data_6QD8 # _model_server_result.job_id IjuP7KeQB20bcxxmufjF9w _model_server_result.datetime_utc '2024-11-12 20:35:49' _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 6qd8 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"R","auth_seq_id":701}' # _entry.id 6QD8 # _exptl.entry_id 6QD8 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _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 6QD8 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB 1 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6QD8 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dodecameric _pdbx_struct_assembly.oligomeric_count 12 _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,J,K,L,M,N,O,P,Q,R _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 P N N ? 6 Q N N ? 6 R 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 M NAG 1 G 1 NAG B 702 NAG 5 n M NAG 2 G 2 NAG B 703 NAG 5 n M BMA 3 G 3 BMA B 704 BMA 5 n N NAG 1 I 1 NAG F 702 NAG 5 n N NAG 2 I 2 NAG F 703 NAG 5 n N BMA 3 I 3 BMA F 704 BMA 5 n O NAG 1 J 1 NAG D 702 NAG 5 n O NAG 2 J 2 NAG D 703 NAG 5 n O BMA 3 J 3 BMA D 704 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 23 Z CYS 23 1_555 A SG CYS 88 Z CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf2 B SG CYS 25 A CYS 53 1_555 D SG CYS 108 B CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.965 ? disulf ? disulf3 B SG CYS 80 A CYS 108 1_555 B SG CYS 107 A CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf4 B SG CYS 93 A CYS 121 1_555 B SG CYS 119 A CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf5 C SG CYS 23 Y CYS 23 1_555 C SG CYS 88 Y CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf6 D SG CYS 10 B CYS 511 1_555 D SG CYS 55 B CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf7 D SG CYS 100 B CYS 601 1_555 D SG CYS 107 B CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf8 E SG CYS 23 L CYS 23 1_555 E SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.04 ? disulf ? disulf9 F SG CYS 22 H CYS 22 1_555 F SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf10 G SG CYS 25 C CYS 53 1_555 J SG CYS 108 D CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.088 ? disulf ? disulf11 G SG CYS 80 C CYS 108 1_555 G SG CYS 107 C CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf12 G SG CYS 93 C CYS 121 1_555 G SG CYS 119 C CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf13 H SG CYS 25 E CYS 53 1_555 I SG CYS 108 F CYS 609 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.063 ? disulf ? disulf14 H SG CYS 80 E CYS 108 1_555 H SG CYS 107 E CYS 135 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf15 H SG CYS 93 E CYS 121 1_555 H SG CYS 119 E CYS 147 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf16 I SG CYS 10 F CYS 511 1_555 I SG CYS 55 F CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf17 I SG CYS 100 F CYS 601 1_555 I SG CYS 107 F CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf18 J SG CYS 10 D CYS 511 1_555 J SG CYS 55 D CYS 556 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf19 J SG CYS 100 D CYS 601 1_555 J SG CYS 107 D CYS 608 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf20 K SG CYS 22 W CYS 22 1_555 K SG CYS 96 W CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf21 L SG CYS 22 Q CYS 22 1_555 L SG CYS 96 Q CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? covale ? covale1 D ND2 ASN 62 B ASN 563 1_555 M C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale2 D ND2 ASN 117 B ASN 618 1_555 P C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale3 I ND2 ASN 62 F ASN 563 1_555 N C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.426 ? covale ? covale4 I ND2 ASN 117 F ASN 618 1_555 Q C1 NAG . F NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale5 J ND2 ASN 62 D ASN 563 1_555 O C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.425 ? covale ? covale6 J ND2 ASN 117 D ASN 618 1_555 R C1 NAG . D NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? covale ? covale7 M O4 NAG . G NAG 1 1_555 M C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale8 M O4 NAG . G NAG 2 1_555 M C1 BMA . G BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale9 N O4 NAG . I NAG 1 1_555 N C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale10 N O4 NAG . I NAG 2 1_555 N C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale11 O O4 NAG . J NAG 1 1_555 O C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale12 O O4 NAG . J NAG 2 1_555 O C1 BMA . J BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? # _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 ? # 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 6QD8 _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 P 6 NAG B 1 701 701 NAG NAG . Q 6 NAG F 1 701 701 NAG NAG . R 6 NAG D 1 701 701 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 . . . R 6 154.303 140.76 181.325 1 112.47 ? C1 NAG 701 D 1 HETATM 2 C C2 NAG . . . R 6 154.642 142.116 182.078 1 112.47 ? C2 NAG 701 D 1 HETATM 3 C C3 NAG . . . R 6 156.129 142.271 182.455 1 112.47 ? C3 NAG 701 D 1 HETATM 4 C C4 NAG . . . R 6 156.723 141.004 183.037 1 112.47 ? C4 NAG 701 D 1 HETATM 5 C C5 NAG . . . R 6 156.607 139.909 182.009 1 112.47 ? C5 NAG 701 D 1 HETATM 6 C C6 NAG . . . R 6 157.192 138.598 182.481 1 112.47 ? C6 NAG 701 D 1 HETATM 7 C C7 NAG . . . R 6 153.845 144.433 181.836 1 112.47 ? C7 NAG 701 D 1 HETATM 8 C C8 NAG . . . R 6 153.415 145.496 180.872 1 112.47 ? C8 NAG 701 D 1 HETATM 9 N N2 NAG . . . R 6 154.195 143.259 181.297 1 112.47 ? N2 NAG 701 D 1 HETATM 10 O O3 NAG . . . R 6 156.285 143.336 183.387 1 112.47 ? O3 NAG 701 D 1 HETATM 11 O O4 NAG . . . R 6 158.094 141.208 183.358 1 112.47 ? O4 NAG 701 D 1 HETATM 12 O O5 NAG . . . R 6 155.224 139.665 181.749 1 112.47 ? O5 NAG 701 D 1 HETATM 13 O O6 NAG . . . R 6 158.352 138.248 181.739 1 112.47 ? O6 NAG 701 D 1 HETATM 14 O O7 NAG . . . R 6 153.882 144.631 183.046 1 112.47 ? O7 NAG 701 D 1 # _model_server_stats.io_time_ms 60 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 324 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #