLP 601 A 1 HETATM 3 C C2A PLP . . . D 2 29.565 -23.366 26.032 1 25.76 ? C2A PLP 601 A 1 HETATM 4 C C3 PLP . . . D 2 28.99 -22.191 23.87 1 28.53 ? C3 PLP 601 A 1 HETATM 5 O O3 PLP . . . D 2 28.265 -21.287 24.588 1 23.99 ? O3 PLP 601 A 1 HETATM 6 C C4 PLP . . . D 2 29.073 -22.099 22.468 1 28.67 ? C4 PLP 601 A 1 HETATM 7 C C4A PLP . . . D 2 28.384 -20.966 21.834 1 33.39 ? C4A PLP 601 A 1 HETATM 8 O O4A PLP . . . D 2 27.512 -20.987 20.991 1 40.66 ? O4A PLP 601 A 1 HETATM 9 C C5 PLP . . . D 2 29.867 -23.049 21.79 1 28.14 ? C5 PLP 601 A 1 HETATM 10 C C6 PLP . . . D 2 30.485 -24.034 22.518 1 26.44 ? C6 PLP 601 A 1 HETATM 11 C C5A PLP . . . D 2 30.057 -23.011 20.297 1 26.32 ? C5A PLP 601 A 1 HETATM 12 O O4P PLP . . . D 2 31.104 -22.059 19.892 1 21.81 ? O4P PLP 601 A 1 HETATM 13 P P PLP . . . D 2 30.742 -21.424 18.417 1 25.27 ? P PLP 601 A 1 HETATM 14 O O1P PLP . . . D 2 30.078 -22.567 17.595 1 21.45 ? O1P PLP 601 A 1 HETATM 15 O O2P PLP . . . D 2 32.07 -20.88 17.825 1 21.67 ? O2P PLP 601 A 1 HETATM 16 O O3P PLP . . . D 2 29.74 -20.303 18.624 1 27.14 ? O3P PLP 601 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 12 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 16 #