data_8IK3 # _model_server_result.job_id iaYDtRoUCBdm_nvtlNEdzA _model_server_result.datetime_utc '2024-10-19 03:47:47' _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 8ik3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":601}' # _entry.id 8IK3 # _exptl.entry_id 8IK3 _exptl.method 'ELECTRON MICROSCOPY' # _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 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 8IK3 _cell.length_a 1 _cell.length_b 1 _cell.length_c 1 _cell.Z_PDB ? _cell.pdbx_unique_axis ? # _symmetry.entry_id 8IK3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details octameric _pdbx_struct_assembly.oligomeric_count 8 _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,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 ? _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 ? 2 I N N ? 2 J N N ? 2 K N N ? 2 L N N # _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 8IK3 _atom_sites.fract_transf_matrix[1][1] 1 _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] 1 _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] 1 _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 I 2 1SY B 1 601 401 1SY 1SY . J 2 1SY D 1 601 401 1SY 1SY . K 2 1SY G 1 601 401 1SY 1SY . L 2 1SY F 1 601 401 1SY 1SY . # 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 . A . I 2 105.057 79.606 127.568 0.5 68.72 ? C2 1SY 601 B 1 HETATM 2 C C2 1SY . B . I 2 94.072 78.957 127.759 0.5 68.72 ? C2 1SY 601 B 1 HETATM 3 N N01 1SY . A . I 2 102.291 80.1 129.68 0.5 68.72 ? N01 1SY 601 B 1 HETATM 4 N N01 1SY . B . I 2 96.853 78.261 129.796 0.5 68.72 ? N01 1SY 601 B 1 HETATM 5 C C6 1SY . A . I 2 102.971 80.122 128.41 0.5 68.72 ? C6 1SY 601 B 1 HETATM 6 C C6 1SY . B . I 2 96.174 78.382 128.531 0.5 68.72 ? C6 1SY 601 B 1 HETATM 7 N N1 1SY . A . I 2 104.2 79.688 128.607 0.5 68.72 ? N1 1SY 601 B 1 HETATM 8 N N1 1SY . B . I 2 94.936 78.764 128.778 0.5 68.72 ? N1 1SY 601 B 1 HETATM 9 N N3 1SY . A . I 2 104.654 79.969 126.331 0.5 68.72 ? N3 1SY 601 B 1 HETATM 10 N N3 1SY . B . I 2 94.477 78.76 126.487 0.5 68.72 ? N3 1SY 601 B 1 HETATM 11 C C4 1SY . A . I 2 103.406 80.412 126.134 0.5 68.72 ? C4 1SY 601 B 1 HETATM 12 C C4 1SY . B . I 2 95.734 78.373 126.237 0.5 68.72 ? C4 1SY 601 B 1 HETATM 13 C C5 1SY . A . I 2 102.562 80.493 127.154 0.5 68.72 ? C5 1SY 601 B 1 HETATM 14 C C5 1SY . B . I 2 96.586 78.18 127.237 0.5 68.72 ? C5 1SY 601 B 1 HETATM 15 N N7 1SY . A . I 2 101.396 80.959 126.689 0.5 68.72 ? N7 1SY 601 B 1 HETATM 16 N N7 1SY . B . I 2 97.758 77.801 126.713 0.5 68.72 ? N7 1SY 601 B 1 HETATM 17 C C8 1SY . A . I 2 101.526 81.166 125.381 0.5 68.72 ? C8 1SY 601 B 1 HETATM 18 C C8 1SY . B . I 2 97.623 77.758 125.389 0.5 68.72 ? C8 1SY 601 B 1 HETATM 19 N N9 1SY . A . I 2 102.77 80.83 125.04 0.5 68.72 ? N9 1SY 601 B 1 HETATM 20 N N9 1SY . B . I 2 96.371 78.109 125.098 0.5 68.72 ? N9 1SY 601 B 1 HETATM 21 C C1' 1SY . A . I 2 103.228 80.933 123.712 0.5 68.72 ? C1' 1SY 601 B 1 HETATM 22 C C1' 1SY . B . I 2 95.902 78.16 123.772 0.5 68.72 ? C1' 1SY 601 B 1 HETATM 23 C C2' 1SY . A . I 2 103.09 79.589 123.074 0.5 68.72 ? C2' 1SY 601 B 1 HETATM 24 C C2' 1SY . B . I 2 96.009 79.568 123.281 0.5 68.72 ? C2' 1SY 601 B 1 HETATM 25 O O2' 1SY . A . I 2 104.139 79.447 122.139 0.5 68.72 ? O2' 1SY 601 B 1 HETATM 26 O O2' 1SY . B . I 2 94.922 79.797 122.408 0.5 68.72 ? O2' 1SY 601 B 1 HETATM 27 C C3' 1SY . A . I 2 101.815 79.67 122.378 0.5 68.72 ? C3' 1SY 601 B 1 HETATM 28 C C3' 1SY . B . I 2 97.252 79.569 122.53 0.5 68.72 ? C3' 1SY 601 B 1 HETATM 29 C C4' 1SY . A . I 2 101.853 81.019 121.865 0.5 68.72 ? C4' 1SY 601 B 1 HETATM 30 C C4' 1SY . B . I 2 97.176 78.289 121.871 0.5 68.72 ? C4' 1SY 601 B 1 HETATM 31 C C16 1SY . A . I 2 100.418 81.539 121.595 0.5 68.72 ? C16 1SY 601 B 1 HETATM 32 C C16 1SY . B . I 2 98.586 77.822 121.437 0.5 68.72 ? C16 1SY 601 B 1 HETATM 33 O O17 1SY . A . I 2 99.61 81.466 122.826 0.5 68.72 ? O17 1SY 601 B 1 HETATM 34 O O17 1SY . B . I 2 99.424 77.66 122.634 0.5 68.72 ? O17 1SY 601 B 1 HETATM 35 P P18 1SY . A . I 2 98.008 82.109 122.821 0.5 68.72 ? P18 1SY 601 B 1 HETATM 36 P P18 1SY . B . I 2 101.033 77.088 122.433 0.5 68.72 ? P18 1SY 601 B 1 HETATM 37 O O19 1SY . A . I 2 97.72 82.994 124 0.5 68.72 ? O19 1SY 601 B 1 HETATM 38 O O19 1SY . B . I 2 101.47 76.158 123.532 0.5 68.72 ? O19 1SY 601 B 1 HETATM 39 O O20 1SY . A . I 2 96.751 81.008 122.502 0.5 68.72 ? O20 1SY 601 B 1 HETATM 40 O O20 1SY . B . I 2 102.205 78.255 122.027 0.5 68.72 ? O20 1SY 601 B 1 HETATM 41 C C21 1SY . A . I 2 97.221 79.611 122.728 0.5 68.72 ? C21 1SY 601 B 1 HETATM 42 C C21 1SY . B . I 2 101.774 79.618 122.457 0.5 68.72 ? C21 1SY 601 B 1 HETATM 43 C C22 1SY . A . I 2 97.626 79.034 121.447 0.5 68.72 ? C22 1SY 601 B 1 HETATM 44 C C22 1SY . B . I 2 101.281 80.343 121.287 0.5 68.72 ? C22 1SY 601 B 1 HETATM 45 O O23 1SY . A . I 2 96.814 79.56 120.404 0.5 68.72 ? O23 1SY 601 B 1 HETATM 46 O O23 1SY . B . I 2 102.002 79.924 120.135 0.5 68.72 ? O23 1SY 601 B 1 HETATM 47 C C24 1SY . A . I 2 97.363 77.577 121.584 0.5 68.72 ? C24 1SY 601 B 1 HETATM 48 C C24 1SY . B . I 2 101.581 81.774 121.562 0.5 68.72 ? C24 1SY 601 B 1 HETATM 49 C C25 1SY . A . I 2 98.534 76.858 122.111 0.5 68.72 ? C25 1SY 601 B 1 HETATM 50 C C25 1SY . B . I 2 100.468 82.453 122.248 0.5 68.72 ? C25 1SY 601 B 1 HETATM 51 O O26 1SY . A . I 2 99.593 77.799 122.514 0.5 68.72 ? O26 1SY 601 B 1 HETATM 52 O O26 1SY . B . I 2 99.464 81.502 122.764 0.5 68.72 ? O26 1SY 601 B 1 HETATM 53 P P27 1SY . A . I 2 101.099 77.197 122.063 0.5 68.72 ? P27 1SY 601 B 1 HETATM 54 P P27 1SY . B . I 2 97.908 82.08 122.453 0.5 68.72 ? P27 1SY 601 B 1 HETATM 55 O O28 1SY . A . I 2 101.765 78.643 121.341 0.5 68.72 ? O28 1SY 601 B 1 HETATM 56 O O28 1SY . B . I 2 97.257 80.697 121.607 0.5 68.72 ? O28 1SY 601 B 1 HETATM 57 O O29 1SY . A . I 2 100.876 76.188 120.966 0.5 68.72 ? O29 1SY 601 B 1 HETATM 58 O O29 1SY . B . I 2 98.017 83.208 121.458 0.5 68.72 ? O29 1SY 601 B 1 HETATM 59 O O30 1SY . A . I 2 101.874 76.515 123.15 0.5 68.72 ? O30 1SY 601 B 1 HETATM 60 O O30 1SY . B . I 2 97.155 82.609 123.636 0.5 68.72 ? O30 1SY 601 B 1 HETATM 61 O O31 1SY . A . I 2 96.24 77.499 122.537 0.5 68.72 ? O31 1SY 601 B 1 HETATM 62 O O31 1SY . B . I 2 102.779 81.733 122.42 0.5 68.72 ? O31 1SY 601 B 1 HETATM 63 C C32 1SY . A . I 2 96.187 78.785 123.2 0.5 68.72 ? C32 1SY 601 B 1 HETATM 64 C C32 1SY . B . I 2 102.855 80.379 122.93 0.5 68.72 ? C32 1SY 601 B 1 HETATM 65 N N33 1SY . A . I 2 96.387 78.52 124.667 0.5 68.72 ? N33 1SY 601 B 1 HETATM 66 N N33 1SY . B . I 2 102.778 80.471 124.429 0.5 68.72 ? N33 1SY 601 B 1 HETATM 67 C C34 1SY . A . I 2 97.509 77.936 125.131 0.5 68.72 ? C34 1SY 601 B 1 HETATM 68 C C34 1SY . B . I 2 101.729 81.039 125.056 0.5 68.72 ? C34 1SY 601 B 1 HETATM 69 N N35 1SY . A . I 2 97.4 77.827 126.476 0.5 68.72 ? N35 1SY 601 B 1 HETATM 70 N N35 1SY . B . I 2 101.953 80.969 126.391 0.5 68.72 ? N35 1SY 601 B 1 HETATM 71 C C36 1SY . A . I 2 95.594 78.764 125.705 0.5 68.72 ? C36 1SY 601 B 1 HETATM 72 C C36 1SY . B . I 2 103.636 80.058 125.354 0.5 68.72 ? C36 1SY 601 B 1 HETATM 73 C C37 1SY . A . I 2 96.223 78.336 126.834 0.5 68.72 ? C37 1SY 601 B 1 HETATM 74 C C37 1SY . B . I 2 103.126 80.366 126.579 0.5 68.72 ? C37 1SY 601 B 1 HETATM 75 C C38 1SY . A . I 2 95.533 78.496 128.197 0.5 68.72 ? C38 1SY 601 B 1 HETATM 76 C C38 1SY . B . I 2 103.918 79.999 127.843 0.5 68.72 ? C38 1SY 601 B 1 HETATM 77 N N39 1SY . A . I 2 94.237 79.094 128.274 0.5 68.72 ? N39 1SY 601 B 1 HETATM 78 N N39 1SY . B . I 2 105.181 79.339 127.727 0.5 68.72 ? N39 1SY 601 B 1 HETATM 79 C C40 1SY . A . I 2 93.583 79.546 127.076 0.5 68.72 ? C40 1SY 601 B 1 HETATM 80 C C40 1SY . B . I 2 105.705 79.017 126.425 0.5 68.72 ? C40 1SY 601 B 1 HETATM 81 N N41 1SY . A . I 2 92.26 80.163 127.134 0.5 68.72 ? N41 1SY 601 B 1 HETATM 82 N N41 1SY . B . I 2 106.992 78.342 126.28 0.5 68.72 ? N41 1SY 601 B 1 HETATM 83 N N42 1SY . A . I 2 94.245 79.39 125.778 0.5 68.72 ? N42 1SY 601 B 1 HETATM 84 N N42 1SY . B . I 2 104.947 79.368 125.221 0.5 68.72 ? N42 1SY 601 B 1 HETATM 85 O O43 1SY . A . I 2 96.076 78.123 129.185 0.5 68.72 ? O43 1SY 601 B 1 HETATM 86 O O43 1SY . B . I 2 103.485 80.261 128.915 0.5 68.72 ? O43 1SY 601 B 1 HETATM 87 O O44 1SY . A . I 2 97.979 83.037 121.629 0.5 68.72 ? O44 1SY 601 B 1 HETATM 88 O O44 1SY . B . I 2 100.951 76.222 121.197 0.5 68.72 ? O44 1SY 601 B 1 HETATM 89 O O4' 1SY . A . I 2 102.416 81.817 122.928 0.5 68.72 ? O4' 1SY 601 B 1 HETATM 90 O O4' 1SY . B . I 2 96.713 77.376 122.888 0.5 68.72 ? O4' 1SY 601 B 1 # _model_server_stats.io_time_ms 0 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 314 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 90 #