data_4JNO # _model_server_result.job_id g98ix9eLDKA4bh7o1XXE7w _model_server_result.datetime_utc '2024-12-05 13:37:08' _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 4jno # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":802}' # _entry.id 4JNO # _exptl.entry_id 4JNO _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 309.27 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 'N-acetyl-alpha-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 96.93 _cell.angle_gamma 90 _cell.entry_id 4JNO _cell.length_a 64.95 _cell.length_b 76.03 _cell.length_c 81.43 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4JNO _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 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 _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 B N N ? 2 C N 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 disulf ? disulf1 A SG CYS 14 A CYS 154 1_555 A SG CYS 44 A CYS 184 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf2 A SG CYS 25 A CYS 165 1_555 A SG CYS 35 A CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 87 A CYS 227 1_555 A SG CYS 166 A CYS 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 202 A CYS 342 1_555 A SG CYS 215 A CYS 355 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 211 A CYS 351 1_555 A SG CYS 281 A CYS 421 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 A SG CYS 219 A CYS 359 1_555 A SG CYS 279 A CYS 419 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf7 A SG CYS 316 A CYS 456 1_555 A SG CYS 349 A CYS 489 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf8 A SG CYS 328 A CYS 468 1_555 A SG CYS 340 A CYS 480 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 A SG CYS 392 A CYS 532 1_555 A SG CYS 467 A CYS 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 A SG CYS 491 A CYS 631 1_555 A SG CYS 574 A CYS 714 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf11 A SG CYS 518 A CYS 658 1_555 A SG CYS 598 A CYS 738 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 A SG CYS 522 A CYS 662 1_555 A SG CYS 595 A CYS 735 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? # _chem_comp.formula 'C11 H19 N O9' _chem_comp.formula_weight 309.27 _chem_comp.id SIA _chem_comp.mon_nstd_flag . _chem_comp.name 'N-acetyl-alpha-neuraminic acid' _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms 'N-acetylneuraminic acid;sialic acid;alpha-sialic acid;O-SIALIC ACID' # 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 SIA sing 290 n n C1 O1A SIA doub 291 n n C1 O1B SIA sing 292 n n C2 C3 SIA sing 293 n n C2 O2 SIA sing 294 n n C2 O6 SIA sing 295 n n C3 C4 SIA sing 296 n n C3 H32 SIA sing 297 n n C3 H31 SIA sing 298 n n C4 C5 SIA sing 299 n n C4 O4 SIA sing 300 n n C4 H4 SIA sing 301 n n C5 C6 SIA sing 302 n n C5 N5 SIA sing 303 n n C5 H5 SIA sing 304 n n C6 C7 SIA sing 305 n n C6 O6 SIA sing 306 n n C6 H6 SIA sing 307 n n C7 C8 SIA sing 308 n n C7 O7 SIA sing 309 n n C7 H7 SIA sing 310 n n C8 C9 SIA sing 311 n n C8 O8 SIA sing 312 n n C8 H8 SIA sing 313 n n C9 O9 SIA sing 314 n n C9 H92 SIA sing 315 n n C9 H91 SIA sing 316 n n C10 C11 SIA sing 317 n n C10 N5 SIA sing 318 n n C10 O10 SIA doub 319 n n C11 H111 SIA sing 320 n n C11 H113 SIA sing 321 n n C11 H112 SIA sing 322 n n N5 HN5 SIA sing 323 n n O1B HO1B SIA sing 324 n n O2 HO2 SIA sing 325 n n O4 HO4 SIA sing 326 n n O7 HO7 SIA sing 327 n n O8 HO8 SIA sing 328 n n O9 HO9 SIA sing 329 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version SIA DNeup5Aca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 SIA 'N-acetyl-a-D-neuraminic acid' 'COMMON NAME' GMML 1 SIA a-D-Neup5Ac 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 SIA Neu5Ac 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 4JNO _atom_sites.fract_transf_matrix[1][1] 0.015396 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001871 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.013153 _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] 0.012371 _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 SIA A 1 801 1 SIA SIA . C 2 SIA A 1 802 1 SIA SIA . D 3 HOH A 1 901 1 HOH HOH . D 3 HOH A 2 902 2 HOH HOH . D 3 HOH A 3 903 3 HOH HOH . D 3 HOH A 4 904 4 HOH HOH . D 3 HOH A 5 905 5 HOH HOH . D 3 HOH A 6 906 6 HOH HOH . D 3 HOH A 7 907 7 HOH HOH . D 3 HOH A 8 908 8 HOH HOH . D 3 HOH A 9 909 9 HOH HOH . D 3 HOH A 10 910 10 HOH HOH . D 3 HOH A 11 911 11 HOH HOH . D 3 HOH A 12 912 12 HOH HOH . D 3 HOH A 13 913 13 HOH HOH . D 3 HOH A 14 914 14 HOH HOH . D 3 HOH A 15 915 15 HOH HOH . D 3 HOH A 16 916 16 HOH HOH . D 3 HOH A 17 917 17 HOH HOH . D 3 HOH A 18 918 18 HOH HOH . D 3 HOH A 19 919 19 HOH HOH . D 3 HOH A 20 920 20 HOH HOH . D 3 HOH A 21 921 21 HOH HOH . D 3 HOH A 22 922 22 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 C C1 SIA . . . C 2 -5.716 12.491 11.955 1 66.61 ? C1 SIA 802 A 1 HETATM 2 C C2 SIA . . . C 2 -4.655 13.518 11.645 1 65.86 ? C2 SIA 802 A 1 HETATM 3 C C3 SIA . . . C 2 -3.271 12.928 11.942 1 65.38 ? C3 SIA 802 A 1 HETATM 4 C C4 SIA . . . C 2 -2.658 12.172 10.775 1 65.01 ? C4 SIA 802 A 1 HETATM 5 C C5 SIA . . . C 2 -2.772 13.011 9.52 1 64.07 ? C5 SIA 802 A 1 HETATM 6 C C6 SIA . . . C 2 -4.249 13.234 9.232 1 63.93 ? C6 SIA 802 A 1 HETATM 7 C C7 SIA . . . C 2 -4.49 13.982 7.924 1 62.79 ? C7 SIA 802 A 1 HETATM 8 C C8 SIA . . . C 2 -5.934 14.469 7.841 1 61.69 ? C8 SIA 802 A 1 HETATM 9 C C9 SIA . . . C 2 -6.455 14.48 6.408 1 61.71 ? C9 SIA 802 A 1 HETATM 10 C C10 SIA . . . C 2 -1.278 12.897 7.544 1 63.11 ? C10 SIA 802 A 1 HETATM 11 C C11 SIA . . . C 2 -0.925 14.351 7.678 1 63.08 ? C11 SIA 802 A 1 HETATM 12 N N5 SIA . . . C 2 -2.124 12.335 8.412 1 63.48 ? N5 SIA 802 A 1 HETATM 13 O O1A SIA . . . C 2 -6.461 12.114 11.025 1 66.62 ? O1A SIA 802 A 1 HETATM 14 O O1B SIA . . . C 2 -5.812 12.052 13.12 1 66.94 ? O1B SIA 802 A 1 HETATM 15 O O2 SIA . . . C 2 -4.859 14.65 12.498 1 66.23 ? O2 SIA 802 A 1 HETATM 16 O O4 SIA . . . C 2 -1.281 11.884 11.045 1 65.21 ? O4 SIA 802 A 1 HETATM 17 O O6 SIA . . . C 2 -4.879 13.953 10.295 1 64.98 ? O6 SIA 802 A 1 HETATM 18 O O7 SIA . . . C 2 -3.615 15.111 7.839 1 62.68 ? O7 SIA 802 A 1 HETATM 19 O O8 SIA . . . C 2 -6.774 13.629 8.64 1 61.21 ? O8 SIA 802 A 1 HETATM 20 O O9 SIA . . . C 2 -5.368 14.599 5.484 1 61.64 ? O9 SIA 802 A 1 HETATM 21 O O10 SIA . . . C 2 -0.791 12.232 6.649 1 62.67 ? O10 SIA 802 A 1 HETATM 22 H H32 SIA . . . C 2 -3.352 12.252 12.796 1 78.45 ? H32 SIA 802 A 1 HETATM 23 H H31 SIA . . . C 2 -2.597 13.737 12.231 1 78.45 ? H31 SIA 802 A 1 HETATM 24 H H4 SIA . . . C 2 -3.214 11.236 10.627 1 78.01 ? H4 SIA 802 A 1 HETATM 25 H H5 SIA . . . C 2 -2.287 13.982 9.689 1 76.88 ? H5 SIA 802 A 1 HETATM 26 H H6 SIA . . . C 2 -4.723 12.246 9.143 1 76.72 ? H6 SIA 802 A 1 HETATM 27 H H7 SIA . . . C 2 -4.3 13.298 7.086 1 75.35 ? H7 SIA 802 A 1 HETATM 28 H H8 SIA . . . C 2 -5.973 15.497 8.229 1 74.03 ? H8 SIA 802 A 1 HETATM 29 H H92 SIA . . . C 2 -7.144 15.317 6.274 1 74.05 ? H92 SIA 802 A 1 HETATM 30 H H91 SIA . . . C 2 -7.004 13.556 6.211 1 74.05 ? H91 SIA 802 A 1 HETATM 31 H H111 SIA . . . C 2 -1.504 14.785 8.451 1 75.69 ? H111 SIA 802 A 1 HETATM 32 H H113 SIA . . . C 2 -1.126 14.848 6.765 1 75.69 ? H113 SIA 802 A 1 HETATM 33 H H112 SIA . . . C 2 0.104 14.445 7.911 1 75.69 ? H112 SIA 802 A 1 HETATM 34 H HN5 SIA . . . C 2 -2.34 11.356 8.295 1 76.17 ? HN5 SIA 802 A 1 HETATM 35 H HO2 SIA . . . C 2 -4.793 14.373 13.423 1 79.48 ? HO2 SIA 802 A 1 HETATM 36 H HO4 SIA . . . C 2 -1.208 11.416 11.888 1 78.25 ? HO4 SIA 802 A 1 HETATM 37 H HO7 SIA . . . C 2 -3.718 15.533 6.975 1 75.21 ? HO7 SIA 802 A 1 HETATM 38 H HO8 SIA . . . C 2 -7.673 13.985 8.648 1 73.45 ? HO8 SIA 802 A 1 HETATM 39 H HO9 SIA . . . C 2 -5.703 14.526 4.58 1 73.97 ? HO9 SIA 802 A 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 26 _model_server_stats.create_model_time_ms 175 _model_server_stats.query_time_ms 2125 _model_server_stats.encode_time_ms 23 _model_server_stats.element_count 39 #