data_6VCR # _model_server_result.job_id jQ54FBZA1ZbeA6b54wEjZw _model_server_result.datetime_utc '2024-12-27 03:41:17' _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 6vcr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 6VCR # _exptl.entry_id 6VCR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 483.156 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "CYTIDINE-5'-TRIPHOSPHATE" _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 99.022 _cell.angle_gamma 90 _cell.entry_id 6VCR _cell.length_a 78.525 _cell.length_b 38.811 _cell.length_c 57.692 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6VCR _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _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,C,D,E,F,G _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N N ? 2 D N N # _chem_comp.formula 'C9 H16 N3 O14 P3' _chem_comp.formula_weight 483.156 _chem_comp.id CTP _chem_comp.mon_nstd_flag . _chem_comp.name "CYTIDINE-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 N1 C2 CTP sing 70 n n N1 C6 CTP sing 71 n n N1 C1' CTP sing 72 n n C2 N3 CTP sing 73 n n C2 O2 CTP doub 74 n n N3 C4 CTP doub 75 n n C4 C5 CTP sing 76 n n C4 N4 CTP sing 77 n n C5 C6 CTP doub 78 n n C5 H5 CTP sing 79 n n C6 H6 CTP sing 80 n n N4 HN41 CTP sing 81 n n N4 HN42 CTP sing 82 n n C1' C2' CTP sing 83 n n C1' O4' CTP sing 84 n n C1' H1' CTP sing 85 n n C2' O2' CTP sing 86 n n C2' C3' CTP sing 87 n n C2' H2' CTP sing 88 n n O2' HO2' CTP sing 89 n n C3' C4' CTP sing 90 n n C3' O3' CTP sing 91 n n C3' H3' CTP sing 92 n n C4' O4' CTP sing 93 n n C4' C5' CTP sing 94 n n C4' H4' CTP sing 95 n n O3' HO3' CTP sing 96 n n C5' O5' CTP sing 97 n n C5' "H5'1" CTP sing 98 n n C5' "H5'2" CTP sing 99 n n O5' PA CTP sing 100 n n PA O1A CTP doub 101 n n PA O2A CTP sing 102 n n PA O3A CTP sing 103 n n O2A HOA2 CTP sing 104 n n O3A PB CTP sing 105 n n PB O1B CTP doub 106 n n PB O2B CTP sing 107 n n PB O3B CTP sing 108 n n O2B HOB2 CTP sing 109 n n O3B PG CTP sing 110 n n PG O1G CTP doub 111 n n PG O2G CTP sing 112 n n PG O3G CTP sing 113 n n O2G HOG2 CTP sing 114 n n O3G HOG3 CTP sing 115 n n # _atom_sites.entry_id 6VCR _atom_sites.fract_transf_matrix[1][1] 0.012735 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002022 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.025766 _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] 0.017551 _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 CTP A 1 201 1 CTP CTP . C 2 CTP A 1 202 2 CTP CTP . D 2 CTP A 1 203 3 CTP CTP . E 3 PPV A 1 204 4 PPV PPV . F 4 SO4 A 1 205 1 SO4 SO4 . G 5 HOH A 1 301 63 HOH HOH . G 5 HOH A 2 302 134 HOH HOH . G 5 HOH A 3 303 140 HOH HOH . G 5 HOH A 4 304 143 HOH HOH . G 5 HOH A 5 305 172 HOH HOH . G 5 HOH A 6 306 27 HOH HOH . G 5 HOH A 7 307 147 HOH HOH . G 5 HOH A 8 308 199 HOH HOH . G 5 HOH A 9 309 130 HOH HOH . G 5 HOH A 10 310 193 HOH HOH . G 5 HOH A 11 311 128 HOH HOH . G 5 HOH A 12 312 161 HOH HOH . G 5 HOH A 13 313 58 HOH HOH . G 5 HOH A 14 314 176 HOH HOH . G 5 HOH A 15 315 12 HOH HOH . G 5 HOH A 16 316 56 HOH HOH . G 5 HOH A 17 317 78 HOH HOH . G 5 HOH A 18 318 155 HOH HOH . G 5 HOH A 19 319 109 HOH HOH . G 5 HOH A 20 320 30 HOH HOH . G 5 HOH A 21 321 178 HOH HOH . G 5 HOH A 22 322 149 HOH HOH . G 5 HOH A 23 323 21 HOH HOH . G 5 HOH A 24 324 124 HOH HOH . G 5 HOH A 25 325 94 HOH HOH . G 5 HOH A 26 326 9 HOH HOH . G 5 HOH A 27 327 165 HOH HOH . G 5 HOH A 28 328 60 HOH HOH . G 5 HOH A 29 329 17 HOH HOH . G 5 HOH A 30 330 115 HOH HOH . G 5 HOH A 31 331 31 HOH HOH . G 5 HOH A 32 332 107 HOH HOH . G 5 HOH A 33 333 104 HOH HOH . G 5 HOH A 34 334 185 HOH HOH . G 5 HOH A 35 335 202 HOH HOH . G 5 HOH A 36 336 26 HOH HOH . G 5 HOH A 37 337 189 HOH HOH . G 5 HOH A 38 338 121 HOH HOH . G 5 HOH A 39 339 13 HOH HOH . G 5 HOH A 40 340 196 HOH HOH . G 5 HOH A 41 341 112 HOH HOH . G 5 HOH A 42 342 64 HOH HOH . G 5 HOH A 43 343 10 HOH HOH . G 5 HOH A 44 344 95 HOH HOH . G 5 HOH A 45 345 19 HOH HOH . G 5 HOH A 46 346 118 HOH HOH . G 5 HOH A 47 347 6 HOH HOH . G 5 HOH A 48 348 65 HOH HOH . G 5 HOH A 49 349 52 HOH HOH . G 5 HOH A 50 350 18 HOH HOH . G 5 HOH A 51 351 7 HOH HOH . G 5 HOH A 52 352 72 HOH HOH . G 5 HOH A 53 353 34 HOH HOH . G 5 HOH A 54 354 61 HOH HOH . G 5 HOH A 55 355 62 HOH HOH . G 5 HOH A 56 356 111 HOH HOH . G 5 HOH A 57 357 14 HOH HOH . G 5 HOH A 58 358 16 HOH HOH . G 5 HOH A 59 359 117 HOH HOH . G 5 HOH A 60 360 83 HOH HOH . G 5 HOH A 61 361 114 HOH HOH . G 5 HOH A 62 362 44 HOH HOH . G 5 HOH A 63 363 50 HOH HOH . G 5 HOH A 64 364 69 HOH HOH . G 5 HOH A 65 365 70 HOH HOH . G 5 HOH A 66 366 35 HOH HOH . G 5 HOH A 67 367 23 HOH HOH . G 5 HOH A 68 368 200 HOH HOH . G 5 HOH A 69 369 32 HOH HOH . G 5 HOH A 70 370 42 HOH HOH . G 5 HOH A 71 371 41 HOH HOH . G 5 HOH A 72 372 28 HOH HOH . G 5 HOH A 73 373 116 HOH HOH . G 5 HOH A 74 374 129 HOH HOH . G 5 HOH A 75 375 1 HOH HOH . G 5 HOH A 76 376 99 HOH HOH . G 5 HOH A 77 377 48 HOH HOH . G 5 HOH A 78 378 25 HOH HOH . G 5 HOH A 79 379 43 HOH HOH . G 5 HOH A 80 380 188 HOH HOH . G 5 HOH A 81 381 8 HOH HOH . G 5 HOH A 82 382 167 HOH HOH . G 5 HOH A 83 383 127 HOH HOH . G 5 HOH A 84 384 24 HOH HOH . G 5 HOH A 85 385 38 HOH HOH . G 5 HOH A 86 386 57 HOH HOH . G 5 HOH A 87 387 2 HOH HOH . G 5 HOH A 88 388 53 HOH HOH . G 5 HOH A 89 389 102 HOH HOH . G 5 HOH A 90 390 105 HOH HOH . G 5 HOH A 91 391 73 HOH HOH . G 5 HOH A 92 392 86 HOH HOH . G 5 HOH A 93 393 132 HOH HOH . G 5 HOH A 94 394 5 HOH HOH . G 5 HOH A 95 395 46 HOH HOH . G 5 HOH A 96 396 103 HOH HOH . G 5 HOH A 97 397 22 HOH HOH . G 5 HOH A 98 398 4 HOH HOH . G 5 HOH A 99 399 198 HOH HOH . G 5 HOH A 100 400 20 HOH HOH . G 5 HOH A 101 401 135 HOH HOH . G 5 HOH A 102 402 68 HOH HOH . G 5 HOH A 103 403 11 HOH HOH . G 5 HOH A 104 404 110 HOH HOH . G 5 HOH A 105 405 141 HOH HOH . G 5 HOH A 106 406 59 HOH HOH . G 5 HOH A 107 407 171 HOH HOH . G 5 HOH A 108 408 168 HOH HOH . G 5 HOH A 109 409 75 HOH HOH . G 5 HOH A 110 410 106 HOH HOH . G 5 HOH A 111 411 45 HOH HOH . G 5 HOH A 112 412 79 HOH HOH . G 5 HOH A 113 413 113 HOH HOH . G 5 HOH A 114 414 142 HOH HOH . G 5 HOH A 115 415 39 HOH HOH . G 5 HOH A 116 416 3 HOH HOH . G 5 HOH A 117 417 55 HOH HOH . G 5 HOH A 118 418 47 HOH HOH . G 5 HOH A 119 419 90 HOH HOH . G 5 HOH A 120 420 133 HOH HOH . G 5 HOH A 121 421 85 HOH HOH . G 5 HOH A 122 422 80 HOH HOH . G 5 HOH A 123 423 74 HOH HOH . G 5 HOH A 124 424 81 HOH HOH . G 5 HOH A 125 425 156 HOH HOH . G 5 HOH A 126 426 93 HOH HOH . G 5 HOH A 127 427 54 HOH HOH . G 5 HOH A 128 428 181 HOH HOH . G 5 HOH A 129 429 82 HOH HOH . G 5 HOH A 130 430 122 HOH HOH . G 5 HOH A 131 431 88 HOH HOH . G 5 HOH A 132 432 15 HOH HOH . G 5 HOH A 133 433 148 HOH HOH . G 5 HOH A 134 434 139 HOH HOH . G 5 HOH A 135 435 98 HOH HOH . G 5 HOH A 136 436 191 HOH HOH . G 5 HOH A 137 437 137 HOH HOH . G 5 HOH A 138 438 190 HOH HOH . G 5 HOH A 139 439 138 HOH HOH . G 5 HOH A 140 440 37 HOH HOH . G 5 HOH A 141 441 76 HOH HOH . G 5 HOH A 142 442 71 HOH HOH . G 5 HOH A 143 443 192 HOH HOH . G 5 HOH A 144 444 174 HOH HOH . G 5 HOH A 145 445 84 HOH HOH . G 5 HOH A 146 446 91 HOH HOH . G 5 HOH A 147 447 203 HOH HOH . G 5 HOH A 148 448 33 HOH HOH . G 5 HOH A 149 449 195 HOH HOH . G 5 HOH A 150 450 100 HOH HOH . G 5 HOH A 151 451 184 HOH HOH . G 5 HOH A 152 452 159 HOH HOH . G 5 HOH A 153 453 177 HOH HOH . G 5 HOH A 154 454 153 HOH HOH . G 5 HOH A 155 455 29 HOH HOH . G 5 HOH A 156 456 179 HOH HOH . G 5 HOH A 157 457 144 HOH HOH . G 5 HOH A 158 458 36 HOH HOH . G 5 HOH A 159 459 87 HOH HOH . G 5 HOH A 160 460 123 HOH HOH . G 5 HOH A 161 461 67 HOH HOH . G 5 HOH A 162 462 120 HOH HOH . G 5 HOH A 163 463 89 HOH HOH . G 5 HOH A 164 464 157 HOH HOH . G 5 HOH A 165 465 183 HOH HOH . G 5 HOH A 166 466 49 HOH HOH . G 5 HOH A 167 467 96 HOH HOH . G 5 HOH A 168 468 108 HOH HOH . G 5 HOH A 169 469 152 HOH HOH . G 5 HOH A 170 470 175 HOH HOH . G 5 HOH A 171 471 194 HOH HOH . G 5 HOH A 172 472 136 HOH HOH . G 5 HOH A 173 473 170 HOH HOH . G 5 HOH A 174 474 77 HOH HOH . G 5 HOH A 175 475 186 HOH HOH . G 5 HOH A 176 476 66 HOH HOH . G 5 HOH A 177 477 101 HOH HOH . G 5 HOH A 178 478 151 HOH HOH . G 5 HOH A 179 479 166 HOH HOH . G 5 HOH A 180 480 40 HOH HOH . G 5 HOH A 181 481 182 HOH HOH . G 5 HOH A 182 482 197 HOH HOH . G 5 HOH A 183 483 51 HOH HOH . G 5 HOH A 184 484 92 HOH HOH . G 5 HOH A 185 485 97 HOH HOH . G 5 HOH A 186 486 154 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 N N1 CTP . . . B 2 27.205 -6.141 16.859 1 27.66 ? N1 CTP 201 A 1 HETATM 2 C C2 CTP . . . B 2 27.342 -7.569 16.59 1 27.76 ? C2 CTP 201 A 1 HETATM 3 N N3 CTP . . . B 2 26.234 -8.361 16.376 1 25.98 ? N3 CTP 201 A 1 HETATM 4 C C4 CTP . . . B 2 25.021 -7.763 16.43 1 25.92 ? C4 CTP 201 A 1 HETATM 5 C C5 CTP . . . B 2 24.864 -6.387 16.69 1 23.63 ? C5 CTP 201 A 1 HETATM 6 C C6 CTP . . . B 2 25.974 -5.593 16.908 1 24.32 ? C6 CTP 201 A 1 HETATM 7 O O2 CTP . . . B 2 28.411 -8.051 16.556 1 30.28 ? O2 CTP 201 A 1 HETATM 8 N N4 CTP . . . B 2 23.955 -8.581 16.286 1 31.18 ? N4 CTP 201 A 1 HETATM 9 C C1' CTP . . . B 2 28.42 -5.371 17.075 1 23.9 ? C1' CTP 201 A 1 HETATM 10 C C2' CTP . . . B 2 28.986 -4.938 15.924 1 24.66 ? C2' CTP 201 A 1 HETATM 11 O O2' CTP . . . B 2 30.414 -5.051 16.09 1 31.81 ? O2' CTP 201 A 1 HETATM 12 C C3' CTP . . . B 2 28.544 -3.471 15.758 1 27.02 ? C3' CTP 201 A 1 HETATM 13 C C4' CTP . . . B 2 28.427 -3.039 17.219 1 21.61 ? C4' CTP 201 A 1 HETATM 14 O O4' CTP . . . B 2 28.105 -4.274 17.907 1 23.76 ? O4' CTP 201 A 1 HETATM 15 O O3' CTP . . . B 2 29.521 -2.705 15.047 1 32.79 ? O3' CTP 201 A 1 HETATM 16 C C5' CTP . . . B 2 27.327 -2.024 17.522 1 22.63 ? C5' CTP 201 A 1 HETATM 17 O O5' CTP . . . B 2 26.167 -2.546 16.936 1 22.29 ? O5' CTP 201 A 1 HETATM 18 P PA CTP . . . B 2 25.016 -1.458 16.568 1 20.66 ? PA CTP 201 A 1 HETATM 19 O O1A CTP . . . B 2 23.882 -2.23 15.948 1 19.32 ? O1A CTP 201 A 1 HETATM 20 O O2A CTP . . . B 2 24.689 -0.644 17.806 1 21.1 ? O2A CTP 201 A 1 HETATM 21 O O3A CTP . . . B 2 25.702 -0.494 15.488 1 20.73 ? O3A CTP 201 A 1 HETATM 22 P PB CTP . . . B 2 26.458 -0.801 14.112 1 22.51 ? PB CTP 201 A 1 HETATM 23 O O1B CTP . . . B 2 26.029 -2.142 13.557 1 23.66 ? O1B CTP 201 A 1 HETATM 24 O O2B CTP . . . B 2 27.951 -0.728 14.331 1 24.51 ? O2B CTP 201 A 1 HETATM 25 O O3B CTP . . . B 2 25.983 0.268 13.117 1 27.32 ? O3B CTP 201 A 1 HETATM 26 P PG CTP . . . B 2 26.308 1.83 12.95 1 30.19 ? PG CTP 201 A 1 HETATM 27 O O1G CTP . . . B 2 27.56 2.019 12.078 1 32.56 ? O1G CTP 201 A 1 HETATM 28 O O2G CTP . . . B 2 26.481 2.496 14.283 1 32.99 ? O2G CTP 201 A 1 HETATM 29 O O3G CTP . . . B 2 25.11 2.433 12.194 1 30.22 ? O3G CTP 201 A 1 HETATM 30 H H5 CTP . . . B 2 24.013 -6.013 16.715 1 28.36 ? H5 CTP 201 A 1 HETATM 31 H H6 CTP . . . B 2 25.873 -4.686 17.087 1 29.18 ? H6 CTP 201 A 1 HETATM 32 H HN41 CTP . . . B 2 23.125 -8.277 16.186 1 37.42 ? HN41 CTP 201 A 1 HETATM 33 H HN42 CTP . . . B 2 24.094 -9.412 16.088 1 37.42 ? HN42 CTP 201 A 1 HETATM 34 H H1' CTP . . . B 2 29.114 -5.903 17.495 1 28.68 ? H1' CTP 201 A 1 HETATM 35 H H2' CTP . . . B 2 28.664 -5.442 15.16 1 29.59 ? H2' CTP 201 A 1 HETATM 36 H HO2' CTP . . . B 2 30.733 -5.602 15.527 1 38.17 ? HO2' CTP 201 A 1 HETATM 37 H H3' CTP . . . B 2 27.693 -3.411 15.297 1 32.42 ? H3' CTP 201 A 1 HETATM 38 H H4' CTP . . . B 2 29.281 -2.684 17.51 1 25.93 ? H4' CTP 201 A 1 HETATM 39 H "H5'1" CTP . . . B 2 27.545 -1.162 17.134 1 27.16 ? "H5'1" CTP 201 A 1 HETATM 40 H "H5'2" CTP . . . B 2 27.209 -1.926 18.48 1 27.16 ? "H5'2" CTP 201 A 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 408 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 40 #