data_7KV9 # _model_server_result.job_id HnUs4oRK4m8o6-5z12ZByA _model_server_result.datetime_utc '2024-10-19 11:27:34' _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 7kv9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":601}' # _entry.id 7KV9 # _exptl.entry_id 7KV9 _exptl.method 'ELECTRON MICROSCOPY' # _entity.details ? _entity.formula_weight 221.208 _entity.id 3 _entity.src_method syn _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 7KV9 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 7KV9 _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 ? 360-meric 360 'complete icosahedral assembly' 1 ? hexameric 6 'icosahedral asymmetric unit' 2 ? 30-meric 30 'icosahedral pentamer' 3 ? 36-meric 36 'icosahedral 23 hexamer' 4 ? hexameric 6 'icosahedral asymmetric unit, std point frame' 5 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H,I 1 (1-60) A,B,C,D,E,F,G,H,I 2 1 A,B,C,D,E,F,G,H,I 3 (1-5) A,B,C,D,E,F,G,H,I 4 (1,2,6,10,23,24) A,B,C,D,E,F,G,H,I 5 P # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] P 'transform to point frame' ? ? 0.5 -0.309017 -0.809017 -0.309017 0.809017 -0.5 0.809017 0.5 0.309017 186.33725 0 -487.83725 1 'point symmetry operation' ? ? 1 0 0 0 1 0 0 0 1 0 0 0 2 'point symmetry operation' ? ? 0.5 0.309017 0.809017 0.309017 0.809017 -0.5 -0.809017 0.5 0.309017 -186.33725 115.16276 301.5 3 'point symmetry operation' ? ? -0.309017 0.809017 0.5 0.809017 0.5 -0.309017 -0.5 0.309017 -0.809017 0 0 603.00001 4 'point symmetry operation' ? ? -0.309017 0.809017 -0.5 0.809017 0.5 0.309017 0.5 -0.309017 -0.809017 301.5 -186.33725 487.83726 5 'point symmetry operation' ? ? 0.5 0.309017 -0.809017 0.309017 0.809017 0.5 0.809017 -0.5 0.309017 301.5 -186.33725 115.16276 6 'point symmetry operation' ? ? 0.309017 0.809017 0.5 0.809017 -0.5 0.309017 0.5 0.309017 -0.809017 -186.33725 115.16276 301.5 7 'point symmetry operation' ? ? 0 1 0 0 0 1 1 0 0 0 0 0 8 'point symmetry operation' ? ? 0.309017 0.809017 -0.5 -0.809017 0.5 0.309017 0.5 0.309017 0.809017 115.16275 301.5 -186.33725 9 'point symmetry operation' ? ? 0.809017 0.5 -0.309017 -0.5 0.309017 -0.809017 -0.309017 0.809017 0.5 0 603.00001 0 10 'point symmetry operation' ? ? 0.809017 0.5 0.309017 0.5 -0.309017 -0.809017 -0.309017 0.809017 -0.5 -186.33725 487.83726 301.5 11 'point symmetry operation' ? ? -0.809017 -0.5 0.309017 -0.5 0.309017 -0.809017 0.309017 -0.809017 -0.5 603 603.00001 603.00001 12 'point symmetry operation' ? ? -0.809017 -0.5 -0.309017 0.5 -0.309017 -0.809017 0.309017 -0.809017 0.5 789.33725 487.83725 301.50001 13 'point symmetry operation' ? ? -0.309017 -0.809017 -0.5 0.809017 -0.5 0.309017 -0.5 -0.309017 0.809017 789.33726 115.16275 301.50001 14 'point symmetry operation' ? ? 0 -1 0 0 0 1 -1 0 0 603.00001 0 603.00001 15 'point symmetry operation' ? ? -0.309017 -0.809017 0.5 -0.809017 0.5 0.309017 -0.5 -0.309017 -0.809017 487.83725 301.5 789.33726 16 'point symmetry operation' ? ? -0.5 -0.309017 -0.809017 -0.309017 -0.809017 0.5 -0.809017 0.5 0.309017 789.33725 487.83725 301.50001 17 'point symmetry operation' ? ? 0.309017 -0.809017 -0.5 -0.809017 -0.5 0.309017 -0.5 0.309017 -0.809017 603.00001 603.00001 603.00001 18 'point symmetry operation' ? ? 0.309017 -0.809017 0.5 -0.809017 -0.5 -0.309017 0.5 -0.309017 -0.809017 301.5 789.33726 487.83726 19 'point symmetry operation' ? ? -0.5 -0.309017 0.809017 -0.309017 -0.809017 -0.5 0.809017 -0.5 0.309017 301.5 789.33726 115.16276 20 'point symmetry operation' ? ? -1 0 0 0 -1 0 0 0 1 603 603.00001 0 21 'point symmetry operation' ? ? 0 1 0 0 0 -1 -1 0 0 0 603.00001 603.00001 22 'point symmetry operation' ? ? 0.309017 0.809017 -0.5 0.809017 -0.5 -0.309017 -0.5 -0.309017 -0.809017 115.16275 301.50001 789.33726 23 'point symmetry operation' ? ? 0.809017 0.5 -0.309017 0.5 -0.309017 0.809017 0.309017 -0.809017 -0.5 0 0 603.00001 24 'point symmetry operation' ? ? 0.809017 0.5 0.309017 -0.5 0.309017 0.809017 0.309017 -0.809017 0.5 -186.33725 115.16275 301.5 25 'point symmetry operation' ? ? 0.309017 0.809017 0.5 -0.809017 0.5 -0.309017 -0.5 -0.309017 0.809017 -186.33725 487.83725 301.5 26 'point symmetry operation' ? ? 0.809017 -0.5 0.309017 -0.5 -0.309017 0.809017 -0.309017 -0.809017 -0.5 115.16275 301.5 789.33726 27 'point symmetry operation' ? ? 0 0 1 -1 0 0 0 -1 0 0 603.00001 603.00001 28 'point symmetry operation' ? ? -0.809017 0.5 0.309017 -0.5 -0.309017 -0.809017 -0.309017 -0.809017 0.5 301.5 789.33726 487.83726 29 'point symmetry operation' ? ? -0.5 0.309017 -0.809017 0.309017 -0.809017 -0.5 -0.809017 -0.5 0.309017 603 603.00001 603.00001 30 'point symmetry operation' ? ? 0.5 -0.309017 -0.809017 0.309017 -0.809017 0.5 -0.809017 -0.5 -0.309017 487.83725 301.50001 789.33726 31 'point symmetry operation' ? ? -0.5 0.309017 -0.809017 -0.309017 0.809017 0.5 0.809017 0.5 -0.309017 603.00001 0 0 32 'point symmetry operation' ? ? 0.5 -0.309017 -0.809017 -0.309017 0.809017 -0.5 0.809017 0.5 0.309017 487.83725 301.5 -186.33725 33 'point symmetry operation' ? ? 0.809017 -0.5 0.309017 0.5 0.309017 -0.809017 0.309017 0.809017 0.5 115.16275 301.5 -186.33725 34 'point symmetry operation' ? ? 0 0 1 1 0 0 0 1 0 0 0 0 35 'point symmetry operation' ? ? -0.809017 0.5 0.309017 0.5 0.309017 0.809017 0.309017 0.809017 -0.5 301.5 -186.33725 115.16276 36 'point symmetry operation' ? ? -0.309017 -0.809017 0.5 0.809017 -0.5 -0.309017 0.5 0.309017 0.809017 487.83725 301.5 -186.33725 37 'point symmetry operation' ? ? -0.809017 -0.5 0.309017 0.5 -0.309017 0.809017 -0.309017 0.809017 0.5 603 0 0 38 'point symmetry operation' ? ? -0.809017 -0.5 -0.309017 -0.5 0.309017 0.809017 -0.309017 0.809017 -0.5 789.33725 115.16275 301.50001 39 'point symmetry operation' ? ? -0.309017 -0.809017 -0.5 -0.809017 0.5 -0.309017 0.5 0.309017 -0.809017 789.33725 487.83725 301.50001 40 'point symmetry operation' ? ? 0 -1 0 0 0 -1 1 0 0 603 603.00001 0 41 'point symmetry operation' ? ? 0 0 -1 1 0 0 0 -1 0 603.00001 0 603.00001 42 'point symmetry operation' ? ? 0.809017 -0.5 -0.309017 0.5 0.309017 0.809017 -0.309017 -0.809017 0.5 301.5 -186.33725 487.83725 43 'point symmetry operation' ? ? 0.5 -0.309017 0.809017 -0.309017 0.809017 0.5 -0.809017 -0.5 0.309017 0 0 603.00001 44 'point symmetry operation' ? ? -0.5 0.309017 0.809017 -0.309017 0.809017 -0.5 -0.809017 -0.5 -0.309017 115.16275 301.50001 789.33726 45 'point symmetry operation' ? ? -0.809017 0.5 -0.309017 0.5 0.309017 -0.809017 -0.309017 -0.809017 -0.5 487.83725 301.50001 789.33726 46 'point symmetry operation' ? ? -0.5 -0.309017 0.809017 0.309017 0.809017 0.5 -0.809017 0.5 -0.309017 301.5 -186.33725 487.83725 47 'point symmetry operation' ? ? -1 0 0 0 1 0 0 0 -1 603.00001 0 603.00001 48 'point symmetry operation' ? ? -0.5 -0.309017 -0.809017 0.309017 0.809017 -0.5 0.809017 -0.5 -0.309017 789.33726 115.16275 301.50001 49 'point symmetry operation' ? ? 0.309017 -0.809017 -0.5 0.809017 0.5 -0.309017 0.5 -0.309017 0.809017 603.00001 0 0 50 'point symmetry operation' ? ? 0.309017 -0.809017 0.5 0.809017 0.5 0.309017 -0.5 0.309017 0.809017 301.5 -186.33725 115.16275 51 'point symmetry operation' ? ? -0.309017 0.809017 0.5 -0.809017 -0.5 0.309017 0.5 -0.309017 0.809017 0 603.00001 0 52 'point symmetry operation' ? ? -0.309017 0.809017 -0.5 -0.809017 -0.5 -0.309017 -0.5 0.309017 0.809017 301.5 789.33726 115.16276 53 'point symmetry operation' ? ? 0.5 0.309017 -0.809017 -0.309017 -0.809017 -0.5 -0.809017 0.5 -0.309017 301.5 789.33726 487.83726 54 'point symmetry operation' ? ? 1 0 0 0 -1 0 0 0 -1 0 603.00001 603.00001 55 'point symmetry operation' ? ? 0.5 0.309017 0.809017 -0.309017 -0.809017 0.5 0.809017 -0.5 -0.309017 -186.33725 487.83725 301.50001 56 'point symmetry operation' ? ? 0.809017 -0.5 -0.309017 -0.5 -0.309017 -0.809017 0.309017 0.809017 -0.5 301.5 789.33726 115.16276 57 'point symmetry operation' ? ? 0.5 -0.309017 0.809017 0.309017 -0.809017 -0.5 0.809017 0.5 -0.309017 0 603.00001 0 58 'point symmetry operation' ? ? -0.5 0.309017 0.809017 0.309017 -0.809017 0.5 0.809017 0.5 0.309017 115.16275 301.5 -186.33725 59 'point symmetry operation' ? ? -0.809017 0.5 -0.309017 -0.5 -0.309017 0.809017 0.309017 0.809017 0.5 487.83725 301.5 -186.33725 60 'point symmetry operation' ? ? 0 0 -1 -1 0 0 0 1 0 603 603 0 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 3 G N N ? 3 H N N ? 3 I 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 A SG CYS 3 A CYS 3 1_555 A SG CYS 30 A CYS 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf2 A SG CYS 60 A CYS 60 1_555 A SG CYS 121 A CYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 92 A CYS 92 1_555 A SG CYS 116 A CYS 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 190 A CYS 190 1_555 A SG CYS 288 A CYS 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 A SG CYS 305 A CYS 305 1_555 A SG CYS 336 A CYS 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 3 B CYS 3 1_555 B SG CYS 30 B CYS 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf7 B SG CYS 60 B CYS 60 1_555 B SG CYS 121 B CYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf8 B SG CYS 92 B CYS 92 1_555 B SG CYS 116 B CYS 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf9 B SG CYS 190 B CYS 190 1_555 B SG CYS 288 B CYS 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 C SG CYS 3 C CYS 3 1_555 C SG CYS 30 C CYS 30 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf11 C SG CYS 60 C CYS 60 1_555 C SG CYS 121 C CYS 121 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf12 C SG CYS 92 C CYS 92 1_555 C SG CYS 116 C CYS 116 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf13 C SG CYS 190 C CYS 190 1_555 C SG CYS 288 C CYS 288 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf14 C SG CYS 305 C CYS 305 1_555 C SG CYS 336 C CYS 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? covale ? covale1 A ND2 ASN 154 A ASN 154 1_555 G C1 NAG . A NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 B ND2 ASN 154 B ASN 154 1_555 H C1 NAG . B NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? covale ? covale3 C ND2 ASN 154 C ASN 154 1_555 I C1 NAG . C NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? # _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_ _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 7KV9 _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 G 3 NAG A 1 601 503 NAG NAG . H 3 NAG B 1 601 503 NAG NAG . I 3 NAG C 1 601 503 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 . . . H 3 507.252 403.291 321.385 1 28.48 ? C1 NAG 601 B 1 HETATM 2 C C2 NAG . . . H 3 507.113 404.546 322.245 1 28.48 ? C2 NAG 601 B 1 HETATM 3 C C3 NAG . . . H 3 508.245 405.524 321.943 1 28.48 ? C3 NAG 601 B 1 HETATM 4 C C4 NAG . . . H 3 509.596 404.838 322.089 1 28.48 ? C4 NAG 601 B 1 HETATM 5 C C5 NAG . . . H 3 509.64 403.581 321.227 1 28.48 ? C5 NAG 601 B 1 HETATM 6 C C6 NAG . . . H 3 510.908 402.78 321.413 1 28.48 ? C6 NAG 601 B 1 HETATM 7 C C7 NAG . . . H 3 504.801 405.058 322.888 1 28.48 ? C7 NAG 601 B 1 HETATM 8 C C8 NAG . . . H 3 503.543 405.78 322.513 1 28.48 ? C8 NAG 601 B 1 HETATM 9 N N2 NAG . . . H 3 505.822 405.18 322.035 1 28.48 ? N2 NAG 601 B 1 HETATM 10 O O3 NAG . . . H 3 508.165 406.629 322.836 1 28.48 ? O3 NAG 601 B 1 HETATM 11 O O4 NAG . . . H 3 510.637 405.72 321.685 1 28.48 ? O4 NAG 601 B 1 HETATM 12 O O5 NAG . . . H 3 508.551 402.716 321.578 1 28.48 ? O5 NAG 601 B 1 HETATM 13 O O6 NAG . . . H 3 510.849 401.981 322.587 1 28.48 ? O6 NAG 601 B 1 HETATM 14 O O7 NAG . . . H 3 504.888 404.394 323.915 1 28.48 ? O7 NAG 601 B 1 # _model_server_stats.io_time_ms 61 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 10 _model_server_stats.query_time_ms 272 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #