data_8SI0 # _model_server_result.job_id iFF0ver6GCftKBkstBhvQg _model_server_result.datetime_utc '2024-10-15 10:23:28' _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 8si0 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":601}' # _entry.id 8SI0 # _exptl.entry_id 8SI0 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 674.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description cGAMP _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 8SI0 _cell.length_a 47.927 _cell.length_b 59.657 _cell.length_c 125.327 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8SI0 _symmetry.cell_setting ? _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 2 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 # _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 # 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 metalc ? metalc1 A NE2 HIS 237 A HIS 390 1_555 C ZN ZN . A ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.06 ? metalc ? metalc2 A SG CYS 243 A CYS 396 1_555 C ZN ZN . A ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.312 ? metalc ? metalc3 A SG CYS 244 A CYS 397 1_555 C ZN ZN . A ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.256 ? metalc ? metalc4 A SG CYS 251 A CYS 404 1_555 C ZN ZN . A ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.314 ? # _chem_comp.formula 'C20 H24 N10 O13 P2' _chem_comp.formula_weight 674.411 _chem_comp.id 1SY _chem_comp.mon_nstd_flag . _chem_comp.name cGAMP _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "2',3' cGAMP;c-GMP-AMP;c[G(2',5')pA(3',5')p]" # 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 O44 P18 1SY doub 1 n n O19 P18 1SY sing 2 n n P18 O17 1SY sing 3 n n P18 O20 1SY sing 4 n n O17 C16 1SY sing 5 n n O4' C4' 1SY sing 6 n n O4' C1' 1SY sing 7 n n C16 C4' 1SY sing 8 n n C8 N7 1SY doub 9 n y C8 N9 1SY sing 10 n y N7 C5 1SY sing 11 n y O20 C21 1SY sing 12 n n N9 C1' 1SY sing 13 n n N9 C4 1SY sing 14 n y N41 C40 1SY sing 15 n n C4' C3' 1SY sing 16 n n C1' C2' 1SY sing 17 n n C5 C4 1SY doub 18 n y C5 C6 1SY sing 19 n y N01 C6 1SY sing 20 n n C4 N3 1SY sing 21 n y C40 N42 1SY sing 22 n n C40 N39 1SY doub 23 n n C6 N1 1SY doub 24 n y N42 C36 1SY sing 25 n n N39 C38 1SY sing 26 n n C21 C22 1SY sing 27 n n C21 C32 1SY sing 28 n n O23 C22 1SY sing 29 n n N3 C2 1SY doub 30 n y C3' C2' 1SY sing 31 n n C3' O28 1SY sing 32 n n N1 C2 1SY sing 33 n y C2' O2' 1SY sing 34 n n C36 C37 1SY doub 35 n y C36 N33 1SY sing 36 n y C38 O43 1SY doub 37 n n C38 C37 1SY sing 38 n n C22 C24 1SY sing 39 n n C32 N33 1SY sing 40 n n C32 O31 1SY sing 41 n n C37 N35 1SY sing 42 n y N33 C34 1SY sing 43 n y O28 P27 1SY sing 44 n n N35 C34 1SY doub 45 n y O31 C24 1SY sing 46 n n C24 C25 1SY sing 47 n n O26 P27 1SY sing 48 n n O26 C25 1SY sing 49 n n P27 O29 1SY doub 50 n n P27 O30 1SY sing 51 n n C2 H1 1SY sing 52 n n N01 H2 1SY sing 53 n n N01 H3 1SY sing 54 n n C8 H4 1SY sing 55 n n C1' H5 1SY sing 56 n n C2' H6 1SY sing 57 n n O2' H7 1SY sing 58 n n C3' H8 1SY sing 59 n n C4' H9 1SY sing 60 n n C16 H10 1SY sing 61 n n C16 H11 1SY sing 62 n n O19 H12 1SY sing 63 n n C21 H13 1SY sing 64 n n C22 H14 1SY sing 65 n n O23 H15 1SY sing 66 n n C24 H16 1SY sing 67 n n C25 H17 1SY sing 68 n n C25 H18 1SY sing 69 n n O30 H19 1SY sing 70 n n C32 H20 1SY sing 71 n n C34 H21 1SY sing 72 n n N41 H22 1SY sing 73 n n N41 H23 1SY sing 74 n n N42 H24 1SY sing 75 n n # _atom_sites.entry_id 8SI0 _atom_sites.fract_transf_matrix[1][1] 0.020865 _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] 0.016762 _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] 0.007979 _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 1SY A 1 601 601 1SY 1SY . C 3 ZN A 1 602 602 ZN ZN . D 4 HOH A 1 701 1 HOH HOH . D 4 HOH A 2 702 2 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 C2 1SY . . . B 2 9.465 -12.064 -20.548 1 59.1 ? C2 1SY 601 A 1 HETATM 2 N N01 1SY . . . B 2 11.737 -11.035 -18.089 1 71 ? N01 1SY 601 A 1 HETATM 3 C C6 1SY . . . B 2 11.415 -11.633 -19.36 1 63.59 ? C6 1SY 601 A 1 HETATM 4 N N1 1SY . . . B 2 10.094 -11.578 -19.458 1 60.18 ? N1 1SY 601 A 1 HETATM 5 N N3 1SY . . . B 2 10.209 -12.599 -21.536 1 65.57 ? N3 1SY 601 A 1 HETATM 6 C C4 1SY . . . B 2 11.548 -12.657 -21.45 1 62.15 ? C4 1SY 601 A 1 HETATM 7 C C5 1SY . . . B 2 12.176 -12.177 -20.375 1 60.63 ? C5 1SY 601 A 1 HETATM 8 N N7 1SY . . . B 2 13.502 -12.354 -20.558 1 62.07 ? N7 1SY 601 A 1 HETATM 9 C C8 1SY . . . B 2 13.678 -12.948 -21.747 1 65.8 ? C8 1SY 601 A 1 HETATM 10 N N9 1SY . . . B 2 12.463 -13.134 -22.306 1 68.9 ? N9 1SY 601 A 1 HETATM 11 C C1' 1SY . . . B 2 12.26 -13.731 -23.595 1 78.29 ? C1' 1SY 601 A 1 HETATM 12 C C2' 1SY . . . B 2 12.249 -12.664 -24.684 1 85.32 ? C2' 1SY 601 A 1 HETATM 13 O O2' 1SY . . . B 2 11.013 -12.66 -25.394 1 100.35 ? O2' 1SY 601 A 1 HETATM 14 C C3' 1SY . . . B 2 13.398 -12.941 -25.573 1 87.98 ? C3' 1SY 601 A 1 HETATM 15 C C4' 1SY . . . B 2 13.784 -14.315 -25.272 1 82.31 ? C4' 1SY 601 A 1 HETATM 16 C C16 1SY . . . B 2 15.332 -14.38 -25.239 1 79.59 ? C16 1SY 601 A 1 HETATM 17 O O17 1SY . . . B 2 15.768 -13.395 -24.236 1 85.74 ? O17 1SY 601 A 1 HETATM 18 P P18 1SY . . . B 2 17.437 -13.267 -23.836 1 75.01 ? P18 1SY 601 A 1 HETATM 19 O O19 1SY . . . B 2 17.816 -14.059 -22.605 1 75.71 ? O19 1SY 601 A 1 HETATM 20 O O20 1SY . . . B 2 17.965 -11.645 -23.825 1 80.5 ? O20 1SY 601 A 1 HETATM 21 C C21 1SY . . . B 2 17.076 -10.858 -24.736 1 83.3 ? C21 1SY 601 A 1 HETATM 22 C C22 1SY . . . B 2 17.668 -10.746 -26.076 1 86.7 ? C22 1SY 601 A 1 HETATM 23 O O23 1SY . . . B 2 19.067 -10.49 -25.965 1 84.02 ? O23 1SY 601 A 1 HETATM 24 C C24 1SY . . . B 2 17.007 -9.534 -26.67 1 85.98 ? C24 1SY 601 A 1 HETATM 25 C C25 1SY . . . B 2 15.81 -9.841 -27.486 1 85.5 ? C25 1SY 601 A 1 HETATM 26 O O26 1SY . . . B 2 15.23 -11.171 -27.177 1 86.34 ? O26 1SY 601 A 1 HETATM 27 P P27 1SY . . . B 2 13.577 -11.176 -27.579 1 89.1 ? P27 1SY 601 A 1 HETATM 28 O O28 1SY . . . B 2 13.089 -12.765 -27.008 1 90.4 ? O28 1SY 601 A 1 HETATM 29 O O29 1SY . . . B 2 12.836 -10.228 -26.668 1 82.5 ? O29 1SY 601 A 1 HETATM 30 O O30 1SY . . . B 2 13.241 -10.749 -28.987 1 93.24 ? O30 1SY 601 A 1 HETATM 31 O O31 1SY . . . B 2 16.643 -8.703 -25.502 1 78.03 ? O31 1SY 601 A 1 HETATM 32 C C32 1SY . . . B 2 16.971 -9.515 -24.335 1 81.45 ? C32 1SY 601 A 1 HETATM 33 N N33 1SY . . . B 2 15.862 -9.33 -23.329 1 78.9 ? N33 1SY 601 A 1 HETATM 34 C C34 1SY . . . B 2 14.583 -9.206 -23.74 1 77.13 ? C34 1SY 601 A 1 HETATM 35 N N35 1SY . . . B 2 13.803 -9.03 -22.643 1 73.75 ? N35 1SY 601 A 1 HETATM 36 C C36 1SY . . . B 2 15.884 -9.222 -21.994 1 78.71 ? C36 1SY 601 A 1 HETATM 37 C C37 1SY . . . B 2 14.593 -9.041 -21.568 1 76.49 ? C37 1SY 601 A 1 HETATM 38 C C38 1SY . . . B 2 14.283 -8.886 -20.068 1 74.08 ? C38 1SY 601 A 1 HETATM 39 N N39 1SY . . . B 2 15.363 -8.935 -19.117 1 76.58 ? N39 1SY 601 A 1 HETATM 40 C C40 1SY . . . B 2 16.717 -9.126 -19.58 1 76.45 ? C40 1SY 601 A 1 HETATM 41 N N41 1SY . . . B 2 17.82 -9.185 -18.632 1 73.05 ? N41 1SY 601 A 1 HETATM 42 N N42 1SY . . . B 2 17.007 -9.27 -21.01 1 77.28 ? N42 1SY 601 A 1 HETATM 43 O O43 1SY . . . B 2 13.152 -8.729 -19.72 1 70.47 ? O43 1SY 601 A 1 HETATM 44 O O44 1SY . . . B 2 18.194 -13.921 -24.979 1 84.29 ? O44 1SY 601 A 1 HETATM 45 O O4' 1SY . . . B 2 13.287 -14.68 -23.952 1 84.92 ? O4' 1SY 601 A 1 # _model_server_stats.io_time_ms 14 _model_server_stats.parse_time_ms 17 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 302 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 45 #