data_1VFN # _model_server_result.job_id '_H3qKSc2G-EqCnAfEVPXJg' _model_server_result.datetime_utc '2024-10-18 16:26:20' _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 1vfn # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":300}' # _entry.id 1VFN # _exptl.entry_id 1VFN _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 136.111 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description HYPOXANTHINE _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 1VFN _cell.length_a 94.11 _cell.length_b 94.11 _cell.length_c 94.11 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VFN _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 3' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA,PQS trimeric 3 author_and_software_defined_assembly 1 PISA trimeric 3 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E 1 1,2,3 A,B,C,D,E 2 1,4,5 # 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' 6_566 z+1/2,-x+3/2,-y+1 0 0 1 -1 0 0 0 -1 0 47.055 141.165 94.11 3 'crystal symmetry operation' 12_664 -y+3/2,-z+1,x-1/2 0 -1 0 0 0 -1 1 0 0 141.165 94.11 -47.055 4 'crystal symmetry operation' 7_665 -z+3/2,-x+1,y+1/2 0 0 -1 -1 0 0 0 1 0 141.165 94.11 47.055 5 'crystal symmetry operation' 10_646 -y+1,z-1/2,-x+3/2 0 -1 0 0 0 1 -1 0 0 94.11 -47.055 141.165 # _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 # 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 NE2 HIS 17 A HIS 20 1_555 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? metalc ? metalc2 A NE2 HIS 17 A HIS 20 7_665 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.223 ? metalc ? metalc3 A NE2 HIS 17 A HIS 20 10_646 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.227 ? metalc ? metalc4 B MG MG . A MG 301 1_555 E O HOH . A HOH 335 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.239 ? metalc ? metalc5 B MG MG . A MG 301 1_555 E O HOH . A HOH 345 10_646 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? metalc ? metalc6 B MG MG . A MG 301 1_555 E O HOH . A HOH 346 10_646 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? metalc ? metalc7 B MG MG . A MG 301 1_555 E O HOH . A HOH 347 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? metalc ? metalc8 B MG MG . A MG 301 1_555 E O HOH . A HOH 348 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? metalc ? metalc9 B MG MG . A MG 301 1_555 E O HOH . A HOH 349 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.299 ? metalc ? metalc10 E O HOH . A HOH 433 1_555 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc11 E O HOH . A HOH 433 7_665 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? metalc ? metalc12 E O HOH . A HOH 433 10_646 C ZN ZN . A ZN 434 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.76 ? # _chem_comp.formula 'C5 H4 N4 O' _chem_comp.formula_weight 136.111 _chem_comp.id HPA _chem_comp.mon_nstd_flag . _chem_comp.name HYPOXANTHINE _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 HPA sing 152 n y N1 C6 HPA sing 153 n y N1 HN1 HPA sing 154 n n C2 N3 HPA doub 155 n y C2 H2 HPA sing 156 n n N3 C4 HPA sing 157 n y C4 C5 HPA doub 158 n y C4 N9 HPA sing 159 n y C5 C6 HPA sing 160 n y C5 N7 HPA sing 161 n y C6 O6 HPA doub 162 n n N7 C8 HPA sing 163 n y N7 HN7 HPA sing 164 n n C8 N9 HPA doub 165 n y C8 H8 HPA sing 166 n n # _atom_sites.entry_id 1VFN _atom_sites.fract_transf_matrix[1][1] 0.010626 _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] 0.010626 _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] 0.010626 _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 MG A 1 301 301 MG MG . C 3 ZN A 1 434 434 ZN ZN . D 4 HPA A 1 300 300 HPA HPA . E 5 HOH A 1 302 302 HOH HOH . E 5 HOH A 2 303 303 HOH HOH . E 5 HOH A 3 304 304 HOH HOH . E 5 HOH A 4 305 305 HOH HOH . E 5 HOH A 5 306 306 HOH HOH . E 5 HOH A 6 307 307 HOH HOH . E 5 HOH A 7 308 308 HOH HOH . E 5 HOH A 8 309 309 HOH HOH . E 5 HOH A 9 310 310 HOH HOH . E 5 HOH A 10 311 311 HOH HOH . E 5 HOH A 11 312 312 HOH HOH . E 5 HOH A 12 313 313 HOH HOH . E 5 HOH A 13 314 314 HOH HOH . E 5 HOH A 14 315 315 HOH HOH . E 5 HOH A 15 316 316 HOH HOH . E 5 HOH A 16 317 317 HOH HOH . E 5 HOH A 17 318 318 HOH HOH . E 5 HOH A 18 319 319 HOH HOH . E 5 HOH A 19 320 320 HOH HOH . E 5 HOH A 20 321 321 HOH HOH . E 5 HOH A 21 322 322 HOH HOH . E 5 HOH A 22 323 323 HOH HOH . E 5 HOH A 23 324 324 HOH HOH . E 5 HOH A 24 325 325 HOH HOH . E 5 HOH A 25 326 326 HOH HOH . E 5 HOH A 26 327 327 HOH HOH . E 5 HOH A 27 328 328 HOH HOH . E 5 HOH A 28 329 329 HOH HOH . E 5 HOH A 29 330 330 HOH HOH . E 5 HOH A 30 331 331 HOH HOH . E 5 HOH A 31 332 332 HOH HOH . E 5 HOH A 32 333 333 HOH HOH . E 5 HOH A 33 334 334 HOH HOH . E 5 HOH A 34 335 335 HOH HOH . E 5 HOH A 35 336 336 HOH HOH . E 5 HOH A 36 337 337 HOH HOH . E 5 HOH A 37 338 338 HOH HOH . E 5 HOH A 38 339 339 HOH HOH . E 5 HOH A 39 340 340 HOH HOH . E 5 HOH A 40 342 342 HOH HOH . E 5 HOH A 41 343 343 HOH HOH . E 5 HOH A 42 344 344 HOH HOH . E 5 HOH A 43 345 345 HOH HOH . E 5 HOH A 44 346 346 HOH HOH . E 5 HOH A 45 347 347 HOH HOH . E 5 HOH A 46 348 348 HOH HOH . E 5 HOH A 47 349 349 HOH HOH . E 5 HOH A 48 350 350 HOH HOH . E 5 HOH A 49 351 351 HOH HOH . E 5 HOH A 50 352 352 HOH HOH . E 5 HOH A 51 353 353 HOH HOH . E 5 HOH A 52 354 354 HOH HOH . E 5 HOH A 53 355 355 HOH HOH . E 5 HOH A 54 356 356 HOH HOH . E 5 HOH A 55 357 357 HOH HOH . E 5 HOH A 56 358 358 HOH HOH . E 5 HOH A 57 359 359 HOH HOH . E 5 HOH A 58 360 360 HOH HOH . E 5 HOH A 59 361 361 HOH HOH . E 5 HOH A 60 362 362 HOH HOH . E 5 HOH A 61 363 363 HOH HOH . E 5 HOH A 62 364 364 HOH HOH . E 5 HOH A 63 365 365 HOH HOH . E 5 HOH A 64 366 366 HOH HOH . E 5 HOH A 65 367 367 HOH HOH . E 5 HOH A 66 368 368 HOH HOH . E 5 HOH A 67 369 369 HOH HOH . E 5 HOH A 68 370 370 HOH HOH . E 5 HOH A 69 371 371 HOH HOH . E 5 HOH A 70 372 372 HOH HOH . E 5 HOH A 71 373 373 HOH HOH . E 5 HOH A 72 374 374 HOH HOH . E 5 HOH A 73 375 375 HOH HOH . E 5 HOH A 74 376 376 HOH HOH . E 5 HOH A 75 377 377 HOH HOH . E 5 HOH A 76 378 378 HOH HOH . E 5 HOH A 77 379 379 HOH HOH . E 5 HOH A 78 380 380 HOH HOH . E 5 HOH A 79 381 381 HOH HOH . E 5 HOH A 80 382 382 HOH HOH . E 5 HOH A 81 383 383 HOH HOH . E 5 HOH A 82 384 384 HOH HOH . E 5 HOH A 83 385 385 HOH HOH . E 5 HOH A 84 386 386 HOH HOH . E 5 HOH A 85 387 387 HOH HOH . E 5 HOH A 86 388 388 HOH HOH . E 5 HOH A 87 389 389 HOH HOH . E 5 HOH A 88 390 390 HOH HOH . E 5 HOH A 89 391 391 HOH HOH . E 5 HOH A 90 392 392 HOH HOH . E 5 HOH A 91 393 393 HOH HOH . E 5 HOH A 92 394 394 HOH HOH . E 5 HOH A 93 396 396 HOH HOH . E 5 HOH A 94 397 397 HOH HOH . E 5 HOH A 95 398 398 HOH HOH . E 5 HOH A 96 399 399 HOH HOH . E 5 HOH A 97 400 400 HOH HOH . E 5 HOH A 98 401 401 HOH HOH . E 5 HOH A 99 402 402 HOH HOH . E 5 HOH A 100 403 403 HOH HOH . E 5 HOH A 101 404 404 HOH HOH . E 5 HOH A 102 405 405 HOH HOH . E 5 HOH A 103 406 406 HOH HOH . E 5 HOH A 104 407 407 HOH HOH . E 5 HOH A 105 408 408 HOH HOH . E 5 HOH A 106 409 409 HOH HOH . E 5 HOH A 107 410 410 HOH HOH . E 5 HOH A 108 411 411 HOH HOH . E 5 HOH A 109 412 412 HOH HOH . E 5 HOH A 110 413 413 HOH HOH . E 5 HOH A 111 414 414 HOH HOH . E 5 HOH A 112 415 415 HOH HOH . E 5 HOH A 113 416 416 HOH HOH . E 5 HOH A 114 418 418 HOH HOH . E 5 HOH A 115 419 419 HOH HOH . E 5 HOH A 116 420 420 HOH HOH . E 5 HOH A 117 421 421 HOH HOH . E 5 HOH A 118 422 422 HOH HOH . E 5 HOH A 119 423 423 HOH HOH . E 5 HOH A 120 424 424 HOH HOH . E 5 HOH A 121 425 425 HOH HOH . E 5 HOH A 122 426 426 HOH HOH . E 5 HOH A 123 427 427 HOH HOH . E 5 HOH A 124 428 428 HOH HOH . E 5 HOH A 125 429 429 HOH HOH . E 5 HOH A 126 430 430 HOH HOH . E 5 HOH A 127 431 431 HOH HOH . E 5 HOH A 128 432 432 HOH HOH . E 5 HOH A 129 433 433 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 HPA . . . D 4 74.594 49.823 49.65 1 18.07 ? N1 HPA 300 A 1 HETATM 2 C C2 HPA . . . D 4 75.505 48.772 49.594 1 26.06 ? C2 HPA 300 A 1 HETATM 3 N N3 HPA . . . D 4 75.194 47.474 49.774 1 32.51 ? N3 HPA 300 A 1 HETATM 4 C C4 HPA . . . D 4 73.867 47.308 49.97 1 28.45 ? C4 HPA 300 A 1 HETATM 5 C C5 HPA . . . D 4 72.886 48.294 50.093 1 14.99 ? C5 HPA 300 A 1 HETATM 6 C C6 HPA . . . D 4 73.229 49.667 49.956 1 17.05 ? C6 HPA 300 A 1 HETATM 7 O O6 HPA . . . D 4 72.487 50.656 50.002 1 15.55 ? O6 HPA 300 A 1 HETATM 8 N N7 HPA . . . D 4 71.635 47.709 50.359 1 32.15 ? N7 HPA 300 A 1 HETATM 9 C C8 HPA . . . D 4 71.897 46.431 50.392 1 22.93 ? C8 HPA 300 A 1 HETATM 10 N N9 HPA . . . D 4 73.237 46.102 50.17 1 23.71 ? N9 HPA 300 A 1 # _model_server_stats.io_time_ms 67 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 235 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 10 #