data_6L8K # _model_server_result.job_id TwEyzg5HSKzAAIfRUiml9g _model_server_result.datetime_utc '2024-10-19 12:37:15' _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 6l8k # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":801}' # _entry.id 6L8K # _exptl.entry_id 6L8K _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 484.141 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "URIDINE 5'-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 121.19 _cell.angle_gamma 90 _cell.entry_id 6L8K _cell.length_a 122.766 _cell.length_b 64.928 _cell.length_c 66.371 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6L8K _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 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 _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C9 H15 N2 O15 P3' _chem_comp.formula_weight 484.141 _chem_comp.id UTP _chem_comp.mon_nstd_flag . _chem_comp.name "URIDINE 5'-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 PA O1A UTP doub 356 n n PA O2A UTP sing 357 n n PA O3A UTP sing 358 n n PA O5' UTP sing 359 n n O2A H2A UTP sing 360 n n O3A PB UTP sing 361 n n O5' C5' UTP sing 362 n n PB O1B UTP sing 363 n n PB O2B UTP doub 364 n n PB O3B UTP sing 365 n n O1B H1B UTP sing 366 n n O3B PG UTP sing 367 n n PG O1G UTP sing 368 n n PG O2G UTP doub 369 n n PG O3G UTP sing 370 n n O1G H1G UTP sing 371 n n O3G H3G UTP sing 372 n n C5' C4' UTP sing 373 n n C5' "H5'1" UTP sing 374 n n C5' "H5'2" UTP sing 375 n n C4' O4' UTP sing 376 n n C4' C3' UTP sing 377 n n C4' H4' UTP sing 378 n n O4' C1' UTP sing 379 n n C1' C2' UTP sing 380 n n C1' N1 UTP sing 381 n n C1' H1' UTP sing 382 n n C2' O2' UTP sing 383 n n C2' C3' UTP sing 384 n n C2' H2' UTP sing 385 n n O2' HA UTP sing 386 n n C3' O3' UTP sing 387 n n C3' H3' UTP sing 388 n n O3' HB UTP sing 389 n n N1 C6 UTP sing 390 n y N1 C2 UTP sing 391 n y C6 C5 UTP doub 392 n y C6 H6 UTP sing 393 n n C2 O2 UTP doub 394 n n C2 N3 UTP sing 395 n y N3 C4 UTP sing 396 n y N3 H3 UTP sing 397 n n C4 O4 UTP doub 398 n n C4 C5 UTP sing 399 n y C5 H5 UTP sing 400 n n # _atom_sites.entry_id 6L8K _atom_sites.fract_transf_matrix[1][1] 0.008146 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004931 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015402 _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] 0.017612 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id B _pdbx_nonpoly_scheme.entity_id 2 _pdbx_nonpoly_scheme.mon_id UTP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 801 _pdbx_nonpoly_scheme.auth_seq_num 801 _pdbx_nonpoly_scheme.pdb_mon_id UTP _pdbx_nonpoly_scheme.auth_mon_id UTP _pdbx_nonpoly_scheme.pdb_ins_code . # 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 P PA UTP . . . B 2 25.127 -2.545 11.799 1 100.73 ? PA UTP 801 A 1 HETATM 2 O O1A UTP . . . B 2 24.756 -2.908 10.376 1 103.59 ? O1A UTP 801 A 1 HETATM 3 O O2A UTP . . . B 2 26.299 -1.534 11.804 1 99.91 ? O2A UTP 801 A 1 HETATM 4 O O3A UTP . . . B 2 23.809 -1.902 12.559 1 96.8 ? O3A UTP 801 A 1 HETATM 5 O O5' UTP . . . B 2 25.586 -3.939 12.663 1 99.07 ? O5' UTP 801 A 1 HETATM 6 P PB UTP . . . B 2 22.398 -1.498 11.749 1 93.23 ? PB UTP 801 A 1 HETATM 7 O O1B UTP . . . B 2 21.53 -2.776 11.493 1 93.48 ? O1B UTP 801 A 1 HETATM 8 O O2B UTP . . . B 2 22.747 -0.825 10.406 1 91.27 ? O2B UTP 801 A 1 HETATM 9 O O3B UTP . . . B 2 21.575 -0.478 12.675 1 93.87 ? O3B UTP 801 A 1 HETATM 10 P PG UTP . . . B 2 20.645 0.702 12.044 1 98.19 ? PG UTP 801 A 1 HETATM 11 O O1G UTP . . . B 2 21.491 1.984 11.893 1 98.19 ? O1G UTP 801 A 1 HETATM 12 O O2G UTP . . . B 2 20.144 0.265 10.687 1 99.72 ? O2G UTP 801 A 1 HETATM 13 O O3G UTP . . . B 2 19.453 0.967 12.985 1 100.26 ? O3G UTP 801 A 1 HETATM 14 C C5' UTP . . . B 2 25.306 -3.932 14.058 1 96.39 ? C5' UTP 801 A 1 HETATM 15 C C4' UTP . . . B 2 25.462 -5.382 14.624 1 94.45 ? C4' UTP 801 A 1 HETATM 16 O O4' UTP . . . B 2 26.268 -6.267 13.626 1 93.06 ? O4' UTP 801 A 1 HETATM 17 C C1' UTP . . . B 2 27.464 -6.805 14.392 1 91.71 ? C1' UTP 801 A 1 HETATM 18 C C2' UTP . . . B 2 27.371 -6.358 15.643 1 92.47 ? C2' UTP 801 A 1 HETATM 19 O O2' UTP . . . B 2 27.179 -7.469 16.541 1 92.8 ? O2' UTP 801 A 1 HETATM 20 C C3' UTP . . . B 2 26.128 -5.343 15.742 1 93.3 ? C3' UTP 801 A 1 HETATM 21 O O3' UTP . . . B 2 25.229 -5.74 16.854 1 93.87 ? O3' UTP 801 A 1 HETATM 22 N N1 UTP . . . B 2 28.718 -6.334 13.779 1 89.67 ? N1 UTP 801 A 1 HETATM 23 C C6 UTP . . . B 2 28.756 -5.163 13.152 1 89.07 ? C6 UTP 801 A 1 HETATM 24 C C2 UTP . . . B 2 29.838 -7.102 13.857 1 88.01 ? C2 UTP 801 A 1 HETATM 25 O O2 UTP . . . B 2 29.805 -8.132 14.409 1 86.87 ? O2 UTP 801 A 1 HETATM 26 N N3 UTP . . . B 2 31.008 -6.668 13.289 1 88.13 ? N3 UTP 801 A 1 HETATM 27 C C4 UTP . . . B 2 31.049 -5.497 12.66 1 87.85 ? C4 UTP 801 A 1 HETATM 28 O O4 UTP . . . B 2 32.096 -5.112 12.151 1 88.22 ? O4 UTP 801 A 1 HETATM 29 C C5 UTP . . . B 2 29.932 -4.724 12.579 1 87.96 ? C5 UTP 801 A 1 # _model_server_stats.io_time_ms 56 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 348 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 29 #