data_6LEU # _model_server_result.job_id MTzm5rxP8J9D-g3vohYjmg _model_server_result.datetime_utc '2024-11-15 06:27:47' _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 6leu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":701}' # _entry.id 6LEU # _exptl.entry_id 6LEU _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 2 _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 90 _cell.entry_id 6LEU _cell.length_a 56.308 _cell.length_b 154.488 _cell.length_c 163.939 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6LEU _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 F N N # _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 # 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 UMP sing 498 n n N1 C6 UMP sing 499 n n N1 C1' UMP sing 500 n n C2 N3 UMP sing 501 n n C2 O2 UMP doub 502 n n N3 C4 UMP sing 503 n n N3 HN3 UMP sing 504 n n C4 C5 UMP sing 505 n n C4 O4 UMP doub 506 n n C5 C6 UMP doub 507 n n C5 H5 UMP sing 508 n n C6 H6 UMP sing 509 n n C1' C2' UMP sing 510 n n C1' O4' UMP sing 511 n n C1' H1' UMP sing 512 n n C2' C3' UMP sing 513 n n C2' H2' UMP sing 514 n n C2' "H2''" UMP sing 515 n n C3' C4' UMP sing 516 n n C3' O3' UMP sing 517 n n C3' H3' UMP sing 518 n n C4' O4' UMP sing 519 n n C4' C5' UMP sing 520 n n C4' H4' UMP sing 521 n n O3' HO3' UMP sing 522 n n C5' O5' UMP sing 523 n n C5' H5' UMP sing 524 n n C5' "H5''" UMP sing 525 n n O5' P UMP sing 526 n n P OP1 UMP doub 527 n n P OP2 UMP sing 528 n n P OP3 UMP sing 529 n n OP2 HOP2 UMP sing 530 n n OP3 HOP3 UMP sing 531 n n # _atom_sites.entry_id 6LEU _atom_sites.fract_transf_matrix[1][1] 0.017759 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006473 _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] 0.0061 _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 UMP A 1 701 701 UMP UMP . D 3 NDP A 1 702 801 NDP NDP . E 4 E9X A 1 703 901 E9X DRG . F 2 UMP B 1 701 701 UMP UMP . G 3 NDP B 1 702 801 NDP NDP . H 4 E9X B 1 703 901 E9X DRG . I 5 HOH A 1 801 70 HOH HOH . I 5 HOH A 2 802 39 HOH HOH . I 5 HOH A 3 803 25 HOH HOH . I 5 HOH A 4 804 80 HOH HOH . I 5 HOH A 5 805 54 HOH HOH . I 5 HOH A 6 806 78 HOH HOH . I 5 HOH A 7 807 57 HOH HOH . I 5 HOH A 8 808 64 HOH HOH . I 5 HOH A 9 809 44 HOH HOH . I 5 HOH A 10 810 7 HOH HOH . I 5 HOH A 11 811 5 HOH HOH . I 5 HOH A 12 812 43 HOH HOH . I 5 HOH A 13 813 98 HOH HOH . I 5 HOH A 14 814 102 HOH HOH . I 5 HOH A 15 815 35 HOH HOH . I 5 HOH A 16 816 90 HOH HOH . I 5 HOH A 17 817 89 HOH HOH . I 5 HOH A 18 818 96 HOH HOH . I 5 HOH A 19 819 23 HOH HOH . I 5 HOH A 20 820 94 HOH HOH . I 5 HOH A 21 821 111 HOH HOH . I 5 HOH A 22 822 10 HOH HOH . I 5 HOH A 23 823 67 HOH HOH . I 5 HOH A 24 824 109 HOH HOH . I 5 HOH A 25 825 114 HOH HOH . I 5 HOH A 26 826 60 HOH HOH . I 5 HOH A 27 827 97 HOH HOH . I 5 HOH A 28 828 46 HOH HOH . I 5 HOH A 29 829 4 HOH HOH . I 5 HOH A 30 830 20 HOH HOH . I 5 HOH A 31 831 79 HOH HOH . I 5 HOH A 32 832 100 HOH HOH . I 5 HOH A 33 833 22 HOH HOH . I 5 HOH A 34 834 61 HOH HOH . I 5 HOH A 35 835 31 HOH HOH . I 5 HOH A 36 836 66 HOH HOH . I 5 HOH A 37 837 58 HOH HOH . I 5 HOH A 38 838 75 HOH HOH . I 5 HOH A 39 839 87 HOH HOH . I 5 HOH A 40 840 115 HOH HOH . I 5 HOH A 41 841 108 HOH HOH . I 5 HOH A 42 842 41 HOH HOH . I 5 HOH A 43 843 6 HOH HOH . I 5 HOH A 44 844 17 HOH HOH . I 5 HOH A 45 845 8 HOH HOH . I 5 HOH A 46 846 12 HOH HOH . I 5 HOH A 47 847 18 HOH HOH . I 5 HOH A 48 848 19 HOH HOH . I 5 HOH A 49 849 59 HOH HOH . I 5 HOH A 50 850 103 HOH HOH . I 5 HOH A 51 851 65 HOH HOH . I 5 HOH A 52 852 83 HOH HOH . I 5 HOH A 53 853 112 HOH HOH . I 5 HOH A 54 854 16 HOH HOH . I 5 HOH A 55 855 72 HOH HOH . I 5 HOH A 56 856 101 HOH HOH . I 5 HOH A 57 857 84 HOH HOH . I 5 HOH A 58 858 113 HOH HOH . I 5 HOH A 59 859 50 HOH HOH . I 5 HOH A 60 860 107 HOH HOH . I 5 HOH A 61 861 104 HOH HOH . J 5 HOH B 1 801 30 HOH HOH . J 5 HOH B 2 802 37 HOH HOH . J 5 HOH B 3 803 14 HOH HOH . J 5 HOH B 4 804 88 HOH HOH . J 5 HOH B 5 805 116 HOH HOH . J 5 HOH B 6 806 91 HOH HOH . J 5 HOH B 7 807 63 HOH HOH . J 5 HOH B 8 808 1 HOH HOH . J 5 HOH B 9 809 13 HOH HOH . J 5 HOH B 10 810 47 HOH HOH . J 5 HOH B 11 811 27 HOH HOH . J 5 HOH B 12 812 26 HOH HOH . J 5 HOH B 13 813 81 HOH HOH . J 5 HOH B 14 814 92 HOH HOH . J 5 HOH B 15 815 29 HOH HOH . J 5 HOH B 16 816 24 HOH HOH . J 5 HOH B 17 817 53 HOH HOH . J 5 HOH B 18 818 82 HOH HOH . J 5 HOH B 19 819 51 HOH HOH . J 5 HOH B 20 820 9 HOH HOH . J 5 HOH B 21 821 2 HOH HOH . J 5 HOH B 22 822 52 HOH HOH . J 5 HOH B 23 823 122 HOH HOH . J 5 HOH B 24 824 110 HOH HOH . J 5 HOH B 25 825 99 HOH HOH . J 5 HOH B 26 826 28 HOH HOH . J 5 HOH B 27 827 68 HOH HOH . J 5 HOH B 28 828 56 HOH HOH . J 5 HOH B 29 829 120 HOH HOH . J 5 HOH B 30 830 3 HOH HOH . J 5 HOH B 31 831 55 HOH HOH . J 5 HOH B 32 832 77 HOH HOH . J 5 HOH B 33 833 74 HOH HOH . J 5 HOH B 34 834 21 HOH HOH . J 5 HOH B 35 835 62 HOH HOH . J 5 HOH B 36 836 40 HOH HOH . J 5 HOH B 37 837 76 HOH HOH . J 5 HOH B 38 838 33 HOH HOH . J 5 HOH B 39 839 69 HOH HOH . J 5 HOH B 40 840 38 HOH HOH . J 5 HOH B 41 841 85 HOH HOH . J 5 HOH B 42 842 34 HOH HOH . J 5 HOH B 43 843 45 HOH HOH . J 5 HOH B 44 844 15 HOH HOH . J 5 HOH B 45 845 93 HOH HOH . J 5 HOH B 46 846 48 HOH HOH . J 5 HOH B 47 847 95 HOH HOH . J 5 HOH B 48 848 11 HOH HOH . J 5 HOH B 49 849 71 HOH HOH . J 5 HOH B 50 850 86 HOH HOH . J 5 HOH B 51 851 42 HOH HOH . J 5 HOH B 52 852 49 HOH HOH . J 5 HOH B 53 853 32 HOH HOH . J 5 HOH B 54 854 36 HOH HOH . J 5 HOH B 55 855 73 HOH HOH . J 5 HOH B 56 856 117 HOH HOH . J 5 HOH B 57 857 118 HOH HOH . J 5 HOH B 58 858 119 HOH HOH . J 5 HOH B 59 859 121 HOH HOH . J 5 HOH B 60 860 123 HOH HOH . J 5 HOH B 61 861 105 HOH HOH . J 5 HOH B 62 862 106 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 . . . F 2 12.684 -13.692 9.243 1 37.27 ? N1 UMP 701 B 1 HETATM 2 C C2 UMP . . . F 2 11.853 -12.572 9.272 1 36.52 ? C2 UMP 701 B 1 HETATM 3 N N3 UMP . . . F 2 11.003 -12.465 8.21 1 36.69 ? N3 UMP 701 B 1 HETATM 4 C C4 UMP . . . F 2 10.896 -13.331 7.139 1 39.86 ? C4 UMP 701 B 1 HETATM 5 C C5 UMP . . . F 2 11.81 -14.447 7.166 1 39.04 ? C5 UMP 701 B 1 HETATM 6 C C6 UMP . . . F 2 12.667 -14.572 8.185 1 36.97 ? C6 UMP 701 B 1 HETATM 7 O O2 UMP . . . F 2 11.819 -11.737 10.169 1 33.46 ? O2 UMP 701 B 1 HETATM 8 O O4 UMP . . . F 2 10.061 -13.09 6.261 1 37.87 ? O4 UMP 701 B 1 HETATM 9 C C1' UMP . . . F 2 13.708 -13.853 10.293 1 40.3 ? C1' UMP 701 B 1 HETATM 10 C C2' UMP . . . F 2 13.259 -14.441 11.612 1 44.76 ? C2' UMP 701 B 1 HETATM 11 C C3' UMP . . . F 2 14.564 -15.082 12.077 1 42.34 ? C3' UMP 701 B 1 HETATM 12 C C4' UMP . . . F 2 14.931 -15.799 10.79 1 40.7 ? C4' UMP 701 B 1 HETATM 13 O O3' UMP . . . F 2 15.552 -14.101 12.408 1 32.94 ? O3' UMP 701 B 1 HETATM 14 O O4' UMP . . . F 2 14.687 -14.767 9.807 1 46.11 ? O4' UMP 701 B 1 HETATM 15 C C5' UMP . . . F 2 14.136 -17.046 10.448 1 39.54 ? C5' UMP 701 B 1 HETATM 16 O O5' UMP . . . F 2 14.779 -18.233 11.013 1 35.79 ? O5' UMP 701 B 1 HETATM 17 P P UMP . . . F 2 13.938 -19.191 11.967 1 33.99 ? P UMP 701 B 1 HETATM 18 O OP1 UMP . . . F 2 14.925 -19.977 12.806 1 37.35 ? OP1 UMP 701 B 1 HETATM 19 O OP2 UMP . . . F 2 13.131 -18.192 12.774 1 30.25 ? OP2 UMP 701 B 1 HETATM 20 O OP3 UMP . . . F 2 13.093 -20.104 11.126 1 28.52 ? OP3 UMP 701 B 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 52 _model_server_stats.query_time_ms 379 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #