data_5I25 # _model_server_result.job_id J0Kkpc2KRzqLQrki-IpiEQ _model_server_result.datetime_utc '2024-11-05 17:14:02' _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 5i25 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":901}' # _entry.id 5I25 # _exptl.entry_id 5I25 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _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 5I25 _cell.length_a 80.59 _cell.length_b 80.59 _cell.length_c 251.81 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5I25 _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 ? 3 C N N ? 3 D N N ? 3 E 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 2 A CYS 2 1_555 A SG CYS 85 A CYS 85 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? disulf ? disulf2 A SG CYS 28 A CYS 28 1_555 A SG CYS 58 A CYS 58 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2 ? disulf ? disulf3 A SG CYS 32 A CYS 32 1_555 A SG CYS 38 A CYS 38 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf4 A SG CYS 92 A CYS 92 1_555 A SG CYS 175 A CYS 175 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? disulf ? disulf5 A SG CYS 118 A CYS 118 1_555 A SG CYS 147 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 A SG CYS 122 A CYS 122 1_555 A SG CYS 128 A CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.068 ? disulf ? disulf7 A SG CYS 182 A CYS 182 1_555 A SG CYS 265 A CYS 265 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.021 ? disulf ? disulf8 A SG CYS 208 A CYS 208 1_555 A SG CYS 237 A CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf9 A SG CYS 212 A CYS 212 1_555 A SG CYS 218 A CYS 218 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf10 A SG CYS 273 A CYS 273 1_555 A SG CYS 356 A CYS 356 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf11 A SG CYS 299 A CYS 299 1_555 A SG CYS 328 A CYS 328 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf12 A SG CYS 303 A CYS 303 1_555 A SG CYS 309 A CYS 309 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf13 A SG CYS 321 A CYS 321 1_555 A SG CYS 321 A CYS 321 7_645 ? ? ? ? ? ? ? ? ? ? ? ? 2.153 ? disulf ? disulf14 A SG CYS 362 A CYS 362 1_555 A SG CYS 482 A CYS 482 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf15 A SG CYS 398 A CYS 398 1_555 A SG CYS 414 A CYS 414 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf16 A SG CYS 496 A CYS 496 1_555 A SG CYS 563 A CYS 563 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf17 A SG CYS 527 A CYS 527 1_555 A SG CYS 542 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? # _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 5I25 _atom_sites.fract_transf_matrix[1][1] 0.012408 _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] 0.012408 _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] 0.003971 _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 C 3 NAG A 1 901 901 NAG NAG . D 3 NAG A 1 902 910 NAG NAG . E 3 NAG A 1 903 920 NAG NAG . F 4 HOH A 1 1001 1 HOH HOH . F 4 HOH A 2 1002 20 HOH HOH . F 4 HOH A 3 1003 45 HOH HOH . F 4 HOH A 4 1004 29 HOH HOH . F 4 HOH A 5 1005 52 HOH HOH . F 4 HOH A 6 1006 37 HOH HOH . F 4 HOH A 7 1007 28 HOH HOH . F 4 HOH A 8 1008 34 HOH HOH . F 4 HOH A 9 1009 16 HOH HOH . F 4 HOH A 10 1010 46 HOH HOH . F 4 HOH A 11 1011 6 HOH HOH . F 4 HOH A 12 1012 30 HOH HOH . F 4 HOH A 13 1013 18 HOH HOH . F 4 HOH A 14 1014 36 HOH HOH . F 4 HOH A 15 1015 49 HOH HOH . F 4 HOH A 16 1016 43 HOH HOH . F 4 HOH A 17 1017 5 HOH HOH . F 4 HOH A 18 1018 39 HOH HOH . F 4 HOH A 19 1019 47 HOH HOH . F 4 HOH A 20 1020 22 HOH HOH . F 4 HOH A 21 1021 19 HOH HOH . F 4 HOH A 22 1022 41 HOH HOH . F 4 HOH A 23 1023 2 HOH HOH . F 4 HOH A 24 1024 14 HOH HOH . F 4 HOH A 25 1025 27 HOH HOH . F 4 HOH A 26 1026 33 HOH HOH . F 4 HOH A 27 1027 7 HOH HOH . F 4 HOH A 28 1028 51 HOH HOH . F 4 HOH A 29 1029 48 HOH HOH . F 4 HOH A 30 1030 8 HOH HOH . F 4 HOH A 31 1031 24 HOH HOH . F 4 HOH A 32 1032 31 HOH HOH . F 4 HOH A 33 1033 9 HOH HOH . F 4 HOH A 34 1034 50 HOH HOH . F 4 HOH A 35 1035 17 HOH HOH . F 4 HOH A 36 1036 3 HOH HOH . F 4 HOH A 37 1037 25 HOH HOH . F 4 HOH A 38 1038 44 HOH HOH . F 4 HOH A 39 1039 26 HOH HOH . F 4 HOH A 40 1040 53 HOH HOH . F 4 HOH A 41 1041 13 HOH HOH . F 4 HOH A 42 1042 42 HOH HOH . F 4 HOH A 43 1043 38 HOH HOH . F 4 HOH A 44 1044 11 HOH HOH . F 4 HOH A 45 1045 35 HOH HOH . F 4 HOH A 46 1046 23 HOH HOH . F 4 HOH A 47 1047 15 HOH HOH . F 4 HOH A 48 1048 40 HOH HOH . F 4 HOH A 49 1049 32 HOH HOH . F 4 HOH A 50 1050 10 HOH HOH . F 4 HOH A 51 1051 21 HOH HOH . G 4 HOH B 1 101 4 HOH HOH . G 4 HOH B 2 102 12 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 . . . C 3 38.45 -44.559 -30.234 1 113.61 ? C1 NAG 901 A 1 HETATM 2 C C2 NAG . . . C 3 38.729 -43.762 -31.507 1 120.99 ? C2 NAG 901 A 1 HETATM 3 C C3 NAG . . . C 3 40.143 -44.004 -32.022 1 123 ? C3 NAG 901 A 1 HETATM 4 C C4 NAG . . . C 3 41.142 -43.895 -30.873 1 122.84 ? C4 NAG 901 A 1 HETATM 5 C C5 NAG . . . C 3 40.757 -44.893 -29.796 1 111.69 ? C5 NAG 901 A 1 HETATM 6 C C6 NAG . . . C 3 41.776 -44.908 -28.667 1 108.3 ? C6 NAG 901 A 1 HETATM 7 C C7 NAG . . . C 3 36.693 -43.39 -32.827 1 128.25 ? C7 NAG 901 A 1 HETATM 8 C C8 NAG . . . C 3 35.771 -43.924 -33.887 1 119.87 ? C8 NAG 901 A 1 HETATM 9 N N2 NAG . . . C 3 37.763 -44.136 -32.529 1 124.7 ? N2 NAG 901 A 1 HETATM 10 O O3 NAG . . . C 3 40.445 -43.097 -33.064 1 117.55 ? O3 NAG 901 A 1 HETATM 11 O O4 NAG . . . C 3 42.449 -44.19 -31.309 1 125.42 ? O4 NAG 901 A 1 HETATM 12 O O5 NAG . . . C 3 39.498 -44.531 -29.287 1 104.81 ? O5 NAG 901 A 1 HETATM 13 O O6 NAG . . . C 3 43.036 -45.269 -29.184 1 103.22 ? O6 NAG 901 A 1 HETATM 14 O O7 NAG . . . C 3 36.436 -42.313 -32.283 1 128.58 ? O7 NAG 901 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 38 _model_server_stats.create_model_time_ms 68 _model_server_stats.query_time_ms 600 _model_server_stats.encode_time_ms 11 _model_server_stats.element_count 14 #