data_3TKA # _model_server_result.job_id MvIA7hyd7Y5YBD-9DTcX5Q _model_server_result.datetime_utc '2024-11-22 15:33:27' _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 3tka # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":400}' # _entry.id 3TKA # _exptl.entry_id 3TKA _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 398.437 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYLMETHIONINE _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 3TKA _cell.length_a 85.66 _cell.length_b 85.66 _cell.length_c 107.059 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3TKA _symmetry.cell_setting ? _symmetry.Int_Tables_number 80 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 41' # _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,J _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' 6_655 -x+1,-y,z -1 0 0 0 -1 0 0 0 1 85.66 0 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 'C15 H22 N6 O5 S' _chem_comp.formula_weight 398.437 _chem_comp.id SAM _chem_comp.mon_nstd_flag . _chem_comp.name S-ADENOSYLMETHIONINE _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 N CA SAM sing 325 n n N HN1 SAM sing 326 n n N HN2 SAM sing 327 n n CA C SAM sing 328 n n CA CB SAM sing 329 n n CA HA SAM sing 330 n n C O SAM doub 331 n n C OXT SAM sing 332 n n CB CG SAM sing 333 n n CB HB1 SAM sing 334 n n CB HB2 SAM sing 335 n n CG SD SAM sing 336 n n CG HG1 SAM sing 337 n n CG HG2 SAM sing 338 n n SD CE SAM sing 339 n n SD C5' SAM sing 340 n n CE HE1 SAM sing 341 n n CE HE2 SAM sing 342 n n CE HE3 SAM sing 343 n n C5' C4' SAM sing 344 n n C5' "H5'1" SAM sing 345 n n C5' "H5'2" SAM sing 346 n n C4' O4' SAM sing 347 n n C4' C3' SAM sing 348 n n C4' H4' SAM sing 349 n n O4' C1' SAM sing 350 n n C3' O3' SAM sing 351 n n C3' C2' SAM sing 352 n n C3' H3' SAM sing 353 n n O3' HO3' SAM sing 354 n n C2' O2' SAM sing 355 n n C2' C1' SAM sing 356 n n C2' H2' SAM sing 357 n n O2' HO2' SAM sing 358 n n C1' N9 SAM sing 359 n n C1' H1' SAM sing 360 n n N9 C8 SAM sing 361 n y N9 C4 SAM sing 362 n y C8 N7 SAM doub 363 n y C8 H8 SAM sing 364 n n N7 C5 SAM sing 365 n y C5 C6 SAM sing 366 n y C5 C4 SAM doub 367 n y C6 N6 SAM sing 368 n n C6 N1 SAM doub 369 n y N6 HN61 SAM sing 370 n n N6 HN62 SAM sing 371 n n N1 C2 SAM sing 372 n y C2 N3 SAM doub 373 n y C2 H2 SAM sing 374 n n N3 C4 SAM sing 375 n y # _atom_sites.entry_id 3TKA _atom_sites.fract_transf_matrix[1][1] 0.011674 _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] 0.011674 _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] 0.009341 _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 SAM A 1 400 400 SAM SAM . C 3 CTN A 1 500 500 CTN CR . D 4 SO4 A 1 600 600 SO4 SO4 . E 4 SO4 A 1 601 601 SO4 SO4 . F 4 SO4 A 1 602 602 SO4 SO4 . G 4 SO4 A 1 603 603 SO4 SO4 . H 4 SO4 A 1 604 604 SO4 SO4 . I 5 PG4 A 1 700 700 PG4 PEG . J 6 HOH A 1 314 1 HOH HOH . J 6 HOH A 2 315 2 HOH HOH . J 6 HOH A 3 316 3 HOH HOH . J 6 HOH A 4 317 4 HOH HOH . J 6 HOH A 5 318 5 HOH HOH . J 6 HOH A 6 319 6 HOH HOH . J 6 HOH A 7 320 7 HOH HOH . J 6 HOH A 8 321 8 HOH HOH . J 6 HOH A 9 322 9 HOH HOH . J 6 HOH A 10 323 10 HOH HOH . J 6 HOH A 11 324 11 