data_5IBL # _model_server_result.job_id Ng7DNNvk3rEwTs3CgDFcVg _model_server_result.datetime_utc '2024-11-27 08:07:29' _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 5ibl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":404}' # _entry.id 5IBL # _exptl.entry_id 5IBL _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 7 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 101.95 _cell.angle_beta 95.33 _cell.angle_gamma 98.36 _cell.entry_id 5IBL _cell.length_a 54.13 _cell.length_b 104.72 _cell.length_c 116.66 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5IBL _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 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 ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 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,B,G,H,I,J 1 1 C,D,E,F,K,L,M,N,O 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 I N N ? 5 J N N ? 5 K N N ? 5 L N N ? 5 M N N ? 5 N N N ? 5 O 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 B SG CYS 43 B CYS 52 1_555 B SG CYS 276 B CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 B SG CYS 56 B CYS 64 1_555 B SG CYS 68 B CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 B SG CYS 91 B CYS 97 1_555 B SG CYS 137 B CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 B SG CYS 280 B CYS 281 1_555 B SG CYS 304 B CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 C SG CYS 22 C CYS 22 1_555 C SG CYS 96 C CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf6 C SG CYS 152 C CYS 152 1_555 C SG CYS 208 C CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf7 D SG CYS 23 D CYS 23 1_555 D SG CYS 89 D CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf8 D SG CYS 135 D CYS 135 1_555 D SG CYS 195 D CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf9 F SG CYS 43 F CYS 52 1_555 F SG CYS 276 F CYS 277 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf10 F SG CYS 56 F CYS 64 1_555 F SG CYS 68 F CYS 76 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf11 F SG CYS 91 F CYS 97 1_555 F SG CYS 137 F CYS 139 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf12 F SG CYS 280 F CYS 281 1_555 F SG CYS 304 F CYS 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf13 G SG CYS 22 H CYS 22 1_555 G SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf14 G SG CYS 152 H CYS 152 1_555 G SG CYS 208 H CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf15 H SG CYS 23 L CYS 23 1_555 H SG CYS 89 L CYS 89 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf16 H SG CYS 135 L CYS 135 1_555 H SG CYS 195 L CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? covale ? covale1 B ND2 ASN 11 B ASN 20 1_555 J C1 NAG . B NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale2 B ND2 ASN 277 B ASN 278 1_555 I C1 NAG . B NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale3 F ND2 ASN 11 F ASN 20 1_555 N C1 NAG . F NAG 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale4 F ND2 ASN 24 F ASN 33 1_555 O C1 NAG . F NAG 405 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.436 ? covale ? covale5 F ND2 ASN 88 F ASN 94 1_555 M C1 NAG . F NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.43 ? covale ? covale6 F ND2 ASN 277 F ASN 278 1_555 L C1 NAG . F NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale7 F ND2 ASN 288 F ASN 289 1_555 K C1 NAG . F NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? # _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 5IBL _atom_sites.fract_transf_matrix[1][1] 0.018474 _atom_sites.fract_transf_matrix[1][2] 0.002715 _atom_sites.fract_transf_matrix[1][3] 0.002392 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009652 _atom_sites.fract_transf_matrix[2][3] 0.002217 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.008833 _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 I 5 NAG B 1 401 4 NAG NAG . J 5 NAG B 1 402 7 NAG NAG . K 5 NAG F 1 401 1 NAG NAG . L 5 NAG F 1 402 2 NAG NAG . M 5 NAG F 1 403 3 NAG NAG . N 5 NAG F 1 404 5 NAG NAG . O 5 NAG F 1 405 6 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 . . . N 5 -38.397 -54.655 26.639 1 148.71 ? C1 NAG 404 F 1 HETATM 2 C C2 NAG . . . N 5 -37.594 -54.527 27.94 1 146.73 ? C2 NAG 404 F 1 HETATM 3 C C3 NAG . . . N 5 -36.135 -54.957 27.736 1 145.84 ? C3 NAG 404 F 1 HETATM 4 C C4 NAG . . . N 5 -36.032 -56.272 26.965 1 146.4 ? C4 NAG 404 F 1 HETATM 5 C C5 NAG . . . N 5 -36.784 -56.145 25.64 1 147.93 ? C5 NAG 404 F 1 HETATM 6 C C6 NAG . . . N 5 -36.736 -57.384 24.77 1 146.42 ? C6 NAG 404 F 1 HETATM 7 C C7 NAG . . . N 5 -37.91 -52.663 29.541 1 145.36 ? C7 NAG 404 F 1 HETATM 8 C C8 NAG . . . N 5 -38.254 -51.207 29.649 1 144.42 ? C8 NAG 404 F 1 HETATM 9 N N2 NAG . . . N 5 -37.661 -53.118 28.302 1 145.89 ? N2 NAG 404 F 1 HETATM 10 O O3 NAG . . . N 5 -35.475 -55.084 28.988 1 145.05 ? O3 NAG 404 F 1 HETATM 11 O O4 NAG . . . N 5 -34.661 -56.603 26.744 1 145.03 ? O4 NAG 404 F 1 HETATM 12 O O5 NAG . . . N 5 -38.173 -55.878 25.917 1 149.33 ? O5 NAG 404 F 1 HETATM 13 O O6 NAG . . . N 5 -35.477 -57.561 24.135 1 145.13 ? O6 NAG 404 F 1 HETATM 14 O O7 NAG . . . N 5 -37.868 -53.394 30.524 1 146.35 ? O7 NAG 404 F 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 12 _model_server_stats.create_model_time_ms 51 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #