data_1JOK # _model_server_result.job_id B5D0KH713ojtHNS7fNkBhg _model_server_result.datetime_utc '2025-01-03 20:32:15' _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 1jok # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":150}' # _entry.id 1JOK # _exptl.entry_id 1JOK _exptl.method 'SOLUTION NMR' # _entity.details ? _entity.formula_weight 402.188 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "THYMIDINE-3',5'-DIPHOSPHATE" _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha ? _cell.angle_beta ? _cell.angle_gamma ? _cell.entry_id 1JOK _cell.length_a ? _cell.length_b ? _cell.length_c ? _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_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 ? _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 'C10 H16 N2 O11 P2' _chem_comp.formula_weight 402.188 _chem_comp.id THP _chem_comp.mon_nstd_flag . _chem_comp.name "THYMIDINE-3',5'-DIPHOSPHATE" _chem_comp.type 'dna linking' _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 P2 O4P THP doub 275 n n P2 O5P THP sing 276 n n P2 O6P THP sing 277 n n P2 O5' THP sing 278 n n O5P HOP5 THP sing 279 n n O6P HOP6 THP sing 280 n n P1 O1P THP doub 281 n n P1 O2P THP sing 282 n n P1 O3P THP sing 283 n n P1 O3' THP sing 284 n n O2P HOP2 THP sing 285 n n O3P HOP3 THP sing 286 n n O5' C5' THP sing 287 n n C5' C4' THP sing 288 n n C5' "H5'1" THP sing 289 n n C5' "H5'2" THP sing 290 n n C4' O4' THP sing 291 n n C4' C3' THP sing 292 n n C4' H4' THP sing 293 n n O4' C1' THP sing 294 n n C3' O3' THP sing 295 n n C3' C2' THP sing 296 n n C3' H3' THP sing 297 n n C2' C1' THP sing 298 n n C2' "H2'1" THP sing 299 n n C2' "H2'2" THP sing 300 n n C1' N1 THP sing 301 n n C1' H1' THP sing 302 n n N1 C2 THP sing 303 n n N1 C6 THP sing 304 n n C2 O2 THP doub 305 n n C2 N3 THP sing 306 n n N3 C4 THP sing 307 n n N3 H3 THP sing 308 n n C4 O4 THP doub 309 n n C4 C5 THP sing 310 n n C5 C5M THP sing 311 n n C5 C6 THP doub 312 n n C5M H51 THP sing 313 n n C5M H52 THP sing 314 n n C5M H53 THP sing 315 n n C6 H6 THP sing 316 n n # _atom_sites.entry_id 1JOK _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 THP _pdbx_nonpoly_scheme.pdb_strand_id A _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 150 _pdbx_nonpoly_scheme.auth_seq_num 1 _pdbx_nonpoly_scheme.pdb_mon_id THP _pdbx_nonpoly_scheme.auth_mon_id PDT _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 P2 THP . . . B 2 113.258 2.716 -2.987 1 1.26 ? P2 THP 150 A 1 HETATM 2 O O4P THP . . . B 2 114.328 3.542 -3.589 1 1.37 ? O4P THP 150 A 1 HETATM 3 O O5P THP . . . B 2 113.825 1.588 -2.215 1 1.64 ? O5P THP 150 A 1 HETATM 4 O O6P THP . . . B 2 112.359 3.538 -2.146 1 1.72 ? O6P THP 150 A 1 HETATM 5 P P1 THP . . . B 2 107.203 2.567 -4.909 1 1.63 ? P1 THP 150 A 1 HETATM 6 O O1P THP . . . B 2 107.986 3.768 -5.279 1 2.42 ? O1P THP 150 A 1 HETATM 7 O O2P THP . . . B 2 105.824 2.647 -5.44 1 1.69 ? O2P THP 150 A 1 HETATM 8 O O3P THP . . . B 2 107.199 2.365 -3.443 1 2.29 ? O3P THP 150 A 1 HETATM 9 O O5' THP . . . B 2 112.38 2.099 -4.186 1 1.18 ? O5' THP 150 A 1 HETATM 10 C C5' THP . . . B 2 111.116 1.485 -3.918 1 1.2 ? C5' THP 150 A 1 HETATM 11 C C4' THP . . . B 2 110.227 1.57 -5.163 1 1.26 ? C4' THP 150 A 1 HETATM 12 O O4' THP . . . B 2 110.887 1.058 -6.314 1 1.26 ? O4' THP 150 A 1 HETATM 13 C C3' THP . . . B 2 109.029 0.657 -4.941 1 1.34 ? C3' THP 150 A 1 HETATM 14 O O3' THP . . . B 2 107.916 1.289 -5.58 1 1.49 ? O3' THP 150 A 1 HETATM 15 C C2' THP . . . B 2 109.356 -0.689 -5.592 1 1.35 ? C2' THP 150 A 1 HETATM 16 C C1' THP . . . B 2 110.344 -0.217 -6.659 1 1.33 ? C1' THP 150 A 1 HETATM 17 N N1 THP . . . B 2 111.529 -1.089 -6.737 1 1.33 ? N1 THP 150 A 1 HETATM 18 C C2 THP . . . B 2 111.47 -2.167 -7.599 1 1.49 ? C2 THP 150 A 1 HETATM 19 O O2 THP . . . B 2 110.475 -2.406 -8.28 1 1.62 ? O2 THP 150 A 1 HETATM 20 N N3 THP . . . B 2 112.599 -2.963 -7.653 1 1.55 ? N3 THP 150 A 1 HETATM 21 C C4 THP . . . B 2 113.763 -2.776 -6.929 1 1.48 ? C4 THP 150 A 1 HETATM 22 O O4 THP . . . B 2 114.711 -3.548 -7.056 1 1.6 ? O4 THP 150 A 1 HETATM 23 C C5 THP . . . B 2 113.733 -1.625 -6.055 1 1.32 ? C5 THP 150 A 1 HETATM 24 C C5M THP . . . B 2 114.952 -1.3 -5.199 1 1.33 ? C5M THP 150 A 1 HETATM 25 C C6 THP . . . B 2 112.643 -0.834 -5.984 1 1.25 ? C6 THP 150 A 1 HETATM 26 H "H5'1" THP . . . B 2 111.289 0.454 -3.608 1 1.19 ? "H5'1" THP 150 A 1 HETATM 27 H "H5'2" THP . . . B 2 110.665 1.98 -3.059 1 1.28 ? "H5'2" THP 150 A 1 HETATM 28 H H4' THP . . . B 2 109.894 2.594 -5.316 1 1.33 ? H4' THP 150 A 1 HETATM 29 H H3' THP . . . B 2 108.85 0.524 -3.875 1 1.35 ? H3' THP 150 A 1 HETATM 30 H "H2'1" THP . . . B 2 109.812 -1.395 -4.884 1 1.31 ? "H2'1" THP 150 A 1 HETATM 31 H "H2'2" THP . . . B 2 108.47 -1.17 -6.027 1 1.48 ? "H2'2" THP 150 A 1 HETATM 32 H H1' THP . . . B 2 109.866 -0.202 -7.635 1 1.45 ? H1' THP 150 A 1 HETATM 33 H H3 THP . . . B 2 112.571 -3.755 -8.279 1 1.71 ? H3 THP 150 A 1 HETATM 34 H H51 THP . . . B 2 114.877 -0.275 -4.834 1 1.69 ? H51 THP 150 A 1 HETATM 35 H H52 THP . . . B 2 115.856 -1.405 -5.8 1 1.81 ? H52 THP 150 A 1 HETATM 36 H H53 THP . . . B 2 114.996 -1.985 -4.353 1 1.54 ? H53 THP 150 A 1 HETATM 37 H H6 THP . . . B 2 112.65 0.026 -5.315 1 1.21 ? H6 THP 150 A 1 # _model_server_stats.io_time_ms 42 _model_server_stats.parse_time_ms 4 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 249 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 37 #