data_1X6U # _model_server_result.job_id TX8wEa-_MqgGextWBeyDaw _model_server_result.datetime_utc '2024-11-05 19:51:34' _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 1x6u # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":2634}' # _entry.id 1X6U # _exptl.entry_id 1X6U _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 318.172 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '3-deoxy-8-O-phosphono-alpha-D-manno-oct-2-ulopyranosonic acid' _entity.pdbx_number_of_molecules 1 _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 1X6U _cell.length_a 118.53 _cell.length_b 118.53 _cell.length_c 118.53 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1X6U _symmetry.cell_setting ? _symmetry.Int_Tables_number 197 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'I 2 3' # _pdbx_struct_assembly.method_details PISA,PQS _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2,3,4 # 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] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_555 -x,-y,z -1 0 0 0 -1 0 0 0 1 0 0 0 3 'crystal symmetry operation' 3_556 -x,y,-z+1 -1 0 0 0 1 0 0 0 -1 0 0 118.53 4 'crystal symmetry operation' 4_556 x,-y,-z+1 1 0 0 0 -1 0 0 0 -1 0 0 118.53 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _struct_conn.conn_type_id covale _struct_conn.details ? _struct_conn.id covale1 _struct_conn.ptnr1_label_asym_id A _struct_conn.ptnr1_label_atom_id ND2 _struct_conn.ptnr1_label_comp_id ASN _struct_conn.ptnr1_label_seq_id 62 _struct_conn.ptnr1_auth_asym_id A _struct_conn.ptnr1_auth_comp_id ASN _struct_conn.ptnr1_auth_seq_id 62 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id B _struct_conn.ptnr2_label_atom_id O3P _struct_conn.ptnr2_label_comp_id DO8 _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id A _struct_conn.ptnr2_auth_comp_id DO8 _struct_conn.ptnr2_auth_seq_id 2634 _struct_conn.ptnr2_symmetry 1_555 _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 2.029 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C8 H15 O11 P' _chem_comp.formula_weight 318.172 _chem_comp.id DO8 _chem_comp.mon_nstd_flag n _chem_comp.name '3-deoxy-8-O-phosphono-alpha-D-manno-oct-2-ulopyranosonic acid' _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms '3-DEOXY-D-MANNO-2-OCTULOSONATE-8-PHOSPHATE;3-deoxy-8-O-phosphono-alpha-D-manno-oct-2-ulosonic acid;3-deoxy-8-O-phosphono-D-manno-oct-2-ulosonic acid;3-deoxy-8-O-phosphono-manno-oct-2-ulosonic acid' # 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 O1B DO8 sing 83 n n C1 O1A DO8 doub 84 n n C1 C2 DO8 sing 85 n n O1B HO1B DO8 sing 86 n n C2 C3 DO8 sing 87 n n C2 O6 DO8 sing 88 n n C2 O2 DO8 sing 89 n n C3 C4 DO8 sing 90 n n C3 H31 DO8 sing 91 n n C3 H32 DO8 sing 92 n n C4 O4 DO8 sing 93 n n C4 C5 DO8 sing 94 n n C4 H4 DO8 sing 95 n n O4 HO4 DO8 sing 96 n n C5 O5 DO8 sing 97 n n C5 C6 DO8 sing 98 n n C5 H5 DO8 sing 99 n n O5 HO5 DO8 sing 100 n n C6 O6 DO8 sing 101 n n C6 C7 DO8 sing 102 n n C6 H6 DO8 sing 103 n n C7 O7 DO8 sing 104 n n C7 C8 DO8 sing 105 n n C7 H7 DO8 sing 106 n n O7 HO7 DO8 sing 107 n n C8 O8 DO8 sing 108 n n C8 H81 DO8 sing 109 n n C8 H82 DO8 sing 110 n n P1 O2P DO8 sing 111 n n P1 O3P DO8 sing 112 n n P1 O8 DO8 sing 113 n n P1 O1P DO8 doub 114 n n O2P HOP2 DO8 sing 115 n n O3P HOP3 DO8 sing 116 n n O2 HO2 DO8 sing 117 n n # _atom_sites.entry_id 1X6U _atom_sites.fract_transf_matrix[1][1] 0.008437 _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] 0.008437 _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] 0.008437 _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 B 2 DO8 A 1 2634 2634 DO8 KDO . C 3 HOH A 1 2635 1 HOH TIP B C 3 HOH A 2 2636 2 HOH TIP B C 3 HOH A 3 2637 3 HOH TIP B C 3 HOH A 4 2638 4 HOH TIP B C 3 HOH A 5 2639 5 HOH TIP B C 3 HOH A 6 2640 6 HOH TIP B C 3 HOH A 7 2641 7 HOH TIP B C 3 HOH A 8 2642 8 HOH TIP B C 3 HOH A 9 2643 9 HOH TIP B C 3 HOH A 10 2644 10 HOH TIP B C 3 HOH A 11 2645 11 HOH TIP B C 3 HOH A 12 2646 12 HOH TIP B C 3 HOH A 13 2647 13 HOH TIP B C 3 HOH A 14 2648 14 HOH TIP B C 3 HOH A 15 2649 15 HOH TIP B C 3 HOH A 16 2650 16 HOH TIP B C 3 HOH A 17 2651 17 HOH TIP B C 3 HOH A 18 2652 18 HOH TIP B C 3 HOH A 19 2653 19 HOH TIP B C 3 HOH A 20 2654 20 HOH TIP B C 3 HOH A 21 2655 21 HOH TIP B C 3 HOH A 22 2656 22 HOH TIP B C 3 HOH A 23 2657 23 HOH TIP B C 3 HOH A 24 2658 24 HOH TIP B C 3 HOH A 25 2659 25 HOH TIP B # 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 DO8 . . . B 2 7.16 -12.399 42.086 1 19.7 ? C1 DO8 2634 A 1 HETATM 2 O O1B DO8 . . . B 2 6.208 -12.869 42.741 1 19.7 ? O1B DO8 2634 A 1 HETATM 3 O O1A DO8 . . . B 2 8.221 -12.041 42.712 1 19.7 ? O1A DO8 2634 A 1 HETATM 4 C C2 DO8 . . . B 2 7.002 -12.248 40.579 1 19.7 ? C2 DO8 2634 A 1 HETATM 5 C C3 DO8 . . . B 2 5.994 -13.36 40.088 1 19.7 ? C3 DO8 2634 A 1 HETATM 6 C C4 DO8 . . . B 2 5.588 -13.045 38.65 1 19.7 ? C4 DO8 2634 A 1 HETATM 7 O O4 DO8 . . . B 2 4.635 -14.097 38.305 1 19.7 ? O4 DO8 2634 A 1 HETATM 8 C C5 DO8 . . . B 2 4.928 -11.669 38.565 1 19.7 ? C5 DO8 2634 A 1 HETATM 9 O O5 DO8 . . . B 2 3.731 -11.621 39.389 1 19.7 ? O5 DO8 2634 A 1 HETATM 10 C C6 DO8 . . . B 2 6.002 -10.565 38.996 1 19.7 ? C6 DO8 2634 A 1 HETATM 11 O O6 DO8 . . . B 2 6.55 -10.828 40.372 1 19.7 ? O6 DO8 2634 A 1 HETATM 12 C C7 DO8 . . . B 2 5.481 -9.004 39.109 1 19.7 ? C7 DO8 2634 A 1 HETATM 13 O O7 DO8 . . . B 2 5.01 -7.913 39.976 1 19.7 ? O7 DO8 2634 A 1 HETATM 14 C C8 DO8 . . . B 2 4.92 -8.86 37.628 1 19.7 ? C8 DO8 2634 A 1 HETATM 15 P P1 DO8 . . . B 2 5.023 -6.015 38.107 1 19.7 ? P1 DO8 2634 A 1 HETATM 16 O O2P DO8 . . . B 2 3.699 -6.253 39.162 1 19.7 ? O2P DO8 2634 A 1 HETATM 17 O O3P DO8 . . . B 2 6.451 -5.736 38.941 1 19.7 ? O3P DO8 2634 A 1 HETATM 18 O O8 DO8 . . . B 2 5.248 -7.465 37.159 1 19.7 ? O8 DO8 2634 A 1 HETATM 19 O O1P DO8 . . . B 2 4.613 -4.669 37.183 1 19.7 ? O1P DO8 2634 A 1 HETATM 20 O O2 DO8 . . . B 2 8.336 -12.481 39.895 1 19.7 ? O2 DO8 2634 A 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 277 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 20 #