data_1VCU # _model_server_result.job_id 0j7L1r9dboEq5n5DBDXOvg _model_server_result.datetime_utc '2024-12-21 11:41:32' _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 1vcu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":381}' # _entry.id 1VCU # _exptl.entry_id 1VCU _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 291.255 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90.64 _cell.angle_gamma 90 _cell.entry_id 1VCU _cell.length_a 157.65 _cell.length_b 74 _cell.length_c 77.19 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1VCU _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,D,E,I 1 1 B,F,G,H,J 2 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 F N N # _chem_comp.formula 'C11 H17 N O8' _chem_comp.formula_weight 291.255 _chem_comp.id DAN _chem_comp.mon_nstd_flag . _chem_comp.name '2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms Neu5Ac2en # 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 C1 C2 DAN sing 83 n n C1 O1A DAN doub 84 n n C1 O1B DAN sing 85 n n C2 C3 DAN doub 86 n n C2 O6 DAN sing 87 n n C3 C4 DAN sing 88 n n C3 H3 DAN sing 89 n n C4 C5 DAN sing 90 n n C4 O4 DAN sing 91 n n C4 H4 DAN sing 92 n n C5 C6 DAN sing 93 n n C5 N5 DAN sing 94 n n C5 H5 DAN sing 95 n n C6 C7 DAN sing 96 n n C6 O6 DAN sing 97 n n C6 H6 DAN sing 98 n n C7 C8 DAN sing 99 n n C7 O7 DAN sing 100 n n C7 H7 DAN sing 101 n n C8 C9 DAN sing 102 n n C8 O8 DAN sing 103 n n C8 H8 DAN sing 104 n n C9 O9 DAN sing 105 n n C9 H91 DAN sing 106 n n C9 H92 DAN sing 107 n n C10 C11 DAN sing 108 n n C10 N5 DAN sing 109 n n C10 O10 DAN doub 110 n n C11 H111 DAN sing 111 n n C11 H112 DAN sing 112 n n C11 H113 DAN sing 113 n n N5 HN5 DAN sing 114 n n O1B HO1B DAN sing 115 n n O4 HO4 DAN sing 116 n n O7 HO7 DAN sing 117 n n O8 HO8 DAN sing 118 n n O9 HO9 DAN sing 119 n n # _atom_sites.entry_id 1VCU _atom_sites.fract_transf_matrix[1][1] 0.006343 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.000071 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013514 _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] 0.012956 _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 C 2 DAN A 1 381 1 DAN DAN . D 3 EPE A 1 382 3 EPE EPE . E 3 EPE A 1 383 5 EPE EPE . F 2 DAN B 1 381 2 DAN DAN . G 3 EPE B 1 382 4 EPE EPE . H 3 EPE B 1 383 6 EPE EPE . I 4 HOH A 1 384 7 HOH TIP . I 4 HOH A 2 385 8 HOH TIP . I 4 HOH A 3 386 9 HOH TIP . I 4 HOH A 4 387 10 HOH TIP . I 4 HOH A 5 388 11 HOH TIP . I 4 HOH A 6 389 12 HOH TIP . I 4 HOH A 7 390 13 HOH TIP . I 4 HOH A 8 391 14 HOH TIP . I 4 HOH A 9 392 15 HOH TIP . I 4 HOH A 10 393 16 HOH TIP . I 4 HOH A 11 394 17 HOH TIP . I 4 HOH A 12 395 18 HOH TIP . I 4 HOH A 13 396 19 HOH TIP . I 4 HOH A 14 397 20 HOH TIP . I 4 HOH A 15 398 22 HOH TIP . I 4 HOH A 16 399 23 HOH TIP . I 4 HOH A 17 400 25 HOH TIP . I 4 HOH A 18 401 26 HOH TIP . I 4 HOH A 19 402 28 HOH TIP . I 4 HOH A 20 403 29 HOH TIP . I 4 HOH A 21 404 30 HOH TIP . I 4 HOH A 22 405 31 HOH TIP . I 4 HOH A 23 406 32 HOH TIP . I 4 HOH A 24 407 33 HOH TIP . I 4 HOH A 25 408 34 HOH TIP . I 4 HOH A 26 409 35 HOH TIP . I 4 HOH A 27 410 36 HOH TIP . I 4 HOH A 28 411 37 HOH TIP . I 4 HOH A 29 412 38 HOH TIP . I 4 HOH A 30 413 39 HOH TIP . I 4 HOH A 31 414 40 HOH TIP . I 4 HOH A 32 415 42 HOH TIP . I 4 HOH A 33 416 43 HOH TIP . I 4 HOH A 34 417 44 HOH TIP . I 4 HOH A 35 418 45 HOH TIP . I 4 HOH A 36 419 46 HOH TIP . I 4 HOH A 37 420 47 HOH TIP . I 4 HOH A 38 421 50 HOH TIP . I 4 HOH A 39 422 51 HOH TIP . I 4 HOH A 40 423 52 HOH TIP . I 4 HOH A 41 424 53 HOH TIP . I 4 HOH A 42 425 54 HOH TIP . I 4 HOH A 43 426 55 HOH TIP . I 4 HOH A 44 427 56 HOH TIP . I 4 HOH A 45 428 57 HOH TIP . I 4 HOH A 46 429 58 HOH TIP . I 4 HOH A 47 430 59 HOH TIP . I 4 HOH A 48 431 60 HOH TIP . I 4 HOH A 49 432 61 HOH TIP . I 4 HOH A 50 433 62 HOH TIP . I 4 HOH A 51 434 63 HOH TIP . I 4 HOH A 52 435 64 HOH TIP . I 4 HOH A 53 436 65 HOH TIP . I 4 HOH A 54 437 66 HOH TIP . I 4 HOH A 55 438 67 HOH TIP . I 4 HOH A 56 439 68 HOH TIP . I 4 HOH A 57 440 69 HOH TIP . I 4 HOH A 58 441 70 HOH TIP . I 4 HOH A 59 442 71 HOH TIP . I 4 HOH A 60 443 72 HOH TIP . I 4 HOH A 61 444 73 HOH TIP . I 4 HOH A 62 445 75 HOH TIP . I 4 HOH A 63 446 76 HOH TIP . I 4 HOH A 64 447 77 HOH TIP . I 4 HOH A 65 448 109 HOH TIP . I 4 HOH A 66 449 132 HOH TIP . I 4 HOH A 67 450 133 HOH TIP . I 4 HOH A 68 451 134 HOH TIP . I 4 HOH A 69 452 135 HOH TIP . I 4 HOH A 70 453 136 HOH TIP . I 4 HOH A 71 454 137 HOH TIP . J 4 HOH B 1 384 21 HOH TIP . J 4 HOH B 2 385 24 HOH TIP . J 4 HOH B 3 386 27 HOH TIP . J 4 HOH B 4 387 41 HOH TIP . J 4 HOH B 5 388 48 HOH TIP . J 4 HOH B 6 389 49 HOH TIP . J 4 HOH B 7 390 74 HOH TIP . J 4 HOH B 8 391 78 HOH TIP . J 4 HOH B 9 392 79 HOH TIP . J 4 HOH B 10 393 80 HOH TIP . J 4 HOH B 11 394 81 HOH TIP . J 4 HOH B 12 395 82 HOH TIP . J 4 HOH B 13 396 83 HOH TIP . J 4 HOH B 14 397 84 HOH TIP . J 4 HOH B 15 398 85 HOH TIP . J 4 HOH B 16 399 86 HOH TIP . J 4 HOH B 17 400 87 HOH TIP . J 4 HOH B 18 401 88 HOH TIP . J 4 HOH B 19 402 89 HOH TIP . J 4 HOH B 20 403 90 HOH TIP . J 4 HOH B 21 404 91 HOH TIP . J 4 HOH B 22 405 92 HOH TIP . J 4 HOH B 23 406 93 HOH TIP . J 4 HOH B 24 407 94 HOH TIP . J 4 HOH B 25 408 95 HOH TIP . J 4 HOH B 26 409 96 HOH TIP . J 4 HOH B 27 410 97 HOH TIP . J 4 HOH B 28 411 98 HOH TIP . J 4 HOH B 29 412 99 HOH TIP . J 4 HOH B 30 413 100 HOH TIP . J 4 HOH B 31 414 101 HOH TIP . J 4 HOH B 32 415 102 HOH TIP . J 4 HOH B 33 416 103 HOH TIP . J 4 HOH B 34 417 104 HOH TIP . J 4 HOH B 35 418 105 HOH TIP . J 4 HOH B 36 419 106 HOH TIP . J 4 HOH B 37 420 107 HOH TIP . J 4 HOH B 38 421 108 HOH TIP . J 4 HOH B 39 422 110 HOH TIP . J 4 HOH B 40 423 111 HOH TIP . J 4 HOH B 41 424 112 HOH TIP . J 4 HOH B 42 425 113 HOH TIP . J 4 HOH B 43 426 114 HOH TIP . J 4 HOH B 44 427 115 HOH TIP . J 4 HOH B 45 428 116 HOH TIP . J 4 HOH B 46 429 117 HOH TIP . J 4 HOH B 47 430 118 HOH TIP . J 4 HOH B 48 431 119 HOH TIP . J 4 HOH B 49 432 120 HOH TIP . J 4 HOH B 50 433 121 HOH TIP . J 4 HOH B 51 434 122 HOH TIP . J 4 HOH B 52 435 123 HOH TIP . J 4 HOH B 53 436 124 HOH TIP . J 4 HOH B 54 437 125 HOH TIP . J 4 HOH B 55 438 126 HOH TIP . J 4 HOH B 56 439 127 HOH TIP . J 4 HOH B 57 440 128 HOH TIP . J 4 HOH B 58 441 129 HOH TIP . J 4 HOH B 59 442 130 HOH TIP . J 4 HOH B 60 443 131 HOH TIP . # 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 C C1 DAN . . . C 2 10.392 3.836 7.634 1 20.08 ? C1 DAN 381 A 1 HETATM 2 C C2 DAN . . . C 2 10.453 5.081 8.334 1 19.99 ? C2 DAN 381 A 1 HETATM 3 C C3 DAN . . . C 2 9.439 5.369 9.464 1 18.96 ? C3 DAN 381 A 1 HETATM 4 C C4 DAN . . . C 2 10.04 6.352 10.491 1 17.68 ? C4 DAN 381 A 1 HETATM 5 C C5 DAN . . . C 2 10.874 7.441 9.833 1 18.88 ? C5 DAN 381 A 1 HETATM 6 C C6 DAN . . . C 2 12.006 6.763 9.023 1 20.62 ? C6 DAN 381 A 1 HETATM 7 C C7 DAN . . . C 2 12.921 7.778 8.295 1 21.43 ? C7 DAN 381 A 1 HETATM 8 C C8 DAN . . . C 2 14.094 7.109 7.511 1 22.29 ? C8 DAN 381 A 1 HETATM 9 C C9 DAN . . . C 2 14.975 8.151 6.808 1 22.17 ? C9 DAN 381 A 1 HETATM 10 C C10 DAN . . . C 2 11.003 9.575 11.125 1 20.1 ? C10 DAN 381 A 1 HETATM 11 C C11 DAN . . . C 2 11.61 10.345 12.273 1 17.44 ? C11 DAN 381 A 1 HETATM 12 N N5 DAN . . . C 2 11.38 8.304 10.913 1 19.51 ? N5 DAN 381 A 1 HETATM 13 O O1A DAN . . . C 2 11.429 3.379 6.869 1 21.48 ? O1A DAN 381 A 1 HETATM 14 O O1B DAN . . . C 2 9.336 3.092 7.725 1 18.87 ? O1B DAN 381 A 1 HETATM 15 O O4 DAN . . . C 2 8.962 6.912 11.233 1 17.3 ? O4 DAN 381 A 1 HETATM 16 O O6 DAN . . . C 2 11.402 5.904 8 1 21.7 ? O6 DAN 381 A 1 HETATM 17 O O7 DAN . . . C 2 12.169 8.506 7.314 1 22.47 ? O7 DAN 381 A 1 HETATM 18 O O8 DAN . . . C 2 14.92 6.374 8.416 1 24.12 ? O8 DAN 381 A 1 HETATM 19 O O9 DAN . . . C 2 15.728 8.933 7.701 1 21.39 ? O9 DAN 381 A 1 HETATM 20 O O10 DAN . . . C 2 10.079 10.229 10.341 1 21.36 ? O10 DAN 381 A 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 9 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 278 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 20 #