data_3AI9 # _model_server_result.job_id WAIRY9W-lhMtYOdzoF1k-g _model_server_result.datetime_utc '2024-11-04 22:15:01' _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 3ai9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":501}' # _entry.id 3AI9 # _exptl.entry_id 3AI9 _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 126.09 _cell.angle_gamma 90 _cell.entry_id 3AI9 _cell.length_a 84.288 _cell.length_b 48.133 _cell.length_c 62.362 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3AI9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # _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 _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' 2_656 -x+1,y,-z+1 -1 0 0 0 1 0 0 0 -1 47.553332 0 50.394277 # _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 # 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 A C HIS 3 X HIS 1 1_555 A N MSE 4 X MSE 1 1_555 D ? ? C ? ? ? ? ? ? ? ? 1.322 ? covale ? covale2 A C MSE 4 X MSE 1 1_555 A N ALA 5 X ALA 1 1_555 C ? ? B ? ? ? ? ? ? ? ? 1.332 ? covale ? covale3 A C SER 6 X SER 1 1_555 A N MSE 7 X MSE 1 1_555 A ? ? ? ? ? ? ? ? ? ? ? 1.32 ? covale ? covale4 A C MSE 7 X MSE 1 1_555 A N ARG 8 X ARG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.326 ? covale ? covale5 A C HIS 143 X HIS 137 1_555 A N MSE 144 X MSE 138 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.317 ? covale ? covale6 A C MSE 144 X MSE 138 1_555 A N ASN 145 X ASN 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.337 ? covale ? covale7 A C CYS 195 X CYS 189 1_555 A N MSE 196 X MSE 190 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? covale ? covale8 A C MSE 196 X MSE 190 1_555 A N THR 197 X THR 191 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.328 ? covale ? covale9 A C THR 197 X THR 191 1_555 A N MSE 198 X MSE 192 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.346 ? covale ? covale10 A C MSE 198 X MSE 192 1_555 A N MSE 199 X MSE 193 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.338 ? covale ? covale11 A C MSE 199 X MSE 193 1_555 A N HIS 200 X HIS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.319 ? # _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 277 n n N HN1 SAM sing 278 n n N HN2 SAM sing 279 n n CA C SAM sing 280 n n CA CB SAM sing 281 n n CA HA SAM sing 282 n n C O SAM doub 283 n n C OXT SAM sing 284 n n CB CG SAM sing 285 n n CB HB1 SAM sing 286 n n CB HB2 SAM sing 287 n n CG SD SAM sing 288 n n CG HG1 SAM sing 289 n n CG HG2 SAM sing 290 n n SD CE SAM sing 291 n n SD C5' SAM sing 292 n n CE HE1 SAM sing 293 n n CE HE2 SAM sing 294 n n CE HE3 SAM sing 295 n n C5' C4' SAM sing 296 n n C5' "H5'1" SAM sing 297 n n C5' "H5'2" SAM sing 298 n n C4' O4' SAM sing 299 n n C4' C3' SAM sing 300 n n C4' H4' SAM sing 301 n n O4' C1' SAM sing 302 n n C3' O3' SAM sing 303 n n C3' C2' SAM sing 304 n n C3' H3' SAM sing 305 n n O3' HO3' SAM sing 306 n n C2' O2' SAM sing 307 n n C2' C1' SAM sing 308 n n C2' H2' SAM sing 309 n n O2' HO2' SAM sing 310 n n C1' N9 SAM sing 311 n n C1' H1' SAM sing 312 n n N9 C8 SAM sing 313 n y N9 C4 SAM sing 314 n y C8 N7 SAM doub 315 n y C8 H8 SAM sing 316 n n N7 C5 SAM sing 317 n y C5 C6 SAM sing 318 n y C5 C4 SAM doub 319 n y C6 N6 SAM sing 320 n n C6 N1 SAM doub 321 n y N6 HN61 SAM sing 322 n n N6 HN62 SAM sing 323 n n N1 C2 SAM sing 324 n y C2 N3 SAM doub 325 n y C2 H2 SAM sing 326 n n N3 C4 SAM sing 327 n y # _atom_sites.entry_id 3AI9 _atom_sites.fract_transf_matrix[1][1] 0.011864 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.008648 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.020776 _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] 0.019844 _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 X 1 501 501 SAM SAM . C 3 MG X 1 502 502 MG MG . D 3 MG X 1 503 503 MG MG . E 4 HOH X 1 301 301 HOH HOH . E 4 HOH X 2 302 302 HOH HOH . E 4 HOH X 3 303 303 HOH HOH . E 4 HOH X 4 304 304 HOH HOH . E 4 HOH X 5 305 305 HOH HOH . E 4 HOH X 6 306 306 HOH HOH . E 4 HOH X 7 307 307 HOH HOH . E 4 HOH X 8 308 308 HOH HOH . E 4 HOH X 9 309 309 HOH HOH . E 4 HOH X 10 310 310 HOH HOH . E 4 HOH X 11 311 311 HOH HOH . E 4 HOH X 12 312 312 HOH HOH . E 4 HOH X 13 313 313 HOH HOH . E 4 HOH X 14 314 314 HOH HOH . E 4 HOH X 15 315 315 HOH HOH . E 4 HOH X 16 316 316 HOH HOH . E 4 HOH X 17 317 317 HOH HOH . E 4 HOH X 18 318 318 HOH HOH . E 4 HOH X 19 319 319 HOH HOH . E 4 HOH X 20 320 320 HOH HOH . E 4 HOH X 21 321 321 HOH HOH . E 4 HOH X 22 322 322 HOH HOH . E 4 HOH X 23 323 323 HOH HOH . E 4 HOH X 24 324 324 HOH HOH . E 4 HOH X 25 325 325 HOH HOH . E 4 HOH X 26 326 326 HOH HOH . E 4 HOH X 27 327 327 HOH HOH . E 4 HOH X 28 328 328 HOH HOH . E 4 HOH X 29 329 329 HOH HOH . E 4 HOH X 30 330 330 HOH HOH . E 4 HOH X 31 331 331 HOH HOH . E 4 HOH X 32 332 332 HOH HOH . E 4 HOH X 33 333 333 HOH HOH . E 4 HOH X 34 334 334 HOH HOH . E 4 HOH X 35 335 335 HOH HOH . E 4 HOH X 36 336 336 HOH HOH . E 4 HOH X 37 337 337 HOH HOH . E 4 HOH X 38 338 338 HOH HOH . E 4 HOH X 39 339 339 HOH HOH . E 4 HOH X 40 340 340 HOH HOH . E 4 HOH X 41 341 341 HOH HOH . E 4 HOH X 42 342 342 HOH HOH . E 4 HOH X 43 343 343 HOH HOH . E 4 HOH X 44 344 344 HOH HOH . E 4 HOH X 45 345 345 HOH HOH . E 4 HOH X 46 346 346 HOH HOH . E 4 HOH X 47 347 347 HOH HOH . E 4 HOH X 48 348 348 HOH HOH . E 4 HOH X 49 349 349 HOH HOH . E 4 HOH X 50 350 350 HOH HOH . E 4 HOH X 51 351 351 HOH HOH . E 4 HOH X 52 352 352 HOH HOH . E 4 HOH X 53 353 353 HOH HOH . E 4 HOH X 54 354 354 HOH HOH . E 4 HOH X 55 355 355 HOH HOH . E 4 HOH X 56 356 356 HOH HOH . E 4 HOH X 57 357 357 HOH HOH . E 4 HOH X 58 358 358 HOH HOH . E 4 HOH X 59 359 359 HOH HOH . E 4 HOH X 60 360 360 HOH HOH . E 4 HOH X 61 361 361 HOH HOH . E 4 HOH X 62 362 362 HOH HOH . E 4 HOH X 63 363 363 HOH HOH . E 4 HOH X 64 364 364 HOH HOH . E 4 HOH X 65 365 365 HOH HOH . E 4 HOH X 66 366 366 HOH HOH . E 4 HOH X 67 367 367 HOH HOH . E 4 HOH X 68 368 368 HOH HOH . E 4 HOH X 69 369 369 HOH HOH . E 4 HOH X 70 370 370 HOH HOH . E 4 HOH X 71 371 371 HOH HOH . E 4 HOH X 72 372 372 HOH HOH . E 4 HOH X 73 373 373 HOH HOH . E 4 HOH X 74 374 374 HOH HOH . E 4 HOH X 75 375 375 HOH HOH . E 4 HOH X 76 376 376 HOH HOH . E 4 HOH X 77 377 377 HOH HOH . E 4 HOH X 78 378 378 HOH HOH . E 4 HOH X 79 379 379 HOH HOH . E 4 HOH X 80 380 380 HOH HOH . E 4 HOH X 81 381 381 HOH HOH . E 4 HOH X 82 382 382 HOH HOH . E 4 HOH X 83 383 383 HOH HOH . E 4 HOH X 84 384 384 HOH HOH . E 4 HOH X 85 385 385 HOH HOH . E 4 HOH X 86 386 386 HOH HOH . E 4 HOH X 87 387 387 HOH HOH . E 4 HOH X 88 388 388 HOH HOH . E 4 HOH X 89 389 389 HOH HOH . E 4 HOH X 90 390 390 HOH HOH . E 4 HOH X 91 391 391 HOH HOH . E 4 HOH X 92 392 392 HOH HOH . E 4 HOH X 93 393 393 HOH HOH . E 4 HOH X 94 394 394 HOH HOH . E 4 HOH X 95 395 395 HOH HOH . E 4 HOH X 96 396 396 HOH HOH . E 4 HOH X 97 397 397 HOH HOH . E 4 HOH X 98 398 398 HOH HOH . E 4 HOH X 99 399 399 HOH HOH . E 4 HOH X 100 400 400 HOH HOH . E 4 HOH X 101 401 401 HOH HOH . E 4 HOH X 102 402 402 HOH HOH . E 4 HOH X 103 403 403 HOH HOH . E 4 HOH X 104 404 404 HOH HOH . E 4 HOH X 105 405 405 HOH HOH . E 4 HOH X 106 406 406 HOH HOH . E 4 HOH X 107 407 407 HOH HOH . E 4 HOH X 108 408 408 HOH HOH . E 4 HOH X 109 409 409 HOH HOH . E 4 HOH X 110 410 410 HOH HOH . E 4 HOH X 111 411 411 HOH HOH . E 4 HOH X 112 412 412 HOH HOH . E 4 HOH X 113 413 413 HOH HOH . E 4 HOH X 114 414 414 HOH HOH . E 4 HOH X 115 415 415 HOH HOH . E 4 HOH X 116 416 416 HOH HOH . E 4 HOH X 117 417 417 HOH HOH . E 4 HOH X 118 418 418 HOH HOH . E 4 HOH X 119 419 419 HOH HOH . E 4 HOH X 120 420 420 HOH HOH . E 4 HOH X 121 421 421 HOH HOH . E 4 HOH X 122 422 422 HOH HOH . E 4 HOH X 123 423 423 HOH HOH . E 4 HOH X 124 424 424 HOH HOH . E 4 HOH X 125 425 425 HOH HOH . E 4 HOH X 126 426 426 HOH HOH . E 4 HOH X 127 427 427 HOH HOH . E 4 HOH X 128 428 428 HOH HOH . E 4 HOH X 129 429 429 HOH HOH . E 4 HOH X 130 430 430 HOH HOH . E 4 HOH X 131 431 431 HOH HOH . E 4 HOH X 132 432 432 HOH HOH . E 4 HOH X 133 433 433 HOH HOH . E 4 HOH X 134 434 434 HOH HOH . E 4 HOH X 135 435 435 HOH HOH . E 4 HOH X 136 436 436 HOH HOH . E 4 HOH X 137 437 437 HOH HOH . E 4 HOH X 138 438 438 HOH HOH . E 4 HOH X 139 439 439 HOH HOH . E 4 HOH X 140 440 440 HOH HOH . E 4 HOH X 141 441 441 HOH HOH . E 4 HOH X 142 442 442 HOH HOH . E 4 HOH X 143 443 443 HOH HOH . E 4 HOH X 144 444 444 HOH HOH . E 4 HOH X 145 445 445 HOH HOH . E 4 HOH X 146 446 446 HOH HOH . E 4 HOH X 147 447 447 HOH HOH . E 4 HOH X 148 448 448 HOH HOH . E 4 HOH X 149 449 449 HOH HOH . E 4 HOH X 150 450 450 HOH HOH . E 4 HOH X 151 451 451 HOH HOH . E 4 HOH X 152 452 452 HOH HOH . E 4 HOH X 153 453 453 HOH HOH . E 4 HOH X 154 454 454 HOH HOH . E 4 HOH X 155 455 455 HOH HOH . E 4 HOH X 156 456 456 HOH HOH . E 4 HOH X 157 457 457 HOH HOH . E 4 HOH X 158 458 458 HOH HOH . E 4 HOH X 159 459 459 HOH HOH . E 4 HOH X 160 460 460 HOH HOH . E 4 HOH X 161 461 461 HOH HOH . E 4 HOH X 162 462 462 HOH HOH . E 4 HOH X 163 463 463 HOH HOH . E 4 HOH X 164 464 464 HOH HOH . E 4 HOH X 165 465 465 HOH HOH . E 4 HOH X 166 466 466 HOH HOH . E 4 HOH X 167 467 467 HOH HOH . E 4 HOH X 168 468 468 HOH HOH . E 4 HOH X 169 469 469 HOH HOH . E 4 HOH X 170 470 470 HOH HOH . E 4 HOH X 171 471 471 HOH HOH . E 4 HOH X 172 472 472 HOH HOH . E 4 HOH X 173 473 473 HOH HOH . E 4 HOH X 174 474 474 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 CG SAM . . . B 2 37.103 45.896 23.885 1 65.79 ? CG SAM 501 X 1 HETATM 2 S SD SAM . . . B 2 36.78 47.498 23.102 1 64.64 ? SD SAM 501 X 1 HETATM 3 C C5' SAM . . . B 2 35.807 46.945 21.661 1 62.07 ? C5' SAM 501 X 1 HETATM 4 C C4' SAM . . . B 2 35.62 47.983 20.545 1 58.77 ? C4' SAM 501 X 1 HETATM 5 O O4' SAM . . . B 2 34.544 48.864 20.845 1 56.1 ? O4' SAM 501 X 1 HETATM 6 C C3' SAM . . . B 2 36.848 48.878 20.293 1 58.97 ? C3' SAM 501 X 1 HETATM 7 O O3' SAM . . . B 2 37.832 48.358 19.411 1 58.79 ? O3' SAM 501 X 1 HETATM 8 C C2' SAM . . . B 2 36.222 50.158 19.765 1 57.43 ? C2' SAM 501 X 1 HETATM 9 O O2' SAM . . . B 2 36.051 50.08 18.357 1 56.92 ? O2' SAM 501 X 1 HETATM 10 C C1' SAM . . . B 2 34.863 50.199 20.459 1 54.54 ? C1' SAM 501 X 1 HETATM 11 N N9 SAM . . . B 2 34.871 51.104 21.642 1 53.5 ? N9 SAM 501 X 1 HETATM 12 C C8 SAM . . . B 2 35.155 50.749 22.942 1 53.15 ? C8 SAM 501 X 1 HETATM 13 N N7 SAM . . . B 2 35.027 51.845 23.733 1 53.48 ? N7 SAM 501 X 1 HETATM 14 C C5 SAM . . . B 2 34.667 52.903 22.968 1 53.25 ? C5 SAM 501 X 1 HETATM 15 C C6 SAM . . . B 2 34.411 54.243 23.26 1 53.29 ? C6 SAM 501 X 1 HETATM 16 N N6 SAM . . . B 2 34.521 54.674 24.51 1 52.94 ? N6 SAM 501 X 1 HETATM 17 N N1 SAM . . . B 2 34.034 55.123 22.262 1 52.13 ? N1 SAM 501 X 1 HETATM 18 C C2 SAM . . . B 2 33.929 54.666 20.976 1 52.4 ? C2 SAM 501 X 1 HETATM 19 N N3 SAM . . . B 2 34.194 53.338 20.689 1 52.23 ? N3 SAM 501 X 1 HETATM 20 C C4 SAM . . . B 2 34.559 52.457 21.657 1 53.24 ? C4 SAM 501 X 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 13 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 308 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 20 #