data_2P3J # _model_server_result.job_id kjKs92WymoqHpWbs_k27TA _model_server_result.datetime_utc '2024-10-17 13:15:49' _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 2p3j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":1000}' # _entry.id 2P3J # _exptl.entry_id 2P3J _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 323.296 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-O-methyl-5-N-acetyl-alpha-D-neuraminic 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 2P3J _cell.length_a 48.531 _cell.length_b 48.531 _cell.length_c 131.403 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2P3J _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _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 # _struct_asym.details ? _struct_asym.entity_id 3 _struct_asym.id C _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C12 H21 N O9' _chem_comp.formula_weight 323.296 _chem_comp.id MNA _chem_comp.mon_nstd_flag n _chem_comp.name '2-O-methyl-5-N-acetyl-alpha-D-neuraminic acid' _chem_comp.type d-saccharide _chem_comp.pdbx_synonyms '2-O-METHYL-5-N-ACETYL-ALPHA-D- NEURAMINIC 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 MNA sing 237 n n C1 O1A MNA doub 238 n n C1 O1B MNA sing 239 n n C2 C3 MNA sing 240 n n C2 O2 MNA sing 241 n n C2 O6 MNA sing 242 n n C3 C4 MNA sing 243 n n C3 H32 MNA sing 244 n n C3 H31 MNA sing 245 n n C4 C5 MNA sing 246 n n C4 O4 MNA sing 247 n n C4 H4 MNA sing 248 n n C5 C6 MNA sing 249 n n C5 N5 MNA sing 250 n n C5 H5 MNA sing 251 n n C6 C7 MNA sing 252 n n C6 O6 MNA sing 253 n n C6 H6 MNA sing 254 n n C7 C8 MNA sing 255 n n C7 O7 MNA sing 256 n n C7 H7 MNA sing 257 n n C8 C9 MNA sing 258 n n C8 O8 MNA sing 259 n n C8 H8 MNA sing 260 n n C9 O9 MNA sing 261 n n C9 H92 MNA sing 262 n n C9 H91 MNA sing 263 n n C10 C11 MNA sing 264 n n C10 N5 MNA sing 265 n n C10 O10 MNA doub 266 n n C11 H111 MNA sing 267 n n C11 H113 MNA sing 268 n n C11 H112 MNA sing 269 n n C12 O2 MNA sing 270 n n C12 H121 MNA sing 271 n n C12 H122 MNA sing 272 n n C12 H123 MNA sing 273 n n N5 HN5 MNA sing 274 n n O1B HO1B MNA sing 275 n n O4 HO4 MNA sing 276 n n O7 HO7 MNA sing 277 n n O8 HO8 MNA sing 278 n n O9 HO9 MNA sing 279 n n # _pdbx_chem_comp_identifier.comp_id MNA _pdbx_chem_comp_identifier.identifier '2-O-methyl-5-N-acetyl-a-D-neuraminic acid' _pdbx_chem_comp_identifier.type 'IUPAC CARBOHYDRATE SYMBOL' _pdbx_chem_comp_identifier.program PDB-CARE _pdbx_chem_comp_identifier.program_version 1 # _atom_sites.entry_id 2P3J _atom_sites.fract_transf_matrix[1][1] 0.020605 _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] 0.020605 _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] 0.00761 _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 SO4 A 1 3000 3000 SO4 SO4 . C 3 MNA A 1 1000 1000 MNA MNA . D 4 HOH A 1 3001 1 HOH HOH . D 4 HOH A 2 3002 2 HOH HOH . D 4 HOH A 3 3003 3 HOH HOH . D 4 HOH A 4 3004 4 HOH HOH . D 4 HOH A 5 3005 5 HOH HOH . D 4 HOH A 6 3006 6 HOH HOH . D 4 HOH A 7 3007 7 HOH HOH . D 4 HOH A 8 3008 8 HOH HOH . D 4 HOH A 9 3009 9 HOH HOH . D 4 HOH A 10 3010 10 HOH HOH . D 4 HOH A 11 3011 11 HOH HOH . D 4 HOH A 12 3012 12 HOH HOH . D 4 HOH A 13 3013 13 HOH HOH . D 4 HOH A 14 3014 14 HOH HOH . D 4 HOH A 15 3015 15 HOH HOH . D 4 HOH A 16 3016 16 HOH HOH . D 4 HOH A 17 3017 17 HOH HOH . D 4 HOH A 18 3018 18 HOH HOH . D 4 HOH A 19 3019 19 HOH HOH . D 4 HOH A 20 3020 20 HOH HOH . D 4 HOH A 21 3021 21 HOH HOH . D 4 HOH A 22 3022 22 HOH HOH . D 4 HOH A 23 3023 23 HOH HOH . D 4 HOH A 24 3024 24 HOH HOH . D 4 HOH A 25 3025 25 HOH HOH . D 4 HOH A 26 3026 26 HOH HOH . D 4 HOH A 27 3027 27 HOH HOH . D 4 HOH A 28 3028 28 HOH HOH . D 4 HOH A 29 3029 29 HOH HOH . D 4 HOH A 30 3030 30 HOH HOH . D 4 HOH A 31 3031 31 HOH HOH . D 4 HOH A 32 3032 32 HOH HOH . D 4 HOH A 33 3033 33 HOH HOH . D 4 HOH A 34 3034 34 HOH HOH . D 4 HOH A 35 3035 35 HOH HOH . D 4 HOH A 36 3036 36 HOH HOH . D 4 HOH A 37 3037 37 HOH HOH . D 4 HOH A 38 3038 38 HOH HOH . D 4 HOH A 39 3039 39 HOH HOH . D 4 HOH A 40 3040 40 HOH HOH . D 4 HOH A 41 3041 41 HOH HOH . D 4 HOH A 42 3042 42 HOH HOH . D 4 HOH A 43 3043 43 HOH HOH . D 4 HOH A 44 3044 44 HOH HOH . D 4 HOH A 45 3045 45 HOH HOH . D 4 HOH A 46 3046 46 HOH HOH . D 4 HOH A 47 3047 47 HOH HOH . D 4 HOH A 48 3048 48 HOH HOH . D 4 HOH A 49 3049 49 HOH HOH . D 4 HOH A 50 3050 50 HOH HOH . D 4 HOH A 51 3051 51 HOH HOH . D 4 HOH A 52 3052 52 HOH HOH . D 4 HOH A 53 3053 53 HOH HOH . D 4 HOH A 54 3054 54 HOH HOH . D 4 HOH A 55 3055 55 HOH HOH . D 4 HOH A 56 3056 56 HOH HOH . D 4 HOH A 57 3057 57 HOH HOH . D 4 HOH A 58 3058 58 HOH HOH . D 4 HOH A 59 3059 59 HOH HOH . D 4 HOH A 60 3060 60 HOH HOH . D 4 HOH A 61 3061 61 HOH HOH . D 4 HOH A 62 3062 62 HOH HOH . D 4 HOH A 63 3063 63 HOH HOH . D 4 HOH A 64 3064 64 HOH HOH . D 4 HOH A 65 3065 65 HOH HOH . D 4 HOH A 66 3066 66 HOH HOH . D 4 HOH A 67 3067 67 HOH HOH . D 4 HOH A 68 3068 68 HOH HOH . D 4 HOH A 69 3069 69 HOH HOH . D 4 HOH A 70 3070 70 HOH HOH . D 4 HOH A 71 3071 71 HOH HOH . D 4 HOH A 72 3072 72 HOH HOH . D 4 HOH A 73 3073 73 HOH HOH . D 4 HOH A 74 3074 74 HOH HOH . D 4 HOH A 75 3075 75 HOH HOH . D 4 HOH A 76 3076 76 HOH HOH . D 4 HOH A 77 3077 77 HOH HOH . D 4 HOH A 78 3078 78 HOH HOH . D 4 HOH A 79 3079 79 HOH HOH . D 4 HOH A 80 3080 80 HOH HOH . D 4 HOH A 81 3081 81 HOH HOH . D 4 HOH A 82 3082 82 HOH HOH . D 4 HOH A 83 3083 83 HOH HOH . D 4 HOH A 84 3084 84 HOH HOH . D 4 HOH A 85 3085 85 HOH HOH . D 4 HOH A 86 3086 86 HOH HOH . D 4 HOH A 87 3087 87 HOH HOH . D 4 HOH A 88 3088 88 HOH HOH . D 4 HOH A 89 3089 89 HOH HOH . D 4 HOH A 90 3090 90 HOH HOH . D 4 HOH A 91 3091 91 HOH HOH . D 4 HOH A 92 3092 92 HOH HOH . D 4 HOH A 93 3093 93 HOH HOH . D 4 HOH A 94 3094 94 HOH HOH . D 4 HOH A 95 3095 95 HOH HOH . D 4 HOH A 96 3096 96 HOH HOH . D 4 HOH A 97 3097 97 HOH HOH . D 4 HOH A 98 3098 98 HOH HOH . D 4 HOH A 99 3099 99 HOH HOH . D 4 HOH A 100 3100 100 HOH HOH . D 4 HOH A 101 3101 101 HOH HOH . D 4 HOH A 102 3102 102 HOH HOH . D 4 HOH A 103 3103 103 HOH HOH . D 4 HOH A 104 3104 104 HOH HOH . D 4 HOH A 105 3105 105 HOH HOH . D 4 HOH A 106 3106 106 HOH HOH . D 4 HOH A 107 3107 107 HOH HOH . D 4 HOH A 108 3108 108 HOH HOH . D 4 HOH A 109 3109 109 HOH HOH . D 4 HOH A 110 3110 110 HOH HOH . D 4 HOH A 111 3111 111 HOH HOH . D 4 HOH A 112 3112 112 HOH HOH . D 4 HOH A 113 3113 113 HOH HOH . D 4 HOH A 114 3114 114 HOH HOH . D 4 HOH A 115 3115 115 HOH HOH . D 4 HOH A 116 3116 116 HOH HOH . D 4 HOH A 117 3117 117 HOH HOH . D 4 HOH A 118 3118 118 HOH HOH . D 4 HOH A 119 3119 119 HOH HOH . D 4 HOH A 120 3120 120 HOH HOH . D 4 HOH A 121 3121 121 HOH HOH . D 4 HOH A 122 3122 122 HOH HOH . D 4 HOH A 123 3123 123 HOH HOH . D 4 HOH A 124 3124 124 HOH HOH . D 4 HOH A 125 3125 125 HOH HOH . D 4 HOH A 126 3126 126 HOH HOH . D 4 HOH A 127 3127 127 HOH HOH . D 4 HOH A 128 3128 128 HOH HOH . D 4 HOH A 129 3129 129 HOH HOH . D 4 HOH A 130 3130 130 HOH HOH . D 4 HOH A 131 3131 131 HOH HOH . D 4 HOH A 132 3132 132 HOH HOH . D 4 HOH A 133 3133 133 HOH HOH . D 4 HOH A 134 3134 134 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 MNA . . . C 3 44.287 10.402 18.351 1 14.55 ? C1 MNA 1000 A 1 HETATM 2 C C2 MNA . . . C 3 44.157 11.578 19.314 1 13.37 ? C2 MNA 1000 A 1 HETATM 3 C C3 MNA . . . C 3 45.205 12.666 19.047 1 13.08 ? C3 MNA 1000 A 1 HETATM 4 C C4 MNA . . . C 3 44.85 13.564 17.851 1 14.46 ? C4 MNA 1000 A 1 HETATM 5 C C5 MNA . . . C 3 43.39 14.026 17.888 1 13.55 ? C5 MNA 1000 A 1 HETATM 6 C C6 MNA . . . C 3 42.461 12.817 18.082 1 13.98 ? C6 MNA 1000 A 1 HETATM 7 C C7 MNA . . . C 3 40.967 13.126 18.193 1 13.98 ? C7 MNA 1000 A 1 HETATM 8 C C8 MNA . . . C 3 40.124 11.855 18.342 1 13.97 ? C8 MNA 1000 A 1 HETATM 9 C C9 MNA . . . C 3 38.672 12.126 17.977 1 13.95 ? C9 MNA 1000 A 1 HETATM 10 C C10 MNA . . . C 3 42.354 15.865 16.649 1 15.23 ? C10 MNA 1000 A 1 HETATM 11 C C11 MNA . . . C 3 42.117 16.467 15.299 1 13.36 ? C11 MNA 1000 A 1 HETATM 12 C C12 MNA . . . C 3 43.582 10.056 21.17 1 13.61 ? C12 MNA 1000 A 1 HETATM 13 N N5 MNA . . . C 3 43.09 14.749 16.666 1 13.83 ? N5 MNA 1000 A 1 HETATM 14 O O1A MNA . . . C 3 45.418 9.887 18.188 1 13.92 ? O1A MNA 1000 A 1 HETATM 15 O O1B MNA . . . C 3 43.263 9.95 17.765 1 13.98 ? O1B MNA 1000 A 1 HETATM 16 O O2 MNA . . . C 3 44.376 11.124 20.641 1 13.02 ? O2 MNA 1000 A 1 HETATM 17 O O4 MNA . . . C 3 45.724 14.704 17.803 1 14.61 ? O4 MNA 1000 A 1 HETATM 18 O O6 MNA . . . C 3 42.823 12.123 19.286 1 13.66 ? O6 MNA 1000 A 1 HETATM 19 O O7 MNA . . . C 3 40.747 13.929 19.354 1 13.6 ? O7 MNA 1000 A 1 HETATM 20 O O8 MNA . . . C 3 40.613 10.779 17.523 1 13.23 ? O8 MNA 1000 A 1 HETATM 21 O O9 MNA . . . C 3 37.86 11.076 18.524 1 16.52 ? O9 MNA 1000 A 1 HETATM 22 O O10 MNA . . . C 3 41.887 16.355 17.671 1 15.62 ? O10 MNA 1000 A 1 # _model_server_stats.io_time_ms 42 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 305 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 22 #