data_1A3V # _model_server_result.job_id AhviYNGl4Ma_XVz3tifkCw _model_server_result.datetime_utc '2025-03-04 23:29:40' _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 1a3v # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":151}' # _entry.id 1A3V # _exptl.entry_id 1A3V _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 402.188 _entity.id 3 _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 90 _cell.angle_beta 90 _cell.angle_gamma 90 _cell.entry_id 1A3V _cell.length_a 48.2 _cell.length_b 48.2 _cell.length_c 63.2 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1A3V _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41' # _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,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 covale ? covale1 A C THR 22 A THR 22 1_555 A N C5C 23 A C5C 23 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 A C C5C 23 A C5C 23 1_555 A N LYS 24 A LYS 24 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? metalc ? metalc1 A OD2 ASP 21 A ASP 21 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.685 ? metalc ? metalc2 A OD1 ASP 40 A ASP 40 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.233 ? metalc ? metalc3 A O THR 41 A THR 41 1_555 B CA CA . A CA 150 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.911 ? metalc ? metalc4 B CA CA . A CA 150 1_555 C O4P THP . A THP 151 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.194 ? metalc ? metalc5 B CA CA . A CA 150 1_555 D O HOH . A HOH 210 3_655 ? ? ? ? ? ? ? ? ? ? ? ? 2.512 ? # _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 ? # _atom_sites.entry_id 1A3V _atom_sites.fract_transf_matrix[1][1] 0.020747 _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] 0.020747 _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] 0.015823 _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 CA A 1 150 142 CA CA . C 3 THP A 1 151 143 THP THP . D 4 HOH A 1 201 201 HOH HOH . D 4 HOH A 2 202 202 HOH HOH . D 4 HOH A 3 203 203 HOH HOH . D 4 HOH A 4 204 204 HOH HOH . D 4 HOH A 5 206 206 HOH HOH . D 4 HOH A 6 207 207 HOH HOH . D 4 HOH A 7 208 208 HOH HOH . D 4 HOH A 8 209 209 HOH HOH . D 4 HOH A 9 210 210 HOH HOH . D 4 HOH A 10 212 212 HOH HOH . D 4 HOH A 11 213 213 HOH HOH . D 4 HOH A 12 214 214 HOH HOH . D 4 HOH A 13 216 216 HOH HOH . D 4 HOH A 14 217 217 HOH HOH . D 4 HOH A 15 219 219 HOH HOH . D 4 HOH A 16 222 222 HOH HOH . D 4 HOH A 17 223 223 HOH HOH . D 4 HOH A 18 225 225 HOH HOH . D 4 HOH A 19 227 227 HOH HOH . D 4 HOH A 20 228 228 HOH HOH . D 4 HOH A 21 230 230 HOH HOH . D 4 HOH A 22 231 231 HOH HOH . D 4 HOH A 23 233 233 HOH HOH . D 4 HOH A 24 235 235 HOH HOH . D 4 HOH A 25 237 237 HOH HOH . D 4 HOH A 26 238 238 HOH HOH . D 4 HOH A 27 240 240 HOH HOH . D 4 HOH A 28 243 243 HOH HOH . D 4 HOH A 29 245 245 HOH HOH . D 4 HOH A 30 246 246 HOH HOH . D 4 HOH A 31 250 250 HOH HOH . D 4 HOH A 32 255 255 HOH HOH . D 4 HOH A 33 263 263 HOH HOH . D 4 HOH A 34 272 272 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 P P2 THP . . . C 3 6.301 14.105 20.29 1 30.55 ? P2 THP 151 A 1 HETATM 2 O O4P THP . . . C 3 6.579 12.778 19.805 1 40.7 ? O4P THP 151 A 1 HETATM 3 O O5P THP . . . C 3 7.527 14.919 20.034 1 32.06 ? O5P THP 151 A 1 HETATM 4 O O6P THP . . . C 3 6.301 13.088 21.448 1 34.38 ? O6P THP 151 A 1 HETATM 5 P P1 THP . . . C 3 4.83 11.663 26.16 1 33.96 ? P1 THP 151 A 1 HETATM 6 O O1P THP . . . C 3 5.038 11.458 27.589 1 35.49 ? O1P THP 151 A 1 HETATM 7 O O2P THP . . . C 3 6.069 11.58 25.391 1 31.72 ? O2P THP 151 A 1 HETATM 8 O O3P THP . . . C 3 3.608 11.02 25.604 1 36.31 ? O3P THP 151 A 1 HETATM 9 O O5' THP . . . C 3 5.773 14.866 21.669 1 34.54 ? O5' THP 151 A 1 HETATM 10 C C5' THP . . . C 3 4.691 14.316 22.498 1 32.2 ? C5' THP 151 A 1 HETATM 11 C C4' THP . . . C 3 5.138 14.294 23.961 1 31.13 ? C4' THP 151 A 1 HETATM 12 O O4' THP . . . C 3 5.44 15.642 24.41 1 29.52 ? O4' THP 151 A 1 HETATM 13 C C3' THP . . . C 3 3.967 13.854 24.825 1 29.8 ? C3' THP 151 A 1 HETATM 14 O O3' THP . . . C 3 4.435 13.265 26.078 1 32.91 ? O3' THP 151 A 1 HETATM 15 C C2' THP . . . C 3 3.203 15.097 25.088 1 26.14 ? C2' THP 151 A 1 HETATM 16 C C1' THP . . . C 3 4.304 16.098 25.17 1 27.55 ? C1' THP 151 A 1 HETATM 17 N N1 THP . . . C 3 3.862 17.436 24.735 1 28.98 ? N1 THP 151 A 1 HETATM 18 C C2 THP . . . C 3 3.425 18.234 25.78 1 29.84 ? C2 THP 151 A 1 HETATM 19 O O2 THP . . . C 3 3.596 17.943 26.978 1 30.73 ? O2 THP 151 A 1 HETATM 20 N N3 THP . . . C 3 2.806 19.404 25.375 1 27.24 ? N3 THP 151 A 1 HETATM 21 C C4 THP . . . C 3 2.631 19.883 24.099 1 26.81 ? C4 THP 151 A 1 HETATM 22 O O4 THP . . . C 3 2.119 20.971 23.927 1 24.4 ? O4 THP 151 A 1 HETATM 23 C C5 THP . . . C 3 3.105 18.995 23.068 1 27.8 ? C5 THP 151 A 1 HETATM 24 C C5M THP . . . C 3 3.053 19.486 21.604 1 28.3 ? C5M THP 151 A 1 HETATM 25 C C6 THP . . . C 3 3.702 17.819 23.404 1 26.27 ? C6 THP 151 A 1 HETATM 26 H H3 THP . . . C 3 2.409 19.914 26.081 1 0 ? H3 THP 151 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 325 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 26 #