data_7KL3 # _model_server_result.job_id uWBsFBjo9mCR73xGz9IWww _model_server_result.datetime_utc '2024-11-28 19:04:13' _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 7kl3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":202}' # _entry.id 7KL3 # _exptl.entry_id 7KL3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 323.28 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-O-sulfocytidine" _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 7KL3 _cell.length_a 89.202 _cell.length_b 89.202 _cell.length_c 134.246 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KL3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 97 _symmetry.space_group_name_Hall 'I 4 2' _symmetry.space_group_name_H-M 'I 4 2 2' # _pdbx_struct_assembly.method_details PISA _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,G,H,I _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 6 _struct_asym.id G _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 B O3' G 2 B G 2 1_555 G S1 RQA . B RQA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.474 ? covale ? covale2 F P AMP . B AMP 201 1_555 G O5 RQA . B RQA 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.607 ? # _chem_comp.formula 'C9 H13 N3 O8 S' _chem_comp.formula_weight 323.28 _chem_comp.id RQA _chem_comp.mon_nstd_flag . _chem_comp.name "5'-O-sulfocytidine" _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 O6 C8 RQA sing 444 n n O6 C5 RQA sing 445 n n C8 C9 RQA sing 446 n n C8 C7 RQA sing 447 n n O2 C1 RQA doub 448 n n C9 O7 RQA sing 449 n n C1 N2 RQA sing 450 n n C1 N1 RQA sing 451 n n C5 N1 RQA sing 452 n n C5 C6 RQA sing 453 n n N2 C2 RQA doub 454 n n N1 C4 RQA sing 455 n n O7 S1 RQA sing 456 n n S1 O1 RQA doub 457 n n S1 O4 RQA doub 458 n n C2 N3 RQA sing 459 n n C2 C3 RQA sing 460 n n O5 C7 RQA sing 461 n n C4 C3 RQA doub 462 n n C7 C6 RQA sing 463 n n C6 O3 RQA sing 464 n n C3 H1 RQA sing 465 n n C4 H2 RQA sing 466 n n C5 H3 RQA sing 467 n n C6 H4 RQA sing 468 n n C7 H5 RQA sing 469 n n C8 H6 RQA sing 470 n n C9 H7 RQA sing 471 n n C9 H8 RQA sing 472 n n N3 H9 RQA sing 473 n n N3 H10 RQA sing 474 n n O3 H12 RQA sing 475 n n O5 H14 RQA sing 476 n n S1 O3S RQA sing 477 n n O3S H15 RQA sing 478 n n # _atom_sites.entry_id 7KL3 _atom_sites.fract_transf_matrix[1][1] 0.011211 _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] 0.011211 _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] 0.007449 _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 C 3 GOL A 1 201 201 GOL GOL . D 4 SO4 A 1 202 1 SO4 SO4 . E 4 SO4 A 1 203 2 SO4 SO4 . F 5 AMP B 1 201 4 AMP A . G 6 RQA B 1 202 3 RQA CRS . H 7 HOH A 1 301 43 HOH HOH . H 7 HOH A 2 302 51 HOH HOH . H 7 HOH A 3 303 39 HOH HOH . H 7 HOH A 4 304 99 HOH HOH . H 7 HOH A 5 305 73 HOH HOH . H 7 HOH A 6 306 26 HOH HOH . H 7 HOH A 7 307 98 HOH HOH . H 7 HOH A 8 308 71 HOH HOH . H 7 HOH A 9 309 68 HOH HOH . H 7 HOH A 10 310 77 HOH HOH . H 7 HOH A 11 311 88 HOH HOH . H 7 HOH A 12 312 19 HOH HOH . H 7 HOH A 13 313 8 HOH HOH . H 7 HOH A 14 314 94 HOH HOH . H 7 HOH A 15 315 22 HOH HOH . H 7 HOH A 16 316 1 HOH HOH . H 7 HOH A 17 317 44 HOH HOH . H 7 HOH A 18 318 20 HOH HOH . H 7 HOH A 19 319 23 HOH HOH . H 7 HOH A 20 320 106 HOH HOH . H 7 HOH A 21 321 4 HOH HOH . H 7 HOH A 22 322 11 HOH HOH . H 7 HOH A 23 323 33 HOH HOH . H 7 HOH A 24 324 13 HOH HOH . H 7 HOH A 25 325 48 HOH HOH . H 7 HOH A 26 326 34 HOH HOH . H 7 HOH A 27 327 36 HOH HOH . H 7 HOH A 28 328 57 HOH HOH . H 7 HOH A 29 329 41 HOH HOH . H 7 HOH A 30 330 62 HOH HOH . H 7 HOH A 31 331 25 HOH HOH . H 7 HOH A 32 332 17 HOH HOH . H 7 HOH A 33 333 42 HOH HOH . H 7 HOH A 34 334 5 HOH HOH . H 7 HOH A 35 335 87 HOH HOH . H 7 HOH A 36 336 69 HOH HOH . H 7 HOH A 37 337 6 HOH HOH . H 7 HOH A 38 338 55 HOH HOH . H 7 HOH A 39 339 117 HOH HOH . H 7 HOH A 40 340 58 HOH HOH . H 7 HOH A 41 341 85 HOH HOH . H 7 HOH A 42 342 12 HOH HOH . H 7 HOH A 43 343 54 HOH HOH . H 7 HOH A 44 344 37 HOH HOH . H 7 HOH A 45 345 7 HOH HOH . H 7 HOH A 46 346 56 HOH HOH . H 7 HOH A 47 347 114 HOH HOH . H 7 HOH A 48 348 16 HOH HOH . H 7 HOH A 49 349 27 HOH HOH . H 7 HOH A 50 350 92 HOH HOH . H 7 HOH A 51 351 76 HOH HOH . H 7 HOH A 52 352 107 HOH HOH . H 7 HOH A 53 353 38 HOH HOH . H 7 HOH A 54 354 67 HOH HOH . H 7 HOH A 55 355 9 HOH HOH . H 7 HOH A 56 356 10 HOH HOH . H 7 HOH A 57 357 15 HOH HOH . H 7 HOH A 58 358 53 HOH HOH . H 7 HOH A 59 359 31 HOH HOH . H 7 HOH A 60 360 35 HOH HOH . H 7 HOH A 61 361 46 HOH HOH . H 7 HOH A 62 362 28 HOH HOH . H 7 HOH A 63 363 108 HOH HOH . H 7 HOH A 64 364 14 HOH HOH . H 7 HOH A 65 365 3 HOH HOH . H 7 HOH A 66 366 61 HOH HOH . H 7 HOH A 67 367 50 HOH HOH . H 7 HOH A 68 368 18 HOH HOH . H 7 HOH A 69 369 103 HOH HOH . H 7 HOH A 70 370 79 HOH HOH . H 7 HOH A 71 371 65 HOH HOH . H 7 HOH A 72 372 80 HOH HOH . H 7 HOH A 73 373 32 HOH HOH . H 7 HOH A 74 374 29 HOH HOH . H 7 HOH A 75 375 63 HOH HOH . H 7 HOH A 76 376 49 HOH HOH . H 7 HOH A 77 377 84 HOH HOH . H 7 HOH A 78 378 112 HOH HOH . H 7 HOH A 79 379 2 HOH HOH . H 7 HOH A 80 380 47 HOH HOH . H 7 HOH A 81 381 21 HOH HOH . H 7 HOH A 82 382 70 HOH HOH . H 7 HOH A 83 383 90 HOH HOH . H 7 HOH A 84 384 30 HOH HOH . H 7 HOH A 85 385 72 HOH HOH . H 7 HOH A 86 386 96 HOH HOH . H 7 HOH A 87 387 100 HOH HOH . H 7 HOH A 88 388 24 HOH HOH . H 7 HOH A 89 389 111 HOH HOH . H 7 HOH A 90 390 104 HOH HOH . H 7 HOH A 91 391 78 HOH HOH . H 7 HOH A 92 392 102 HOH HOH . H 7 HOH A 93 393 86 HOH HOH . H 7 HOH A 94 394 74 HOH HOH . H 7 HOH A 95 395 101 HOH HOH . H 7 HOH A 96 396 40 HOH HOH . H 7 HOH A 97 397 81 HOH HOH . H 7 HOH A 98 398 45 HOH HOH . H 7 HOH A 99 399 113 HOH HOH . H 7 HOH A 100 400 95 HOH HOH . H 7 HOH A 101 401 60 HOH HOH . H 7 HOH A 102 402 110 HOH HOH . H 7 HOH A 103 403 89 HOH HOH . H 7 HOH A 104 404 97 HOH HOH . H 7 HOH A 105 405 64 HOH HOH . H 7 HOH A 106 406 118 HOH HOH . H 7 HOH A 107 407 82 HOH HOH . H 7 HOH A 108 408 93 HOH HOH . H 7 HOH A 109 409 52 HOH HOH . H 7 HOH A 110 410 91 HOH HOH . H 7 HOH A 111 411 116 HOH HOH . H 7 HOH A 112 412 115 HOH HOH . H 7 HOH A 113 413 59 HOH HOH . H 7 HOH A 114 414 83 HOH HOH . I 7 HOH B 1 301 121 HOH HOH . I 7 HOH B 2 302 66 HOH HOH . I 7 HOH B 3 303 120 HOH HOH . I 7 HOH B 4 304 119 HOH HOH . I 7 HOH B 5 305 105 HOH HOH . I 7 HOH B 6 306 109 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 C C1 RQA . . . G 6 -232.187 257.99 286.192 1 108.36 ? C1 RQA 202 B 1 HETATM 2 C C2 RQA . . . G 6 -232.275 260.308 286.704 1 108.97 ? C2 RQA 202 B 1 HETATM 3 C C3 RQA . . . G 6 -233.652 260.19 286.933 1 107.24 ? C3 RQA 202 B 1 HETATM 4 C C4 RQA . . . G 6 -234.237 258.921 286.766 1 105.18 ? C4 RQA 202 B 1 HETATM 5 C C5 RQA . . . G 6 -234.154 256.483 286.255 1 103.04 ? C5 RQA 202 B 1 HETATM 6 C C6 RQA . . . G 6 -234.684 255.887 287.569 1 102.04 ? C6 RQA 202 B 1 HETATM 7 C C7 RQA . . . G 6 -235.79 254.931 287.081 1 100.11 ? C7 RQA 202 B 1 HETATM 8 C C8 RQA . . . G 6 -236.299 255.607 285.8 1 100.09 ? C8 RQA 202 B 1 HETATM 9 C C9 RQA . . . G 6 -237.611 256.326 285.938 1 99.59 ? C9 RQA 202 B 1 HETATM 10 N N1 RQA . . . G 6 -233.514 257.829 286.398 1 106.42 ? N1 RQA 202 B 1 HETATM 11 N N2 RQA . . . G 6 -231.603 259.223 286.343 1 108.87 ? N2 RQA 202 B 1 HETATM 12 N N3 RQA . . . G 6 -231.595 261.541 286.834 1 111.31 ? N3 RQA 202 B 1 HETATM 13 O O1 RQA . . . G 6 -240.209 257.718 286.845 1 99.58 ? O1 RQA 202 B 1 HETATM 14 O O2 RQA . . . G 6 -231.496 257.078 285.864 1 107.23 ? O2 RQA 202 B 1 HETATM 15 O O3 RQA . . . G 6 -233.655 255.299 288.35 1 103.14 ? O3 RQA 202 B 1 HETATM 16 O O4 RQA . . . G 6 -238.541 259.948 287.581 1 103.18 ? O4 RQA 202 B 1 HETATM 17 O O5 RQA . . . G 6 -235.253 253.642 286.748 1 101.95 ? O5 RQA 202 B 1 HETATM 18 O O6 RQA . . . G 6 -235.276 256.569 285.391 1 103.51 ? O6 RQA 202 B 1 HETATM 19 O O7 RQA . . . G 6 -237.426 257.622 286.501 1 100.98 ? O7 RQA 202 B 1 HETATM 20 S S1 RQA . . . G 6 -238.754 258.548 286.666 1 101.26 ? S1 RQA 202 B 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 247 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 20 #