data_3N6N # _model_server_result.job_id 4MB8JepTmu0_bvqUG63LmQ _model_server_result.datetime_utc '2024-12-02 14:12:19' _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 3n6n # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":464}' # _entry.id 3N6N # _exptl.entry_id 3N6N _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 563.037 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5-bromouridine 5'-(tetrahydrogen triphosphate)" _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 3N6N _cell.length_a 103.51 _cell.length_b 103.51 _cell.length_c 131.536 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3N6N _symmetry.cell_setting ? _symmetry.Int_Tables_number 154 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 32 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _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 metalc ? metalc1 A NE2 HIS 271 A HIS 271 1_555 B NI NI . A NI 463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.427 ? metalc ? metalc2 A SG CYS 282 A CYS 282 1_555 B NI NI . A NI 463 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.282 ? # _chem_comp.formula 'C9 H14 Br N2 O15 P3' _chem_comp.formula_weight 563.037 _chem_comp.id BUP _chem_comp.mon_nstd_flag . _chem_comp.name "5-bromouridine 5'-(tetrahydrogen triphosphate)" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 BR C1 BUP sing 70 n n C1 C2 BUP doub 71 n n C1 C4 BUP sing 72 n n N1 C3 BUP sing 73 n n N1 C4 BUP sing 74 n n O1 C4 BUP doub 75 n n P1 O6 BUP sing 76 n n P1 O7 BUP sing 77 n n P1 O8 BUP sing 78 n n P1 O9 BUP doub 79 n n C2 N2 BUP sing 80 n n N2 C3 BUP sing 81 n n N2 C7 BUP sing 82 n n O2 C3 BUP doub 83 n n P2 O7 BUP sing 84 n n P2 O10 BUP sing 85 n n P2 O11 BUP sing 86 n n P2 O12 BUP doub 87 n n O3 C7 BUP sing 88 n n O3 C8 BUP sing 89 n n P3 O10 BUP sing 90 n n P3 O13 BUP sing 91 n n P3 O14 BUP sing 92 n n P3 O15 BUP doub 93 n n O4 C6 BUP sing 94 n n C5 O5 BUP sing 95 n n C5 C6 BUP sing 96 n n C5 C8 BUP sing 97 n n C6 C7 BUP sing 98 n n O6 C9 BUP sing 99 n n C8 C9 BUP sing 100 n n N1 HN1 BUP sing 101 n n C2 H2 BUP sing 102 n n O4 HO4 BUP sing 103 n n C5 H5 BUP sing 104 n n O5 HO5 BUP sing 105 n n C6 H6 BUP sing 106 n n C7 H7 BUP sing 107 n n C8 H8 BUP sing 108 n n O8 HO8 BUP sing 109 n n C9 H9 BUP sing 110 n n C9 H9A BUP sing 111 n n O11 HO11 BUP sing 112 n n O13 HO13 BUP sing 113 n n O14 HO14 BUP sing 114 n n # _atom_sites.entry_id 3N6N _atom_sites.fract_transf_matrix[1][1] 0.009661 _atom_sites.fract_transf_matrix[1][2] 0.005578 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.011155 _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] 0.007602 _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 NI A 1 463 1 NI NI . C 3 BUP A 1 464 1 BUP BUP . D 4 HOH A 1 465 1 HOH HOH . D 4 HOH A 2 466 2 HOH HOH . D 4 HOH A 3 467 4 HOH HOH . D 4 HOH A 4 468 5 HOH HOH . D 4 HOH A 5 469 6 HOH HOH . D 4 HOH A 6 470 7 HOH HOH . D 4 HOH A 7 471 9 HOH HOH . D 4 HOH A 8 472 10 HOH HOH . D 4 HOH A 9 473 11 HOH HOH . D 4 HOH A 10 474 16 HOH HOH . D 4 HOH A 11 475 19 HOH HOH . D 4 HOH A 12 476 21 HOH HOH . D 4 HOH A 13 477 22 HOH HOH . D 4 HOH A 14 478 23 HOH HOH . D 4 HOH A 15 479 24 HOH HOH . D 4 HOH A 16 480 25 HOH HOH . D 4 HOH A 17 481 26 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 BR BR BUP . . . C 3 0.564 -48.304 7.117 1 173.3 ? BR BUP 464 A 1 HETATM 2 C C1 BUP . . . C 3 1.74 -47.259 7.126 1 173.28 ? C1 BUP 464 A 1 HETATM 3 N N1 BUP . . . C 3 4.247 -46.722 7.467 1 173.29 ? N1 BUP 464 A 1 HETATM 4 O O1 BUP . . . C 3 3.408 -49.043 7.759 1 173.34 ? O1 BUP 464 A 1 HETATM 5 P P1 BUP . . . C 3 -1.36 -41.503 10.096 1 176.8 ? P1 BUP 464 A 1 HETATM 6 C C2 BUP . . . C 3 1.466 -45.815 6.804 1 173.32 ? C2 BUP 464 A 1 HETATM 7 N N2 BUP . . . C 3 2.563 -44.835 6.806 1 173.45 ? N2 BUP 464 A 1 HETATM 8 O O2 BUP . . . C 3 5.031 -44.363 7.157 1 173.27 ? O2 BUP 464 A 1 HETATM 9 P P2 BUP . . . C 3 -1.23 -38.691 9.314 1 177.77 ? P2 BUP 464 A 1 HETATM 10 C C3 BUP . . . C 3 3.976 -45.286 7.146 1 173.3 ? C3 BUP 464 A 1 HETATM 11 O O3 BUP . . . C 3 1.431 -42.839 7.511 1 174.21 ? O3 BUP 464 A 1 HETATM 12 P P3 BUP . . . C 3 -3.043 -37.579 11.286 1 177.54 ? P3 BUP 464 A 1 HETATM 13 C C4 BUP . . . C 3 3.147 -47.701 7.459 1 173.3 ? C4 BUP 464 A 1 HETATM 14 O O4 BUP . . . C 3 2.476 -42.384 4.326 1 173.95 ? O4 BUP 464 A 1 HETATM 15 C C5 BUP . . . C 3 0.318 -42.582 5.395 1 174.32 ? C5 BUP 464 A 1 HETATM 16 O O5 BUP . . . C 3 0.034 -41.531 4.498 1 174.28 ? O5 BUP 464 A 1 HETATM 17 C C6 BUP . . . C 3 1.663 -43.212 5.125 1 174.05 ? C6 BUP 464 A 1 HETATM 18 O O6 BUP . . . C 3 -0.753 -42.497 8.914 1 176.27 ? O6 BUP 464 A 1 HETATM 19 C C7 BUP . . . C 3 2.311 -43.422 6.5 1 173.62 ? C7 BUP 464 A 1 HETATM 20 O O7 BUP . . . C 3 -0.588 -40.032 10.051 1 177.37 ? O7 BUP 464 A 1 HETATM 21 C C8 BUP . . . C 3 0.399 -42.055 6.831 1 174.63 ? C8 BUP 464 A 1 HETATM 22 O O8 BUP . . . C 3 -1.097 -42.196 11.575 1 176.61 ? O8 BUP 464 A 1 HETATM 23 C C9 BUP . . . C 3 -0.955 -42.222 7.545 1 175.34 ? C9 BUP 464 A 1 HETATM 24 O O9 BUP . . . C 3 -2.8 -41.335 9.901 1 176.94 ? O9 BUP 464 A 1 HETATM 25 O O10 BUP . . . C 3 -2.765 -38.396 9.868 1 177.71 ? O10 BUP 464 A 1 HETATM 26 O O11 BUP . . . C 3 -1.263 -38.909 7.673 1 177.86 ? O11 BUP 464 A 1 HETATM 27 O O12 BUP . . . C 3 -0.375 -37.539 9.61 1 177.91 ? O12 BUP 464 A 1 HETATM 28 O O13 BUP . . . C 3 -3.732 -36.117 10.94 1 177.56 ? O13 BUP 464 A 1 HETATM 29 O O14 BUP . . . C 3 -1.625 -37.342 12.102 1 177.58 ? O14 BUP 464 A 1 HETATM 30 O O15 BUP . . . C 3 -3.958 -38.354 12.126 1 177.48 ? O15 BUP 464 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 30 #