data_6EDK # _model_server_result.job_id v6M7abTbPs2XcjiE1WbK_g _model_server_result.datetime_utc '2024-11-29 01:29:09' _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 6edk # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":303}' # _entry.id 6EDK # _exptl.entry_id 6EDK _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 473.439 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'N-{4-[{[(6S)-2-amino-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}(formyl)amino]benzoyl}-L-glutamic acid' _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 103.9 _cell.angle_gamma 90 _cell.entry_id 6EDK _cell.length_a 97.2 _cell.length_b 77.3 _cell.length_c 40.46 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6EDK _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall 'C 2y' _symmetry.space_group_name_H-M 'C 1 2 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 # _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 4 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C20 H23 N7 O7' _chem_comp.formula_weight 473.439 _chem_comp.id 1YA _chem_comp.mon_nstd_flag . _chem_comp.name 'N-{4-[{[(6S)-2-amino-4-oxo-3,4,5,6,7,8-hexahydropteridin-6-yl]methyl}(formyl)amino]benzoyl}-L-glutamic acid' _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 C7 N8 1YA sing 1 n n C7 C6 1YA sing 2 n n N8 C8A 1YA sing 3 n n O5 C18 1YA doub 4 n n C6 N5 1YA sing 5 n n C6 C9 1YA sing 6 n n C18 N10 1YA sing 7 n n C15 C16 1YA doub 8 n y C15 C14 1YA sing 9 n y C16 C11 1YA sing 10 n y N10 C14 1YA sing 11 n n N10 C9 1YA sing 12 n n N5 C4A 1YA sing 13 n n C8A C4A 1YA doub 14 n n C8A N1 1YA sing 15 n n C14 C13 1YA doub 16 n y C4A C4 1YA sing 17 n n N1 C2 1YA doub 18 n n C11 C17 1YA sing 19 n n C11 C12 1YA doub 20 n y C13 C12 1YA sing 21 n y C2 N3 1YA sing 22 n n C2 NA2 1YA sing 23 n n C4 N3 1YA sing 24 n n C4 O4 1YA doub 25 n n O C17 1YA doub 26 n n C17 N 1YA sing 27 n n N CA 1YA sing 28 n n CA CT 1YA sing 29 n n CA CB 1YA sing 30 n n CT O2 1YA doub 31 n n CT O1 1YA sing 32 n n CG CB 1YA sing 33 n n CG CD 1YA sing 34 n n OE2 CD 1YA doub 35 n n CD OE1 1YA sing 36 n n NA2 H1 1YA sing 37 n n NA2 H2 1YA sing 38 n n N3 H3 1YA sing 39 n n N5 H5 1YA sing 40 n n C6 H7 1YA sing 41 n n C7 H8 1YA sing 42 n n C7 H9 1YA sing 43 n n C9 H10 1YA sing 44 n n C9 H11 1YA sing 45 n n C12 H12 1YA sing 46 n n C13 H13 1YA sing 47 n n C15 H14 1YA sing 48 n n C16 H15 1YA sing 49 n n N H16 1YA sing 50 n n CA H17 1YA sing 51 n n CB H18 1YA sing 52 n n CB H19 1YA sing 53 n n CG H20 1YA sing 54 n n CG H21 1YA sing 55 n n OE1 H22 1YA sing 56 n n O1 H23 1YA sing 57 n n C18 H24 1YA sing 58 n n N8 H4 1YA sing 59 n n # _atom_sites.entry_id 6EDK _atom_sites.fract_transf_matrix[1][1] 0.010288 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.002546 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.012937 _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] 0.025461 _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 MES A 1 301 448 MES MES . C 3 SO4 A 1 302 450 SO4 SO4 . D 4 1YA A 1 303 451 1YA 1YA . E 5 HOH A 1 401 447 HOH HOH . E 5 HOH A 2 402 292 HOH HOH . E 5 HOH A 3 403 328 HOH HOH . E 5 HOH A 4 404 441 HOH HOH . E 5 HOH A 5 405 446 HOH HOH . E 5 HOH A 6 406 252 HOH HOH . E 5 HOH A 7 407 273 HOH HOH . E 5 HOH A 8 408 282 HOH HOH . E 5 HOH A 9 409 356 HOH HOH . E 5 HOH A 10 410 336 HOH HOH . E 5 HOH A 11 411 327 HOH HOH . E 5 HOH A 12 412 226 HOH HOH . E 5 HOH A 13 413 230 HOH HOH . E 5 HOH A 14 414 254 HOH HOH . E 5 HOH A 15 415 241 HOH HOH . E 5 HOH A 16 416 233 HOH HOH . E 5 HOH A 17 417 223 HOH HOH . E 5 HOH A 18 418 250 HOH HOH . E 5 HOH A 19 419 229 HOH HOH . E 5 HOH A 20 420 294 HOH HOH . E 5 HOH A 21 421 247 HOH HOH . E 5 HOH A 22 422 280 HOH HOH . E 5 HOH A 23 423 440 HOH HOH . E 5 HOH A 24 424 295 HOH HOH . E 5 HOH A 25 425 362 HOH HOH . E 5 HOH A 26 426 269 HOH HOH . E 5 HOH A 27 427 246 HOH HOH . E 5 HOH A 28 428 216 HOH HOH . E 5 HOH A 29 429 219 HOH HOH . E 5 HOH A 30 430 231 HOH HOH . E 5 HOH A 31 431 300 HOH HOH . E 5 HOH A 32 432 215 HOH HOH . E 5 HOH A 33 433 359 HOH HOH . E 5 HOH A 34 434 412 HOH HOH . E 5 HOH A 35 435 222 HOH HOH . E 5 HOH A 36 436 249 HOH HOH . E 5 HOH A 37 437 439 HOH HOH . E 5 HOH A 38 438 271 HOH HOH . E 5 HOH A 39 439 217 HOH HOH . E 5 HOH A 40 440 225 HOH HOH . E 5 HOH A 41 441 259 HOH HOH . E 5 HOH A 42 442 239 HOH HOH . E 5 HOH A 43 443 276 HOH HOH . E 5 HOH A 44 444 236 HOH HOH . E 5 HOH A 45 445 265 HOH HOH . E 5 HOH A 46 446 386 HOH HOH . E 5 HOH A 47 447 232 HOH HOH . E 5 HOH A 48 448 224 HOH HOH . E 5 HOH A 49 449 264 HOH HOH . E 5 HOH A 50 450 245 HOH HOH . E 5 HOH A 51 451 306 HOH HOH . E 5 HOH A 52 452 235 HOH HOH . E 5 HOH A 53 453 286 HOH HOH . E 5 HOH A 54 454 270 HOH HOH . E 5 HOH A 55 455 285 HOH HOH . E 5 HOH A 56 456 299 HOH HOH . E 5 HOH A 57 457 297 HOH HOH . E 5 HOH A 58 458 289 HOH HOH . E 5 HOH A 59 459 220 HOH HOH . E 5 HOH A 60 460 340 HOH HOH . E 5 HOH A 61 461 290 HOH HOH . E 5 HOH A 62 462 354 HOH HOH . E 5 HOH A 63 463 365 HOH HOH . E 5 HOH A 64 464 329 HOH HOH . E 5 HOH A 65 465 262 HOH HOH . E 5 HOH A 66 466 261 HOH HOH . E 5 HOH A 67 467 267 HOH HOH . E 5 HOH A 68 468 263 HOH HOH . E 5 HOH A 69 469 313 HOH HOH . E 5 HOH A 70 470 255 HOH HOH . E 5 HOH A 71 471 442 HOH HOH . E 5 HOH A 72 472 266 HOH HOH . E 5 HOH A 73 473 248 HOH HOH . E 5 HOH A 74 474 293 HOH HOH . E 5 HOH A 75 475 298 HOH HOH . E 5 HOH A 76 476 234 HOH HOH . E 5 HOH A 77 477 218 HOH HOH . E 5 HOH A 78 478 238 HOH HOH . E 5 HOH A 79 479 431 HOH HOH . E 5 HOH A 80 480 382 HOH HOH . E 5 HOH A 81 481 221 HOH HOH . E 5 HOH A 82 482 418 HOH HOH . E 5 HOH A 83 483 228 HOH HOH . E 5 HOH A 84 484 278 HOH HOH . E 5 HOH A 85 485 318 HOH HOH . E 5 HOH A 86 486 415 HOH HOH . E 5 HOH A 87 487 284 HOH HOH . E 5 HOH A 88 488 287 HOH HOH . E 5 HOH A 89 489 411 HOH HOH . E 5 HOH A 90 490 303 HOH HOH . E 5 HOH A 91 491 240 HOH HOH . E 5 HOH A 92 492 445 HOH HOH . E 5 HOH A 93 493 443 HOH HOH . E 5 HOH A 94 494 244 HOH HOH . E 5 HOH A 95 495 253 HOH HOH . E 5 HOH A 96 496 337 HOH HOH . E 5 HOH A 97 497 348 HOH HOH . E 5 HOH A 98 498 321 HOH HOH . E 5 HOH A 99 499 437 HOH HOH . E 5 HOH A 100 500 438 HOH HOH . E 5 HOH A 101 501 319 HOH HOH . E 5 HOH A 102 502 436 HOH HOH . E 5 HOH A 103 503 305 HOH HOH . E 5 HOH A 104 504 268 HOH HOH . E 5 HOH A 105 505 444 HOH HOH . E 5 HOH A 106 506 398 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 1YA . . . D 4 26.338 14.236 10.348 1 34.63 ? N1 1YA 303 A 1 HETATM 2 C C2 1YA . . . D 4 26.598 13.843 11.75 1 38.01 ? C2 1YA 303 A 1 HETATM 3 N NA2 1YA . . . D 4 25.609 13.083 12.494 1 40.92 ? NA2 1YA 303 A 1 HETATM 4 N N3 1YA . . . D 4 27.889 14.162 12.465 1 40.01 ? N3 1YA 303 A 1 HETATM 5 C C4 1YA . . . D 4 28.937 14.952 11.803 1 40.43 ? C4 1YA 303 A 1 HETATM 6 O O4 1YA . . . D 4 29.945 15.189 12.437 1 35.42 ? O4 1YA 303 A 1 HETATM 7 C C4A 1YA . . . D 4 28.664 15.356 10.394 1 38.19 ? C4A 1YA 303 A 1 HETATM 8 N N5 1YA . . . D 4 29.644 16.029 9.706 1 35.33 ? N5 1YA 303 A 1 HETATM 9 C C6 1YA . . . D 4 29.12 16.812 8.473 1 39.24 ? C6 1YA 303 A 1 HETATM 10 C C7 1YA . . . D 4 28.253 16.125 7.67 1 38.22 ? C7 1YA 303 A 1 HETATM 11 N N8 1YA . . . D 4 27.111 15.322 8.38 1 33.41 ? N8 1YA 303 A 1 HETATM 12 C C8A 1YA . . . D 4 27.365 14.967 9.644 1 33.32 ? C8A 1YA 303 A 1 HETATM 13 C C9 1YA . . . D 4 28.461 18.075 9.071 1 49.91 ? C9 1YA 303 A 1 HETATM 14 N N10 1YA . . . D 4 28.001 19.027 8.041 1 55.17 ? N10 1YA 303 A 1 HETATM 15 C C11 1YA . . . D 4 24.271 20.949 8.602 1 78.35 ? C11 1YA 303 A 1 HETATM 16 C C12 1YA . . . D 4 24.452 20.171 7.472 1 67.86 ? C12 1YA 303 A 1 HETATM 17 C C13 1YA . . . D 4 25.667 19.52 7.285 1 62.57 ? C13 1YA 303 A 1 HETATM 18 C C14 1YA . . . D 4 26.673 19.683 8.221 1 60.77 ? C14 1YA 303 A 1 HETATM 19 C C15 1YA . . . D 4 26.489 20.472 9.341 1 72.8 ? C15 1YA 303 A 1 HETATM 20 C C16 1YA . . . D 4 25.276 21.112 9.531 1 77.52 ? C16 1YA 303 A 1 HETATM 21 C C17 1YA . . . D 4 22.941 21.708 8.844 1 92.45 ? C17 1YA 303 A 1 HETATM 22 N N 1YA . . . D 4 23.12 23.126 9.245 1 103.66 ? N 1YA 303 A 1 HETATM 23 C CA 1YA . . . D 4 21.998 24.059 9.524 1 107.69 ? CA 1YA 303 A 1 HETATM 24 C CB 1YA . . . D 4 21.26 23.629 10.817 1 111.91 ? CB 1YA 303 A 1 HETATM 25 C CG 1YA . . . D 4 22.115 22.728 11.723 1 112.08 ? CG 1YA 303 A 1 HETATM 26 C CD 1YA . . . D 4 21.547 22.626 13.151 1 117.65 ? CD 1YA 303 A 1 HETATM 27 O OE1 1YA . . . D 4 22.234 22.104 14.072 1 120.36 ? OE1 1YA 303 A 1 HETATM 28 O OE2 1YA . . . D 4 20.394 23.065 13.399 1 122.97 ? OE2 1YA 303 A 1 HETATM 29 C CT 1YA . . . D 4 22.563 25.499 9.638 1 98.62 ? CT 1YA 303 A 1 HETATM 30 O O2 1YA . . . D 4 23.806 25.738 9.559 1 84.54 ? O2 1YA 303 A 1 HETATM 31 O O1 1YA . . . D 4 21.783 26.467 9.808 1 98.43 ? O1 1YA 303 A 1 HETATM 32 C C18 1YA . . . D 4 28.814 19.41 6.896 1 58.01 ? C18 1YA 303 A 1 HETATM 33 O O5 1YA . . . D 4 29.883 18.927 6.726 1 51.55 ? O5 1YA 303 A 1 HETATM 34 O O 1YA . . . D 4 21.894 21.188 8.691 1 93.83 ? O 1YA 303 A 1 HETATM 35 H H1 1YA . . . D 4 24.86 12.875 12.126 1 49.16 ? H1 1YA 303 A 1 HETATM 36 H H2 1YA . . . D 4 25.772 12.84 13.303 1 49.16 ? H2 1YA 303 A 1 HETATM 37 H H3 1YA . . . D 4 28.013 13.879 13.267 1 48.06 ? H3 1YA 303 A 1 HETATM 38 H H5 1YA . . . D 4 30.473 16.017 9.937 1 42.45 ? H5 1YA 303 A 1 HETATM 39 H H7 1YA . . . D 4 29.848 17.044 7.876 1 47.14 ? H7 1YA 303 A 1 HETATM 40 H H8 1YA . . . D 4 28.773 15.496 7.146 1 45.91 ? H8 1YA 303 A 1 HETATM 41 H H9 1YA . . . D 4 27.834 16.766 7.074 1 45.91 ? H9 1YA 303 A 1 HETATM 42 H H10 1YA . . . D 4 29.108 18.522 9.639 1 59.94 ? H10 1YA 303 A 1 HETATM 43 H H11 1YA . . . D 4 27.699 17.803 9.606 1 59.94 ? H11 1YA 303 A 1 HETATM 44 H H12 1YA . . . D 4 23.77 20.083 6.846 1 81.48 ? H12 1YA 303 A 1 HETATM 45 H H13 1YA . . . D 4 25.802 18.983 6.539 1 75.13 ? H13 1YA 303 A 1 HETATM 46 H H14 1YA . . . D 4 27.174 20.571 9.962 1 87.41 ? H14 1YA 303 A 1 HETATM 47 H H15 1YA . . . D 4 25.141 21.647 10.278 1 93.08 ? H15 1YA 303 A 1 HETATM 48 H H16 1YA . . . D 4 23.93 23.429 9.321 1 124.44 ? H16 1YA 303 A 1 HETATM 49 H H17 1YA . . . D 4 21.388 24.019 8.811 1 129.28 ? H17 1YA 303 A 1 HETATM 50 H H18 1YA . . . D 4 21.012 24.425 11.314 1 134.35 ? H18 1YA 303 A 1 HETATM 51 H H19 1YA . . . D 4 20.454 23.149 10.571 1 134.35 ? H19 1YA 303 A 1 HETATM 52 H H20 1YA . . . D 4 23.013 23.09 11.768 1 134.55 ? H20 1YA 303 A 1 HETATM 53 H H21 1YA . . . D 4 22.153 21.84 11.336 1 134.55 ? H21 1YA 303 A 1 HETATM 54 H H24 1YA . . . D 4 28.491 20.04 6.293 1 69.66 ? H24 1YA 303 A 1 HETATM 55 H H4 1YA . . . D 4 26.373 15.123 7.985 1 40.14 ? H4 1YA 303 A 1 # _model_server_stats.io_time_ms 70 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 15 _model_server_stats.query_time_ms 254 _model_server_stats.encode_time_ms 9 _model_server_stats.element_count 55 #