data_5ZRG # _model_server_result.job_id ADG4-KZoRqLz_G6nPHGBPA _model_server_result.datetime_utc '2024-11-15 02:57:06' _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 5zrg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 5ZRG # _exptl.entry_id 5ZRG _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 307.197 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" _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 5ZRG _cell.length_a 66.08 _cell.length_b 59.36 _cell.length_c 31.36 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5ZRG _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 2' # _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 _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 H14 N3 O7 P' _chem_comp.formula_weight 307.197 _chem_comp.id DCM _chem_comp.mon_nstd_flag . _chem_comp.name "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" _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 DCM sing 70 n n N1 C6 DCM sing 71 n n N1 C1' DCM sing 72 n n C2 N3 DCM sing 73 n n C2 O2 DCM doub 74 n n N3 C4 DCM doub 75 n n C4 C5 DCM sing 76 n n C4 N4 DCM sing 77 n n C5 C6 DCM doub 78 n n C5 H5 DCM sing 79 n n C6 H6 DCM sing 80 n n N4 HN41 DCM sing 81 n n N4 HN42 DCM sing 82 n n C1' C2' DCM sing 83 n n C1' O4' DCM sing 84 n n C1' H1' DCM sing 85 n n C2' C3' DCM sing 86 n n C2' "H2'1" DCM sing 87 n n C2' "H2'2" DCM sing 88 n n C3' C4' DCM sing 89 n n C3' O3' DCM sing 90 n n C3' H3' DCM sing 91 n n C4' O4' DCM sing 92 n n C4' C5' DCM sing 93 n n C4' H4' DCM sing 94 n n O3' HO3' DCM sing 95 n n C5' O5' DCM sing 96 n n C5' "H5'1" DCM sing 97 n n C5' "H5'2" DCM sing 98 n n O5' P DCM sing 99 n n P O1P DCM doub 100 n n P O2P DCM sing 101 n n P O3P DCM sing 102 n n O2P HOP2 DCM sing 103 n n O3P HOP3 DCM sing 104 n n # _atom_sites.entry_id 5ZRG _atom_sites.fract_transf_matrix[1][1] 0.015133 _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] 0.016846 _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] 0.031888 _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 DCM A 1 201 1 DCM DCM . C 3 HOH A 1 301 150 HOH HOH . C 3 HOH A 2 302 159 HOH HOH . C 3 HOH A 3 303 65 HOH HOH . C 3 HOH A 4 304 66 HOH HOH . C 3 HOH A 5 305 99 HOH HOH . C 3 HOH A 6 306 29 HOH HOH . C 3 HOH A 7 307 63 HOH HOH . C 3 HOH A 8 308 33 HOH HOH . C 3 HOH A 9 309 162 HOH HOH . C 3 HOH A 10 310 12 HOH HOH . C 3 HOH A 11 311 45 HOH HOH . C 3 HOH A 12 312 124 HOH HOH . C 3 HOH A 13 313 40 HOH HOH . C 3 HOH A 14 314 129 HOH HOH . C 3 HOH A 15 315 31 HOH HOH . C 3 HOH A 16 316 49 HOH HOH . C 3 HOH A 17 317 28 HOH HOH . C 3 HOH A 18 318 158 HOH HOH . C 3 HOH A 19 319 198 HOH HOH . C 3 HOH A 20 320 123 HOH HOH . C 3 HOH A 21 321 120 HOH HOH . C 3 HOH A 22 322 91 HOH HOH . C 3 HOH A 23 323 101 HOH HOH . C 3 HOH A 24 324 1 HOH HOH . C 3 HOH A 25 325 171 HOH HOH . C 3 HOH A 26 326 109 HOH HOH . C 3 HOH A 27 327 11 HOH HOH . C 3 HOH A 28 328 38 HOH HOH . C 3 HOH A 29 329 207 HOH HOH . C 3 HOH A 30 330 52 HOH HOH . C 3 HOH A 31 331 32 HOH HOH . C 3 HOH A 32 332 30 HOH HOH . C 3 HOH A 33 333 25 HOH HOH . C 3 HOH A 34 334 50 HOH HOH . C 3 HOH A 35 335 94 HOH HOH . C 3 HOH A 36 336 73 HOH HOH . C 3 HOH A 37 337 152 HOH HOH . C 3 HOH A 38 338 6 HOH HOH . C 3 HOH A 39 339 47 HOH HOH . C 3 HOH A 40 340 114 HOH HOH . C 3 HOH A 41 341 138 HOH HOH . C 3 HOH A 42 342 17 HOH HOH . C 3 HOH A 43 343 27 HOH HOH . C 3 HOH A 44 344 39 HOH HOH . C 3 HOH A 45 345 132 HOH HOH . C 3 HOH A 46 346 57 HOH HOH . C 3 HOH A 47 347 116 HOH HOH . C 3 HOH A 48 348 8 HOH HOH . C 3 HOH A 49 349 4 HOH HOH . C 3 HOH A 50 350 88 HOH HOH . C 3 HOH A 51 351 194 HOH HOH . C 3 HOH A 52 352 82 HOH HOH . C 3 HOH A 53 353 46 HOH HOH . C 3 HOH A 54 354 56 HOH HOH . C 3 HOH A 55 355 72 HOH HOH . C 3 HOH A 56 356 5 HOH HOH . C 3 HOH A 57 357 136 HOH HOH . C 3 HOH A 58 358 61 HOH HOH . C 3 HOH A 59 359 128 HOH HOH . C 3 HOH A 60 360 87 HOH HOH . C 3 HOH A 61 361 23 HOH HOH . C 3 HOH A 62 362 70 HOH HOH . C 3 HOH A 63 363 7 HOH HOH . C 3 HOH A 64 364 161 HOH HOH . C 3 HOH A 65 365 60 HOH HOH . C 3 HOH A 66 366 69 HOH HOH . C 3 HOH A 67 367 122 HOH HOH . C 3 HOH A 68 368 53 HOH HOH . C 3 HOH A 69 369 9 HOH HOH . C 3 HOH A 70 370 68 HOH HOH . C 3 HOH A 71 371 42 HOH HOH . C 3 HOH A 72 372 26 HOH HOH . C 3 HOH A 73 373 195 HOH HOH . C 3 HOH A 74 374 15 HOH HOH . C 3 HOH A 75 375 44 HOH HOH . C 3 HOH A 76 376 78 HOH HOH . C 3 HOH A 77 377 20 HOH HOH . C 3 HOH A 78 378 41 HOH HOH . C 3 HOH A 79 379 59 HOH HOH . C 3 HOH A 80 380 209 HOH HOH . C 3 HOH A 81 381 13 HOH HOH . C 3 HOH A 82 382 24 HOH HOH . C 3 HOH A 83 383 96 HOH HOH . C 3 HOH A 84 384 86 HOH HOH . C 3 HOH A 85 385 48 HOH HOH . C 3 HOH A 86 386 3 HOH HOH . C 3 HOH A 87 387 97 HOH HOH . C 3 HOH A 88 388 160 HOH HOH . C 3 HOH A 89 389 100 HOH HOH . C 3 HOH A 90 390 208 HOH HOH . C 3 HOH A 91 391 183 HOH HOH . C 3 HOH A 92 392 16 HOH HOH . C 3 HOH A 93 393 21 HOH HOH . C 3 HOH A 94 394 188 HOH HOH . C 3 HOH A 95 395 64 HOH HOH . C 3 HOH A 96 396 118 HOH HOH . C 3 HOH A 97 397 58 HOH HOH . C 3 HOH A 98 398 18 HOH HOH . C 3 HOH A 99 399 175 HOH HOH . C 3 HOH A 100 400 98 HOH HOH . C 3 HOH A 101 401 2 HOH HOH . C 3 HOH A 102 402 111 HOH HOH . C 3 HOH A 103 403 121 HOH HOH . C 3 HOH A 104 404 147 HOH HOH . C 3 HOH A 105 405 55 HOH HOH . C 3 HOH A 106 406 108 HOH HOH . C 3 HOH A 107 407 51 HOH HOH . C 3 HOH A 108 408 76 HOH HOH . C 3 HOH A 109 409 74 HOH HOH . C 3 HOH A 110 410 143 HOH HOH . C 3 HOH A 111 411 36 HOH HOH . C 3 HOH A 112 412 90 HOH HOH . C 3 HOH A 113 413 95 HOH HOH . C 3 HOH A 114 414 151 HOH HOH . C 3 HOH A 115 415 131 HOH HOH . C 3 HOH A 116 416 166 HOH HOH . C 3 HOH A 117 417 84 HOH HOH . C 3 HOH A 118 418 81 HOH HOH . C 3 HOH A 119 419 112 HOH HOH . C 3 HOH A 120 420 119 HOH HOH . C 3 HOH A 121 421 145 HOH HOH . C 3 HOH A 122 422 126 HOH HOH . C 3 HOH A 123 423 155 HOH HOH . C 3 HOH A 124 424 184 HOH HOH . C 3 HOH A 125 425 34 HOH HOH . C 3 HOH A 126 426 190 HOH HOH . C 3 HOH A 127 427 192 HOH HOH . C 3 HOH A 128 428 14 HOH HOH . C 3 HOH A 129 429 77 HOH HOH . C 3 HOH A 130 430 113 HOH HOH . C 3 HOH A 131 431 75 HOH HOH . C 3 HOH A 132 432 67 HOH HOH . C 3 HOH A 133 433 80 HOH HOH . C 3 HOH A 134 434 180 HOH HOH . C 3 HOH A 135 435 104 HOH HOH . C 3 HOH A 136 436 164 HOH HOH . C 3 HOH A 137 437 141 HOH HOH . C 3 HOH A 138 438 203 HOH HOH . C 3 HOH A 139 439 197 HOH HOH . C 3 HOH A 140 440 200 HOH HOH . C 3 HOH A 141 441 177 HOH HOH . C 3 HOH A 142 442 85 HOH HOH . C 3 HOH A 143 443 154 HOH HOH . C 3 HOH A 144 444 187 HOH HOH . C 3 HOH A 145 445 144 HOH HOH . C 3 HOH A 146 446 202 HOH HOH . C 3 HOH A 147 447 105 HOH HOH . C 3 HOH A 148 448 199 HOH HOH . C 3 HOH A 149 449 178 HOH HOH . C 3 HOH A 150 450 93 HOH HOH . C 3 HOH A 151 451 206 HOH HOH . C 3 HOH A 152 452 139 HOH HOH . C 3 HOH A 153 453 37 HOH HOH . C 3 HOH A 154 454 176 HOH HOH . C 3 HOH A 155 455 204 HOH HOH . C 3 HOH A 156 456 92 HOH HOH . C 3 HOH A 157 457 140 HOH HOH . C 3 HOH A 158 458 205 HOH HOH . C 3 HOH A 159 459 79 HOH HOH . C 3 HOH A 160 460 189 HOH HOH . C 3 HOH A 161 461 193 HOH HOH . C 3 HOH A 162 462 201 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 DCM . . . B 2 -17.922 17.052 -2.717 1 15.92 ? N1 DCM 201 A 1 HETATM 2 C C2 DCM . . . B 2 -17.059 16.926 -3.81 1 16.36 ? C2 DCM 201 A 1 HETATM 3 N N3 DCM . . . B 2 -15.74 17.256 -3.627 1 16.97 ? N3 DCM 201 A 1 HETATM 4 C C4 DCM . . . B 2 -15.285 17.668 -2.435 1 19.35 ? C4 DCM 201 A 1 HETATM 5 C C5 DCM . . . B 2 -16.145 17.806 -1.328 1 15.65 ? C5 DCM 201 A 1 HETATM 6 C C6 DCM . . . B 2 -17.445 17.467 -1.503 1 17.46 ? C6 DCM 201 A 1 HETATM 7 O O2 DCM . . . B 2 -17.463 16.563 -4.888 1 19.14 ? O2 DCM 201 A 1 HETATM 8 N N4 DCM . . . B 2 -14.002 18.05 -2.41 1 15.51 ? N4 DCM 201 A 1 HETATM 9 C C1' DCM . . . B 2 -19.343 16.783 -2.883 1 21.82 ? C1' DCM 201 A 1 HETATM 10 C C2' DCM . . . B 2 -19.885 15.491 -2.274 1 23.07 ? C2' DCM 201 A 1 HETATM 11 C C3' DCM . . . B 2 -21.34 15.88 -1.957 1 27.76 ? C3' DCM 201 A 1 HETATM 12 C C4' DCM . . . B 2 -21.267 17.337 -1.609 1 24.12 ? C4' DCM 201 A 1 HETATM 13 O O4' DCM . . . B 2 -20.052 17.849 -2.216 1 22.11 ? O4' DCM 201 A 1 HETATM 14 O O3' DCM . . . B 2 -22.108 15.738 -3.154 1 32.34 ? O3' DCM 201 A 1 HETATM 15 C C5' DCM . . . B 2 -21.201 17.61 -0.108 1 32.39 ? C5' DCM 201 A 1 HETATM 16 O O5' DCM . . . B 2 -20.131 16.817 0.418 1 31.37 ? O5' DCM 201 A 1 HETATM 17 P P DCM . . . B 2 -20.384 15.911 1.749 1 32.42 ? P DCM 201 A 1 HETATM 18 O O1P DCM . . . B 2 -21.312 14.741 1.263 1 43.23 ? O1P DCM 201 A 1 HETATM 19 O O2P DCM . . . B 2 -18.981 15.511 2.141 1 39.74 ? O2P DCM 201 A 1 HETATM 20 O O3P DCM . . . B 2 -21.05 16.853 2.764 1 41.74 ? O3P DCM 201 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 239 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 20 #