data_6NIJ # _model_server_result.job_id 6AHkbuJlxq32KsoCbCZyvQ _model_server_result.datetime_utc '2024-12-11 22:24:00' _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 6nij # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"O","auth_seq_id":604}' # _entry.id 6NIJ # _exptl.entry_id 6NIJ _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 7 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 5 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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,N,O _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 ? _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 ? 7 K N N ? 7 L N N ? 7 M N N ? 7 N N N ? 7 O N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 5 oligosaccharide 6 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 ? 6 2 1 NAG NAG C1 O1 . O4 HO4 . sing 3 ? 6 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 I NAG 1 G 1 NAG A 1160 NAG 5 n I NAG 2 G 2 NAG A 1161 NAG 6 n J NAG 1 I 1 NAG E 1160 NAG 6 n J NAG 2 I 2 NAG E 1161 NAG 6 n J BMA 3 I 3 BMA E 1162 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 22 H CYS 22 1_555 A SG CYS 96 H CYS 92 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf2 B SG CYS 23 L CYS 23 1_555 B SG CYS 93 L CYS 93 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf3 C SG CYS 24 A CYS 54 1_555 C SG CYS 44 A CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf4 C SG CYS 89 A CYS 119 1_555 C SG CYS 179 A CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf5 C SG CYS 96 A CYS 126 1_555 C SG CYS 170 A CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? disulf ? disulf6 C SG CYS 101 A CYS 131 1_555 C SG CYS 131 A CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf7 C SG CYS 192 A CYS 218 1_555 C SG CYS 221 A CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf8 C SG CYS 202 A CYS 228 1_555 C SG CYS 213 A CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf9 C SG CYS 270 A CYS 296 1_555 C SG CYS 304 A CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.022 ? disulf ? disulf10 C SG CYS 350 A CYS 378 1_555 C SG CYS 410 A CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf11 C SG CYS 357 A CYS 385 1_555 C SG CYS 383 A CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? disulf ? disulf12 D SG CYS 87 B CYS 598 1_555 D SG CYS 93 B CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.02 ? disulf ? disulf13 E SG CYS 24 C CYS 54 1_555 E SG CYS 44 C CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.207 ? disulf ? disulf14 E SG CYS 89 C CYS 119 1_555 E SG CYS 179 C CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf15 E SG CYS 96 C CYS 126 1_555 E SG CYS 170 C CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf16 E SG CYS 101 C CYS 131 1_555 E SG CYS 131 C CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.023 ? disulf ? disulf17 E SG CYS 192 C CYS 218 1_555 E SG CYS 221 C CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf18 E SG CYS 202 C CYS 228 1_555 E SG CYS 213 C CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf19 E SG CYS 270 C CYS 296 1_555 E SG CYS 304 C CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf20 E SG CYS 350 C CYS 378 1_555 E SG CYS 410 C CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf21 E SG CYS 357 C CYS 385 1_555 E SG CYS 383 C CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf22 F SG CYS 87 D CYS 598 1_555 F SG CYS 93 D CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf23 G SG CYS 24 E CYS 54 1_555 G SG CYS 44 E CYS 74 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.18 ? disulf ? disulf24 G SG CYS 89 E CYS 119 1_555 G SG CYS 179 E CYS 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf25 G SG CYS 96 E CYS 126 1_555 G SG CYS 170 E CYS 196 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf26 G SG CYS 101 E CYS 131 1_555 G SG CYS 131 E CYS 157 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf27 G SG CYS 192 E CYS 218 1_555 G SG CYS 221 E CYS 247 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? disulf ? disulf28 G SG CYS 202 E CYS 228 1_555 G SG CYS 213 E CYS 239 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf29 G SG CYS 270 E CYS 296 1_555 G SG CYS 304 E CYS 331 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.041 ? disulf ? disulf30 G SG CYS 350 E CYS 378 1_555 G SG CYS 410 E CYS 445 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf31 G SG CYS 357 E CYS 385 1_555 G SG CYS 383 E CYS 418 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf32 H SG CYS 87 F CYS 598 1_555 H SG CYS 93 F CYS 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? covale ? covale1 C ND2 ASN 100 A ASN 130 1_555 K C1 NAG . A NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? covale ? covale2 C ND2 ASN 134 A ASN 160 1_555 I C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale3 E ND2 ASN 130 C ASN 156 1_555 M C1 NAG . C NAG 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.41 ? covale ? covale4 E ND2 ASN 134 C ASN 160 1_555 L C1 NAG . C NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale5 E ND2 ASN 171 C ASN 197 1_555 N C1 NAG . C NAG 603 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.412 ? covale ? covale6 G ND2 ASN 100 E ASN 130 1_555 O C1 NAG . E NAG 604 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.411 ? covale ? covale7 G ND2 ASN 134 E ASN 160 1_555 J C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.418 ? covale ? covale8 I O4 NAG . G NAG 1 1_555 I C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.45 ? covale ? covale9 J O4 NAG . I NAG 1 1_555 J C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.412 ? covale ? covale10 J O4 NAG . I NAG 2 1_555 J C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.482 ? # _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 259 n n C1 O1 NAG sing 260 n n C1 O5 NAG sing 261 n n C1 H1 NAG sing 262 n n C2 C3 NAG sing 263 n n C2 N2 NAG sing 264 n n C2 H2 NAG sing 265 n n C3 C4 NAG sing 266 n n C3 O3 NAG sing 267 n n C3 H3 NAG sing 268 n n C4 C5 NAG sing 269 n n C4 O4 NAG sing 270 n n C4 H4 NAG sing 271 n n C5 C6 NAG sing 272 n n C5 O5 NAG sing 273 n n C5 H5 NAG sing 274 n n C6 O6 NAG sing 275 n n C6 H61 NAG sing 276 n n C6 H62 NAG sing 277 n n C7 C8 NAG sing 278 n n C7 N2 NAG sing 279 n n C7 O7 NAG doub 280 n n C8 H81 NAG sing 281 n n C8 H82 NAG sing 282 n n C8 H83 NAG sing 283 n n N2 HN2 NAG sing 284 n n O1 HO1 NAG sing 285 n n O3 HO3 NAG sing 286 n n O4 HO4 NAG sing 287 n n O6 HO6 NAG sing 288 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 6NIJ _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 K 7 NAG A 1 603 1130 NAG NAG . L 7 NAG C 1 601 1160 NAG NAG . M 7 NAG C 1 602 1130 NAG NAG . N 7 NAG C 1 603 1197 NAG NAG . O 7 NAG E 1 604 1130 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 . . . O 7 183.708 163.049 226.723 1 198.98 ? C1 NAG 604 E 1 HETATM 2 C C2 NAG . . . O 7 182.947 164.019 227.599 1 200.29 ? C2 NAG 604 E 1 HETATM 3 C C3 NAG . . . O 7 183.188 163.729 229.023 1 201.76 ? C3 NAG 604 E 1 HETATM 4 C C4 NAG . . . O 7 182.686 162.27 229.301 1 201.41 ? C4 NAG 604 E 1 HETATM 5 C C5 NAG . . . O 7 183.476 161.274 228.403 1 199.96 ? C5 NAG 604 E 1 HETATM 6 C C6 NAG . . . O 7 183.006 159.856 228.603 1 197.23 ? C6 NAG 604 E 1 HETATM 7 C C7 NAG . . . O 7 182.587 166.213 226.631 1 206.62 ? C7 NAG 604 E 1 HETATM 8 C C8 NAG . . . O 7 183.142 167.559 226.293 1 210.42 ? C8 NAG 604 E 1 HETATM 9 N N2 NAG . . . O 7 183.358 165.39 227.315 1 203.39 ? N2 NAG 604 E 1 HETATM 10 O O3 NAG . . . O 7 182.503 164.709 229.841 1 204.09 ? O3 NAG 604 E 1 HETATM 11 O O4 NAG . . . O 7 182.882 161.969 230.643 1 201.78 ? O4 NAG 604 E 1 HETATM 12 O O5 NAG . . . O 7 183.241 161.608 227.034 1 199.29 ? O5 NAG 604 E 1 HETATM 13 O O6 NAG . . . O 7 182.592 159.618 229.941 1 192.65 ? O6 NAG 604 E 1 HETATM 14 O O7 NAG . . . O 7 181.451 165.87 226.286 1 205.77 ? O7 NAG 604 E 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 28 _model_server_stats.query_time_ms 319 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #