data_1LK6 # _model_server_result.job_id kaGC4TI56KCmSY2PYZBtdQ _model_server_result.datetime_utc '2024-11-30 06:18:18' _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 1lk6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":801}' # _entry.id 1LK6 # _exptl.entry_id 1LK6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-alpha-D-glucopyranose _entity.pdbx_number_of_molecules 6 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 104.44 _cell.angle_gamma 90 _cell.entry_id 1LK6 _cell.length_a 68.811 _cell.length_b 99.908 _cell.length_c 87.292 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1LK6 _symmetry.cell_setting monoclinic _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _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 _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 ? 4 E N N ? 4 F N N ? 4 G N N ? 4 H N N ? 4 J N N ? 4 L 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 8 L CYS 8 1_555 A SG CYS 128 L CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf2 A SG CYS 21 L CYS 21 1_555 A SG CYS 95 L CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf3 A SG CYS 247 L CYS 247 1_555 A SG CYS 430 L CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.025 ? disulf ? disulf4 B SG CYS 8 I CYS 8 1_555 B SG CYS 128 I CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf5 B SG CYS 21 I CYS 21 1_555 B SG CYS 95 I CYS 95 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf6 B SG CYS 247 I CYS 247 1_555 B SG CYS 430 I CYS 430 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? covale ? covale1 C C ACE 1 C ACE 1 1_555 C N SER 2 C SER 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.332 ? covale ? covale2 D C FME 1 D FME 10 1_555 D N LEU 2 D LEU 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.327 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NDG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-alpha-D-glucopyranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms N-acetyl-alpha-D-glucosamine;2-acetamido-2-deoxy-alpha-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE # 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 NDG sing 307 n n C1 O5 NDG sing 308 n n C1 O1 NDG sing 309 n n C1 H1 NDG sing 310 n n C2 C3 NDG sing 311 n n C2 N2 NDG sing 312 n n C2 H2 NDG sing 313 n n C3 C4 NDG sing 314 n n C3 O3 NDG sing 315 n n C3 H3 NDG sing 316 n n C4 C5 NDG sing 317 n n C4 O4 NDG sing 318 n n C4 H4 NDG sing 319 n n C5 C6 NDG sing 320 n n C5 O5 NDG sing 321 n n C5 H5 NDG sing 322 n n C6 O6 NDG sing 323 n n C6 H61 NDG sing 324 n n C6 H62 NDG sing 325 n n C7 C8 NDG sing 326 n n C7 O7 NDG doub 327 n n C7 N2 NDG sing 328 n n C8 H81 NDG sing 329 n n C8 H82 NDG sing 330 n n C8 H83 NDG sing 331 n n O3 HO3 NDG sing 332 n n O4 HO4 NDG sing 333 n n O6 HO6 NDG sing 334 n n N2 HN2 NDG sing 335 n n O1 HO1 NDG sing 336 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 NDG DGlcpNAca 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NDG N-acetyl-a-D-glucopyranosamine 'COMMON NAME' GMML 1 NDG a-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NDG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 1LK6 _atom_sites.fract_transf_matrix[1][1] 0.014533 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.003742 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010009 _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] 0.01183 _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 E 4 NDG L 1 801 801 NDG NAG . F 4 NDG L 1 841 841 NDG NAG . G 4 NDG L 1 842 842 NDG NAG . H 4 NDG I 1 801 801 NDG NAG . I 5 NAG I 1 841 841 NAG NAG . J 4 NDG I 1 842 842 NDG NAG . K 5 NAG I 1 861 861 NAG NAG . L 4 NDG I 1 862 862 NDG NAG . M 6 GOL C 1 100 100 GOL GOL . N 7 HOH L 1 843 2 HOH HOH . N 7 HOH L 2 844 4 HOH HOH . N 7 HOH L 3 845 8 HOH HOH . N 7 HOH L 4 846 12 HOH HOH . N 7 HOH L 5 847 14 HOH HOH . N 7 HOH L 6 848 19 HOH HOH . N 7 HOH L 7 849 20 HOH HOH . N 7 HOH L 8 850 22 HOH HOH . N 7 HOH L 9 851 32 HOH HOH . O 7 HOH I 1 863 1 HOH HOH . O 7 HOH I 2 864 3 HOH HOH . O 7 HOH I 3 865 5 HOH HOH . O 7 HOH I 4 866 6 HOH HOH . O 7 HOH I 5 867 7 HOH HOH . O 7 HOH I 6 868 9 HOH HOH . O 7 HOH I 7 869 10 HOH HOH . O 7 HOH I 8 870 11 HOH HOH . O 7 HOH I 9 871 13 HOH HOH . O 7 HOH I 10 872 15 HOH HOH . O 7 HOH I 11 873 16 HOH HOH . O 7 HOH I 12 874 17 HOH HOH . O 7 HOH I 13 875 18 HOH HOH . O 7 HOH I 14 876 21 HOH HOH . O 7 HOH I 15 877 23 HOH HOH . O 7 HOH I 16 878 24 HOH HOH . O 7 HOH I 17 879 25 HOH HOH . O 7 HOH I 18 880 26 HOH HOH . O 7 HOH I 19 881 27 HOH HOH . O 7 HOH I 20 882 28 HOH HOH . O 7 HOH I 21 883 29 HOH HOH . O 7 HOH I 22 884 30 HOH HOH . O 7 HOH I 23 885 31 HOH HOH . O 7 HOH I 24 886 33 HOH HOH . O 7 HOH I 25 887 34 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 NDG . . . E 4 -45.556 -11.72 -43.901 1 118.33 ? C1 NDG 801 L 1 HETATM 2 C C2 NDG . . . E 4 -47.047 -12.049 -44.084 1 118.33 ? C2 NDG 801 L 1 HETATM 3 C C3 NDG . . . E 4 -47.567 -11.466 -45.411 1 118.33 ? C3 NDG 801 L 1 HETATM 4 C C4 NDG . . . E 4 -47.246 -9.972 -45.488 1 118.33 ? C4 NDG 801 L 1 HETATM 5 C C5 NDG . . . E 4 -45.736 -9.766 -45.279 1 118.33 ? C5 NDG 801 L 1 HETATM 6 C C6 NDG . . . E 4 -45.306 -8.312 -45.295 1 118.33 ? C6 NDG 801 L 1 HETATM 7 C C7 NDG . . . E 4 -46.443 -14.256 -43.313 1 118.33 ? C7 NDG 801 L 1 HETATM 8 C C8 NDG . . . E 4 -46.719 -14.32 -41.818 1 118.33 ? C8 NDG 801 L 1 HETATM 9 O O5 NDG . . . E 4 -45.333 -10.306 -44 1 118.33 ? O5 NDG 801 L 1 HETATM 10 O O3 NDG . . . E 4 -48.971 -11.655 -45.513 1 118.33 ? O3 NDG 801 L 1 HETATM 11 O O4 NDG . . . E 4 -47.648 -9.459 -46.752 1 118.33 ? O4 NDG 801 L 1 HETATM 12 O O6 NDG . . . E 4 -44.136 -8.116 -44.511 1 118.33 ? O6 NDG 801 L 1 HETATM 13 O O7 NDG . . . E 4 -45.507 -14.901 -43.79 1 118.33 ? O7 NDG 801 L 1 HETATM 14 N N2 NDG . . . E 4 -47.244 -13.488 -44.05 1 118.33 ? N2 NDG 801 L 1 HETATM 15 O O1 NDG . . . E 4 -44.809 -12.348 -44.884 1 118.33 ? O1 NDG 801 L 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 300 _model_server_stats.encode_time_ms 1 _model_server_stats.element_count 15 #