data_8FDB # _model_server_result.job_id RuYHmyLnz7QNGLRGfqeX5A _model_server_result.datetime_utc '2024-10-25 20:34:59' _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 8fdb # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":501}' # _entry.id 8FDB # _exptl.entry_id 8FDB _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 261.167 _entity.id 3 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '2-DEOXY-2-AMINO GLUCITOL-6-PHOSPHATE' _entity.pdbx_number_of_molecules 4 _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 8FDB _cell.length_a 71.885 _cell.length_b 113.142 _cell.length_c 171.008 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8FDB _symmetry.cell_setting ? _symmetry.Int_Tables_number 20 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 2 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _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 ? 3 C N N ? 3 D 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 covale ? covale1 B C GLU 250 B GLU 250 1_555 B N KCX 251 B KCX 251 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.329 ? covale ? covale2 B C KCX 251 B KCX 251 1_555 B N LYS 252 B LYS 252 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.334 ? metalc ? metalc1 A OH TYR 61 A TYR 61 1_555 F MG MG . A MG 504 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.893 ? metalc ? metalc2 A O ILE 96 A ILE 96 1_555 E MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.835 ? metalc ? metalc3 C O2P AGP . A AGP 501 1_555 E MG MG . A MG 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.838 ? metalc ? metalc4 F MG MG . A MG 504 1_555 H O1P AGP . B AGP 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.559 ? # _chem_comp.formula 'C6 H16 N O8 P' _chem_comp.formula_weight 261.167 _chem_comp.id AGP _chem_comp.mon_nstd_flag . _chem_comp.name '2-DEOXY-2-AMINO GLUCITOL-6-PHOSPHATE' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # _atom_sites.entry_id 8FDB _atom_sites.fract_transf_matrix[1][1] 0.013911 _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] 0.008838 _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] 0.005848 _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 C 3 AGP A 1 501 501 AGP AGP . D 3 AGP A 1 502 601 AGP AGP . E 4 MG A 1 503 1 MG MG . F 4 MG A 1 504 2 MG MG . G 5 GOL B 1 701 701 GOL GOL . H 3 AGP B 1 702 401 AGP AGP . I 3 AGP B 1 703 501 AGP AGP . J 5 GOL B 1 704 502 GOL GOL . K 6 HOH A 1 601 16 HOH HOH . K 6 HOH A 2 602 18 HOH HOH . K 6 HOH A 3 603 6 HOH HOH . K 6 HOH A 4 604 3 HOH HOH . K 6 HOH A 5 605 15 HOH HOH . L 6 HOH B 1 801 19 HOH HOH . L 6 HOH B 2 802 10 HOH HOH . L 6 HOH B 3 803 11 HOH HOH . L 6 HOH B 4 804 7 HOH HOH . L 6 HOH B 5 805 2 HOH HOH . L 6 HOH B 6 806 17 HOH HOH . L 6 HOH B 7 807 8 HOH HOH . L 6 HOH B 8 808 12 HOH HOH . L 6 HOH B 9 809 9 HOH HOH . L 6 HOH B 10 810 14 HOH HOH . L 6 HOH B 11 811 13 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 AGP . . . C 3 13.649 5.607 -23.875 1 36.55 ? C1 AGP 501 A 1 HETATM 2 O O1 AGP . . . C 3 13.543 4.722 -24.975 1 44.31 ? O1 AGP 501 A 1 HETATM 3 C C2 AGP . . . C 3 13.173 4.958 -22.574 1 34.84 ? C2 AGP 501 A 1 HETATM 4 N N2 AGP . . . C 3 11.769 4.514 -22.669 1 43.54 ? N2 AGP 501 A 1 HETATM 5 C C3 AGP . . . C 3 13.383 5.884 -21.365 1 39.05 ? C3 AGP 501 A 1 HETATM 6 O O3 AGP . . . C 3 14.713 6.385 -21.39 1 34.09 ? O3 AGP 501 A 1 HETATM 7 C C4 AGP . . . C 3 12.389 7.043 -21.241 1 46.43 ? C4 AGP 501 A 1 HETATM 8 O O4 AGP . . . C 3 12.627 8.01 -22.264 1 36.07 ? O4 AGP 501 A 1 HETATM 9 C C5 AGP . . . C 3 12.4 7.73 -19.872 1 42.52 ? C5 AGP 501 A 1 HETATM 10 O O5 AGP . . . C 3 12.094 6.781 -18.847 1 44.83 ? O5 AGP 501 A 1 HETATM 11 C C6 AGP . . . C 3 11.425 8.882 -19.799 1 37.49 ? C6 AGP 501 A 1 HETATM 12 O O6 AGP . . . C 3 10.087 8.407 -20.103 1 46.48 ? O6 AGP 501 A 1 HETATM 13 P P AGP . . . C 3 8.958 9.486 -20.513 1 46.69 ? P AGP 501 A 1 HETATM 14 O O1P AGP . . . C 3 9.502 10.188 -21.746 1 37.91 ? O1P AGP 501 A 1 HETATM 15 O O2P AGP . . . C 3 8.802 10.415 -19.321 1 32.05 ? O2P AGP 501 A 1 HETATM 16 O O3P AGP . . . C 3 7.705 8.673 -20.797 1 43.98 ? O3P AGP 501 A 1 # _model_server_stats.io_time_ms 93 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 6 _model_server_stats.query_time_ms 298 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 16 #