data_1TRG # _model_server_result.job_id i8OOgZTcEfGDES4qpPCrkw _model_server_result.datetime_utc '2024-11-05 19:43:32' _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 1trg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":565}' # _entry.id 1TRG # _exptl.entry_id 1TRG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 308.182 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-DEOXYURIDINE 5'-MONOPHOSPHATE" _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 1TRG _cell.length_a 71.96 _cell.length_b 71.96 _cell.length_c 115.1 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1TRG _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,PQS _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 _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' 5_555 x-y,-y,-z+2/3 1 0 0 0 -1 0 0 0 -1 0 0 76.733333 # _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 C FMT 1 A FMT 0 1_555 A N MET 2 A MET 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale2 A O2 FMT 1 A FMT 0 1_555 A N MET 2 A MET 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? covale ? covale3 A SG CYS 147 A CYS 146 1_555 B C6 UMP . A UMP 565 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.854 ? # _chem_comp.formula 'C9 H13 N2 O8 P' _chem_comp.formula_weight 308.182 _chem_comp.id UMP _chem_comp.mon_nstd_flag . _chem_comp.name "2'-DEOXYURIDINE 5'-MONOPHOSPHATE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms DUMP # _atom_sites.entry_id 1TRG _atom_sites.fract_transf_matrix[1][1] 0.013897 _atom_sites.fract_transf_matrix[1][2] 0.008023 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.016046 _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] 0.008688 _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 UMP A 1 565 565 UMP UMP . C 3 CB3 A 1 566 566 CB3 CB3 . D 4 HOH A 1 700 700 HOH HOH . D 4 HOH A 2 701 701 HOH HOH . D 4 HOH A 3 702 702 HOH HOH . D 4 HOH A 4 703 703 HOH HOH . D 4 HOH A 5 704 704 HOH HOH . D 4 HOH A 6 705 705 HOH HOH . D 4 HOH A 7 706 706 HOH HOH . D 4 HOH A 8 707 707 HOH HOH . D 4 HOH A 9 708 708 HOH HOH . D 4 HOH A 10 709 709 HOH HOH . D 4 HOH A 11 710 710 HOH HOH . D 4 HOH A 12 711 711 HOH HOH . D 4 HOH A 13 712 712 HOH HOH . D 4 HOH A 14 713 713 HOH HOH . D 4 HOH A 15 714 714 HOH HOH . D 4 HOH A 16 715 715 HOH HOH . D 4 HOH A 17 716 716 HOH HOH . D 4 HOH A 18 717 717 HOH HOH . D 4 HOH A 19 718 718 HOH HOH . D 4 HOH A 20 719 719 HOH HOH . D 4 HOH A 21 720 720 HOH HOH . D 4 HOH A 22 721 721 HOH HOH . D 4 HOH A 23 722 722 HOH HOH . D 4 HOH A 24 723 723 HOH HOH . D 4 HOH A 25 724 724 HOH HOH . D 4 HOH A 26 725 725 HOH HOH . D 4 HOH A 27 726 726 HOH HOH . D 4 HOH A 28 727 727 HOH HOH . D 4 HOH A 29 728 728 HOH HOH . D 4 HOH A 30 729 729 HOH HOH . D 4 HOH A 31 730 730 HOH HOH . D 4 HOH A 32 731 731 HOH HOH . D 4 HOH A 33 732 732 HOH HOH . D 4 HOH A 34 733 733 HOH HOH . D 4 HOH A 35 734 734 HOH HOH . D 4 HOH A 36 735 735 HOH HOH . D 4 HOH A 37 736 736 HOH HOH . D 4 HOH A 38 737 737 HOH HOH . D 4 HOH A 39 738 738 HOH HOH . D 4 HOH A 40 739 739 HOH HOH . D 4 HOH A 41 740 740 HOH HOH . D 4 HOH A 42 741 741 HOH HOH . D 4 HOH A 43 742 742 HOH HOH . D 4 HOH A 44 743 743 HOH HOH . D 4 HOH A 45 744 744 HOH HOH . D 4 HOH A 46 745 745 HOH HOH . D 4 HOH A 47 746 746 HOH HOH . D 4 HOH A 48 747 747 HOH HOH . D 4 HOH A 49 748 748 HOH HOH . D 4 HOH A 50 749 749 HOH HOH . D 4 HOH A 51 750 750 HOH HOH . D 4 HOH A 52 751 751 HOH HOH . D 4 HOH A 53 752 752 HOH HOH . D 4 HOH A 54 753 753 HOH HOH . D 4 HOH A 55 754 754 HOH HOH . D 4 HOH A 56 755 755 HOH HOH . D 4 HOH A 57 756 756 HOH HOH . D 4 HOH A 58 757 757 HOH HOH . D 4 HOH A 59 758 758 HOH HOH . D 4 HOH A 60 759 759 HOH HOH . D 4 HOH A 61 760 760 HOH HOH . D 4 HOH A 62 761 761 HOH HOH . D 4 HOH A 63 762 762 HOH HOH . D 4 HOH A 64 763 763 HOH HOH . D 4 HOH A 65 764 764 HOH HOH . D 4 HOH A 66 765 765 HOH HOH . D 4 HOH A 67 766 766 HOH HOH . D 4 HOH A 68 767 767 HOH HOH . D 4 HOH A 69 768 768 HOH HOH . D 4 HOH A 70 769 769 HOH HOH . D 4 HOH A 71 770 770 HOH HOH . D 4 HOH A 72 771 771 HOH HOH . D 4 HOH A 73 773 773 HOH HOH . D 4 HOH A 74 774 774 HOH HOH . D 4 HOH A 75 775 775 HOH HOH . D 4 HOH A 76 776 776 HOH HOH . D 4 HOH A 77 777 777 HOH HOH . D 4 HOH A 78 778 778 HOH HOH . D 4 HOH A 79 779 779 HOH HOH . D 4 HOH A 80 780 780 HOH HOH . D 4 HOH A 81 781 781 HOH HOH . D 4 HOH A 82 782 782 HOH HOH . D 4 HOH A 83 783 783 HOH HOH . D 4 HOH A 84 785 785 HOH HOH . D 4 HOH A 85 786 786 HOH HOH . D 4 HOH A 86 787 787 HOH HOH . D 4 HOH A 87 788 788 HOH HOH . D 4 HOH A 88 789 789 HOH HOH . D 4 HOH A 89 790 790 HOH HOH . D 4 HOH A 90 791 791 HOH HOH . D 4 HOH A 91 793 793 HOH HOH . D 4 HOH A 92 794 794 HOH HOH . D 4 HOH A 93 795 795 HOH HOH . D 4 HOH A 94 798 798 HOH HOH . D 4 HOH A 95 801 801 HOH HOH . D 4 HOH A 96 802 802 HOH HOH . D 4 HOH A 97 803 803 HOH HOH . D 4 HOH A 98 805 805 HOH HOH . D 4 HOH A 99 806 806 HOH HOH . D 4 HOH A 100 807 807 HOH HOH . D 4 HOH A 101 808 808 HOH HOH . D 4 HOH A 102 809 809 HOH HOH . D 4 HOH A 103 810 810 HOH HOH . D 4 HOH A 104 811 811 HOH HOH . D 4 HOH A 105 812 812 HOH HOH . D 4 HOH A 106 813 813 HOH HOH . D 4 HOH A 107 814 814 HOH HOH . D 4 HOH A 108 815 815 HOH HOH . D 4 HOH A 109 816 816 HOH HOH . D 4 HOH A 110 818 818 HOH HOH . D 4 HOH A 111 819 819 HOH HOH . D 4 HOH A 112 820 820 HOH HOH . D 4 HOH A 113 822 822 HOH HOH . D 4 HOH A 114 823 823 HOH HOH . D 4 HOH A 115 824 824 HOH HOH . D 4 HOH A 116 825 825 HOH HOH . D 4 HOH A 117 827 827 HOH HOH . D 4 HOH A 118 828 828 HOH HOH . D 4 HOH A 119 829 829 HOH HOH . D 4 HOH A 120 832 832 HOH HOH . D 4 HOH A 121 833 833 HOH HOH . D 4 HOH A 122 834 834 HOH HOH . D 4 HOH A 123 836 836 HOH HOH . D 4 HOH A 124 837 837 HOH HOH . D 4 HOH A 125 838 838 HOH HOH . D 4 HOH A 126 839 839 HOH HOH . D 4 HOH A 127 840 840 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 UMP . . . B 2 28.683 -15.197 36.887 1 13.5 ? N1 UMP 565 A 1 HETATM 2 C C2 UMP . . . B 2 27.721 -14.881 37.835 1 13.07 ? C2 UMP 565 A 1 HETATM 3 N N3 UMP . . . B 2 28.198 -14.595 39.098 1 14.76 ? N3 UMP 565 A 1 HETATM 4 C C4 UMP . . . B 2 29.526 -14.666 39.508 1 15.77 ? C4 UMP 565 A 1 HETATM 5 C C5 UMP . . . B 2 30.541 -15.255 38.551 1 15.61 ? C5 UMP 565 A 1 HETATM 6 C C6 UMP . . . B 2 30.161 -15.03 37.081 1 17.43 ? C6 UMP 565 A 1 HETATM 7 O O2 UMP . . . B 2 26.515 -14.868 37.554 1 11.57 ? O2 UMP 565 A 1 HETATM 8 O O4 UMP . . . B 2 29.872 -14.227 40.602 1 17.33 ? O4 UMP 565 A 1 HETATM 9 C C1' UMP . . . B 2 28.258 -15.684 35.56 1 15.82 ? C1' UMP 565 A 1 HETATM 10 C C2' UMP . . . B 2 28.064 -14.56 34.541 1 15.93 ? C2' UMP 565 A 1 HETATM 11 C C3' UMP . . . B 2 28.235 -15.31 33.235 1 14.95 ? C3' UMP 565 A 1 HETATM 12 C C4' UMP . . . B 2 29.43 -16.239 33.448 1 18.32 ? C4' UMP 565 A 1 HETATM 13 O O3' UMP . . . B 2 27.096 -16.148 33.031 1 12.5 ? O3' UMP 565 A 1 HETATM 14 O O4' UMP . . . B 2 29.274 -16.542 34.893 1 18.46 ? O4' UMP 565 A 1 HETATM 15 C C5' UMP . . . B 2 30.745 -15.486 33.269 1 19.13 ? C5' UMP 565 A 1 HETATM 16 O O5' UMP . . . B 2 30.775 -15.316 31.825 1 20.71 ? O5' UMP 565 A 1 HETATM 17 P P UMP . . . B 2 31.131 -13.982 31.161 1 16.88 ? P UMP 565 A 1 HETATM 18 O OP1 UMP . . . B 2 31.18 -14.257 29.688 1 21.75 ? OP1 UMP 565 A 1 HETATM 19 O OP2 UMP . . . B 2 30.074 -13.001 31.426 1 17.05 ? OP2 UMP 565 A 1 HETATM 20 O OP3 UMP . . . B 2 32.437 -13.495 31.591 1 10.48 ? OP3 UMP 565 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 9 _model_server_stats.query_time_ms 345 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 20 #