data_6WGL # _model_server_result.job_id tbIp7aTGZc7yk7TQhpw0Yw _model_server_result.datetime_utc '2024-12-22 07:45:40' _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 6wgl # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":301}' # _entry.id 6WGL # _exptl.entry_id 6WGL _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 1 _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 6WGL _cell.length_a 73.49 _cell.length_b 73.49 _cell.length_c 412.441 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6WGL _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 trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G,H,I _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id F _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 4 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order 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 4 n D NAG 1 D 1 NAG K 1 NAG 4 n D NAG 2 D 2 NAG K 2 NAG 4 n E NAG 1 E 1 NAG K 4 NAG 4 n E NAG 2 E 2 NAG K 5 NAG # 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 22 A CYS 22 1_555 A SG CYS 96 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.757 ? disulf ? disulf2 A SG CYS 152 A CYS 152 1_555 A SG CYS 208 A CYS 208 1_555 ? A ? ? ? ? ? ? ? ? ? ? 2.068 ? disulf ? disulf3 A SG CYS 152 A CYS 152 1_555 A SG CYS 208 A CYS 208 1_555 ? B ? ? ? ? ? ? ? ? ? ? 2.797 ? disulf ? disulf4 B SG CYS 23 B CYS 23 1_555 B SG CYS 93 B CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.921 ? disulf ? disulf5 B SG CYS 139 B CYS 139 1_555 B SG CYS 199 B CYS 199 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.054 ? disulf ? disulf6 C SG CYS 9 C CYS 9 1_555 C SG CYS 19 C CYS 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf7 C SG CYS 29 C CYS 29 1_555 C SG CYS 59 C CYS 59 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? covale ? covale1 C ND2 ASN 28 C ASN 28 1_555 D C1 NAG . D NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale2 C ND2 ASN 73 C ASN 73 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale3 C ND2 ASN 184 C ASN 184 1_555 F C1 NAG . C NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale4 D O4 NAG . D NAG 1 1_555 D C1 NAG . D NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale5 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.455 ? # _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 6WGL _atom_sites.fract_transf_matrix[1][1] 0.013607 _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] 0.013607 _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] 0.002425 _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 C 1 301 3 NAG NAG . G 6 HOH A 1 301 13 HOH HOH . G 6 HOH A 2 302 16 HOH HOH . G 6 HOH A 3 303 24 HOH HOH . G 6 HOH A 4 304 26 HOH HOH . G 6 HOH A 5 305 10 HOH HOH . G 6 HOH A 6 306 23 HOH HOH . H 6 HOH B 1 301 15 HOH HOH . H 6 HOH B 2 302 20 HOH HOH . H 6 HOH B 3 303 25 HOH HOH . H 6 HOH B 4 304 3 HOH HOH . H 6 HOH B 5 305 22 HOH HOH . H 6 HOH B 6 306 2 HOH HOH . H 6 HOH B 7 307 12 HOH HOH . H 6 HOH B 8 308 9 HOH HOH . H 6 HOH B 9 309 11 HOH HOH . H 6 HOH B 10 310 4 HOH HOH . H 6 HOH B 11 311 21 HOH HOH . I 6 HOH C 1 401 14 HOH HOH . I 6 HOH C 2 402 17 HOH HOH . I 6 HOH C 3 403 8 HOH HOH . I 6 HOH C 4 404 5 HOH HOH . I 6 HOH C 5 405 18 HOH HOH . I 6 HOH C 6 406 1 HOH HOH . I 6 HOH C 7 407 7 HOH HOH . I 6 HOH C 8 408 6 HOH HOH . I 6 HOH C 9 409 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 5 29.591 -57.551 16.804 1 140.19 ? C1 NAG 301 C 1 HETATM 2 C C2 NAG . . . F 5 29.456 -56.578 15.606 1 126.57 ? C2 NAG 301 C 1 HETATM 3 C C3 NAG . . . F 5 27.954 -56.571 15.259 1 112.77 ? C3 NAG 301 C 1 HETATM 4 C C4 NAG . . . F 5 27.663 -57.943 14.629 1 93 ? C4 NAG 301 C 1 HETATM 5 C C5 NAG . . . F 5 27.966 -59.078 15.634 1 107.15 ? C5 NAG 301 C 1 HETATM 6 C C6 NAG . . . F 5 28.041 -60.445 14.949 1 98.87 ? C6 NAG 301 C 1 HETATM 7 C C7 NAG . . . F 5 30.191 -54.169 15.089 1 110.84 ? C7 NAG 301 C 1 HETATM 8 C C8 NAG . . . F 5 31.146 -53.135 15.614 1 134.85 ? C8 NAG 301 C 1 HETATM 9 N N2 NAG . . . F 5 30.196 -55.32 15.79 1 102.83 ? N2 NAG 301 C 1 HETATM 10 O O3 NAG . . . F 5 27.543 -55.507 14.393 1 135.99 ? O3 NAG 301 C 1 HETATM 11 O O4 NAG . . . F 5 26.308 -58.014 14.155 1 81.17 ? O4 NAG 301 C 1 HETATM 12 O O5 NAG . . . F 5 29.204 -58.884 16.365 1 121.05 ? O5 NAG 301 C 1 HETATM 13 O O6 NAG . . . F 5 26.735 -60.872 14.537 1 102.31 ? O6 NAG 301 C 1 HETATM 14 O O7 NAG . . . F 5 29.481 -53.916 14.121 1 92.15 ? O7 NAG 301 C 1 # _model_server_stats.io_time_ms 98 _model_server_stats.parse_time_ms 25 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 301 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #