data_7YSG # _model_server_result.job_id HUKwFKAWn4yXlnbD-AMthg _model_server_result.datetime_utc '2024-11-22 16:27:20' _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 7ysg # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"V","auth_seq_id":601}' # _entry.id 7YSG # _exptl.entry_id 7YSG _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 10 _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 7YSG _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7YSG _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 hexadecameric _pdbx_struct_assembly.oligomeric_count 16 _pdbx_struct_assembly.details author_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,Y,Z,AA _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 ? _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 ? 6 R N N ? 6 S N N ? 6 T N N ? 6 U N N ? 6 V N N ? 6 W N N ? 6 X N N ? 6 Y N N ? 6 Z N N ? 6 AA N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 5 _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 NAG _pdbx_entity_branch_link.comp_id_2 NAG _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 5 n Q NAG 1 I 1 NAG J 160 NAG 5 n Q NAG 2 I 2 NAG J 161 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 23 A CYS 367 1_555 A SG CYS 82 A CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf2 A SG CYS 130 A CYS 474 1_555 A SG CYS 192 A CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 231 A CYS 575 1_555 I SG CYS 68 J CYS 68 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.23 ? disulf ? disulf4 B SG CYS 23 B CYS 367 1_555 B SG CYS 82 B CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf5 B SG CYS 70 B CYS 414 1_555 C SG CYS 70 C CYS 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.509 ? disulf ? disulf6 B SG CYS 130 B CYS 474 1_555 B SG CYS 192 B CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf7 C SG CYS 23 C CYS 367 1_555 C SG CYS 82 C CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf8 C SG CYS 130 C CYS 474 1_555 C SG CYS 192 C CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 D SG CYS 23 D CYS 367 1_555 D SG CYS 82 D CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf10 D SG CYS 130 D CYS 474 1_555 D SG CYS 192 D CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.97 ? disulf ? disulf11 E SG CYS 130 E CYS 474 1_555 E SG CYS 192 E CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.976 ? disulf ? disulf12 F SG CYS 23 F CYS 367 1_555 F SG CYS 82 F CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf13 F SG CYS 130 F CYS 474 1_555 F SG CYS 192 F CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf14 G SG CYS 23 G CYS 367 1_555 G SG CYS 82 G CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf15 G SG CYS 130 G CYS 474 1_555 G SG CYS 192 G CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.98 ? disulf ? disulf16 H SG CYS 23 H CYS 367 1_555 H SG CYS 82 H CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf17 H SG CYS 130 H CYS 474 1_555 H SG CYS 192 H CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.984 ? disulf ? disulf18 H SG CYS 231 H CYS 575 1_555 J SG CYS 231 K CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf19 I SG CYS 12 J CYS 12 1_555 I SG CYS 100 J CYS 100 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf20 I SG CYS 14 J CYS 14 1_555 K SG CYS 231 L CYS 575 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf21 I SG CYS 108 J CYS 108 1_555 I SG CYS 133 J CYS 133 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf22 J SG CYS 23 K CYS 367 1_555 J SG CYS 82 K CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf23 J SG CYS 130 K CYS 474 1_555 J SG CYS 192 K CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? disulf ? disulf24 K SG CYS 23 L CYS 367 1_555 K SG CYS 82 L CYS 426 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf25 K SG CYS 130 L CYS 474 1_555 K SG CYS 192 L CYS 536 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.012 ? disulf ? disulf26 L SG CYS 22 P CYS 22 1_555 L SG CYS 92 P CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf27 L SG CYS 38 P CYS 38 1_555 L SG CYS 46 P CYS 46 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf28 L SG CYS 134 P CYS 134 1_555 L SG CYS 202 P CYS 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf29 L SG CYS 239 P CYS 239 1_555 L SG CYS 307 P CYS 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf30 L SG CYS 253 P CYS 253 1_555 L SG CYS 261 P CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf31 L SG CYS 353 P CYS 353 1_555 L SG CYS 423 P CYS 423 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.945 ? disulf ? disulf32 L SG CYS 367 P CYS 367 1_555 L SG CYS 377 P CYS 377 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf33 L SG CYS 464 P CYS 464 1_555 L SG CYS 526 P CYS 526 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf34 L SG CYS 478 P CYS 478 1_555 L SG CYS 485 P CYS 485 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf35 M SG CYS 20 R CYS 37 1_555 M SG CYS 87 R CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf36 M SG CYS 32 R CYS 49 1_555 M SG CYS 41 R CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf37 N SG CYS 20 S CYS 37 1_555 N SG CYS 87 S CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf38 N SG CYS 32 S CYS 49 1_555 N SG CYS 41 S CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf39 O SG CYS 20 U CYS 37 1_555 O SG CYS 87 U CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf40 O SG CYS 32 U CYS 49 1_555 O SG CYS 41 U CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf41 P SG CYS 20 V CYS 37 1_555 P SG CYS 87 V CYS 104 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf42 P SG CYS 32 V CYS 49 1_555 P SG CYS 41 V CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? covale ? covale1 A ND2 ASN 219 A ASN 563 1_555 R C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 B ND2 ASN 219 B ASN 563 1_555 S C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 D ND2 ASN 219 D ASN 563 1_555 U C1 NAG . D NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale4 E ND2 ASN 219 E ASN 563 1_555 V C1 NAG . E NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale5 F ND2 ASN 219 F ASN 563 1_555 W C1 NAG . F NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale6 H ND2 ASN 219 H ASN 563 1_555 Y C1 NAG . H NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.537 ? covale ? covale7 I ND2 ASN 48 J ASN 48 1_555 Q C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.531 ? covale ? covale8 K ND2 ASN 219 L ASN 563 1_555 AA C1 NAG . L NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale9 Q O4 NAG . I NAG 1 1_555 Q C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 7YSG _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 R 6 NAG A 1 601 583 NAG NAG . S 6 NAG B 1 601 583 NAG NAG . T 6 NAG C 1 601 583 NAG NAG . U 6 NAG D 1 601 583 NAG NAG . V 6 NAG E 1 601 583 NAG NAG . W 6 NAG F 1 601 583 NAG NAG . X 6 NAG G 1 601 583 NAG NAG . Y 6 NAG H 1 601 583 NAG NAG . Z 6 NAG K 1 601 583 NAG NAG . AA 6 NAG L 1 601 583 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 . . . V 6 179.807 185.329 177.671 1 56.07 ? C1 NAG 601 E 1 HETATM 2 C C2 NAG . . . V 6 181.068 184.802 178.354 1 56.07 ? C2 NAG 601 E 1 HETATM 3 C C3 NAG . . . V 6 182.298 185.54 177.835 1 56.07 ? C3 NAG 601 E 1 HETATM 4 C C4 NAG . . . V 6 182.357 185.47 176.316 1 56.07 ? C4 NAG 601 E 1 HETATM 5 C C5 NAG . . . V 6 181.047 185.97 175.714 1 56.07 ? C5 NAG 601 E 1 HETATM 6 C C6 NAG . . . V 6 180.992 185.819 174.212 1 56.07 ? C6 NAG 601 E 1 HETATM 7 C C7 NAG . . . V 6 181.583 184.098 180.651 1 56.07 ? C7 NAG 601 E 1 HETATM 8 C C8 NAG . . . V 6 181.368 184.375 182.108 1 56.07 ? C8 NAG 601 E 1 HETATM 9 N N2 NAG . . . V 6 180.968 184.927 179.8 1 56.07 ? N2 NAG 601 E 1 HETATM 10 O O3 NAG . . . V 6 183.472 184.96 178.394 1 56.07 ? O3 NAG 601 E 1 HETATM 11 O O4 NAG . . . V 6 183.43 186.271 175.833 1 56.07 ? O4 NAG 601 E 1 HETATM 12 O O5 NAG . . . V 6 179.947 185.218 176.247 1 56.07 ? O5 NAG 601 E 1 HETATM 13 O O6 NAG . . . V 6 182.256 186.08 173.618 1 56.07 ? O6 NAG 601 E 1 HETATM 14 O O7 NAG . . . V 6 182.282 183.168 180.262 1 56.07 ? O7 NAG 601 E 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 43 _model_server_stats.query_time_ms 283 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #