data_8TP3 # _model_server_result.job_id L9axAeftMQ5RUtap2Pa5og _model_server_result.datetime_utc '2025-03-05 18:49:41' _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 8tp3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":402}' # _entry.id 8TP3 # _exptl.entry_id 8TP3 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 13 _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 8TP3 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8TP3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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,U,V,W,X _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 ? 7 L N N ? 7 M N N ? 7 N N N ? 7 O N N ? 7 P N N ? 7 Q N N ? 7 R N N ? 7 S N N ? 7 T N N ? 7 U N N ? 7 V N N ? 7 W N N ? 7 X N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 3 2 BMA NAG C1 O1 . O4 HO4 . 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 5 n I NAG 1 E 1 NAG A 329 NAG 5 n I NAG 2 E 2 NAG A 330 NAG 6 n J NAG 1 F 1 NAG C 335 NAG 6 n J NAG 2 F 2 NAG C 336 NAG 6 n J BMA 3 F 3 BMA C 337 BMA 5 n K NAG 1 J 1 NAG G 329 NAG 5 n K NAG 2 J 2 NAG G 330 NAG # 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 21 A CYS 14 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 59 A CYS 52 1_555 A SG CYS 291 A CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf3 A SG CYS 72 A CYS 64 1_555 A SG CYS 84 A CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf4 A SG CYS 107 A CYS 97 1_555 A SG CYS 152 A CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf5 A SG CYS 295 A CYS 281 1_555 A SG CYS 319 A CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf7 C SG CYS 21 C CYS 14 1_555 D SG CYS 137 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.061 ? disulf ? disulf8 C SG CYS 59 C CYS 52 1_555 C SG CYS 291 C CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 C SG CYS 72 C CYS 64 1_555 C SG CYS 84 C CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf10 C SG CYS 107 C CYS 97 1_555 C SG CYS 152 C CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf11 C SG CYS 295 C CYS 281 1_555 C SG CYS 319 C CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf12 D SG CYS 144 D CYS 144 1_555 D SG CYS 148 D CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf13 E SG CYS 21 G CYS 14 1_555 F SG CYS 137 I CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf14 E SG CYS 59 G CYS 52 1_555 E SG CYS 291 G CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf15 E SG CYS 72 G CYS 64 1_555 E SG CYS 84 G CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf16 E SG CYS 107 G CYS 97 1_555 E SG CYS 152 G CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf17 E SG CYS 295 G CYS 281 1_555 E SG CYS 319 G CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf18 F SG CYS 144 I CYS 144 1_555 F SG CYS 148 I CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf19 G SG CYS 22 H CYS 22 1_555 G SG CYS 95 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf20 H SG CYS 23 L CYS 23 1_555 H SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 28 A ASN 21 1_555 L C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 A ND2 ASN 40 A ASN 33 1_555 M C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.519 ? covale ? covale3 A ND2 ASN 71 A ASN 63 1_555 N C1 NAG . A NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.526 ? covale ? covale4 A ND2 ASN 104 A ASN 95 1_555 I C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.512 ? covale ? covale5 A ND2 ASN 142 A ASN 129 1_555 O C1 NAG . A NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.508 ? covale ? covale6 C ND2 ASN 28 C ASN 21 1_555 P C1 NAG . C NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.464 ? covale ? covale7 C ND2 ASN 40 C ASN 33 1_555 Q C1 NAG . C NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.523 ? covale ? covale8 C ND2 ASN 71 C ASN 63 1_555 R C1 NAG . C NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.521 ? covale ? covale9 C ND2 ASN 104 C ASN 95 1_555 J C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.52 ? covale ? covale10 C ND2 ASN 142 C ASN 129 1_555 S C1 NAG . C NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.529 ? covale ? covale11 C ND2 ASN 176 C ASN 163 1_555 T C1 NAG . C NAG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.511 ? covale ? covale12 E ND2 ASN 28 G ASN 21 1_555 U C1 NAG . G NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale13 E ND2 ASN 40 G ASN 33 1_555 V C1 NAG . G NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.52 ? covale ? covale14 E ND2 ASN 71 G ASN 63 1_555 W C1 NAG . G NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.527 ? covale ? covale15 E ND2 ASN 104 G ASN 95 1_555 K C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.518 ? covale ? covale16 E ND2 ASN 142 G ASN 129 1_555 X C1 NAG . G NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.513 ? covale ? covale17 I O4 NAG . E NAG 1 1_555 I C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.51 ? covale ? covale18 J O4 NAG . F NAG 1 1_555 J C1 NAG . F NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.503 ? covale ? covale19 J O4 NAG . F NAG 2 1_555 J C1 BMA . F BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.508 ? covale ? covale20 K O4 NAG . J NAG 1 1_555 K C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.506 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 8TP3 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 L 7 NAG A 1 401 326 NAG NAG . M 7 NAG A 1 402 327 NAG NAG . N 7 NAG A 1 403 328 NAG NAG . O 7 NAG A 1 404 331 NAG NAG . P 7 NAG C 1 401 332 NAG NAG . Q 7 NAG C 1 402 333 NAG NAG . R 7 NAG C 1 403 334 NAG NAG . S 7 NAG C 1 404 338 NAG NAG . T 7 NAG C 1 405 339 NAG NAG . U 7 NAG G 1 401 326 NAG NAG . V 7 NAG G 1 402 327 NAG NAG . W 7 NAG G 1 403 328 NAG NAG . X 7 NAG G 1 404 331 NAG NAG . # 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 . . . Q 7 185.894 152.831 230.476 1 88.97 ? C1 NAG 402 C 1 HETATM 2 C C2 NAG . . . Q 7 187.319 152.126 230.604 1 95.41 ? C2 NAG 402 C 1 HETATM 3 C C3 NAG . . . Q 7 187.803 151.708 229.174 1 98.15 ? C3 NAG 402 C 1 HETATM 4 C C4 NAG . . . Q 7 186.758 150.74 228.531 1 100.65 ? C4 NAG 402 C 1 HETATM 5 C C5 NAG . . . Q 7 185.366 151.465 228.455 1 98.16 ? C5 NAG 402 C 1 HETATM 6 C C6 NAG . . . Q 7 184.255 150.558 227.926 1 102.82 ? C6 NAG 402 C 1 HETATM 7 C C7 NAG . . . Q 7 188.733 152.998 232.466 1 94.43 ? C7 NAG 402 C 1 HETATM 8 C C8 NAG . . . Q 7 189.663 154.037 233.024 1 96.59 ? C8 NAG 402 C 1 HETATM 9 N N2 NAG . . . Q 7 188.279 153.093 231.202 1 94.91 ? N2 NAG 402 C 1 HETATM 10 O O3 NAG . . . Q 7 189.068 151.034 229.269 1 96.79 ? O3 NAG 402 C 1 HETATM 11 O O4 NAG . . . Q 7 187.203 150.374 227.224 1 101.64 ? O4 NAG 402 C 1 HETATM 12 O O5 NAG . . . Q 7 184.958 151.896 229.824 1 91.39 ? O5 NAG 402 C 1 HETATM 13 O O6 NAG . . . Q 7 184.513 150.1 226.599 1 104.06 ? O6 NAG 402 C 1 HETATM 14 O O7 NAG . . . Q 7 188.406 152.054 233.204 1 93.03 ? O7 NAG 402 C 1 # _model_server_stats.io_time_ms 11 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #