data_1RX3 # _model_server_result.job_id o4gfwHiS7YMbkOZ7hOBFUQ _model_server_result.datetime_utc '2024-11-14 23:38:39' _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 1rx3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":161}' # _entry.id 1RX3 # _exptl.entry_id 1RX3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 454.439 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description METHOTREXATE _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 1RX3 _cell.length_a 34.36 _cell.length_b 45.511 _cell.length_c 98.691 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RX3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 21' # _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 _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 3 _struct_asym.id C _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 SG CYS 152 A CYS 152 1_555 D S2 BME . A BME 162 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.94 ? metalc ? metalc1 A O ASP 116 A ASP 116 1_455 B MN MN . A MN 300 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.537 ? metalc ? metalc2 A ND1 HIS 149 A HIS 149 1_455 B MN MN . A MN 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.183 ? metalc ? metalc3 A O ARG 159 A ARG 159 1_555 B MN MN . A MN 300 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.978 ? metalc ? metalc4 B MN MN . A MN 300 1_555 F O HOH . A HOH 383 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.182 ? metalc ? metalc5 B MN MN . A MN 300 1_555 F O HOH . A HOH 425 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.402 ? # _chem_comp.formula 'C20 H22 N8 O5' _chem_comp.formula_weight 454.439 _chem_comp.id MTX _chem_comp.mon_nstd_flag . _chem_comp.name METHOTREXATE _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 MTX doub 246 n y N1 C8A MTX sing 247 n y C2 NA2 MTX sing 248 n n C2 N3 MTX sing 249 n y NA2 HN21 MTX sing 250 n n NA2 HN22 MTX sing 251 n n N3 C4 MTX doub 252 n y C4 NA4 MTX sing 253 n n C4 C4A MTX sing 254 n y NA4 HN41 MTX sing 255 n n NA4 HN42 MTX sing 256 n n C4A N5 MTX sing 257 n y C4A C8A MTX doub 258 n y N5 C6 MTX doub 259 n y C6 C7 MTX sing 260 n y C6 C9 MTX sing 261 n n C7 N8 MTX doub 262 n y C7 H7 MTX sing 263 n n N8 C8A MTX sing 264 n y C9 N10 MTX sing 265 n n C9 H91 MTX sing 266 n n C9 H92 MTX sing 267 n n N10 CM MTX sing 268 n n N10 C14 MTX sing 269 n n CM HM1 MTX sing 270 n n CM HM2 MTX sing 271 n n CM HM3 MTX sing 272 n n C11 C12 MTX doub 273 n y C11 C16 MTX sing 274 n y C11 C MTX sing 275 n n C12 C13 MTX sing 276 n y C12 H12 MTX sing 277 n n C13 C14 MTX doub 278 n y C13 H13 MTX sing 279 n n C14 C15 MTX sing 280 n y C15 C16 MTX doub 281 n y C15 H15 MTX sing 282 n n C16 H16 MTX sing 283 n n C O MTX doub 284 n n C N MTX sing 285 n n N CA MTX sing 286 n n N HN MTX sing 287 n n CA CT MTX sing 288 n n CA CB MTX sing 289 n n CA HA MTX sing 290 n n CT O1 MTX doub 291 n n CT O2 MTX sing 292 n n O2 HO2 MTX sing 293 n n CB CG MTX sing 294 n n CB HB1 MTX sing 295 n n CB HB2 MTX sing 296 n n CG CD MTX sing 297 n n CG HG1 MTX sing 298 n n CG HG2 MTX sing 299 n n CD OE1 MTX doub 300 n n CD OE2 MTX sing 301 n n OE2 HOE2 MTX sing 302 n n # _atom_sites.entry_id 1RX3 _atom_sites.fract_transf_matrix[1][1] 0.029104 _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] 0.021973 _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] 0.010133 _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 MN A 1 300 300 MN MN . C 3 MTX A 1 161 161 MTX MTX . D 4 BME A 1 162 162 BME BME . E 5 NAP A 1 164 164 NAP NAP . F 6 HOH A 1 301 301 HOH HOH . F 6 HOH A 2 302 302 HOH HOH . F 6 HOH A 3 304 304 HOH HOH . F 6 HOH A 4 307 307 HOH HOH . F 6 HOH A 5 309 309 HOH HOH . F 6 HOH A 6 311 311 HOH HOH . F 6 HOH A 7 312 312 HOH HOH . F 6 HOH A 8 314 314 HOH HOH . F 6 HOH A 9 315 315 HOH HOH . F 6 HOH A 10 318 318 HOH HOH . F 6 HOH A 11 319 319 HOH HOH . F 6 HOH A 12 320 320 HOH HOH . F 6 HOH A 13 321 321 HOH HOH . F 6 HOH A 14 322 322 HOH HOH . F 6 HOH A 15 323 323 HOH HOH . F 6 HOH A 16 324 324 HOH HOH . F 6 HOH A 17 326 326 HOH HOH . F 6 HOH A 18 327 327 HOH HOH . F 6 HOH A 19 328 328 HOH HOH . F 6 HOH A 20 329 329 HOH HOH . F 6 HOH A 21 330 330 HOH HOH . F 6 HOH A 22 331 331 HOH HOH . F 6 HOH A 23 332 332 HOH HOH . F 6 HOH A 24 333 333 HOH HOH . F 6 HOH A 25 335 335 HOH HOH . F 6 HOH A 26 336 336 HOH HOH . F 6 HOH A 27 337 337 HOH HOH . F 6 HOH A 28 338 338 HOH HOH . F 6 HOH A 29 339 339 HOH HOH . F 6 HOH A 30 341 341 HOH HOH . F 6 HOH A 31 342 342 HOH HOH . F 6 HOH A 32 343 343 HOH HOH . F 6 HOH A 33 344 344 HOH HOH . F 6 HOH A 34 345 345 HOH HOH . F 6 HOH A 35 346 346 HOH HOH . F 6 HOH A 36 347 347 HOH HOH . F 6 HOH A 37 348 348 HOH HOH . F 6 HOH A 38 349 349 HOH HOH . F 6 HOH A 39 350 350 HOH HOH . F 6 HOH A 40 351 351 HOH HOH . F 6 HOH A 41 352 352 HOH HOH . F 6 HOH A 42 354 354 HOH HOH . F 6 HOH A 43 355 355 HOH HOH . F 6 HOH A 44 356 356 HOH HOH . F 6 HOH A 45 358 358 HOH HOH . F 6 HOH A 46 359 359 HOH HOH . F 6 HOH A 47 360 360 HOH HOH . F 6 HOH A 48 361 361 HOH HOH . F 6 HOH A 49 362 362 HOH HOH . F 6 HOH A 50 363 363 HOH HOH . F 6 HOH A 51 366 366 HOH HOH . F 6 HOH A 52 367 367 HOH HOH . F 6 HOH A 53 368 368 HOH HOH . F 6 HOH A 54 369 369 HOH HOH . F 6 HOH A 55 371 371 HOH HOH . F 6 HOH A 56 372 372 HOH HOH . F 6 HOH A 57 373 373 HOH HOH . F 6 HOH A 58 374 374 HOH HOH . F 6 HOH A 59 375 375 HOH HOH . F 6 HOH A 60 376 376 HOH HOH . F 6 HOH A 61 377 377 HOH HOH . F 6 HOH A 62 378 378 HOH HOH . F 6 HOH A 63 379 379 HOH HOH . F 6 HOH A 64 380 380 HOH HOH . F 6 HOH A 65 381 381 HOH HOH . F 6 HOH A 66 382 382 HOH HOH . F 6 HOH A 67 383 383 HOH HOH . F 6 HOH A 68 384 384 HOH HOH . F 6 HOH A 69 385 385 HOH HOH . F 6 HOH A 70 386 386 HOH HOH . F 6 HOH A 71 387 387 HOH HOH . F 6 HOH A 72 388 388 HOH HOH . F 6 HOH A 73 389 389 HOH HOH . F 6 HOH A 74 390 390 HOH HOH . F 6 HOH A 75 391 391 HOH HOH . F 6 HOH A 76 392 392 HOH HOH . F 6 HOH A 77 393 393 HOH HOH . F 6 HOH A 78 394 394 HOH HOH . F 6 HOH A 79 395 395 HOH HOH . F 6 HOH A 80 396 396 HOH HOH . F 6 HOH A 81 397 397 HOH HOH . F 6 HOH A 82 398 398 HOH HOH . F 6 HOH A 83 399 399 HOH HOH . F 6 HOH A 84 400 400 HOH HOH . F 6 HOH A 85 401 401 HOH HOH . F 6 HOH A 86 402 402 HOH HOH . F 6 HOH A 87 403 403 HOH HOH . F 6 HOH A 88 404 404 HOH HOH . F 6 HOH A 89 405 405 HOH HOH . F 6 HOH A 90 406 406 HOH HOH . F 6 HOH A 91 407 407 HOH HOH . F 6 HOH A 92 408 408 HOH HOH . F 6 HOH A 93 409 409 HOH HOH . F 6 HOH A 94 410 410 HOH HOH . F 6 HOH A 95 411 411 HOH HOH . F 6 HOH A 96 412 412 HOH HOH . F 6 HOH A 97 413 413 HOH HOH . F 6 HOH A 98 414 414 HOH HOH . F 6 HOH A 99 415 415 HOH HOH . F 6 HOH A 100 416 416 HOH HOH . F 6 HOH A 101 417 417 HOH HOH . F 6 HOH A 102 418 418 HOH HOH . F 6 HOH A 103 419 419 HOH HOH . F 6 HOH A 104 420 420 HOH HOH . F 6 HOH A 105 421 421 HOH HOH . F 6 HOH A 106 423 423 HOH HOH . F 6 HOH A 107 424 424 HOH HOH . F 6 HOH A 108 425 425 HOH HOH . F 6 HOH A 109 426 426 HOH HOH . F 6 HOH A 110 427 427 HOH HOH . F 6 HOH A 111 428 428 HOH HOH . F 6 HOH A 112 429 429 HOH HOH . F 6 HOH A 113 430 430 HOH HOH . F 6 HOH A 114 431 431 HOH HOH . F 6 HOH A 115 432 432 HOH HOH . F 6 HOH A 116 433 433 HOH HOH . F 6 HOH A 117 434 434 HOH HOH . F 6 HOH A 118 435 435 HOH HOH . F 6 HOH A 119 436 436 HOH HOH . F 6 HOH A 120 437 437 HOH HOH . F 6 HOH A 121 438 438 HOH HOH . F 6 HOH A 122 439 439 HOH HOH . F 6 HOH A 123 440 440 HOH HOH . F 6 HOH A 124 441 441 HOH HOH . F 6 HOH A 125 442 442 HOH HOH . F 6 HOH A 126 443 443 HOH HOH . F 6 HOH A 127 444 444 HOH HOH . F 6 HOH A 128 445 445 HOH HOH . F 6 HOH A 129 446 446 HOH HOH . F 6 HOH A 130 447 447 HOH HOH . F 6 HOH A 131 448 448 HOH HOH . F 6 HOH A 132 449 449 HOH HOH . F 6 HOH A 133 450 450 HOH HOH . F 6 HOH A 134 451 451 HOH HOH . F 6 HOH A 135 452 452 HOH HOH . F 6 HOH A 136 453 453 HOH HOH . F 6 HOH A 137 454 454 HOH HOH . F 6 HOH A 138 455 455 HOH HOH . F 6 HOH A 139 456 456 HOH HOH . F 6 HOH A 140 457 457 HOH HOH . F 6 HOH A 141 458 458 HOH HOH . F 6 HOH A 142 459 459 HOH HOH . F 6 HOH A 143 460 460 HOH HOH . F 6 HOH A 144 461 461 HOH HOH . F 6 HOH A 145 462 462 HOH HOH . F 6 HOH A 146 463 463 HOH HOH . F 6 HOH A 147 464 464 HOH HOH . F 6 HOH A 148 465 465 HOH HOH . F 6 HOH A 149 466 466 HOH HOH . F 6 HOH A 150 467 467 HOH HOH . F 6 HOH A 151 468 468 HOH HOH . F 6 HOH A 152 469 469 HOH HOH . F 6 HOH A 153 470 470 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 MTX . . . C 3 32.399 40.535 11.719 1 13.96 ? N1 MTX 161 A 1 HETATM 2 C C2 MTX . . . C 3 31.177 40.223 12.212 1 2.93 ? C2 MTX 161 A 1 HETATM 3 N NA2 MTX . . . C 3 30.82 39.046 12.546 1 9.59 ? NA2 MTX 161 A 1 HETATM 4 N N3 MTX . . . C 3 30.177 41.283 12.398 1 1 ? N3 MTX 161 A 1 HETATM 5 C C4 MTX . . . C 3 30.386 42.564 12.115 1 3.15 ? C4 MTX 161 A 1 HETATM 6 N NA4 MTX . . . C 3 29.485 43.483 12.295 1 4.42 ? NA4 MTX 161 A 1 HETATM 7 C C4A MTX . . . C 3 31.686 42.885 11.56 1 3.96 ? C4A MTX 161 A 1 HETATM 8 N N5 MTX . . . C 3 31.841 44.179 11.099 1 8.86 ? N5 MTX 161 A 1 HETATM 9 C C6 MTX . . . C 3 33.038 44.462 10.508 1 6.47 ? C6 MTX 161 A 1 HETATM 10 C C7 MTX . . . C 3 33.984 43.389 10.419 1 16.11 ? C7 MTX 161 A 1 HETATM 11 N N8 MTX . . . C 3 33.829 42.148 10.863 1 18.94 ? N8 MTX 161 A 1 HETATM 12 C C8A MTX . . . C 3 32.629 41.909 11.413 1 10.34 ? C8A MTX 161 A 1 HETATM 13 C C9 MTX . . . C 3 33.243 45.844 10.031 1 12.92 ? C9 MTX 161 A 1 HETATM 14 N N10 MTX . . . C 3 34.503 45.947 9.25 1 8.1 ? N10 MTX 161 A 1 HETATM 15 C CM MTX . . . C 3 35.282 47.168 9.415 1 22.25 ? CM MTX 161 A 1 HETATM 16 C C11 MTX . . . C 3 34.701 44.226 5.459 1 26.73 ? C11 MTX 161 A 1 HETATM 17 C C12 MTX . . . C 3 35.812 44.925 6.007 1 20.74 ? C12 MTX 161 A 1 HETATM 18 C C13 MTX . . . C 3 35.724 45.489 7.267 1 16.34 ? C13 MTX 161 A 1 HETATM 19 C C14 MTX . . . C 3 34.518 45.361 8.012 1 14.07 ? C14 MTX 161 A 1 HETATM 20 C C15 MTX . . . C 3 33.45 44.706 7.547 1 17.21 ? C15 MTX 161 A 1 HETATM 21 C C16 MTX . . . C 3 33.564 44.156 6.256 1 8.74 ? C16 MTX 161 A 1 HETATM 22 C C MTX . . . C 3 34.629 43.545 4.134 1 35.96 ? C MTX 161 A 1 HETATM 23 O O MTX . . . C 3 35.487 43.564 3.283 1 36.95 ? O MTX 161 A 1 HETATM 24 N N MTX . . . C 3 33.669 42.683 3.923 1 35.5 ? N MTX 161 A 1 HETATM 25 C CA MTX . . . C 3 33.637 41.708 2.81 1 29.73 ? CA MTX 161 A 1 HETATM 26 C CT MTX . . . C 3 32.204 41.641 2.445 1 25.68 ? CT MTX 161 A 1 HETATM 27 O O1 MTX . . . C 3 31.315 41.533 3.318 1 32.55 ? O1 MTX 161 A 1 HETATM 28 O O2 MTX . . . C 3 31.982 41.801 1.248 1 14.36 ? O2 MTX 161 A 1 HETATM 29 C CB MTX . . . C 3 34.217 40.298 3.27 1 30.54 ? CB MTX 161 A 1 HETATM 30 C CG MTX . . . C 3 34.939 39.365 2.122 1 53.02 ? CG MTX 161 A 1 HETATM 31 C CD MTX . . . C 3 36.423 39.773 1.761 1 71.58 ? CD MTX 161 A 1 HETATM 32 O OE1 MTX . . . C 3 37.192 39.599 2.755 1 77.45 ? OE1 MTX 161 A 1 HETATM 33 O OE2 MTX . . . C 3 36.798 40.131 0.598 1 75.67 ? OE2 MTX 161 A 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 23 _model_server_stats.query_time_ms 212 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 33 #