data_8SGB # _model_server_result.job_id YzsnNvlo-zZ6Qkq5R7CDew _model_server_result.datetime_utc '2024-12-17 02:46:01' _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 8sgb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":401}' # _entry.id 8SGB # _exptl.entry_id 8SGB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 2 _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 8SGB _cell.length_a 136.785 _cell.length_b 136.785 _cell.length_c 69.797 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SGB _symmetry.cell_setting ? _symmetry.Int_Tables_number 76 _symmetry.space_group_name_Hall 'P 4w' _symmetry.space_group_name_H-M 'P 41' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 6 F N N ? 6 G N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type 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 ? 5 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 5 3 2 BMA NAG C1 O1 . O4 HO4 . 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 E NAG 1 E 1 NAG A 278 NAG 5 n E NAG 2 E 2 NAG A 281 NAG 5 n E BMA 3 E 3 BMA A 282 BMA # 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 99 A CYS 102 1_555 A SG CYS 163 A CYS 166 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf2 A SG CYS 203 A CYS 206 1_555 A SG CYS 258 A CYS 261 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf3 B SG CYS 26 B CYS 25 1_555 B SG CYS 81 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf4 C SG CYS 23 C CYS 22 1_555 C SG CYS 89 C CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf5 C SG CYS 136 C CYS 135 1_555 C SG CYS 186 C CYS 185 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf6 C SG CYS 161 C CYS 160 1_555 D SG CYS 170 D CYS 171 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 D SG CYS 24 D CYS 25 1_555 D SG CYS 92 D CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf8 D SG CYS 144 D CYS 145 1_555 D SG CYS 209 D CYS 210 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? covale ? covale1 A ND2 ASN 17 A ASN 20 1_555 F C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? covale ? covale2 A ND2 ASN 39 A ASN 42 1_555 G C1 NAG . A NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale3 A ND2 ASN 160 A ASN 163 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale4 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale5 E O4 NAG . E NAG 2 1_555 E C1 BMA . E BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.472 ? metalc ? metalc1 A O VAL 155 A VAL 158 1_555 I NA NA . A NA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.22 ? metalc ? metalc2 A O GLN 156 A GLN 159 1_555 I NA NA . A NA 404 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.463 ? # _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 410 n n C1 O1 NAG sing 411 n n C1 O5 NAG sing 412 n n C1 H1 NAG sing 413 n n C2 C3 NAG sing 414 n n C2 N2 NAG sing 415 n n C2 H2 NAG sing 416 n n C3 C4 NAG sing 417 n n C3 O3 NAG sing 418 n n C3 H3 NAG sing 419 n n C4 C5 NAG sing 420 n n C4 O4 NAG sing 421 n n C4 H4 NAG sing 422 n n C5 C6 NAG sing 423 n n C5 O5 NAG sing 424 n n C5 H5 NAG sing 425 n n C6 O6 NAG sing 426 n n C6 H61 NAG sing 427 n n C6 H62 NAG sing 428 n n C7 C8 NAG sing 429 n n C7 N2 NAG sing 430 n n C7 O7 NAG doub 431 n n C8 H81 NAG sing 432 n n C8 H82 NAG sing 433 n n C8 H83 NAG sing 434 n n N2 HN2 NAG sing 435 n n O1 HO1 NAG sing 436 n n O3 HO3 NAG sing 437 n n O4 HO4 NAG sing 438 n n O6 HO6 NAG sing 439 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 8SGB _atom_sites.fract_transf_matrix[1][1] 0.007311 _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] 0.007311 _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] 0.014327 _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 6 NAG A 1 401 280 NAG NAG . G 6 NAG A 1 402 283 NAG NAG . H 7 FO4 A 1 403 301 FO4 FO4 . I 8 NA A 1 404 1 NA NA . J 9 HOH A 1 501 6 HOH HOH . J 9 HOH A 2 502 17 HOH HOH . J 9 HOH A 3 503 14 HOH HOH . J 9 HOH A 4 504 15 HOH HOH . J 9 HOH A 5 505 1 HOH HOH . K 9 HOH B 1 101 8 HOH HOH . K 9 HOH B 2 102 7 HOH HOH . K 9 HOH B 3 103 16 HOH HOH . K 9 HOH B 4 104 2 HOH HOH . L 9 HOH C 1 301 11 HOH HOH . L 9 HOH C 2 302 13 HOH HOH . L 9 HOH C 3 303 3 HOH HOH . L 9 HOH C 4 304 12 HOH HOH . L 9 HOH C 5 305 9 HOH HOH . L 9 HOH C 6 306 4 HOH HOH . L 9 HOH C 7 307 10 HOH HOH . L 9 HOH C 8 308 18 HOH HOH . M 9 HOH D 1 301 5 HOH HOH . M 9 HOH D 2 302 19 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 . . . F 6 -40.979 -23.283 -24.466 1 104.28 ? C1 NAG 401 A 1 HETATM 2 C C2 NAG . . . F 6 -41.139 -22.296 -25.63 1 107.01 ? C2 NAG 401 A 1 HETATM 3 C C3 NAG . . . F 6 -42.225 -21.269 -25.317 1 107.35 ? C3 NAG 401 A 1 HETATM 4 C C4 NAG . . . F 6 -43.526 -21.975 -24.965 1 105.26 ? C4 NAG 401 A 1 HETATM 5 C C5 NAG . . . F 6 -43.294 -22.955 -23.814 1 103.88 ? C5 NAG 401 A 1 HETATM 6 C C6 NAG . . . F 6 -44.52 -23.774 -23.479 1 102.8 ? C6 NAG 401 A 1 HETATM 7 C C7 NAG . . . F 6 -39.163 -20.892 -25.124 1 106.53 ? C7 NAG 401 A 1 HETATM 8 C C8 NAG . . . F 6 -37.887 -20.329 -25.677 1 86.34 ? C8 NAG 401 A 1 HETATM 9 N N2 NAG . . . F 6 -39.88 -21.647 -25.967 1 102.99 ? N2 NAG 401 A 1 HETATM 10 O O3 NAG . . . F 6 -42.429 -20.43 -26.447 1 112.6 ? O3 NAG 401 A 1 HETATM 11 O O4 NAG . . . F 6 -44.523 -21.02 -24.615 1 105.66 ? O4 NAG 401 A 1 HETATM 12 O O5 NAG . . . F 6 -42.257 -23.889 -24.163 1 108.03 ? O5 NAG 401 A 1 HETATM 13 O O6 NAG . . . F 6 -44.524 -24.182 -22.117 1 98.1 ? O6 NAG 401 A 1 HETATM 14 O O7 NAG . . . F 6 -39.526 -20.667 -23.97 1 110.82 ? O7 NAG 401 A 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 15 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 292 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 14 #