data_4PDJ # _model_server_result.job_id 9gSFseO5aOaTUCp4E7StnQ _model_server_result.datetime_utc '2024-11-26 23:45:49' _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 4pdj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":203}' # _entry.id 4PDJ # loop_ _exptl.entry_id _exptl.method 4PDJ 'X-RAY DIFFRACTION' 4PDJ 'NEUTRON DIFFRACTION' # _entity.details ? _entity.formula_weight 443.413 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'DIHYDROFOLIC 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 90 _cell.entry_id 4PDJ _cell.length_a 34.293 _cell.length_b 45.625 _cell.length_c 98.974 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4PDJ _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 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,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 D _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 metalc ? metalc1 A OD2 ASP 70 A ASP 70 1_555 C MN MN . A MN 202 4_575 ? ? ? ? ? ? ? ? ? ? ? ? 2.284 ? metalc ? metalc2 A OD1 ASP 87 A ASP 87 1_555 C MN MN . A MN 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.248 ? metalc ? metalc3 A O ASP 116 A ASP 116 1_555 B MN MN . A MN 201 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc4 A ND1 HIS 149 A HIS 149 1_555 B MN MN . A MN 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.29 ? metalc ? metalc5 A O ARG 159 A ARG 159 1_555 B MN MN . A MN 201 1_455 ? ? ? ? ? ? ? ? ? ? ? ? 2.355 ? metalc ? metalc6 B MN MN . A MN 201 1_555 F O DOD . A DOD 330 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.104 ? metalc ? metalc7 B MN MN . A MN 201 1_555 F O DOD . A DOD 338 1_655 ? ? ? ? ? ? ? ? ? ? ? ? 1.961 ? metalc ? metalc8 C MN MN . A MN 202 1_555 F O DOD . A DOD 342 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.235 ? # _chem_comp.formula 'C19 H21 N7 O6' _chem_comp.formula_weight 443.413 _chem_comp.id DHF _chem_comp.mon_nstd_flag . _chem_comp.name 'DIHYDROFOLIC 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 DHF sing 83 n y N1 C8A DHF sing 84 n y N1 HN1 DHF sing 85 n n C2 NA2 DHF sing 86 n n C2 N3 DHF doub 87 n y NA2 HN21 DHF sing 88 n n NA2 HN22 DHF sing 89 n n N3 C4 DHF sing 90 n y C4 O4 DHF doub 91 n n C4 C4A DHF sing 92 n y C4A N5 DHF sing 93 n n C4A C8A DHF doub 94 n y N5 C6 DHF doub 95 n n C6 C7 DHF sing 96 n n C6 C9 DHF sing 97 n n C7 N8 DHF sing 98 n n C7 H71 DHF sing 99 n n C7 H72 DHF sing 100 n n N8 C8A DHF sing 101 n n N8 HN8 DHF sing 102 n n C9 N10 DHF sing 103 n n C9 H91 DHF sing 104 n n C9 H92 DHF sing 105 n n N10 C14 DHF sing 106 n n N10 HN0 DHF sing 107 n n C11 C12 DHF doub 108 n y C11 C16 DHF sing 109 n y C11 C DHF sing 110 n n C12 C13 DHF sing 111 n y C12 H12 DHF sing 112 n n C13 C14 DHF doub 113 n y C13 H13 DHF sing 114 n n C14 C15 DHF sing 115 n y C15 C16 DHF doub 116 n y C15 H15 DHF sing 117 n n C16 H16 DHF sing 118 n n C O DHF doub 119 n n C N DHF sing 120 n n N CA DHF sing 121 n n N HN DHF sing 122 n n CA CB DHF sing 123 n n CA CT DHF sing 124 n n CA HA DHF sing 125 n n CB CG DHF sing 126 n n CB HB1 DHF sing 127 n n CB HB2 DHF sing 128 n n CG CD DHF sing 129 n n CG HG1 DHF sing 130 n n CG HG2 DHF sing 131 n n CD OE1 DHF doub 132 n n CD OE2 DHF sing 133 n n OE2 HOE2 DHF sing 134 n n CT O1 DHF doub 135 n n CT O2 DHF sing 136 n n O2 HO2 DHF sing 137 n n # _atom_sites.entry_id 4PDJ _atom_sites.fract_transf_matrix[1][1] 0.02916 _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] 0.021918 _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] 0.010104 _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 1 201 200 MN MN . C 2 MN A 1 202 300 MN MN . D 3 DHF A 1 203 161 DHF FO9 . E 4 NDP A 1 204 164 NDP NAP . F 5 DOD A 1 301 76 DOD DOD . F 5 DOD A 2 302 114 DOD DOD . F 5 DOD A 3 303 82 DOD DOD . F 5 DOD A 4 304 93 DOD DOD . F 5 DOD A 5 305 129 DOD DOD . F 5 DOD A 6 306 49 DOD DOD . F 5 DOD A 7 307 5 DOD DOD . F 5 DOD A 8 308 97 DOD DOD . F 5 DOD A 9 309 9 DOD DOD . F 5 DOD A 10 310 12 DOD DOD . F 5 DOD A 11 311 38 DOD DOD . F 5 DOD A 12 312 62 DOD DOD . F 5 DOD A 13 313 39 DOD DOD . F 5 DOD A 14 314 59 DOD DOD . F 5 DOD A 15 315 79 DOD DOD . F 5 DOD A 16 316 115 DOD DOD . F 5 DOD A 17 317 119 DOD DOD . F 5 DOD A 18 318 111 DOD DOD . F 5 DOD A 19 319 17 DOD DOD . F 5 DOD A 20 320 64 DOD DOD . F 5 DOD A 21 321 8 DOD DOD . F 5 DOD A 22 322 81 DOD DOD . F 5 DOD A 23 323 116 DOD DOD . F 5 DOD A 24 324 22 DOD DOD . F 5 DOD A 25 325 40 DOD DOD . F 5 DOD A 26 326 99 DOD DOD . F 5 DOD A 27 327 69 DOD DOD . F 5 DOD A 28 328 106 DOD DOD . F 5 DOD A 29 329 16 DOD DOD . F 5 DOD A 30 330 4 DOD DOD . F 5 DOD A 31 331 15 DOD DOD . F 5 DOD A 32 332 80 DOD DOD . F 5 DOD A 33 333 24 DOD DOD . F 5 DOD A 34 334 48 DOD DOD . F 5 DOD A 35 335 68 DOD DOD . F 5 DOD A 36 336 109 DOD DOD . F 5 DOD A 37 337 91 DOD DOD . F 5 DOD A 38 338 36 DOD DOD . F 5 DOD A 39 339 37 DOD DOD . F 5 DOD A 40 340 128 DOD DOD . F 5 DOD A 41 341 92 DOD DOD . F 5 DOD A 42 342 88 DOD DOD . F 5 DOD A 43 343 75 DOD DOD . F 5 DOD A 44 344 27 DOD DOD . F 5 DOD A 45 345 108 DOD DOD . F 5 DOD A 46 346 83 DOD DOD . F 5 DOD A 47 347 14 DOD DOD . F 5 DOD A 48 348 105 DOD DOD . F 5 DOD A 49 349 96 DOD DOD . F 5 DOD A 50 350 112 DOD DOD . F 5 DOD A 51 351 90 DOD DOD . F 5 DOD A 52 352 58 DOD DOD . F 5 DOD A 53 353 63 DOD DOD . F 5 DOD A 54 354 71 DOD DOD . F 5 DOD A 55 355 23 DOD DOD . F 5 DOD A 56 356 56 DOD DOD . F 5 DOD A 57 357 102 DOD DOD . F 5 DOD A 58 358 86 DOD DOD . F 5 DOD A 59 359 125 DOD DOD . F 5 DOD A 60 360 103 DOD DOD . F 5 DOD A 61 361 101 DOD DOD . F 5 DOD A 62 362 124 DOD DOD . F 5 DOD A 63 363 127 DOD DOD . F 5 DOD A 64 364 113 DOD DOD . F 5 DOD A 65 365 2 DOD DOD . F 5 DOD A 66 366 6 DOD DOD . F 5 DOD A 67 367 7 DOD DOD . F 5 DOD A 68 368 10 DOD DOD . F 5 DOD A 69 369 11 DOD DOD . F 5 DOD A 70 370 13 DOD DOD . F 5 DOD A 71 371 18 DOD DOD . F 5 DOD A 72 372 20 DOD DOD . F 5 DOD A 73 373 21 DOD DOD . F 5 DOD A 74 374 25 DOD DOD . F 5 DOD A 75 375 26 DOD DOD . F 5 DOD A 76 376 28 DOD DOD . F 5 DOD A 77 377 29 DOD DOD . F 5 DOD A 78 378 30 DOD DOD . F 5 DOD A 79 379 31 DOD DOD . F 5 DOD A 80 380 32 DOD DOD . F 5 DOD A 81 381 33 DOD DOD . F 5 DOD A 82 382 34 DOD DOD . F 5 DOD A 83 383 35 DOD DOD . F 5 DOD A 84 384 41 DOD DOD . F 5 DOD A 85 385 42 DOD DOD . F 5 DOD A 86 386 43 DOD DOD . F 5 DOD A 87 387 44 DOD DOD . F 5 DOD A 88 388 45 DOD DOD . F 5 DOD A 89 389 46 DOD DOD . F 5 DOD A 90 390 47 DOD DOD . F 5 DOD A 91 391 50 DOD DOD . F 5 DOD A 92 392 51 DOD DOD . F 5 DOD A 93 393 52 DOD DOD . F 5 DOD A 94 394 54 DOD DOD . F 5 DOD A 95 395 55 DOD DOD . F 5 DOD A 96 396 60 DOD DOD . F 5 DOD A 97 397 61 DOD DOD . F 5 DOD A 98 398 65 DOD DOD . F 5 DOD A 99 399 66 DOD DOD . F 5 DOD A 100 400 67 DOD DOD . F 5 DOD A 101 401 70 DOD DOD . F 5 DOD A 102 402 72 DOD DOD . F 5 DOD A 103 403 73 DOD DOD . F 5 DOD A 104 404 74 DOD DOD . F 5 DOD A 105 405 77 DOD DOD . F 5 DOD A 106 406 78 DOD DOD . F 5 DOD A 107 407 84 DOD DOD . F 5 DOD A 108 408 85 DOD DOD . F 5 DOD A 109 409 87 DOD DOD . F 5 DOD A 110 410 89 DOD DOD . F 5 DOD A 111 411 94 DOD DOD . F 5 DOD A 112 412 95 DOD DOD . F 5 DOD A 113 413 98 DOD DOD . F 5 DOD A 114 414 104 DOD DOD . F 5 DOD A 115 415 110 DOD DOD . F 5 DOD A 116 416 117 DOD DOD . F 5 DOD A 117 417 118 DOD DOD . F 5 DOD A 118 418 120 DOD DOD . F 5 DOD A 119 419 122 DOD DOD . # 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 DHF . . . D 3 30.469 41.089 12.284 1 6.22 ? N1 DHF 203 A 1 HETATM 2 C C2 DHF . . . D 3 31.28 40.087 12.308 1 10.38 ? C2 DHF 203 A 1 HETATM 3 N NA2 DHF . . . D 3 30.837 38.819 12.66 1 11.49 ? NA2 DHF 203 A 1 HETATM 4 N N3 DHF . . . D 3 32.643 40.171 12.021 1 12.21 ? N3 DHF 203 A 1 HETATM 5 C C4 DHF . . . D 3 33.213 41.384 11.661 1 11.13 ? C4 DHF 203 A 1 HETATM 6 O O4 DHF . . . D 3 34.395 41.476 11.402 1 14.72 ? O4 DHF 203 A 1 HETATM 7 C C4A DHF . . . D 3 32.251 42.545 11.589 1 8.63 ? C4A DHF 203 A 1 HETATM 8 N N5 DHF . . . D 3 32.788 43.786 11.226 1 8.21 ? N5 DHF 203 A 1 HETATM 9 C C6 DHF . . . D 3 31.969 44.773 11.168 1 9.84 ? C6 DHF 203 A 1 HETATM 10 C C7 DHF . . . D 3 30.545 44.553 11.515 1 9.81 ? C7 DHF 203 A 1 HETATM 11 N N8 DHF . . . D 3 30.073 43.405 11.892 1 10.03 ? N8 DHF 203 A 1 HETATM 12 C C8A DHF . . . D 3 30.943 42.34 11.921 1 8.18 ? C8A DHF 203 A 1 HETATM 13 C C9 DHF . . . D 3 32.441 46.131 10.756 1 10.28 ? C9 DHF 203 A 1 HETATM 14 N N10 DHF . . . D 3 33.672 46.102 10.042 1 11.09 ? N10 DHF 203 A 1 HETATM 15 C C11 DHF . . . D 3 34.461 44.305 6.31 1 10.88 ? C11 DHF 203 A 1 HETATM 16 C C12 DHF . . . D 3 35.417 44.935 6.996 1 12.81 ? C12 DHF 203 A 1 HETATM 17 C C13 DHF . . . D 3 35.128 45.564 8.318 1 15.3 ? C13 DHF 203 A 1 HETATM 18 C C14 DHF . . . D 3 33.872 45.501 8.82 1 11.41 ? C14 DHF 203 A 1 HETATM 19 C C15 DHF . . . D 3 32.787 44.795 8.063 1 8.15 ? C15 DHF 203 A 1 HETATM 20 C C16 DHF . . . D 3 33.077 44.23 6.874 1 12.88 ? C16 DHF 203 A 1 HETATM 21 C C DHF . . . D 3 34.758 43.659 4.974 1 20.01 ? C DHF 203 A 1 HETATM 22 O O DHF . . . D 3 35.714 43.992 4.331 1 20.33 ? O DHF 203 A 1 HETATM 23 N N DHF . . . D 3 33.869 42.685 4.508 1 16.68 ? N DHF 203 A 1 HETATM 24 C CA DHF . . . D 3 33.962 42.07 3.225 1 17.75 ? CA DHF 203 A 1 HETATM 25 C CB DHF . . . D 3 34.562 40.68 3.476 1 19.83 ? CB DHF 203 A 1 HETATM 26 C CG DHF . . . D 3 34.729 39.813 2.262 1 35.77 ? CG DHF 203 A 1 HETATM 27 C CD DHF . . . D 3 35.262 38.443 2.703 1 47.55 ? CD DHF 203 A 1 HETATM 28 O OE1 DHF . . . D 3 34.606 37.372 2.468 1 46.1 ? OE1 DHF 203 A 1 HETATM 29 O OE2 DHF . . . D 3 36.356 38.37 3.344 1 37.38 ? OE2 DHF 203 A 1 HETATM 30 C CT DHF . . . D 3 32.537 41.972 2.719 1 15.67 ? CT DHF 203 A 1 HETATM 31 O O1 DHF . . . D 3 31.575 41.833 3.528 1 14.99 ? O1 DHF 203 A 1 HETATM 32 O O2 DHF . . . D 3 32.304 41.939 1.486 1 14.23 ? O2 DHF 203 A 1 HETATM 33 H HN21 DHF . A . D 3 29.964 38.685 12.886 0.24 13.79 ? HN21 DHF 203 A 1 HETATM 34 D DN21 DHF . B . D 3 29.964 38.685 12.886 0.76 13.79 ? DN21 DHF 203 A 1 HETATM 35 H HN22 DHF . A . D 3 31.426 38.124 12.707 0 13.79 ? HN22 DHF 203 A 1 HETATM 36 D DN22 DHF . B . D 3 31.426 38.124 12.707 1 13.79 ? DN22 DHF 203 A 1 HETATM 37 H H71 DHF . . . D 3 29.936 45.315 11.478 1 11.77 ? H71 DHF 203 A 1 HETATM 38 H H91 DHF . . . D 3 32.556 46.68 11.555 1 12.34 ? H91 DHF 203 A 1 HETATM 39 H H92 DHF . . . D 3 31.76 46.542 10.191 1 12.34 ? H92 DHF 203 A 1 HETATM 40 H HN0 DHF . A . D 3 34.389 46.51 10.43 0.16 13.3 ? HN0 DHF 203 A 1 HETATM 41 D DN0 DHF . B . D 3 34.389 46.51 10.43 0.84 13.3 ? DN0 DHF 203 A 1 HETATM 42 H H12 DHF . . . D 3 36.321 44.98 6.63 1 15.37 ? H12 DHF 203 A 1 HETATM 43 H H13 DHF . . . D 3 35.833 46.025 8.809 1 18.36 ? H13 DHF 203 A 1 HETATM 44 H H15 DHF . . . D 3 31.883 44.746 8.427 1 9.78 ? H15 DHF 203 A 1 HETATM 45 H H16 DHF . . . D 3 32.376 43.77 6.374 1 15.45 ? H16 DHF 203 A 1 HETATM 46 H HN DHF . A . D 3 33.164 42.459 5.041 0.23 20.01 ? HN DHF 203 A 1 HETATM 47 D DN DHF . B . D 3 33.164 42.459 5.041 0.77 20.01 ? DN DHF 203 A 1 HETATM 48 H HA DHF . . . D 3 34.52 42.595 2.62 1 21.3 ? HA DHF 203 A 1 HETATM 49 H HB1 DHF . . . D 3 33.987 40.211 4.11 1 23.8 ? HB1 DHF 203 A 1 HETATM 50 H HB2 DHF . . . D 3 35.439 40.799 3.888 1 23.8 ? HB2 DHF 203 A 1 HETATM 51 H HG1 DHF . . . D 3 35.361 40.229 1.646 1 42.92 ? HG1 DHF 203 A 1 HETATM 52 H HG2 DHF . . . D 3 33.867 39.703 1.818 1 42.92 ? HG2 DHF 203 A 1 # _model_server_stats.io_time_ms 33 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 284 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 52 #