data_2FTO # _model_server_result.job_id fPJZ9tdx-wR_XXLW812wDg _model_server_result.datetime_utc '2024-11-23 10:42:19' _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 2fto # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":265}' # _entry.id 2FTO # _exptl.entry_id 2FTO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 322.208 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "THYMIDINE-5'-PHOSPHATE" _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 2FTO _cell.length_a 72.08 _cell.length_b 72.08 _cell.length_c 115.21 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2FTO _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details PISA,PQS _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 5_555 x-y,-y,-z+2/3 1 0 0 0 -1 0 0 0 -1 0 0 76.806667 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id C _struct_conn.ptnr1_label_comp_id CXM _struct_conn.ptnr1_label_seq_id 1 _struct_conn.ptnr1_auth_asym_id X _struct_conn.ptnr1_auth_comp_id CXM _struct_conn.ptnr1_auth_seq_id 1 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id A _struct_conn.ptnr2_label_atom_id N _struct_conn.ptnr2_label_comp_id LYS _struct_conn.ptnr2_label_seq_id 2 _struct_conn.ptnr2_auth_asym_id X _struct_conn.ptnr2_auth_comp_id LYS _struct_conn.ptnr2_auth_seq_id 2 _struct_conn.ptnr2_symmetry 1_555 _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 1.321 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C10 H15 N2 O8 P' _chem_comp.formula_weight 322.208 _chem_comp.id TMP _chem_comp.mon_nstd_flag . _chem_comp.name "THYMIDINE-5'-PHOSPHATE" _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 P O1P TMP doub 392 n n P O2P TMP sing 393 n n P O3P TMP sing 394 n n P O5' TMP sing 395 n n O2P HOP2 TMP sing 396 n n O3P HOP3 TMP sing 397 n n O5' C5' TMP sing 398 n n C5' C4' TMP sing 399 n n C5' "H5'1" TMP sing 400 n n C5' "H5'2" TMP sing 401 n n C4' O4' TMP sing 402 n n C4' C3' TMP sing 403 n n C4' H4' TMP sing 404 n n O4' C1' TMP sing 405 n n C3' O3' TMP sing 406 n n C3' C2' TMP sing 407 n n C3' H3' TMP sing 408 n n O3' HO3' TMP sing 409 n n C2' C1' TMP sing 410 n n C2' "H2'1" TMP sing 411 n n C2' "H2'2" TMP sing 412 n n C1' N1 TMP sing 413 n n C1' H1' TMP sing 414 n n N1 C2 TMP sing 415 n n N1 C6 TMP sing 416 n n C2 O2 TMP doub 417 n n C2 N3 TMP sing 418 n n N3 C4 TMP sing 419 n n N3 HN3 TMP sing 420 n n C4 O4 TMP doub 421 n n C4 C5 TMP sing 422 n n C5 C5M TMP sing 423 n n C5 C6 TMP doub 424 n n C5M H51 TMP sing 425 n n C5M H52 TMP sing 426 n n C5M H53 TMP sing 427 n n C6 H6 TMP sing 428 n n # _atom_sites.entry_id 2FTO _atom_sites.fract_transf_matrix[1][1] 0.013873 _atom_sites.fract_transf_matrix[1][2] 0.00801 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01602 _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] 0.00868 _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 PO4 X 1 267 267 PO4 PO4 . C 2 PO4 X 1 268 268 PO4 PO4 . D 3 TMP X 1 265 265 TMP TMP . E 4 CB3 X 1 266 266 CB3 CB3 . F 5 HOH X 1 270 270 HOH HOH . F 5 HOH X 2 271 271 HOH HOH . F 5 HOH X 3 272 272 HOH HOH . F 5 HOH X 4 273 273 HOH HOH . F 5 HOH X 5 274 274 HOH HOH . F 5 HOH X 6 275 275 HOH HOH . F 5 HOH X 7 276 276 HOH HOH . F 5 HOH X 8 277 277 HOH HOH . F 5 HOH X 9 278 278 HOH HOH . F 5 HOH X 10 279 279 HOH HOH . F 5 HOH X 11 280 280 HOH HOH . F 5 HOH X 12 281 281 HOH HOH . F 5 HOH X 13 282 282 HOH HOH . F 5 HOH X 14 283 283 HOH HOH . F 5 HOH X 15 284 284 HOH HOH . F 5 HOH X 16 285 285 HOH HOH . F 5 HOH X 17 286 286 HOH HOH . F 5 HOH X 18 287 287 HOH HOH . F 5 HOH X 19 288 288 HOH HOH . F 5 HOH X 20 289 289 HOH HOH . F 5 HOH X 21 290 290 HOH HOH . F 5 HOH X 22 291 291 HOH HOH . F 5 HOH X 23 292 292 HOH HOH . F 5 HOH X 24 293 293 HOH HOH . F 5 HOH X 25 294 294 HOH HOH . F 5 HOH X 26 295 295 HOH HOH . F 5 HOH X 27 296 296 HOH HOH . F 5 HOH X 28 297 297 HOH HOH . F 5 HOH X 29 298 298 HOH HOH . F 5 HOH X 30 299 299 HOH HOH . F 5 HOH X 31 300 300 HOH HOH . F 5 HOH X 32 301 301 HOH HOH . F 5 HOH X 33 302 302 HOH HOH . F 5 HOH X 34 303 303 HOH HOH . F 5 HOH X 35 304 304 HOH HOH . F 5 HOH X 36 305 305 HOH HOH . F 5 HOH X 37 306 306 HOH HOH . F 5 HOH X 38 307 307 HOH HOH . F 5 HOH X 39 308 308 HOH HOH . F 5 HOH X 40 309 309 HOH HOH . F 5 HOH X 41 310 310 HOH HOH . F 5 HOH X 42 311 311 HOH HOH . F 5 HOH X 43 312 312 HOH HOH . F 5 HOH X 44 313 313 HOH HOH . F 5 HOH X 45 314 314 HOH HOH . F 5 HOH X 46 315 315 HOH HOH . F 5 HOH X 47 316 316 HOH HOH . F 5 HOH X 48 317 317 HOH HOH . F 5 HOH X 49 318 318 HOH HOH . F 5 HOH X 50 319 319 HOH HOH . F 5 HOH X 51 320 320 HOH HOH . F 5 HOH X 52 321 321 HOH HOH . F 5 HOH X 53 322 322 HOH HOH . F 5 HOH X 54 323 323 HOH HOH . F 5 HOH X 55 324 324 HOH HOH . F 5 HOH X 56 325 325 HOH HOH . F 5 HOH X 57 326 326 HOH HOH . F 5 HOH X 58 327 327 HOH HOH . F 5 HOH X 59 328 328 HOH HOH . F 5 HOH X 60 329 329 HOH HOH . F 5 HOH X 61 330 330 HOH HOH . F 5 HOH X 62 331 331 HOH HOH . F 5 HOH X 63 332 332 HOH HOH . F 5 HOH X 64 333 333 HOH HOH . F 5 HOH X 65 334 334 HOH HOH . F 5 HOH X 66 335 335 HOH HOH . F 5 HOH X 67 336 336 HOH HOH . F 5 HOH X 68 337 337 HOH HOH . F 5 HOH X 69 338 338 HOH HOH . F 5 HOH X 70 339 339 HOH HOH . F 5 HOH X 71 340 340 HOH HOH . F 5 HOH X 72 341 341 HOH HOH . F 5 HOH X 73 342 342 HOH HOH . F 5 HOH X 74 343 343 HOH HOH . F 5 HOH X 75 344 344 HOH HOH . F 5 HOH X 76 345 345 HOH HOH . F 5 HOH X 77 346 346 HOH HOH . F 5 HOH X 78 347 347 HOH HOH . F 5 HOH X 79 348 348 HOH HOH . F 5 HOH X 80 349 349 HOH HOH . F 5 HOH X 81 350 350 HOH HOH . F 5 HOH X 82 351 351 HOH HOH . F 5 HOH X 83 352 352 HOH HOH . F 5 HOH X 84 353 353 HOH HOH . F 5 HOH X 85 354 354 HOH HOH . F 5 HOH X 86 355 355 HOH HOH . F 5 HOH X 87 356 356 HOH HOH . F 5 HOH X 88 357 357 HOH HOH . F 5 HOH X 89 358 358 HOH HOH . F 5 HOH X 90 359 359 HOH HOH . F 5 HOH X 91 360 360 HOH HOH . F 5 HOH X 92 361 361 HOH HOH . F 5 HOH X 93 362 362 HOH HOH . F 5 HOH X 94 363 363 HOH HOH . F 5 HOH X 95 364 364 HOH HOH . F 5 HOH X 96 365 365 HOH HOH . F 5 HOH X 97 366 366 HOH HOH . F 5 HOH X 98 367 367 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 P TMP . . . D 3 40.803 -13.988 45.658 1 20.85 ? P TMP 265 X 1 HETATM 2 O O1P TMP . . . D 3 40.728 -14.357 47.116 1 21.55 ? O1P TMP 265 X 1 HETATM 3 O O2P TMP . . . D 3 41.865 -13.001 45.289 1 19.27 ? O2P TMP 265 X 1 HETATM 4 O O3P TMP . . . D 3 39.493 -13.487 45.175 1 19.14 ? O3P TMP 265 X 1 HETATM 5 O O5' TMP . . . D 3 41.158 -15.336 44.854 1 23.64 ? O5' TMP 265 X 1 HETATM 6 C C5' TMP . . . D 3 41.411 -15.401 43.453 1 22.11 ? C5' TMP 265 X 1 HETATM 7 C C4' TMP . . . D 3 42.7 -16.202 43.212 1 20.62 ? C4' TMP 265 X 1 HETATM 8 O O4' TMP . . . D 3 42.76 -16.572 41.825 1 21.24 ? O4' TMP 265 X 1 HETATM 9 C C3' TMP . . . D 3 43.961 -15.369 43.484 1 20.35 ? C3' TMP 265 X 1 HETATM 10 O O3' TMP . . . D 3 45.053 -16.217 43.89 1 18.83 ? O3' TMP 265 X 1 HETATM 11 C C2' TMP . . . D 3 44.267 -14.758 42.121 1 19.98 ? C2' TMP 265 X 1 HETATM 12 C C1' TMP . . . D 3 43.886 -15.93 41.203 1 19.98 ? C1' TMP 265 X 1 HETATM 13 N N1 TMP . . . D 3 43.474 -15.499 39.877 1 21.72 ? N1 TMP 265 X 1 HETATM 14 C C2 TMP . . . D 3 44.426 -14.952 38.979 1 22.1 ? C2 TMP 265 X 1 HETATM 15 O O2 TMP . . . D 3 45.62 -14.802 39.327 1 19.84 ? O2 TMP 265 X 1 HETATM 16 N N3 TMP . . . D 3 44.038 -14.558 37.754 1 22.26 ? N3 TMP 265 X 1 HETATM 17 C C4 TMP . . . D 3 42.774 -14.706 37.337 1 22.44 ? C4 TMP 265 X 1 HETATM 18 O O4 TMP . . . D 3 42.426 -14.321 36.199 1 21.38 ? O4 TMP 265 X 1 HETATM 19 C C5 TMP . . . D 3 41.76 -15.307 38.233 1 20.78 ? C5 TMP 265 X 1 HETATM 20 C C5M TMP . . . D 3 40.353 -15.455 37.733 1 19.76 ? C5M TMP 265 X 1 HETATM 21 C C6 TMP . . . D 3 42.173 -15.679 39.501 1 22.31 ? C6 TMP 265 X 1 # _model_server_stats.io_time_ms 86 _model_server_stats.parse_time_ms 77 _model_server_stats.create_model_time_ms 13 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 21 #