data_1Y2X # _model_server_result.job_id iLp6VnvZsNg_HuVJ63Zliw _model_server_result.datetime_utc '2025-02-27 01:56:49' _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 1y2x # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":1144}' # _entry.id 1Y2X # _exptl.entry_id 1Y2X _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 4 _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 1Y2X _cell.length_a 85.675 _cell.length_b 85.675 _cell.length_c 257.073 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1Y2X _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T _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 ? 3 I N N ? 3 K N N ? 3 M N N ? 3 O N N # _pdbx_entity_branch.entity_id 2 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 2 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 GAL _pdbx_entity_branch_link.comp_id_2 NGA _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O3 _pdbx_entity_branch_link.leaving_atom_id_2 HO3 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 2 n E NGA 1 E 1 NGA A 145 NGA 2 n E GAL 2 E 2 GAL A 146 GAL 2 n F NGA 1 F 1 NGA B 145 NGA 2 n F GAL 2 F 2 GAL B 146 GAL 2 n G NGA 1 G 1 NGA C 145 NGA 2 n G GAL 2 G 2 GAL C 146 GAL 2 n H NGA 1 H 1 NGA D 145 NGA 2 n H GAL 2 H 2 GAL D 146 GAL # 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 covale ? covale1 J OG SER . A SER 147 1_555 E C1 NGA . E NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.354 ? covale ? covale2 J OG SER . A SER 147 1_555 E O5 NGA . E NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.904 ? covale ? covale3 L OG SER . B SER 147 1_555 F C1 NGA . F NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.342 ? covale ? covale4 L OG SER . B SER 147 1_555 F O5 NGA . F NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? covale ? covale5 N OG SER . C SER 147 1_555 G C1 NGA . G NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.35 ? covale ? covale6 N OG SER . C SER 147 1_555 G O5 NGA . G NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.812 ? covale ? covale7 P OG SER . D SER 147 1_555 H C1 NGA . H NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.347 ? covale ? covale8 P OG SER . D SER 147 1_555 H O5 NGA . H NGA 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.927 ? covale ? covale9 E O3 NGA . E NGA 1 1_555 E C1 GAL . E GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale10 F O3 NGA . F NGA 1 1_555 F C1 GAL . F GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale11 G O3 NGA . G NGA 1 1_555 G C1 GAL . G GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale12 H O3 NGA . H NGA 1 1_555 H C1 GAL . H GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # 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 NAG sing 261 n n C1 O1 NAG sing 262 n n C1 O5 NAG sing 263 n n C1 H1 NAG sing 264 n n C2 C3 NAG sing 265 n n C2 N2 NAG sing 266 n n C2 H2 NAG sing 267 n n C3 C4 NAG sing 268 n n C3 O3 NAG sing 269 n n C3 H3 NAG sing 270 n n C4 C5 NAG sing 271 n n C4 O4 NAG sing 272 n n C4 H4 NAG sing 273 n n C5 C6 NAG sing 274 n n C5 O5 NAG sing 275 n n C5 H5 NAG sing 276 n n C6 O6 NAG sing 277 n n C6 H61 NAG sing 278 n n C6 H62 NAG sing 279 n n C7 C8 NAG sing 280 n n C7 N2 NAG sing 281 n n C7 O7 NAG doub 282 n n C8 H81 NAG sing 283 n n C8 H82 NAG sing 284 n n C8 H83 NAG sing 285 n n N2 HN2 NAG sing 286 n n O1 HO1 NAG sing 287 n n O3 HO3 NAG sing 288 n n O4 HO4 NAG sing 289 n n O6 HO6 NAG sing 290 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 NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 1Y2X _atom_sites.fract_transf_matrix[1][1] 0.011672 _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] 0.011672 _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] 0.00389 _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 I 3 NAG A 1 144 144 NAG NAG . J 4 SER A 1 147 147 SER SER . K 3 NAG B 1 1144 144 NAG NAG . L 4 SER B 1 147 147 SER SER . M 3 NAG C 1 2144 144 NAG NAG . N 4 SER C 1 147 147 SER SER . O 3 NAG D 1 3144 144 NAG NAG . P 4 SER D 1 147 147 SER SER . Q 5 HOH A 1 148 2 HOH HOH . Q 5 HOH A 2 149 5 HOH HOH . Q 5 HOH A 3 150 8 HOH HOH . Q 5 HOH A 4 151 9 HOH HOH . Q 5 HOH A 5 152 10 HOH HOH . Q 5 HOH A 6 153 12 HOH HOH . Q 5 HOH A 7 154 18 HOH HOH . Q 5 HOH A 8 155 28 HOH HOH . Q 5 HOH A 9 156 34 HOH HOH . Q 5 HOH A 10 157 36 HOH HOH . Q 5 HOH A 11 158 38 HOH HOH . Q 5 HOH A 12 159 41 HOH HOH . Q 5 HOH A 13 160 46 HOH HOH . Q 5 HOH A 14 161 51 HOH HOH . Q 5 HOH A 15 162 54 HOH HOH . Q 5 HOH A 16 163 55 HOH HOH . Q 5 HOH A 17 164 59 HOH HOH . R 5 HOH B 1 1145 4 HOH HOH . R 5 HOH B 2 1146 15 HOH HOH . R 5 HOH B 3 1147 16 HOH HOH . R 5 HOH B 4 1148 17 HOH HOH . R 5 HOH B 5 1149 21 HOH HOH . R 5 HOH B 6 1150 23 HOH HOH . R 5 HOH B 7 1151 26 HOH HOH . R 5 HOH B 8 1152 27 HOH HOH . R 5 HOH B 9 1153 30 HOH HOH . R 5 HOH B 10 1154 39 HOH HOH . R 5 HOH B 11 1155 40 HOH HOH . R 5 HOH B 12 1156 43 HOH HOH . R 5 HOH B 13 1157 44 HOH HOH . R 5 HOH B 14 1158 57 HOH HOH . R 5 HOH B 15 1159 58 HOH HOH . R 5 HOH B 16 1160 60 HOH HOH . S 5 HOH C 1 2145 7 HOH HOH . S 5 HOH C 2 2146 11 HOH HOH . S 5 HOH C 3 2147 14 HOH HOH . S 5 HOH C 4 2148 24 HOH HOH . S 5 HOH C 5 2149 25 HOH HOH . S 5 HOH C 6 2150 29 HOH HOH . S 5 HOH C 7 2151 32 HOH HOH . S 5 HOH C 8 2152 35 HOH HOH . S 5 HOH C 9 2153 45 HOH HOH . S 5 HOH C 10 2154 50 HOH HOH . S 5 HOH C 11 2155 62 HOH HOH . T 5 HOH D 1 3145 1 HOH HOH . T 5 HOH D 2 3146 3 HOH HOH . T 5 HOH D 3 3147 6 HOH HOH . T 5 HOH D 4 3148 13 HOH HOH . T 5 HOH D 5 3149 19 HOH HOH . T 5 HOH D 6 3150 20 HOH HOH . T 5 HOH D 7 3151 22 HOH HOH . T 5 HOH D 8 3152 31 HOH HOH . T 5 HOH D 9 3153 33 HOH HOH . T 5 HOH D 10 3154 37 HOH HOH . T 5 HOH D 11 3155 42 HOH HOH . T 5 HOH D 12 3156 47 HOH HOH . T 5 HOH D 13 3157 48 HOH HOH . T 5 HOH D 14 3158 49 HOH HOH . T 5 HOH D 15 3159 52 HOH HOH . T 5 HOH D 16 3160 53 HOH HOH . T 5 HOH D 17 3161 56 HOH HOH . T 5 HOH D 18 3162 61 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 NAG . . . K 3 62.308 26.926 4.432 1 30.12 ? C1 NAG 1144 B 1 HETATM 2 C C2 NAG . . . K 3 61.861 26.438 3.046 1 29.98 ? C2 NAG 1144 B 1 HETATM 3 C C3 NAG . . . K 3 61.07 27.483 2.264 1 30.22 ? C3 NAG 1144 B 1 HETATM 4 C C4 NAG . . . K 3 59.972 28.085 3.127 1 30.28 ? C4 NAG 1144 B 1 HETATM 5 C C5 NAG . . . K 3 60.58 28.632 4.422 1 30.38 ? C5 NAG 1144 B 1 HETATM 6 C C6 NAG . . . K 3 59.501 29.19 5.344 1 30.07 ? C6 NAG 1144 B 1 HETATM 7 C C7 NAG . . . K 3 63.042 24.812 1.691 1 27.3 ? C7 NAG 1144 B 1 HETATM 8 C C8 NAG . . . K 3 64.11 24.608 0.662 1 25.98 ? C8 NAG 1144 B 1 HETATM 9 N N2 NAG . . . K 3 63.001 26.019 2.252 1 28.48 ? N2 NAG 1144 B 1 HETATM 10 O O1 NAG . . . K 3 63.406 27.804 4.322 1 33.07 ? O1 NAG 1144 B 1 HETATM 11 O O3 NAG . . . K 3 60.482 26.888 1.13 1 30.34 ? O3 NAG 1144 B 1 HETATM 12 O O4 NAG . . . K 3 59.308 29.085 2.392 1 29.34 ? O4 NAG 1144 B 1 HETATM 13 O O5 NAG . . . K 3 61.263 27.592 5.115 1 30.55 ? O5 NAG 1144 B 1 HETATM 14 O O6 NAG . . . K 3 58.745 28.128 5.889 1 29.61 ? O6 NAG 1144 B 1 HETATM 15 O O7 NAG . . . K 3 62.263 23.901 1.985 1 26.64 ? O7 NAG 1144 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 15 #