data_1VZD # _model_server_result.job_id 1SY8IwVrBe0uD7o24lrYAA _model_server_result.datetime_utc '2024-12-12 07:55:02' _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 1vzd # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":318}' # _entry.id 1VZD # _exptl.entry_id 1VZD _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 477.469 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '10-PROPARGYL-5,8-DIDEAZAFOLIC 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 90 _cell.angle_gamma 120 _cell.entry_id 1VZD _cell.length_a 78.5 _cell.length_b 78.5 _cell.length_c 230.6 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VZD _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D _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' 11_554 -x+y,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 0 0 -115.3 # _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 # _chem_comp.formula 'C24 H23 N5 O6' _chem_comp.formula_weight 477.469 _chem_comp.id CB3 _chem_comp.mon_nstd_flag . _chem_comp.name '10-PROPARGYL-5,8-DIDEAZAFOLIC 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 N1 C2 CB3 sing 70 n y N1 C8A CB3 sing 71 n y N1 HN1 CB3 sing 72 n n C2 NA2 CB3 sing 73 n n C2 N3 CB3 doub 74 n y NA2 HN21 CB3 sing 75 n n NA2 HN22 CB3 sing 76 n n N3 C4 CB3 sing 77 n y C4 O4 CB3 doub 78 n n C4 C4A CB3 sing 79 n y C4A C5 CB3 doub 80 n y C4A C8A CB3 sing 81 n y C5 C6 CB3 sing 82 n y C5 H5 CB3 sing 83 n n C6 C7 CB3 doub 84 n y C6 C9 CB3 sing 85 n n C7 C8 CB3 sing 86 n y C7 H7 CB3 sing 87 n n C8 C8A CB3 doub 88 n y C8 H8 CB3 sing 89 n n C9 N10 CB3 sing 90 n n C9 H91 CB3 sing 91 n n C9 H92 CB3 sing 92 n n N10 C14 CB3 sing 93 n n N10 CP1 CB3 sing 94 n n C11 C12 CB3 doub 95 n y C11 C16 CB3 sing 96 n y C11 C CB3 sing 97 n n C12 C13 CB3 sing 98 n y C12 H12 CB3 sing 99 n n C13 C14 CB3 doub 100 n y C13 H13 CB3 sing 101 n n C14 C15 CB3 sing 102 n y C15 C16 CB3 doub 103 n y C15 H15 CB3 sing 104 n n C16 H16 CB3 sing 105 n n C O CB3 doub 106 n n C N CB3 sing 107 n n N CA CB3 sing 108 n n N HN CB3 sing 109 n n CA CB CB3 sing 110 n n CA CT CB3 sing 111 n n CA HA CB3 sing 112 n n CB CG CB3 sing 113 n n CB HB1 CB3 sing 114 n n CB HB2 CB3 sing 115 n n CG CD CB3 sing 116 n n CG HG1 CB3 sing 117 n n CG HG2 CB3 sing 118 n n CD OE1 CB3 doub 119 n n CD OE2 CB3 sing 120 n n OE2 HOE2 CB3 sing 121 n n CT O1 CB3 doub 122 n n CT O2 CB3 sing 123 n n O2 HO2 CB3 sing 124 n n CP1 CP2 CB3 sing 125 n n CP1 HP11 CB3 sing 126 n n CP1 HP12 CB3 sing 127 n n CP2 CP3 CB3 trip 128 n n CP3 HP3 CB3 sing 129 n n # _atom_sites.entry_id 1VZD _atom_sites.fract_transf_matrix[1][1] 0.012739 _atom_sites.fract_transf_matrix[1][2] 0.007355 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01471 _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] 0.004337 _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 UFP A 1 317 317 UFP UFP . C 3 CB3 A 1 318 318 CB3 CB3 . D 4 HOH A 1 319 319 HOH HOH . D 4 HOH A 2 320 320 HOH HOH . D 4 HOH A 3 321 321 HOH HOH . D 4 HOH A 4 322 322 HOH HOH . D 4 HOH A 5 323 323 HOH HOH . D 4 HOH A 6 324 324 HOH HOH . D 4 HOH A 7 325 325 HOH HOH . D 4 HOH A 8 326 326 HOH HOH . D 4 HOH A 9 327 327 HOH HOH . D 4 HOH A 10 328 328 HOH HOH . D 4 HOH A 11 330 330 HOH HOH . D 4 HOH A 12 331 331 HOH HOH . D 4 HOH A 13 332 332 HOH HOH . D 4 HOH A 14 333 333 HOH HOH . D 4 HOH A 15 334 334 HOH HOH . D 4 HOH A 16 335 335 HOH HOH . D 4 HOH A 17 336 336 HOH HOH . D 4 HOH A 18 337 337 HOH HOH . D 4 HOH A 19 338 338 HOH HOH . D 4 HOH A 20 339 339 HOH HOH . D 4 HOH A 21 340 340 HOH HOH . D 4 HOH A 22 342 342 HOH HOH . D 4 HOH A 23 343 343 HOH HOH . D 4 HOH A 24 344 344 HOH HOH . D 4 HOH A 25 346 346 HOH HOH . D 4 HOH A 26 347 347 HOH HOH . D 4 HOH A 27 348 348 HOH HOH . D 4 HOH A 28 349 349 HOH HOH . D 4 HOH A 29 351 351 HOH HOH . D 4 HOH A 30 353 353 HOH HOH . D 4 HOH A 31 354 354 HOH HOH . D 4 HOH A 32 355 355 HOH HOH . D 4 HOH A 33 356 356 HOH HOH . D 4 HOH A 34 357 357 HOH HOH . D 4 HOH A 35 358 358 HOH HOH . D 4 HOH A 36 359 359 HOH HOH . D 4 HOH A 37 360 360 HOH HOH . D 4 HOH A 38 361 361 HOH HOH . D 4 HOH A 39 362 362 HOH HOH . D 4 HOH A 40 363 363 HOH HOH . D 4 HOH A 41 364 364 HOH HOH . D 4 HOH A 42 365 365 HOH HOH . D 4 HOH A 43 366 366 HOH HOH . D 4 HOH A 44 367 367 HOH HOH . D 4 HOH A 45 368 368 HOH HOH . D 4 HOH A 46 369 369 HOH HOH . D 4 HOH A 47 370 370 HOH HOH . D 4 HOH A 48 371 371 HOH HOH . D 4 HOH A 49 372 372 HOH HOH . D 4 HOH A 50 373 373 HOH HOH . D 4 HOH A 51 374 374 HOH HOH . D 4 HOH A 52 375 375 HOH HOH . D 4 HOH A 53 376 376 HOH HOH . D 4 HOH A 54 377 377 HOH HOH . D 4 HOH A 55 378 378 HOH HOH . D 4 HOH A 56 379 379 HOH HOH . D 4 HOH A 57 380 380 HOH HOH . D 4 HOH A 58 381 381 HOH HOH . D 4 HOH A 59 382 382 HOH HOH . D 4 HOH A 60 383 383 HOH HOH . D 4 HOH A 61 384 384 HOH HOH . D 4 HOH A 62 385 385 HOH HOH . D 4 HOH A 63 386 386 HOH HOH . D 4 HOH A 64 387 387 HOH HOH . D 4 HOH A 65 388 388 HOH HOH . D 4 HOH A 66 389 389 HOH HOH . D 4 HOH A 67 390 390 HOH HOH . D 4 HOH A 68 391 391 HOH HOH . D 4 HOH A 69 392 392 HOH HOH . D 4 HOH A 70 393 393 HOH HOH . D 4 HOH A 71 394 394 HOH HOH . D 4 HOH A 72 395 395 HOH HOH . D 4 HOH A 73 396 396 HOH HOH . D 4 HOH A 74 397 397 HOH HOH . D 4 HOH A 75 398 398 HOH HOH . D 4 HOH A 76 399 399 HOH HOH . D 4 HOH A 77 400 400 HOH HOH . D 4 HOH A 78 401 401 HOH HOH . D 4 HOH A 79 402 402 HOH HOH . D 4 HOH A 80 403 403 HOH HOH . D 4 HOH A 81 404 404 HOH HOH . D 4 HOH A 82 405 405 HOH HOH . D 4 HOH A 83 406 406 HOH HOH . D 4 HOH A 84 407 407 HOH HOH . D 4 HOH A 85 408 408 HOH HOH . D 4 HOH A 86 409 409 HOH HOH . D 4 HOH A 87 410 410 HOH HOH . D 4 HOH A 88 411 411 HOH HOH . D 4 HOH A 89 412 412 HOH HOH . D 4 HOH A 90 413 413 HOH HOH . D 4 HOH A 91 414 414 HOH HOH . D 4 HOH A 92 415 415 HOH HOH . D 4 HOH A 93 416 416 HOH HOH . D 4 HOH A 94 417 417 HOH HOH . D 4 HOH A 95 418 418 HOH HOH . D 4 HOH A 96 419 419 HOH HOH . D 4 HOH A 97 420 420 HOH HOH . D 4 HOH A 98 421 421 HOH HOH . D 4 HOH A 99 422 422 HOH HOH . D 4 HOH A 100 423 423 HOH HOH . D 4 HOH A 101 424 424 HOH HOH . D 4 HOH A 102 425 425 HOH HOH . D 4 HOH A 103 426 426 HOH HOH . D 4 HOH A 104 427 427 HOH HOH . D 4 HOH A 105 428 428 HOH HOH . D 4 HOH A 106 429 429 HOH HOH . D 4 HOH A 107 430 430 HOH HOH . D 4 HOH A 108 431 431 HOH HOH . D 4 HOH A 109 432 432 HOH HOH . D 4 HOH A 110 433 433 HOH HOH . D 4 HOH A 111 434 434 HOH HOH . D 4 HOH A 112 435 435 HOH HOH . D 4 HOH A 113 436 436 HOH HOH . D 4 HOH A 114 437 437 HOH HOH . D 4 HOH A 115 438 438 HOH HOH . D 4 HOH A 116 439 439 HOH HOH . D 4 HOH A 117 440 440 HOH HOH . D 4 HOH A 118 441 441 HOH HOH . D 4 HOH A 119 442 442 HOH HOH . D 4 HOH A 120 443 443 HOH HOH . D 4 HOH A 121 444 444 HOH HOH . D 4 HOH A 122 445 445 HOH HOH . D 4 HOH A 123 446 446 HOH HOH . D 4 HOH A 124 447 447 HOH HOH . D 4 HOH A 125 448 448 HOH HOH . D 4 HOH A 126 449 449 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 CB3 . . . C 3 20.454 45.671 -50.99 1 18.24 ? N1 CB3 318 A 1 HETATM 2 C C2 CB3 . . . C 3 19.527 44.67 -51.058 1 18.92 ? C2 CB3 318 A 1 HETATM 3 N NA2 CB3 . . . C 3 19.861 43.481 -51.572 1 17.04 ? NA2 CB3 318 A 1 HETATM 4 N N3 CB3 . . . C 3 18.265 44.863 -50.59 1 18.82 ? N3 CB3 318 A 1 HETATM 5 C C4 CB3 . . . C 3 17.935 46.017 -49.931 1 20.73 ? C4 CB3 318 A 1 HETATM 6 O O4 CB3 . . . C 3 16.709 46.088 -49.28 1 22.83 ? O4 CB3 318 A 1 HETATM 7 C C4A CB3 . . . C 3 18.871 47.083 -49.856 1 20.77 ? C4A CB3 318 A 1 HETATM 8 C C5 CB3 . . . C 3 18.586 48.321 -49.227 1 20.87 ? C5 CB3 318 A 1 HETATM 9 C C6 CB3 . . . C 3 19.547 49.379 -49.101 1 20.9 ? C6 CB3 318 A 1 HETATM 10 C C7 CB3 . . . C 3 20.826 49.152 -49.68 1 21.4 ? C7 CB3 318 A 1 HETATM 11 C C8 CB3 . . . C 3 21.139 47.917 -50.329 1 21.47 ? C8 CB3 318 A 1 HETATM 12 C C8A CB3 . . . C 3 20.172 46.869 -50.417 1 21 ? C8A CB3 318 A 1 HETATM 13 C C9 CB3 . . . C 3 19.342 50.578 -48.167 1 21.96 ? C9 CB3 318 A 1 HETATM 14 N N10 CB3 . . . C 3 18.275 50.484 -47.066 1 22.35 ? N10 CB3 318 A 1 HETATM 15 C C11 CB3 . . . C 3 19.368 46.991 -44.845 1 22.91 ? C11 CB3 318 A 1 HETATM 16 C C12 CB3 . . . C 3 18.059 47.021 -45.503 1 23.04 ? C12 CB3 318 A 1 HETATM 17 C C13 CB3 . . . C 3 17.609 48.21 -46.177 1 21.09 ? C13 CB3 318 A 1 HETATM 18 C C14 CB3 . . . C 3 18.467 49.392 -46.226 1 21.74 ? C14 CB3 318 A 1 HETATM 19 C C15 CB3 . . . C 3 19.71 49.358 -45.545 1 20.99 ? C15 CB3 318 A 1 HETATM 20 C C16 CB3 . . . C 3 20.155 48.192 -44.888 1 22.64 ? C16 CB3 318 A 1 HETATM 21 C C CB3 . . . C 3 19.913 45.909 -43.941 1 21.69 ? C CB3 318 A 1 HETATM 22 O O CB3 . . . C 3 19.712 45.91 -42.7 1 18.8 ? O CB3 318 A 1 HETATM 23 N N CB3 . . . C 3 20.798 45.022 -44.493 1 20.39 ? N CB3 318 A 1 HETATM 24 C CA CB3 . . . C 3 21.289 43.721 -43.921 1 19.62 ? CA CB3 318 A 1 HETATM 25 C CB CB3 . . . C 3 22.389 43.977 -42.912 1 18.07 ? CB CB3 318 A 1 HETATM 26 C CG CB3 . . . C 3 23.702 43.15 -43.017 1 15.18 ? CG CB3 318 A 1 HETATM 27 C CD CB3 . . . C 3 24.874 43.856 -43.736 1 13.27 ? CD CB3 318 A 1 HETATM 28 O OE1 CB3 . . . C 3 25.927 44.043 -43.118 1 13.53 ? OE1 CB3 318 A 1 HETATM 29 O OE2 CB3 . . . C 3 24.762 44.271 -44.894 1 12.19 ? OE2 CB3 318 A 1 HETATM 30 C CT CB3 . . . C 3 20.182 42.847 -43.261 1 20.76 ? CT CB3 318 A 1 HETATM 31 O O1 CB3 . . . C 3 19.607 42.057 -44 1 21.12 ? O1 CB3 318 A 1 HETATM 32 O O2 CB3 . . . C 3 19.862 42.902 -42.054 1 24.07 ? O2 CB3 318 A 1 HETATM 33 C CP1 CB3 . . . C 3 17.169 51.514 -47.052 1 22.68 ? CP1 CB3 318 A 1 HETATM 34 C CP2 CB3 . . . C 3 15.853 51.07 -46.545 1 20.24 ? CP2 CB3 318 A 1 HETATM 35 C CP3 CB3 . . . C 3 14.793 50.705 -46.115 1 17.69 ? CP3 CB3 318 A 1 HETATM 36 H HN21 CB3 . . . C 3 19.549 43.463 -52.566 1 15 ? HN21 CB3 318 A 1 HETATM 37 H HN22 CB3 . . . C 3 20.9 43.418 -51.568 1 15 ? HN22 CB3 318 A 1 HETATM 38 H HN CB3 . . . C 3 21.112 45.213 -45.398 1 15 ? HN CB3 318 A 1 HETATM 39 H HP3 CB3 . . . C 3 13.815 50.386 -45.93 1 15 ? HP3 CB3 318 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 4 _model_server_stats.query_time_ms 513 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 39 #