data_7CTZ # _model_server_result.job_id tEiRBPpTrYn9a43BoDJhcw _model_server_result.datetime_utc '2025-02-18 17:09:02' _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 7ctz # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":703}' # _entry.id 7CTZ # _exptl.entry_id 7CTZ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 308.182 _entity.id 3 _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 7CTZ _cell.length_a 56.638 _cell.length_b 155.639 _cell.length_c 164.614 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7CTZ _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 _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 G 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 461 n n N1 C6 UMP sing 462 n n N1 C1' UMP sing 463 n n C2 N3 UMP sing 464 n n C2 O2 UMP doub 465 n n N3 C4 UMP sing 466 n n N3 HN3 UMP sing 467 n n C4 C5 UMP sing 468 n n C4 O4 UMP doub 469 n n C5 C6 UMP doub 470 n n C5 H5 UMP sing 471 n n C6 H6 UMP sing 472 n n C1' C2' UMP sing 473 n n C1' O4' UMP sing 474 n n C1' H1' UMP sing 475 n n C2' C3' UMP sing 476 n n C2' H2' UMP sing 477 n n C2' "H2''" UMP sing 478 n n C3' C4' UMP sing 479 n n C3' O3' UMP sing 480 n n C3' H3' UMP sing 481 n n C4' O4' UMP sing 482 n n C4' C5' UMP sing 483 n n C4' H4' UMP sing 484 n n O3' HO3' UMP sing 485 n n C5' O5' UMP sing 486 n n C5' H5' UMP sing 487 n n C5' "H5''" UMP sing 488 n n O5' P UMP sing 489 n n P OP1 UMP doub 490 n n P OP2 UMP sing 491 n n P OP3 UMP sing 492 n n OP2 HOP2 UMP sing 493 n n OP3 HOP3 UMP sing 494 n n # _atom_sites.entry_id 7CTZ _atom_sites.fract_transf_matrix[1][1] 0.017656 _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] 0.006425 _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] 0.006075 _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 NDP A 1 701 701 NDP NDP . D 3 UMP A 1 702 801 UMP UMP . E 4 GF6 A 1 703 901 GF6 DRG . F 2 NDP B 1 702 701 NDP NDP . G 3 UMP B 1 703 801 UMP UMP . H 5 HOH A 1 801 30 HOH HOH . H 5 HOH A 2 802 36 HOH HOH . H 5 HOH A 3 803 4 HOH HOH . H 5 HOH A 4 804 1 HOH HOH . H 5 HOH A 5 805 3 HOH HOH . H 5 HOH A 6 806 38 HOH HOH . H 5 HOH A 7 807 28 HOH HOH . H 5 HOH A 8 808 31 HOH HOH . H 5 HOH A 9 809 16 HOH HOH . H 5 HOH A 10 810 29 HOH HOH . H 5 HOH A 11 811 2 HOH HOH . H 5 HOH A 12 812 40 HOH HOH . H 5 HOH A 13 813 7 HOH HOH . H 5 HOH A 14 814 56 HOH HOH . H 5 HOH A 15 815 24 HOH HOH . H 5 HOH A 16 816 33 HOH HOH . H 5 HOH A 17 817 52 HOH HOH . H 5 HOH A 18 818 11 HOH HOH . H 5 HOH A 19 819 51 HOH HOH . H 5 HOH A 20 820 18 HOH HOH . H 5 HOH A 21 821 19 HOH HOH . H 5 HOH A 22 822 54 HOH HOH . H 5 HOH A 23 823 41 HOH HOH . H 5 HOH A 24 824 27 HOH HOH . I 5 HOH B 1 801 48 HOH HOH . I 5 HOH B 2 802 13 HOH HOH . I 5 HOH B 3 803 47 HOH HOH . I 5 HOH B 4 804 55 HOH HOH . I 5 HOH B 5 805 25 HOH HOH . I 5 HOH B 6 806 45 HOH HOH . I 5 HOH B 7 807 35 HOH HOH . I 5 HOH B 8 808 5 HOH HOH . I 5 HOH B 9 809 17 HOH HOH . I 5 HOH B 10 810 44 HOH HOH . I 5 HOH B 11 811 39 HOH HOH . I 5 HOH B 12 812 15 HOH HOH . I 5 HOH B 13 813 12 HOH HOH . I 5 HOH B 14 814 21 HOH HOH . I 5 HOH B 15 815 14 HOH HOH . I 5 HOH B 16 816 53 HOH HOH . I 5 HOH B 17 817 6 HOH HOH . I 5 HOH B 18 818 8 HOH HOH . I 5 HOH B 19 819 37 HOH HOH . I 5 HOH B 20 820 9 HOH HOH . I 5 HOH B 21 821 10 HOH HOH . I 5 HOH B 22 822 20 HOH HOH . I 5 HOH B 23 823 58 HOH HOH . I 5 HOH B 24 824 50 HOH HOH . I 5 HOH B 25 825 42 HOH HOH . I 5 HOH B 26 826 43 HOH HOH . I 5 HOH B 27 827 46 HOH HOH . I 5 HOH B 28 828 32 HOH HOH . I 5 HOH B 29 829 22 HOH HOH . I 5 HOH B 30 830 57 HOH HOH . I 5 HOH B 31 831 26 HOH HOH . I 5 HOH B 32 832 34 HOH HOH . I 5 HOH B 33 833 23 HOH HOH . I 5 HOH B 34 834 49 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 . . . G 3 13.062 13.849 -9.098 1 30.5 ? N1 UMP 703 B 1 HETATM 2 C C2 UMP . . . G 3 12.265 12.721 -9.158 1 29.51 ? C2 UMP 703 B 1 HETATM 3 N N3 UMP . . . G 3 11.462 12.537 -8.073 1 29.83 ? N3 UMP 703 B 1 HETATM 4 C C4 UMP . . . G 3 11.39 13.346 -6.952 1 35.05 ? C4 UMP 703 B 1 HETATM 5 C C5 UMP . . . G 3 12.274 14.482 -6.958 1 35.19 ? C5 UMP 703 B 1 HETATM 6 C C6 UMP . . . G 3 13.085 14.679 -8.004 1 32 ? C6 UMP 703 B 1 HETATM 7 O O2 UMP . . . G 3 12.264 11.95 -10.107 1 28.3 ? O2 UMP 703 B 1 HETATM 8 O O4 UMP . . . G 3 10.621 13.04 -6.039 1 35.42 ? O4 UMP 703 B 1 HETATM 9 C C1' UMP . . . G 3 14.015 14.034 -10.166 1 31.16 ? C1' UMP 703 B 1 HETATM 10 C C2' UMP . . . G 3 13.517 14.762 -11.397 1 29.97 ? C2' UMP 703 B 1 HETATM 11 C C3' UMP . . . G 3 14.847 15.331 -11.877 1 31 ? C3' UMP 703 B 1 HETATM 12 C C4' UMP . . . G 3 15.343 15.908 -10.553 1 31.18 ? C4' UMP 703 B 1 HETATM 13 O O3' UMP . . . G 3 15.769 14.342 -12.345 1 25.37 ? O3' UMP 703 B 1 HETATM 14 O O4' UMP . . . G 3 15.069 14.826 -9.627 1 32.2 ? O4' UMP 703 B 1 HETATM 15 C C5' UMP . . . G 3 14.683 17.206 -10.104 1 29.22 ? C5' UMP 703 B 1 HETATM 16 O O5' UMP . . . G 3 15.273 18.322 -10.828 1 25.22 ? O5' UMP 703 B 1 HETATM 17 P P UMP . . . G 3 14.383 19.23 -11.797 1 23.55 ? P UMP 703 B 1 HETATM 18 O OP1 UMP . . . G 3 13.617 20.138 -10.885 1 27.14 ? OP1 UMP 703 B 1 HETATM 19 O OP2 UMP . . . G 3 13.504 18.313 -12.556 1 26.12 ? OP2 UMP 703 B 1 HETATM 20 O OP3 UMP . . . G 3 15.336 19.978 -12.691 1 25.17 ? OP3 UMP 703 B 1 HETATM 21 H HN3 UMP . . . G 3 10.927 11.827 -8.098 1 29.83 ? HN3 UMP 703 B 1 HETATM 22 H H5 UMP . . . G 3 12.304 15.058 -6.222 1 35.19 ? H5 UMP 703 B 1 HETATM 23 H H6 UMP . . . G 3 13.73 15.36 -7.973 1 32 ? H6 UMP 703 B 1 HETATM 24 H H1' UMP . . . G 3 14.369 13.14 -10.426 1 31.16 ? H1' UMP 703 B 1 HETATM 25 H H2' UMP . . . G 3 13.116 14.175 -12.072 1 29.97 ? H2' UMP 703 B 1 HETATM 26 H "H2''" UMP . . . G 3 12.873 15.475 -11.205 1 29.97 ? "H2''" UMP 703 B 1 HETATM 27 H H3' UMP . . . G 3 14.709 15.962 -12.627 1 31 ? H3' UMP 703 B 1 HETATM 28 H H4' UMP . . . G 3 16.32 16.048 -10.573 1 31.18 ? H4' UMP 703 B 1 HETATM 29 H HO3' UMP . . . G 3 16.408 14.275 -11.79 0 25.37 ? HO3' UMP 703 B 1 HETATM 30 H H5' UMP . . . G 3 14.822 17.335 -9.132 1 29.22 ? H5' UMP 703 B 1 HETATM 31 H "H5''" UMP . . . G 3 13.711 17.171 -10.29 1 29.22 ? "H5''" UMP 703 B 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 252 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 31 #