HOH HOH . J 6 HOH A 12 325 12 HOH HOH . J 6 HOH A 13 326 13 HOH HOH . J 6 HOH A 14 327 14 HOH HOH . J 6 HOH A 15 328 15 HOH HOH . J 6 HOH A 16 329 16 HOH HOH . J 6 HOH A 17 330 17 HOH HOH . J 6 HOH A 18 331 18 HOH HOH . J 6 HOH A 19 332 19 HOH HOH . J 6 HOH A 20 333 20 HOH HOH . J 6 HOH A 21 334 21 HOH HOH . J 6 HOH A 22 335 22 HOH HOH . J 6 HOH A 23 336 23 HOH HOH . J 6 HOH A 24 337 24 HOH HOH . J 6 HOH A 25 338 26 HOH HOH . J 6 HOH A 26 339 27 HOH HOH . J 6 HOH A 27 340 28 HOH HOH . J 6 HOH A 28 341 29 HOH HOH . J 6 HOH A 29 342 30 HOH HOH . J 6 HOH A 30 343 31 HOH HOH . J 6 HOH A 31 344 32 HOH HOH . J 6 HOH A 32 345 33 HOH HOH . J 6 HOH A 33 346 34 HOH HOH . J 6 HOH A 34 347 35 HOH HOH . J 6 HOH A 35 348 36 HOH HOH . J 6 HOH A 36 349 37 HOH HOH . J 6 HOH A 37 350 38 HOH HOH . J 6 HOH A 38 351 39 HOH HOH . J 6 HOH A 39 352 40 HOH HOH . J 6 HOH A 40 353 41 HOH HOH . J 6 HOH A 41 354 42 HOH HOH . J 6 HOH A 42 355 43 HOH HOH . J 6 HOH A 43 356 44 HOH HOH . J 6 HOH A 44 357 45 HOH HOH . J 6 HOH A 45 358 46 HOH HOH . J 6 HOH A 46 359 47 HOH HOH . J 6 HOH A 47 360 48 HOH HOH . J 6 HOH A 48 361 49 HOH HOH . J 6 HOH A 49 362 50 HOH HOH . J 6 HOH A 50 363 51 HOH HOH . J 6 HOH A 51 364 53 HOH HOH . J 6 HOH A 52 365 55 HOH HOH . J 6 HOH A 53 366 56 HOH HOH . J 6 HOH A 54 367 57 HOH HOH . J 6 HOH A 55 368 58 HOH HOH . J 6 HOH A 56 369 59 HOH HOH . J 6 HOH A 57 370 60 HOH HOH . J 6 HOH A 58 371 61 HOH HOH . J 6 HOH A 59 372 62 HOH HOH . J 6 HOH A 60 373 63 HOH HOH . J 6 HOH A 61 374 64 HOH HOH . J 6 HOH A 62 375 65 HOH HOH . J 6 HOH A 63 376 66 HOH HOH . J 6 HOH A 64 377 67 HOH HOH . J 6 HOH A 65 378 68 HOH HOH . J 6 HOH A 66 379 69 HOH HOH . J 6 HOH A 67 380 70 HOH HOH . J 6 HOH A 68 381 71 HOH HOH . J 6 HOH A 69 382 72 HOH HOH . J 6 HOH A 70 383 73 HOH HOH . J 6 HOH A 71 384 74 HOH HOH . J 6 HOH A 72 385 75 HOH HOH . J 6 HOH A 73 386 76 HOH HOH . J 6 HOH A 74 387 77 HOH HOH . J 6 HOH A 75 388 78 HOH HOH . J 6 HOH A 76 389 79 HOH HOH . J 6 HOH A 77 390 80 HOH HOH . J 6 HOH A 78 391 82 HOH HOH . J 6 HOH A 79 392 83 HOH HOH . J 6 HOH A 80 393 84 HOH HOH . J 6 HOH A 81 394 85 HOH HOH . J 6 HOH A 82 395 86 HOH HOH . J 6 HOH A 83 396 87 HOH HOH . J 6 HOH A 84 397 88 HOH HOH . J 6 HOH A 85 398 89 HOH HOH . J 6 HOH A 86 399 90 HOH HOH . J 6 HOH A 87 401 91 HOH HOH . J 6 HOH A 88 402 92 HOH HOH . J 6 HOH A 89 403 93 HOH HOH . J 6 HOH A 90 404 94 HOH HOH . J 6 HOH A 91 405 95 HOH HOH . J 6 HOH A 92 406 96 HOH HOH . J 6 HOH A 93 407 97 HOH HOH . J 6 HOH A 94 408 98 HOH HOH . J 6 HOH A 95 409 99 HOH HOH . J 6 HOH A 96 410 100 HOH HOH . J 6 HOH A 97 411 101 HOH HOH . J 6 HOH A 98 412 102 HOH HOH . J 6 HOH A 99 413 103 HOH HOH . J 6 HOH A 100 414 104 HOH HOH . J 6 HOH A 101 415 105 HOH HOH . J 6 HOH A 102 416 106 HOH HOH . J 6 HOH A 103 417 107 HOH HOH . J 6 HOH A 104 418 108 HOH HOH . J 6 HOH A 105 419 109 HOH HOH . J 6 HOH A 106 420 110 HOH HOH . J 6 HOH A 107 421 111 HOH HOH . J 6 HOH A 108 422 112 HOH HOH . J 6 HOH A 109 423 115 HOH HOH . J 6 HOH A 110 424 116 HOH HOH . J 6 HOH A 111 425 118 HOH HOH . J 6 HOH A 112 426 119 HOH HOH . J 6 HOH A 113 427 120 HOH HOH . J 6 HOH A 114 428 121 HOH HOH . J 6 HOH A 115 429 123 HOH HOH . J 6 HOH A 116 430 124 HOH HOH . J 6 HOH A 117 431 126 HOH HOH . J 6 HOH A 118 432 127 HOH HOH . J 6 HOH A 119 433 128 HOH HOH . J 6 HOH A 120 434 129 HOH HOH . J 6 HOH A 121 435 130 HOH HOH . J 6 HOH A 122 436 131 HOH HOH . J 6 HOH A 123 437 132 HOH HOH . J 6 HOH A 124 438 133 HOH HOH . J 6 HOH A 125 439 134 HOH HOH . J 6 HOH A 126 440 135 HOH HOH . J 6 HOH A 127 441 136 HOH HOH . J 6 HOH A 128 442 137 HOH HOH . J 6 HOH A 129 443 138 HOH HOH . J 6 HOH A 130 444 139 HOH HOH . J 6 HOH A 131 445 140 HOH HOH . J 6 HOH A 132 446 141 HOH HOH . J 6 HOH A 133 447 142 HOH HOH . J 6 HOH A 134 448 143 HOH HOH . J 6 HOH A 135 449 144 HOH HOH . J 6 HOH A 136 450 145 HOH HOH . J 6 HOH A 137 451 146 HOH HOH . J 6 HOH A 138 452 147 HOH HOH . J 6 HOH A 139 453 148 HOH HOH . J 6 HOH A 140 454 149 HOH HOH . J 6 HOH A 141 455 150 HOH HOH . J 6 HOH A 142 456 151 HOH HOH . J 6 HOH A 143 457 152 HOH HOH . J 6 HOH A 144 458 153 HOH HOH . J 6 HOH A 145 459 154 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 N SAM . . . B 2 32.924 13.626 5.715 1 31.5 ? N SAM 400 A 1 HETATM 2 C CA SAM . . . B 2 32.492 14.881 5.086 1 32.54 ? CA SAM 400 A 1 HETATM 3 C C SAM . . . B 2 33.13 15.092 3.716 1 33.79 ? C SAM 400 A 1 HETATM 4 O O SAM . . . B 2 33.829 14.202 3.223 1 36.23 ? O SAM 400 A 1 HETATM 5 O OXT SAM . . . B 2 32.961 16.134 3.069 1 32.37 ? OXT SAM 400 A 1 HETATM 6 C CB SAM . . . B 2 32.785 16.087 5.969 1 31.61 ? CB SAM 400 A 1 HETATM 7 C CG SAM . . . B 2 32.306 15.955 7.41 1 31.44 ? CG SAM 400 A 1 HETATM 8 S SD SAM . . . B 2 32.523 17.485 8.366 1 28.95 ? SD SAM 400 A 1 HETATM 9 C CE SAM . . . B 2 33.911 16.98 9.432 1 31.12 ? CE SAM 400 A 1 HETATM 10 C C5' SAM . . . B 2 31.244 17.29 9.628 1 28.21 ? C5' SAM 400 A 1 HETATM 11 C C4' SAM . . . B 2 29.879 17.634 9.06 1 29.71 ? C4' SAM 400 A 1 HETATM 12 O O4' SAM . . . B 2 28.919 17.026 9.884 1 29.81 ? O4' SAM 400 A 1 HETATM 13 C C3' SAM . . . B 2 29.61 19.135 9.031 1 27.74 ? C3' SAM 400 A 1 HETATM 14 O O3' SAM . . . B 2 29.05 19.446 7.77 1 27.18 ? O3' SAM 400 A 1 HETATM 15 C C2' SAM . . . B 2 28.609 19.353 10.166 1 27.76 ? C2' SAM 400 A 1 HETATM 16 O O2' SAM . . . B 2 27.624 20.327 9.881 1 26.45 ? O2' SAM 400 A 1 HETATM 17 C C1' SAM . . . B 2 27.971 17.969 10.297 1 29.25 ? C1' SAM 400 A 1 HETATM 18 N N9 SAM . . . B 2 27.603 17.637 11.664 1 28.87 ? N9 SAM 400 A 1 HETATM 19 C C8 SAM . . . B 2 28.42 17.669 12.771 1 26.09 ? C8 SAM 400 A 1 HETATM 20 N N7 SAM . . . B 2 27.7 17.286 13.84 1 24.58 ? N7 SAM 400 A 1 HETATM 21 C C5 SAM . . . B 2 26.44 17.009 13.424 1 26.37 ? C5 SAM 400 A 1 HETATM 22 C C6 SAM . . . B 2 25.311 16.577 14.1 1 27.98 ? C6 SAM 400 A 1 HETATM 23 N N6 SAM . . . B 2 25.349 16.364 15.41 1 24.66 ? N6 SAM 400 A 1 HETATM 24 N N1 SAM . . . B 2 24.149 16.38 13.384 1 31.66 ? N1 SAM 400 A 1 HETATM 25 C C2 SAM . . . B 2 24.1 16.602 12.015 1 30.2 ? C2 SAM 400 A 1 HETATM 26 N N3 SAM . . . B 2 25.215 17.031 11.348 1 29.17 ? N3 SAM 400 A 1 HETATM 27 C C4 SAM . . . B 2 26.362 17.224 12.049 1 30.2 ? C4 SAM 400 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 304 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 27 #