data_6TY1 # _model_server_result.job_id wSmpzBC47N4dDObvEu2ZVg _model_server_result.datetime_utc '2025-01-11 18:58:36' _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 6ty1 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Y","auth_seq_id":201}' # _entry.id 6TY1 # _exptl.entry_id 6TY1 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _entity.src_method nat _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 101.58 _cell.angle_gamma 90 _cell.entry_id 6TY1 _cell.length_a 68.99 _cell.length_b 212.67 _cell.length_c 154.9 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6TY1 _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA hexameric 6 author_and_software_defined_assembly 1 PISA hexameric 6 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,J,M,T,U,V,Z,AA 1 1 E,F,O,R 1 2 C,D,G,H,K,L,N,P,Q,S,W,X,Y 2 1 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 1_455 x-1,y,z 1 0 0 0 1 0 0 0 1 -68.99 0 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 Q N N ? 5 R N N ? 5 S N N ? 5 T N N ? 5 V N N ? 5 W N N ? 5 Y N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 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 ? 3 2 1 GAL NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 SIA GAL C2 O2 . O6 HO6 . sing 3 ? 4 2 1 SIA GAL C2 O2 . O6 HO6 . 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 3 n M NAG 1 M 1 NAG A 330 NAG 3 n M GAL 2 M 2 GAL A 331 GAL 3 n M SIA 3 M 3 SIA A 332 SIA 4 n N GAL 1 N 1 GAL C 330 GAL 4 n N SIA 2 N 2 SIA C 331 SIA 4 n O GAL 1 O 1 GAL E 330 GAL 4 n O SIA 2 O 2 SIA E 331 SIA 3 n P NAG 1 P 1 NAG G 330 NAG 3 n P GAL 2 P 2 GAL G 331 GAL 3 n P SIA 3 P 3 SIA G 332 SIA # 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 6 A CYS 4 1_555 B SG CYS 137 B CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf2 A SG CYS 44 A CYS 42 1_555 A SG CYS 272 A CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf3 A SG CYS 56 A CYS 54 1_555 A SG CYS 68 A CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 A SG CYS 89 A CYS 87 1_555 A SG CYS 132 A CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf5 A SG CYS 276 A CYS 274 1_555 A SG CYS 300 A CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf6 B SG CYS 144 B CYS 144 1_555 B SG CYS 148 B CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.07 ? disulf ? disulf7 C SG CYS 6 C CYS 4 1_555 D SG CYS 137 D CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.016 ? disulf ? disulf8 C SG CYS 44 C CYS 42 1_555 C SG CYS 272 C CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf9 C SG CYS 56 C CYS 54 1_555 C SG CYS 68 C CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf10 C SG CYS 89 C CYS 87 1_555 C SG CYS 132 C CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf11 C SG CYS 276 C CYS 274 1_555 C SG CYS 300 C CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf12 D SG CYS 144 D CYS 144 1_555 D SG CYS 148 D CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf13 E SG CYS 6 E CYS 4 1_555 F SG CYS 137 F CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf14 E SG CYS 44 E CYS 42 1_555 E SG CYS 272 E CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 E SG CYS 56 E CYS 54 1_555 E SG CYS 68 E CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf16 E SG CYS 89 E CYS 87 1_555 E SG CYS 132 E CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf17 E SG CYS 276 E CYS 274 1_555 E SG CYS 300 E CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.074 ? disulf ? disulf18 F SG CYS 144 F CYS 144 1_555 F SG CYS 148 F CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf19 G SG CYS 6 G CYS 4 1_555 H SG CYS 137 H CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf20 G SG CYS 44 G CYS 42 1_555 G SG CYS 272 G CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf21 G SG CYS 56 G CYS 54 1_555 G SG CYS 68 G CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf22 G SG CYS 89 G CYS 87 1_555 G SG CYS 132 G CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf23 G SG CYS 276 G CYS 274 1_555 G SG CYS 300 G CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.082 ? disulf ? disulf24 H SG CYS 144 H CYS 144 1_555 H SG CYS 148 H CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf25 I SG CYS 6 I CYS 4 1_555 J SG CYS 137 J CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf26 I SG CYS 44 I CYS 42 1_555 I SG CYS 272 I CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf27 I SG CYS 56 I CYS 54 1_555 I SG CYS 68 I CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf28 I SG CYS 89 I CYS 87 1_555 I SG CYS 132 I CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf29 I SG CYS 276 I CYS 274 1_555 I SG CYS 300 I CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf30 J SG CYS 144 J CYS 144 1_555 J SG CYS 148 J CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.071 ? disulf ? disulf31 K SG CYS 6 K CYS 4 1_555 L SG CYS 137 L CYS 137 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf32 K SG CYS 44 K CYS 42 1_555 K SG CYS 272 K CYS 270 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf33 K SG CYS 56 K CYS 54 1_555 K SG CYS 68 K CYS 66 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.047 ? disulf ? disulf34 K SG CYS 89 K CYS 87 1_555 K SG CYS 132 K CYS 130 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf35 K SG CYS 276 K CYS 274 1_555 K SG CYS 300 K CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf36 L SG CYS 144 L CYS 144 1_555 L SG CYS 148 L CYS 148 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.05 ? covale ? covale1 D ND2 ASN 82 D ASN 82 1_555 Q C1 NAG . D NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? covale ? covale2 F ND2 ASN 82 F ASN 82 1_555 R C1 NAG . F NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale3 H ND2 ASN 82 H ASN 82 1_555 S C1 NAG . H NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.477 ? covale ? covale4 I ND2 ASN 30 I ASN 28 1_555 T C1 NAG . I NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 J ND2 ASN 82 J ASN 82 1_555 V C1 NAG . J NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.488 ? covale ? covale6 K ND2 ASN 30 K ASN 28 1_555 W C1 NAG . K NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale7 L ND2 ASN 82 L ASN 82 1_555 Y C1 NAG . L NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.469 ? covale ? covale8 M O4 NAG . M NAG 1 1_555 M C1 GAL . M GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.416 ? covale ? covale9 M O6 GAL . M GAL 2 1_555 M C2 SIA . M SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale10 N O6 GAL . N GAL 1 1_555 N C2 SIA . N SIA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale11 O O6 GAL . O GAL 1 1_555 O C2 SIA . O SIA 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.417 ? covale ? covale12 P O4 NAG . P NAG 1 1_555 P C1 GAL . P GAL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.429 ? covale ? covale13 P O6 GAL . P GAL 2 1_555 P C2 SIA . P SIA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? # _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 6TY1 _atom_sites.fract_transf_matrix[1][1] 0.014495 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.00297 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.004702 _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] 0.00659 _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 Q 5 NAG D 1 201 201 NAG NAG . R 5 NAG F 1 201 173 NAG NAG . S 5 NAG H 1 201 201 NAG NAG . T 5 NAG I 1 401 319 NAG NAG . U 6 SIA I 1 402 330 SIA SIA . V 5 NAG J 1 201 173 NAG NAG . W 5 NAG K 1 401 319 NAG NAG . X 6 SIA K 1 402 330 SIA SIA . Y 5 NAG L 1 201 173 NAG NAG . Z 7 HOH B 1 201 2 HOH HOH . AA 7 HOH I 1 501 1 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 . . . Y 5 125.783 -24.633 -182.922 1 151.17 ? C1 NAG 201 L 1 HETATM 2 C C2 NAG . . . Y 5 124.437 -25.333 -182.693 1 149.52 ? C2 NAG 201 L 1 HETATM 3 C C3 NAG . . . Y 5 123.753 -25.642 -184.042 1 137.96 ? C3 NAG 201 L 1 HETATM 4 C C4 NAG . . . Y 5 123.616 -24.394 -184.94 1 131.48 ? C4 NAG 201 L 1 HETATM 5 C C5 NAG . . . Y 5 125.033 -23.813 -185.047 1 136.81 ? C5 NAG 201 L 1 HETATM 6 C C6 NAG . . . Y 5 125.153 -22.616 -185.986 1 135.46 ? C6 NAG 201 L 1 HETATM 7 C C7 NAG . . . Y 5 124.201 -26.728 -180.641 1 122.62 ? C7 NAG 201 L 1 HETATM 8 C C8 NAG . . . Y 5 124.94 -27.829 -179.944 1 111.17 ? C8 NAG 201 L 1 HETATM 9 N N2 NAG . . . Y 5 124.705 -26.51 -181.868 1 139.21 ? N2 NAG 201 L 1 HETATM 10 O O3 NAG . . . Y 5 122.475 -26.202 -183.763 1 155.84 ? O3 NAG 201 L 1 HETATM 11 O O4 NAG . . . Y 5 123.001 -24.653 -186.233 1 101.75 ? O4 NAG 201 L 1 HETATM 12 O O5 NAG . . . Y 5 125.519 -23.466 -183.725 1 149.44 ? O5 NAG 201 L 1 HETATM 13 O O6 NAG . . . Y 5 124.503 -21.492 -185.404 1 141.46 ? O6 NAG 201 L 1 HETATM 14 O O7 NAG . . . Y 5 123.293 -26.09 -180.089 1 100.24 ? O7 NAG 201 L 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 49 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 12 _model_server_stats.element_count 14 #