data_2GS6 # _model_server_result.job_id 1_DLPsByn_TVkoYS9D6GUA _model_server_result.datetime_utc '2024-11-11 05:03:52' _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 2gs6 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":101}' # _entry.id 2GS6 # _exptl.entry_id 2GS6 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 580.298 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 'THIOPHOSPHORIC ACID O-((ADENOSYL-PHOSPHO)PHOSPHO)-S-ACETAMIDYL-DIESTER' _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 2GS6 _cell.length_a 144.182 _cell.length_b 144.182 _cell.length_c 144.182 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2GS6 _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 ? _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 20_645 -z+3/2,x-1/2,-y+1/2 0 0 -1 1 0 0 0 -1 0 216.273 -72.091 72.091 # _struct_asym.details ? _struct_asym.entity_id 4 _struct_asym.id D _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 B _struct_conn.ptnr1_label_atom_id CZ _struct_conn.ptnr1_label_comp_id TYR _struct_conn.ptnr1_label_seq_id 6 _struct_conn.ptnr1_auth_asym_id B _struct_conn.ptnr1_auth_comp_id TYR _struct_conn.ptnr1_auth_seq_id 6 _struct_conn.ptnr1_symmetry 1_555 _struct_conn.ptnr2_label_asym_id D _struct_conn.ptnr2_label_atom_id NS _struct_conn.ptnr2_label_comp_id 112 _struct_conn.ptnr2_label_seq_id . _struct_conn.ptnr2_auth_asym_id B _struct_conn.ptnr2_auth_comp_id 112 _struct_conn.ptnr2_auth_seq_id 101 _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 1.452 _struct_conn.pdbx_value_order ? # _chem_comp.formula 'C12 H19 N6 O13 P3 S' _chem_comp.formula_weight 580.298 _chem_comp.id 112 _chem_comp.mon_nstd_flag . _chem_comp.name 'THIOPHOSPHORIC ACID O-((ADENOSYL-PHOSPHO)PHOSPHO)-S-ACETAMIDYL-DIESTER' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms ? # 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 NS C2S 112 sing 1 n n NS HNS1 112 sing 2 n n NS HNS2 112 sing 3 n n C2S O2S 112 doub 4 n n C2S C1S 112 sing 5 n n C1S S1G 112 sing 6 n n C1S H1S1 112 sing 7 n n C1S H1S2 112 sing 8 n n PG S1G 112 sing 9 n n PG O2G 112 sing 10 n n PG O3G 112 doub 11 n n PG O3B 112 sing 12 n n O2G HOG2 112 sing 13 n n PB O1B 112 doub 14 n n PB O2B 112 sing 15 n n PB O3B 112 sing 16 n n PB O3A 112 sing 17 n n O2B HOB2 112 sing 18 n n PA O1A 112 doub 19 n n PA O2A 112 sing 20 n n PA O3A 112 sing 21 n n PA O5' 112 sing 22 n n O2A HOA2 112 sing 23 n n O5' C5' 112 sing 24 n n C5' C4' 112 sing 25 n n C5' "H5'1" 112 sing 26 n n C5' "H5'2" 112 sing 27 n n C4' O4' 112 sing 28 n n C4' C3' 112 sing 29 n n C4' H4' 112 sing 30 n n O4' C1' 112 sing 31 n n C3' O3' 112 sing 32 n n C3' C2' 112 sing 33 n n C3' H3' 112 sing 34 n n O3' HO3' 112 sing 35 n n C2' O2' 112 sing 36 n n C2' C1' 112 sing 37 n n C2' H2' 112 sing 38 n n O2' HO2' 112 sing 39 n n C1' N9 112 sing 40 n n C1' H1' 112 sing 41 n n N9 C8 112 sing 42 n y N9 C4 112 sing 43 n y C8 N7 112 doub 44 n y C8 H8 112 sing 45 n n N7 C5 112 sing 46 n y C5 C6 112 sing 47 n y C5 C4 112 doub 48 n y C6 N6 112 sing 49 n n C6 N1 112 doub 50 n y N6 HN61 112 sing 51 n n N6 HN62 112 sing 52 n n N1 C2 112 sing 53 n y C2 N3 112 doub 54 n y C2 H2 112 sing 55 n n N3 C4 112 sing 56 n y # _atom_sites.entry_id 2GS6 _atom_sites.fract_transf_matrix[1][1] 0.006936 _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] 0.006936 _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] 0.006936 _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 CL A 1 201 201 CL CL . D 4 112 B 1 101 101 112 112 . E 5 HOH A 1 1 1 HOH HOH . E 5 HOH A 2 2 2 HOH HOH . E 5 HOH A 3 3 3 HOH HOH . E 5 HOH A 4 4 4 HOH HOH . E 5 HOH A 5 5 5 HOH HOH . E 5 HOH A 6 6 6 HOH HOH . E 5 HOH A 7 7 7 HOH HOH . E 5 HOH A 8 8 8 HOH HOH . E 5 HOH A 9 9 9 HOH HOH . E 5 HOH A 10 10 10 HOH HOH . E 5 HOH A 11 11 11 HOH HOH . E 5 HOH A 12 12 12 HOH HOH . E 5 HOH A 13 13 13 HOH HOH . E 5 HOH A 14 14 14 HOH HOH . E 5 HOH A 15 15 15 HOH HOH . E 5 HOH A 16 16 16 HOH HOH . E 5 HOH A 17 17 17 HOH HOH . E 5 HOH A 18 18 18 HOH HOH . E 5 HOH A 19 19 19 HOH HOH . E 5 HOH A 20 20 20 HOH HOH . E 5 HOH A 21 21 21 HOH HOH . E 5 HOH A 22 22 22 HOH HOH . E 5 HOH A 23 23 23 HOH HOH . E 5 HOH A 24 24 24 HOH HOH . E 5 HOH A 25 25 25 HOH HOH . E 5 HOH A 26 26 26 HOH HOH . E 5 HOH A 27 27 27 HOH HOH . E 5 HOH A 28 28 28 HOH HOH . E 5 HOH A 29 29 29 HOH HOH . E 5 HOH A 30 30 30 HOH HOH . E 5 HOH A 31 31 31 HOH HOH . E 5 HOH A 32 32 32 HOH HOH . E 5 HOH A 33 33 33 HOH HOH . E 5 HOH A 34 34 34 HOH HOH . E 5 HOH A 35 35 35 HOH HOH . E 5 HOH A 36 36 36 HOH HOH . E 5 HOH A 37 37 37 HOH HOH . E 5 HOH A 38 38 38 HOH HOH . E 5 HOH A 39 39 39 HOH HOH . E 5 HOH A 40 40 40 HOH HOH . E 5 HOH A 41 41 41 HOH HOH . E 5 HOH A 42 42 42 HOH HOH . E 5 HOH A 43 43 43 HOH HOH . E 5 HOH A 44 44 44 HOH HOH . E 5 HOH A 45 45 45 HOH HOH . E 5 HOH A 46 46 46 HOH HOH . E 5 HOH A 47 47 47 HOH HOH . E 5 HOH A 48 48 48 HOH HOH . E 5 HOH A 49 49 49 HOH HOH . E 5 HOH A 50 50 50 HOH HOH . E 5 HOH A 51 51 51 HOH HOH . E 5 HOH A 52 52 52 HOH HOH . E 5 HOH A 53 53 53 HOH HOH . E 5 HOH A 54 54 54 HOH HOH . E 5 HOH A 55 55 55 HOH HOH . E 5 HOH A 56 56 56 HOH HOH . E 5 HOH A 57 57 57 HOH HOH . E 5 HOH A 58 58 58 HOH HOH . E 5 HOH A 59 59 59 HOH HOH . E 5 HOH A 60 60 60 HOH HOH . E 5 HOH A 61 61 61 HOH HOH . E 5 HOH A 62 62 62 HOH HOH . E 5 HOH A 63 63 63 HOH HOH . E 5 HOH A 64 64 64 HOH HOH . E 5 HOH A 65 65 65 HOH HOH . E 5 HOH A 66 66 66 HOH HOH . E 5 HOH A 67 67 67 HOH HOH . E 5 HOH A 68 68 68 HOH HOH . E 5 HOH A 69 69 69 HOH HOH . E 5 HOH A 70 70 70 HOH HOH . E 5 HOH A 71 72 72 HOH HOH . E 5 HOH A 72 73 73 HOH HOH . E 5 HOH A 73 74 74 HOH HOH . F 5 HOH B 1 71 71 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 N NS 112 . . . D 4 131.158 26.597 45.557 1 104.57 ? NS 112 101 B 1 HETATM 2 C C2S 112 . . . D 4 132.401 26.703 46.038 1 105.7 ? C2S 112 101 B 1 HETATM 3 O O2S 112 . . . D 4 132.606 27.635 46.845 1 105.15 ? O2S 112 101 B 1 HETATM 4 C C1S 112 . . . D 4 133.543 25.753 45.642 1 106.21 ? C1S 112 101 B 1 HETATM 5 P PG 112 . . . D 4 134.882 23.54 46.721 1 106.74 ? PG 112 101 B 1 HETATM 6 S S1G 112 . . . D 4 133.421 24.147 46.29 1 107.6 ? S1G 112 101 B 1 HETATM 7 O O2G 112 . . . D 4 134.755 22.389 47.679 1 106.8 ? O2G 112 101 B 1 HETATM 8 O O3G 112 . . . D 4 135.604 23.334 45.386 1 106.21 ? O3G 112 101 B 1 HETATM 9 P PB 112 . . . D 4 136.919 25.726 47.182 1 102.01 ? PB 112 101 B 1 HETATM 10 O O1B 112 . . . D 4 136.942 26.851 48.158 1 101.96 ? O1B 112 101 B 1 HETATM 11 O O2B 112 . . . D 4 136.799 26.009 45.727 1 102.02 ? O2B 112 101 B 1 HETATM 12 O O3B 112 . . . D 4 135.738 24.725 47.612 1 103.96 ? O3B 112 101 B 1 HETATM 13 P PA 112 . . . D 4 139.291 24.704 48.715 1 93.73 ? PA 112 101 B 1 HETATM 14 O O1A 112 . . . D 4 140.655 25.284 48.492 1 93.77 ? O1A 112 101 B 1 HETATM 15 O O2A 112 . . . D 4 138.548 25.053 49.948 1 93.89 ? O2A 112 101 B 1 HETATM 16 O O3A 112 . . . D 4 138.345 25.031 47.41 1 97.58 ? O3A 112 101 B 1 HETATM 17 O O5' 112 . . . D 4 139.444 23.087 48.581 1 89.64 ? O5' 112 101 B 1 HETATM 18 C C5' 112 . . . D 4 139.938 22.47 47.354 1 81.49 ? C5' 112 101 B 1 HETATM 19 C C4' 112 . . . D 4 140.389 21.014 47.589 1 75.68 ? C4' 112 101 B 1 HETATM 20 O O4' 112 . . . D 4 141.697 20.972 48.212 1 71.52 ? O4' 112 101 B 1 HETATM 21 C C3' 112 . . . D 4 139.408 20.191 48.491 1 73.81 ? C3' 112 101 B 1 HETATM 22 O O3' 112 . . . D 4 138.898 18.968 47.892 1 73.92 ? O3' 112 101 B 1 HETATM 23 C C2' 112 . . . D 4 140.166 19.936 49.793 1 71.55 ? C2' 112 101 B 1 HETATM 24 O O2' 112 . . . D 4 139.886 18.628 50.338 1 71.85 ? O2' 112 101 B 1 HETATM 25 C C1' 112 . . . D 4 141.634 20.183 49.417 1 69.35 ? C1' 112 101 B 1 HETATM 26 N N9 112 . . . D 4 142.372 20.918 50.52 1 64.11 ? N9 112 101 B 1 HETATM 27 C C8 112 . . . D 4 142.202 22.215 50.858 1 62.87 ? C8 112 101 B 1 HETATM 28 N N7 112 . . . D 4 143.014 22.523 51.866 1 61.86 ? N7 112 101 B 1 HETATM 29 C C5 112 . . . D 4 143.715 21.451 52.196 1 60.52 ? C5 112 101 B 1 HETATM 30 C C6 112 . . . D 4 144.716 21.17 53.17 1 59.22 ? C6 112 101 B 1 HETATM 31 N N6 112 . . . D 4 145.146 22.111 54.015 1 57.81 ? N6 112 101 B 1 HETATM 32 N N1 112 . . . D 4 145.241 19.886 53.224 1 57.5 ? N1 112 101 B 1 HETATM 33 C C2 112 . . . D 4 144.829 18.884 52.373 1 57.33 ? C2 112 101 B 1 HETATM 34 N N3 112 . . . D 4 143.872 19.144 51.438 1 57.85 ? N3 112 101 B 1 HETATM 35 C C4 112 . . . D 4 143.311 20.405 51.334 1 60.97 ? C4 112 101 B 1 # _model_server_stats.io_time_ms 7 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 265 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 35 #