data_4JNO # _model_server_result.job_id ep3C3iAmgGb9fmkmQoSzzQ _model_server_result.datetime_utc '2024-12-08 11:37:51' _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":"B","auth_seq_id":801}' # _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 . . . B 2 -51.619 16.229 -25.377 1 68.67 ? C1 SIA 801 A 1 HETATM 2 C C2 SIA . . . B 2 -51.462 17.197 -24.231 1 66.74 ? C2 SIA 801 A 1 HETATM 3 C C3 SIA . . . B 2 -49.985 17.317 -23.863 1 65.84 ? C3 SIA 801 A 1 HETATM 4 C C4 SIA . . . B 2 -49.229 18.223 -24.816 1 64.88 ? C4 SIA 801 A 1 HETATM 5 C C5 SIA . . . B 2 -49.906 19.577 -24.87 1 63.45 ? C5 SIA 801 A 1 HETATM 6 C C6 SIA . . . B 2 -51.339 19.406 -25.36 1 63.91 ? C6 SIA 801 A 1 HETATM 7 C C7 SIA . . . B 2 -52.131 20.706 -25.31 1 63.7 ? C7 SIA 801 A 1 HETATM 8 C C8 SIA . . . B 2 -53.526 20.474 -25.877 1 64.22 ? C8 SIA 801 A 1 HETATM 9 C C9 SIA . . . B 2 -54.273 21.784 -26.095 1 64.23 ? C9 SIA 801 A 1 HETATM 10 C C10 SIA . . . B 2 -48.949 21.747 -25.586 1 60.08 ? C10 SIA 801 A 1 HETATM 11 C C11 SIA . . . B 2 -49.47 22.416 -24.347 1 59.19 ? C11 SIA 801 A 1 HETATM 12 N N5 SIA . . . B 2 -49.173 20.443 -25.773 1 61.45 ? N5 SIA 801 A 1 HETATM 13 O O1A SIA . . . B 2 -51.917 16.685 -26.502 1 69.26 ? O1A SIA 801 A 1 HETATM 14 O O1B SIA . . . B 2 -51.443 15.011 -25.165 1 69.58 ? O1B SIA 801 A 1 HETATM 15 O O2 SIA . . . B 2 -52.166 16.676 -23.099 1 66.99 ? O2 SIA 801 A 1 HETATM 16 O O4 SIA . . . B 2 -47.878 18.352 -24.366 1 64.22 ? O4 SIA 801 A 1 HETATM 17 O O6 SIA . . . B 2 -52.084 18.429 -24.622 1 65.42 ? O6 SIA 801 A 1 HETATM 18 O O7 SIA . . . B 2 -52.237 21.16 -23.957 1 63.46 ? O7 SIA 801 A 1 HETATM 19 O O8 SIA . . . B 2 -53.427 19.766 -27.119 1 63.51 ? O8 SIA 801 A 1 HETATM 20 O O9 SIA . . . B 2 -53.5 22.647 -26.937 1 64.87 ? O9 SIA 801 A 1 HETATM 21 O O10 SIA . . . B 2 -48.32 22.387 -26.409 1 59.11 ? O10 SIA 801 A 1 HETATM 22 H H32 SIA . . . B 2 -49.53 16.324 -23.875 1 79.01 ? H32 SIA 801 A 1 HETATM 23 H H31 SIA . . . B 2 -49.898 17.71 -22.848 1 79.01 ? H31 SIA 801 A 1 HETATM 24 H H4 SIA . . . B 2 -49.249 17.777 -25.82 1 77.85 ? H4 SIA 801 A 1 HETATM 25 H H5 SIA . . . B 2 -49.917 20.02 -23.864 1 76.13 ? H5 SIA 801 A 1 HETATM 26 H H6 SIA . . . B 2 -51.29 19.089 -26.411 1 76.69 ? H6 SIA 801 A 1 HETATM 27 H H7 SIA . . . B 2 -51.617 21.461 -25.922 1 76.44 ? H7 SIA 801 A 1 HETATM 28 H H8 SIA . . . B 2 -54.095 19.869 -25.157 1 77.06 ? H8 SIA 801 A 1 HETATM 29 H H92 SIA . . . B 2 -54.452 22.27 -25.134 1 77.07 ? H92 SIA 801 A 1 HETATM 30 H H91 SIA . . . B 2 -55.24 21.584 -26.561 1 77.07 ? H91 SIA 801 A 1 HETATM 31 H H111 SIA . . . B 2 -50.059 21.73 -23.797 1 71.03 ? H111 SIA 801 A 1 HETATM 32 H H113 SIA . . . B 2 -50.062 23.251 -24.62 1 71.03 ? H113 SIA 801 A 1 HETATM 33 H H112 SIA . . . B 2 -48.656 22.739 -23.752 1 71.03 ? H112 SIA 801 A 1 HETATM 34 H HN5 SIA . . . B 2 -48.812 20.016 -26.614 1 73.74 ? HN5 SIA 801 A 1 HETATM 35 H HO2 SIA . . . B 2 -51.81 15.807 -22.869 1 80.39 ? HO2 SIA 801 A 1 HETATM 36 H HO4 SIA . . . B 2 -47.487 17.474 -24.262 1 77.06 ? HO4 SIA 801 A 1 HETATM 37 H HO7 SIA . . . B 2 -52.671 22.024 -23.94 1 76.16 ? HO7 SIA 801 A 1 HETATM 38 H HO8 SIA . . . B 2 -54.314 19.55 -27.438 1 76.22 ? HO8 SIA 801 A 1 HETATM 39 H HO9 SIA . . . B 2 -54.01 23.444 -27.137 1 77.84 ? HO9 SIA 801 A 1 # _model_server_stats.io_time_ms 62 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 39 _model_server_stats.query_time_ms 355 _model_server_stats.encode_time_ms 8 _model_server_stats.element_count 39 #