data_5GWX # _model_server_result.job_id p5EtyinuqRk92XyyR1At9g _model_server_result.datetime_utc '2024-12-01 20:55:18' _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 5gwx # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":301}' # _entry.id 5GWX # _exptl.entry_id 5GWX _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 5GWX _cell.length_a 51.733 _cell.length_b 120.71 _cell.length_c 130.922 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5GWX _symmetry.cell_setting ? _symmetry.Int_Tables_number 23 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'I 2 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H _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 '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 286 n n N HN1 SAM sing 287 n n N HN2 SAM sing 288 n n CA C SAM sing 289 n n CA CB SAM sing 290 n n CA HA SAM sing 291 n n C O SAM doub 292 n n C OXT SAM sing 293 n n CB CG SAM sing 294 n n CB HB1 SAM sing 295 n n CB HB2 SAM sing 296 n n CG SD SAM sing 297 n n CG HG1 SAM sing 298 n n CG HG2 SAM sing 299 n n SD CE SAM sing 300 n n SD C5' SAM sing 301 n n CE HE1 SAM sing 302 n n CE HE2 SAM sing 303 n n CE HE3 SAM sing 304 n n C5' C4' SAM sing 305 n n C5' "H5'1" SAM sing 306 n n C5' "H5'2" SAM sing 307 n n C4' O4' SAM sing 308 n n C4' C3' SAM sing 309 n n C4' H4' SAM sing 310 n n O4' C1' SAM sing 311 n n C3' O3' SAM sing 312 n n C3' C2' SAM sing 313 n n C3' H3' SAM sing 314 n n O3' HO3' SAM sing 315 n n C2' O2' SAM sing 316 n n C2' C1' SAM sing 317 n n C2' H2' SAM sing 318 n n O2' HO2' SAM sing 319 n n C1' N9 SAM sing 320 n n C1' H1' SAM sing 321 n n N9 C8 SAM sing 322 n y N9 C4 SAM sing 323 n y C8 N7 SAM doub 324 n y C8 H8 SAM sing 325 n n N7 C5 SAM sing 326 n y C5 C6 SAM sing 327 n y C5 C4 SAM doub 328 n y C6 N6 SAM sing 329 n n C6 N1 SAM doub 330 n y N6 HN61 SAM sing 331 n n N6 HN62 SAM sing 332 n n N1 C2 SAM sing 333 n y C2 N3 SAM doub 334 n y C2 H2 SAM sing 335 n n N3 C4 SAM sing 336 n y # _atom_sites.entry_id 5GWX _atom_sites.fract_transf_matrix[1][1] 0.01933 _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] 0.008284 _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] 0.007638 _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 1 301 1 SAM SAM . C 3 SAR A 1 302 1 SAR SAR . D 4 EDO A 1 303 1 EDO EDO . E 4 EDO A 1 304 2 EDO EDO . F 4 EDO A 1 305 3 EDO EDO . G 4 EDO A 1 306 4 EDO EDO . H 5 HOH A 1 401 8 HOH HOH . H 5 HOH A 2 402 44 HOH HOH . H 5 HOH A 3 403 39 HOH HOH . H 5 HOH A 4 404 72 HOH HOH . H 5 HOH A 5 405 66 HOH HOH . H 5 HOH A 6 406 55 HOH HOH . H 5 HOH A 7 407 22 HOH HOH . H 5 HOH A 8 408 37 HOH HOH . H 5 HOH A 9 409 9 HOH HOH . H 5 HOH A 10 410 30 HOH HOH . H 5 HOH A 11 411 23 HOH HOH . H 5 HOH A 12 412 2 HOH HOH . H 5 HOH A 13 413 19 HOH HOH . H 5 HOH A 14 414 20 HOH HOH . H 5 HOH A 15 415 89 HOH HOH . H 5 HOH A 16 416 25 HOH HOH . H 5 HOH A 17 417 6 HOH HOH . H 5 HOH A 18 418 69 HOH HOH . H 5 HOH A 19 419 12 HOH HOH . H 5 HOH A 20 420 14 HOH HOH . H 5 HOH A 21 421 50 HOH HOH . H 5 HOH A 22 422 86 HOH HOH . H 5 HOH A 23 423 42 HOH HOH . H 5 HOH A 24 424 45 HOH HOH . H 5 HOH A 25 425 13 HOH HOH . H 5 HOH A 26 426 15 HOH HOH . H 5 HOH A 27 427 4 HOH HOH . H 5 HOH A 28 428 11 HOH HOH . H 5 HOH A 29 429 18 HOH HOH . H 5 HOH A 30 430 5 HOH HOH . H 5 HOH A 31 431 38 HOH HOH . H 5 HOH A 32 432 54 HOH HOH . H 5 HOH A 33 433 41 HOH HOH . H 5 HOH A 34 434 1 HOH HOH . H 5 HOH A 35 435 33 HOH HOH . H 5 HOH A 36 436 28 HOH HOH . H 5 HOH A 37 437 24 HOH HOH . H 5 HOH A 38 438 78 HOH HOH . H 5 HOH A 39 439 3 HOH HOH . H 5 HOH A 40 440 40 HOH HOH . H 5 HOH A 41 441 68 HOH HOH . H 5 HOH A 42 442 76 HOH HOH . H 5 HOH A 43 443 81 HOH HOH . H 5 HOH A 44 444 10 HOH HOH . H 5 HOH A 45 445 7 HOH HOH . H 5 HOH A 46 446 31 HOH HOH . H 5 HOH A 47 447 16 HOH HOH . H 5 HOH A 48 448 26 HOH HOH . H 5 HOH A 49 449 34 HOH HOH . H 5 HOH A 50 450 58 HOH HOH . H 5 HOH A 51 451 67 HOH HOH . H 5 HOH A 52 452 29 HOH HOH . H 5 HOH A 53 453 91 HOH HOH . H 5 HOH A 54 454 60 HOH HOH . H 5 HOH A 55 455 87 HOH HOH . H 5 HOH A 56 456 94 HOH HOH . H 5 HOH A 57 457 51 HOH HOH . H 5 HOH A 58 458 27 HOH HOH . H 5 HOH A 59 459 84 HOH HOH . H 5 HOH A 60 460 43 HOH HOH . H 5 HOH A 61 461 75 HOH HOH . H 5 HOH A 62 462 21 HOH HOH . H 5 HOH A 63 463 36 HOH HOH . H 5 HOH A 64 464 35 HOH HOH . H 5 HOH A 65 465 17 HOH HOH . H 5 HOH A 66 466 56 HOH HOH . H 5 HOH A 67 467 65 HOH HOH . H 5 HOH A 68 468 57 HOH HOH . H 5 HOH A 69 469 46 HOH HOH . H 5 HOH A 70 470 59 HOH HOH . H 5 HOH A 71 471 80 HOH HOH . H 5 HOH A 72 472 70 HOH HOH . H 5 HOH A 73 473 82 HOH HOH . H 5 HOH A 74 474 88 HOH HOH . H 5 HOH A 75 475 83 HOH HOH . H 5 HOH A 76 476 61 HOH HOH . H 5 HOH A 77 477 63 HOH HOH . H 5 HOH A 78 478 92 HOH HOH . H 5 HOH A 79 479 97 HOH HOH . H 5 HOH A 80 480 52 HOH HOH . H 5 HOH A 81 481 53 HOH HOH . H 5 HOH A 82 482 74 HOH HOH . H 5 HOH A 83 483 62 HOH HOH . H 5 HOH A 84 484 85 HOH HOH . H 5 HOH A 85 485 48 HOH HOH . H 5 HOH A 86 486 64 HOH HOH . H 5 HOH A 87 487 73 HOH HOH . H 5 HOH A 88 488 71 HOH HOH . H 5 HOH A 89 489 32 HOH HOH . H 5 HOH A 90 490 77 HOH HOH . H 5 HOH A 91 491 79 HOH HOH . H 5 HOH A 92 492 93 HOH HOH . H 5 HOH A 93 493 90 HOH HOH . H 5 HOH A 94 494 47 HOH HOH . H 5 HOH A 95 495 95 HOH HOH . H 5 HOH A 96 496 96 HOH HOH . H 5 HOH A 97 497 49 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 -5.573 -15.796 -21.831 1 54.22 ? N SAM 301 A 1 HETATM 2 C CA SAM . . . B 2 -5.318 -15.47 -23.264 1 60.21 ? CA SAM 301 A 1 HETATM 3 C C SAM . . . B 2 -6.413 -16.026 -24.17 1 59.35 ? C SAM 301 A 1 HETATM 4 O O SAM . . . B 2 -7.064 -17.017 -23.819 1 59.21 ? O SAM 301 A 1 HETATM 5 O OXT SAM . . . B 2 -6.671 -15.5 -25.263 1 48.59 ? OXT SAM 301 A 1 HETATM 6 C CB SAM . . . B 2 -3.941 -15.979 -23.695 1 73.13 ? CB SAM 301 A 1 HETATM 7 C CG SAM . . . B 2 -3.368 -17.127 -22.87 1 78.4 ? CG SAM 301 A 1 HETATM 8 S SD SAM . . . B 2 -1.814 -17.802 -23.533 1 83.69 ? SD SAM 301 A 1 HETATM 9 C CE SAM . . . B 2 -2.333 -19.528 -23.757 1 83.27 ? CE SAM 301 A 1 HETATM 10 C C5' SAM . . . B 2 -0.795 -17.965 -22.029 1 77.87 ? C5' SAM 301 A 1 HETATM 11 C C4' SAM . . . B 2 -0.038 -16.701 -21.606 1 71.35 ? C4' SAM 301 A 1 HETATM 12 O O4' SAM . . . B 2 0.555 -16.843 -20.32 1 71.69 ? O4' SAM 301 A 1 HETATM 13 C C3' SAM . . . B 2 1.08 -16.368 -22.577 1 66.41 ? C3' SAM 301 A 1 HETATM 14 O O3' SAM . . . B 2 0.811 -15.086 -23.086 1 61.16 ? O3' SAM 301 A 1 HETATM 15 C C2' SAM . . . B 2 2.365 -16.403 -21.753 1 65.26 ? C2' SAM 301 A 1 HETATM 16 O O2' SAM . . . B 2 3.249 -15.345 -22.061 1 51.59 ? O2' SAM 301 A 1 HETATM 17 C C1' SAM . . . B 2 1.877 -16.325 -20.311 1 73.76 ? C1' SAM 301 A 1 HETATM 18 N N9 SAM . . . B 2 2.76 -17.019 -19.332 1 78.48 ? N9 SAM 301 A 1 HETATM 19 C C8 SAM . . . B 2 3.248 -18.307 -19.373 1 77.15 ? C8 SAM 301 A 1 HETATM 20 N N7 SAM . . . B 2 4.008 -18.52 -18.268 1 76.24 ? N7 SAM 301 A 1 HETATM 21 C C5 SAM . . . B 2 4.022 -17.387 -17.515 1 72.51 ? C5 SAM 301 A 1 HETATM 22 C C6 SAM . . . B 2 4.63 -17.042 -16.297 1 61.47 ? C6 SAM 301 A 1 HETATM 23 N N6 SAM . . . B 2 5.392 -17.902 -15.619 1 54.06 ? N6 SAM 301 A 1 HETATM 24 N N1 SAM . . . B 2 4.444 -15.776 -15.781 1 62.07 ? N1 SAM 301 A 1 HETATM 25 C C2 SAM . . . B 2 3.659 -14.861 -16.456 1 62.23 ? C2 SAM 301 A 1 HETATM 26 N N3 SAM . . . B 2 3.058 -15.199 -17.655 1 65.5 ? N3 SAM 301 A 1 HETATM 27 C C4 SAM . . . B 2 3.238 -16.44 -18.177 1 74.39 ? C4 SAM 301 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 24 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 251 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 27 #