data_1YSC # _model_server_result.job_id nUsdrZk6qzGgJq6f0vWx_g _model_server_result.datetime_utc '2025-03-21 05:35:53' _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 1ysc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":3681}' # _entry.id 1YSC # _exptl.entry_id 1YSC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _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 1YSC _cell.length_a 111.8 _cell.length_b 111.8 _cell.length_c 111.8 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1YSC _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 3' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _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 ? 2 B N N ? 2 C N N ? 2 D N N # 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 56 A CYS 56 1_555 A SG CYS 298 A CYS 298 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.979 ? disulf ? disulf2 A SG CYS 193 A CYS 193 1_555 A SG CYS 207 A CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.072 ? disulf ? disulf3 A SG CYS 217 A CYS 217 1_555 A SG CYS 240 A CYS 240 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.002 ? disulf ? disulf4 A SG CYS 224 A CYS 224 1_555 A SG CYS 233 A CYS 233 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.913 ? disulf ? disulf5 A SG CYS 262 A CYS 262 1_555 A SG CYS 268 A CYS 268 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.128 ? covale ? covale1 A ND2 ASN 87 A ASN 87 1_555 B C1 NAG . A NAG 871 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.363 ? covale ? covale2 A ND2 ASN 168 A ASN 168 1_555 C C1 NAG . A NAG 1681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.357 ? covale ? covale3 A ND2 ASN 368 A ASN 368 1_555 D C1 NAG . A NAG 3681 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.335 ? # _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 237 n n C1 O1 NAG sing 238 n n C1 O5 NAG sing 239 n n C1 H1 NAG sing 240 n n C2 C3 NAG sing 241 n n C2 N2 NAG sing 242 n n C2 H2 NAG sing 243 n n C3 C4 NAG sing 244 n n C3 O3 NAG sing 245 n n C3 H3 NAG sing 246 n n C4 C5 NAG sing 247 n n C4 O4 NAG sing 248 n n C4 H4 NAG sing 249 n n C5 C6 NAG sing 250 n n C5 O5 NAG sing 251 n n C5 H5 NAG sing 252 n n C6 O6 NAG sing 253 n n C6 H61 NAG sing 254 n n C6 H62 NAG sing 255 n n C7 C8 NAG sing 256 n n C7 N2 NAG sing 257 n n C7 O7 NAG doub 258 n n C8 H81 NAG sing 259 n n C8 H82 NAG sing 260 n n C8 H83 NAG sing 261 n n N2 HN2 NAG sing 262 n n O1 HO1 NAG sing 263 n n O3 HO3 NAG sing 264 n n O4 HO4 NAG sing 265 n n O6 HO6 NAG sing 266 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 1YSC _atom_sites.fract_transf_matrix[1][1] 0.008945 _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] 0.008945 _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] 0.008945 _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 NAG A 1 871 871 NAG NAG . C 2 NAG A 1 1681 1681 NAG NAG . D 2 NAG A 1 3681 3681 NAG NAG . E 3 HOH A 1 450 450 HOH HOH . E 3 HOH A 2 451 451 HOH HOH . E 3 HOH A 3 452 452 HOH HOH . E 3 HOH A 4 453 453 HOH HOH . E 3 HOH A 5 454 454 HOH HOH . E 3 HOH A 6 455 455 HOH HOH . E 3 HOH A 7 456 456 HOH HOH . E 3 HOH A 8 457 457 HOH HOH . E 3 HOH A 9 458 458 HOH HOH . E 3 HOH A 10 459 459 HOH HOH . E 3 HOH A 11 460 460 HOH HOH . E 3 HOH A 12 461 461 HOH HOH . E 3 HOH A 13 462 462 HOH HOH . E 3 HOH A 14 463 463 HOH HOH . E 3 HOH A 15 464 464 HOH HOH . E 3 HOH A 16 465 465 HOH HOH . E 3 HOH A 17 466 466 HOH HOH . E 3 HOH A 18 467 467 HOH HOH . E 3 HOH A 19 468 468 HOH HOH . E 3 HOH A 20 469 469 HOH HOH . E 3 HOH A 21 470 470 HOH HOH . E 3 HOH A 22 471 471 HOH HOH . E 3 HOH A 23 472 472 HOH HOH . E 3 HOH A 24 473 473 HOH HOH . E 3 HOH A 25 474 474 HOH HOH . E 3 HOH A 26 475 475 HOH HOH . E 3 HOH A 27 476 476 HOH HOH . E 3 HOH A 28 477 477 HOH HOH . E 3 HOH A 29 478 478 HOH HOH . E 3 HOH A 30 479 479 HOH HOH . E 3 HOH A 31 480 480 HOH HOH . E 3 HOH A 32 481 481 HOH HOH . E 3 HOH A 33 482 482 HOH HOH . E 3 HOH A 34 483 483 HOH HOH . E 3 HOH A 35 484 484 HOH HOH . E 3 HOH A 36 485 485 HOH HOH . E 3 HOH A 37 486 486 HOH HOH . E 3 HOH A 38 487 487 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 . . . D 2 24.72 -16.975 25.093 1 100 ? C1 NAG 3681 A 1 HETATM 2 C C2 NAG . . . D 2 25.275 -18.361 24.731 1 17.9 ? C2 NAG 3681 A 1 HETATM 3 C C3 NAG . . . D 2 24.167 -19.437 24.737 1 100 ? C3 NAG 3681 A 1 HETATM 4 C C4 NAG . . . D 2 22.873 -19.002 25.446 1 31.24 ? C4 NAG 3681 A 1 HETATM 5 C C5 NAG . . . D 2 22.424 -17.549 25.158 1 99.9 ? C5 NAG 3681 A 1 HETATM 6 C C6 NAG . . . D 2 22.055 -16.742 26.392 1 42.83 ? C6 NAG 3681 A 1 HETATM 7 C C7 NAG . . . D 2 26.749 -19.204 22.987 1 23.68 ? C7 NAG 3681 A 1 HETATM 8 C C8 NAG . . . D 2 27.648 -19.754 24.058 1 100 ? C8 NAG 3681 A 1 HETATM 9 N N2 NAG . . . D 2 25.917 -18.27 23.425 1 100 ? N2 NAG 3681 A 1 HETATM 10 O O3 NAG . . . D 2 24.695 -20.624 25.355 1 58.59 ? O3 NAG 3681 A 1 HETATM 11 O O4 NAG . . . D 2 21.814 -19.86 24.995 1 81.25 ? O4 NAG 3681 A 1 HETATM 12 O O5 NAG . . . D 2 23.44 -16.795 24.507 1 100 ? O5 NAG 3681 A 1 HETATM 13 O O6 NAG . . . D 2 20.732 -16.673 26.927 1 88.95 ? O6 NAG 3681 A 1 HETATM 14 O O7 NAG . . . D 2 26.753 -19.594 21.808 1 85.06 ? O7 NAG 3681 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 326 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 14 #