data_1OYH # _model_server_result.job_id H-pDQeEhDWb4GusRf4_3mg _model_server_result.datetime_utc '2024-11-30 09:39:29' _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 1oyh # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":861}' # _entry.id 1OYH # _exptl.entry_id 1OYH _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _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 105.53 _cell.angle_gamma 90 _cell.entry_id 1OYH _cell.length_a 68.998 _cell.length_b 98.573 _cell.length_c 89.35 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1OYH _symmetry.cell_setting monoclinic _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 ? monomeric 1 author_defined_assembly 1 ? monomeric 1 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,F,G,J 1 1 B,D,E,H,I,K 2 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 ? 5 F N N ? 5 G N N ? 5 H N N ? 5 I 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 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 4 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 5 ? 4 5 3 MAN BMA C1 O1 . 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 C NAG 1 A 1 NAG I 841 NAG 3 n C NAG 2 A 2 NAG I 842 NAG 3 n D NAG 1 B 1 NAG L 841 NAG 3 n D NAG 2 B 2 NAG L 842 NAG 4 n E NAG 1 C 1 NAG L 861 NAG 4 n E NAG 2 C 2 NAG L 862 NAG 4 n E BMA 3 C 3 BMA L 863 MAN 4 n E MAN 4 C 4 MAN L 868 MAN 4 n E MAN 5 C 5 MAN L 864 MAN # 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 8 I CYS 8 1_555 A SG CYS 128 I CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf2 A SG CYS 21 I CYS 21 1_555 A SG CYS 95 I CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf3 A SG CYS 247 I CYS 247 1_555 A SG CYS 430 I CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf4 B SG CYS 8 L CYS 8 1_555 B SG CYS 128 L CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 B SG CYS 21 L CYS 21 1_555 B SG CYS 95 L CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 247 L CYS 247 1_555 B SG CYS 430 L CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? covale ? covale1 A ND2 ASN 96 I ASN 96 1_555 F C1 NAG . I NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale2 A ND2 ASN 155 I ASN 155 1_555 C C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale3 A ND2 ASN 192 I ASN 192 1_555 G C1 NAG . I NAG 861 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? covale ? covale4 B ND2 ASN 96 L ASN 96 1_555 H C1 NAG . L NAG 801 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale5 B ND2 ASN 135 L ASN 135 1_555 I C1 NAG . L NAG 831 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale6 B ND2 ASN 155 L ASN 155 1_555 D C1 NAG . B NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale7 B ND2 ASN 192 L ASN 192 1_555 E C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.459 ? covale ? covale8 C O4 NAG . A NAG 1 1_555 C C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.391 ? covale ? covale9 D O4 NAG . B NAG 1 1_555 D C1 NAG . B NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.38 ? covale ? covale10 E O4 NAG . C NAG 1 1_555 E C1 NAG . C NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.39 ? covale ? covale11 E O4 NAG . C NAG 2 1_555 E C1 BMA . C BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.393 ? covale ? covale12 E O3 BMA . C BMA 3 1_555 E C1 MAN . C MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.408 ? covale ? covale13 E O6 BMA . C BMA 3 1_555 E C1 MAN . C MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.402 ? # _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 285 n n C1 O1 NAG sing 286 n n C1 O5 NAG sing 287 n n C1 H1 NAG sing 288 n n C2 C3 NAG sing 289 n n C2 N2 NAG sing 290 n n C2 H2 NAG sing 291 n n C3 C4 NAG sing 292 n n C3 O3 NAG sing 293 n n C3 H3 NAG sing 294 n n C4 C5 NAG sing 295 n n C4 O4 NAG sing 296 n n C4 H4 NAG sing 297 n n C5 C6 NAG sing 298 n n C5 O5 NAG sing 299 n n C5 H5 NAG sing 300 n n C6 O6 NAG sing 301 n n C6 H61 NAG sing 302 n n C6 H62 NAG sing 303 n n C7 C8 NAG sing 304 n n C7 N2 NAG sing 305 n n C7 O7 NAG doub 306 n n C8 H81 NAG sing 307 n n C8 H82 NAG sing 308 n n C8 H83 NAG sing 309 n n N2 HN2 NAG sing 310 n n O1 HO1 NAG sing 311 n n O3 HO3 NAG sing 312 n n O4 HO4 NAG sing 313 n n O6 HO6 NAG sing 314 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 1OYH _atom_sites.fract_transf_matrix[1][1] 0.014493 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.004027 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010145 _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] 0.011616 _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 F 5 NAG I 1 801 801 NAG NAG . G 5 NAG I 1 861 861 NAG NAG . H 5 NAG L 1 801 801 NAG NAG . I 5 NAG L 1 831 831 NAG NAG . J 6 HOH I 1 862 1 HOH HOH . J 6 HOH I 2 863 2 HOH HOH . J 6 HOH I 3 864 3 HOH HOH . J 6 HOH I 4 865 4 HOH HOH . J 6 HOH I 5 866 5 HOH HOH . J 6 HOH I 6 867 6 HOH HOH . J 6 HOH I 7 868 7 HOH HOH . J 6 HOH I 8 869 11 HOH HOH . J 6 HOH I 9 870 12 HOH HOH . J 6 HOH I 10 871 13 HOH HOH . J 6 HOH I 11 872 14 HOH HOH . J 6 HOH I 12 873 15 HOH HOH . J 6 HOH I 13 874 16 HOH HOH . J 6 HOH I 14 875 17 HOH HOH . J 6 HOH I 15 876 18 HOH HOH . J 6 HOH I 16 877 19 HOH HOH . J 6 HOH I 17 878 20 HOH HOH . J 6 HOH I 18 879 21 HOH HOH . J 6 HOH I 19 880 22 HOH HOH . J 6 HOH I 20 881 23 HOH HOH . J 6 HOH I 21 882 24 HOH HOH . J 6 HOH I 22 883 25 HOH HOH . J 6 HOH I 23 884 26 HOH HOH . J 6 HOH I 24 885 27 HOH HOH . J 6 HOH I 25 886 28 HOH HOH . J 6 HOH I 26 887 29 HOH HOH . J 6 HOH I 27 888 30 HOH HOH . J 6 HOH I 28 889 31 HOH HOH . J 6 HOH I 29 890 32 HOH HOH . J 6 HOH I 30 891 33 HOH HOH . J 6 HOH I 31 892 35 HOH HOH . J 6 HOH I 32 893 51 HOH HOH . J 6 HOH I 33 894 54 HOH HOH . K 6 HOH L 1 869 8 HOH HOH . K 6 HOH L 2 870 9 HOH HOH . K 6 HOH L 3 871 10 HOH HOH . K 6 HOH L 4 872 34 HOH HOH . K 6 HOH L 5 873 36 HOH HOH . K 6 HOH L 6 874 37 HOH HOH . K 6 HOH L 7 875 38 HOH HOH . K 6 HOH L 8 876 39 HOH HOH . K 6 HOH L 9 877 40 HOH HOH . K 6 HOH L 10 878 41 HOH HOH . K 6 HOH L 11 879 42 HOH HOH . K 6 HOH L 12 880 43 HOH HOH . K 6 HOH L 13 881 44 HOH HOH . K 6 HOH L 14 882 45 HOH HOH . K 6 HOH L 15 883 46 HOH HOH . K 6 HOH L 16 884 47 HOH HOH . K 6 HOH L 17 885 48 HOH HOH . K 6 HOH L 18 886 49 HOH HOH . K 6 HOH L 19 887 50 HOH HOH . K 6 HOH L 20 888 52 HOH HOH . K 6 HOH L 21 889 53 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 . . . G 5 7.966 24.689 0.541 1 92.35 ? C1 NAG 861 I 1 HETATM 2 C C2 NAG . . . G 5 8.604 23.941 1.731 1 95.88 ? C2 NAG 861 I 1 HETATM 3 C C3 NAG . . . G 5 8.67 24.845 2.977 1 97.21 ? C3 NAG 861 I 1 HETATM 4 C C4 NAG . . . G 5 9.297 26.203 2.637 1 97.4 ? C4 NAG 861 I 1 HETATM 5 C C5 NAG . . . G 5 8.543 26.827 1.458 1 96.65 ? C5 NAG 861 I 1 HETATM 6 C C6 NAG . . . G 5 9.094 28.179 1.037 1 97.17 ? C6 NAG 861 I 1 HETATM 7 C C7 NAG . . . G 5 8.415 21.659 2.507 1 100.04 ? C7 NAG 861 I 1 HETATM 8 C C8 NAG . . . G 5 7.819 20.313 2.11 1 99.98 ? C8 NAG 861 I 1 HETATM 9 N N2 NAG . . . G 5 7.82 22.756 2.042 1 98.4 ? N2 NAG 861 I 1 HETATM 10 O O3 NAG . . . G 5 9.432 24.208 3.995 1 97.55 ? O3 NAG 861 I 1 HETATM 11 O O4 NAG . . . G 5 9.232 27.064 3.77 1 97.89 ? O4 NAG 861 I 1 HETATM 12 O O5 NAG . . . G 5 8.62 25.949 0.312 1 94.24 ? O5 NAG 861 I 1 HETATM 13 O O6 NAG . . . G 5 8.051 29.129 0.858 1 97.16 ? O6 NAG 861 I 1 HETATM 14 O O7 NAG . . . G 5 9.413 21.697 3.229 1 101.09 ? O7 NAG 861 I 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 31 _model_server_stats.query_time_ms 282 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #