data_5CFQ # _model_server_result.job_id 9vun-8qdeVdcdEOOL9pEpQ _model_server_result.datetime_utc '2024-10-15 10:28:48' _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 5cfq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 5CFQ # _exptl.entry_id 5CFQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 674.411 _entity.id 3 _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 5CFQ _cell.length_a 40.497 _cell.length_b 77.971 _cell.length_c 101.347 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5CFQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F,G _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 3 _struct_asym.id D _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag 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 5CFQ _atom_sites.fract_transf_matrix[1][1] 0.024693 _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] 0.012825 _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] 0.009867 _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 2 SO4 A 1 401 2 SO4 SO4 . D 3 1SY B 1 401 1 1SY LIG . E 2 SO4 B 1 402 1 SO4 SO4 . F 4 HOH A 1 501 15 HOH HOH . F 4 HOH A 2 502 3 HOH HOH . F 4 HOH A 3 503 26 HOH HOH . F 4 HOH A 4 504 24 HOH HOH . F 4 HOH A 5 505 52 HOH HOH . F 4 HOH A 6 506 41 HOH HOH . F 4 HOH A 7 507 33 HOH HOH . F 4 HOH A 8 508 1 HOH HOH . F 4 HOH A 9 509 10 HOH HOH . F 4 HOH A 10 510 29 HOH HOH . F 4 HOH A 11 511 21 HOH HOH . F 4 HOH A 12 512 42 HOH HOH . F 4 HOH A 13 513 53 HOH HOH . F 4 HOH A 14 514 17 HOH HOH . F 4 HOH A 15 515 35 HOH HOH . F 4 HOH A 16 516 6 HOH HOH . F 4 HOH A 17 517 7 HOH HOH . F 4 HOH A 18 518 39 HOH HOH . F 4 HOH A 19 519 48 HOH HOH . F 4 HOH A 20 520 38 HOH HOH . F 4 HOH A 21 521 27 HOH HOH . F 4 HOH A 22 522 40 HOH HOH . F 4 HOH A 23 523 19 HOH HOH . F 4 HOH A 24 524 46 HOH HOH . F 4 HOH A 25 525 47 HOH HOH . F 4 HOH A 26 526 43 HOH HOH . F 4 HOH A 27 527 44 HOH HOH . G 4 HOH B 1 501 34 HOH HOH . G 4 HOH B 2 502 50 HOH HOH . G 4 HOH B 3 503 20 HOH HOH . G 4 HOH B 4 504 54 HOH HOH . G 4 HOH B 5 505 25 HOH HOH . G 4 HOH B 6 506 16 HOH HOH . G 4 HOH B 7 507 22 HOH HOH . G 4 HOH B 8 508 14 HOH HOH . G 4 HOH B 9 509 56 HOH HOH . G 4 HOH B 10 510 31 HOH HOH . G 4 HOH B 11 511 4 HOH HOH . G 4 HOH B 12 512 11 HOH HOH . G 4 HOH B 13 513 5 HOH HOH . G 4 HOH B 14 514 9 HOH HOH . G 4 HOH B 15 515 2 HOH HOH . G 4 HOH B 16 516 12 HOH HOH . G 4 HOH B 17 517 23 HOH HOH . G 4 HOH B 18 518 8 HOH HOH . G 4 HOH B 19 519 13 HOH HOH . G 4 HOH B 20 520 36 HOH HOH . G 4 HOH B 21 521 30 HOH HOH . G 4 HOH B 22 522 28 HOH HOH . G 4 HOH B 23 523 18 HOH HOH . G 4 HOH B 24 524 49 HOH HOH . G 4 HOH B 25 525 55 HOH HOH . G 4 HOH B 26 526 51 HOH HOH . G 4 HOH B 27 527 45 HOH HOH . G 4 HOH B 28 528 32 HOH HOH . G 4 HOH B 29 529 37 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 . A . D 3 7.495 85.701 129.474 0.5 29.35 ? C2 1SY 401 B 1 HETATM 2 C C2 1SY . B . D 3 12.892 87.738 121.799 0.5 32.57 ? C2 1SY 401 B 1 HETATM 3 N N01 1SY . A . D 3 9.969 87.91 128.025 0.5 31.58 ? N01 1SY 401 B 1 HETATM 4 N N01 1SY . B . D 3 10.36 89.011 124.049 0.5 29.45 ? N01 1SY 401 B 1 HETATM 5 C C6 1SY . A . D 3 9.317 86.753 128.43 0.5 31.67 ? C6 1SY 401 B 1 HETATM 6 C C6 1SY . B . D 3 11.065 88.154 123.215 0.5 31.22 ? C6 1SY 401 B 1 HETATM 7 N N1 1SY . A . D 3 8.116 86.79 129.089 0.5 31.22 ? N1 1SY 401 B 1 HETATM 8 N N1 1SY . B . D 3 12.221 88.542 122.588 0.5 32.9 ? N1 1SY 401 B 1 HETATM 9 N N3 1SY . A . D 3 7.998 84.494 129.243 0.5 29.7 ? N3 1SY 401 B 1 HETATM 10 N N3 1SY . B . D 3 12.487 86.494 121.56 0.5 32.86 ? N3 1SY 401 B 1 HETATM 11 C C4 1SY . A . D 3 9.194 84.33 128.591 0.5 31.45 ? C4 1SY 401 B 1 HETATM 12 C C4 1SY . B . D 3 11.344 85.992 122.131 0.5 34.59 ? C4 1SY 401 B 1 HETATM 13 C C5 1SY . A . D 3 9.881 85.465 128.169 0.5 33.96 ? C5 1SY 401 B 1 HETATM 14 C C5 1SY . B . D 3 10.606 86.821 122.975 0.5 34.38 ? C5 1SY 401 B 1 HETATM 15 N N7 1SY . A . D 3 11.031 85.019 127.552 0.5 38.76 ? N7 1SY 401 B 1 HETATM 16 N N7 1SY . B . D 3 9.525 86.078 123.405 0.5 35.8 ? N7 1SY 401 B 1 HETATM 17 C C8 1SY . A . D 3 11.05 83.675 127.597 0.5 36.14 ? C8 1SY 401 B 1 HETATM 18 C C8 1SY . B . D 3 9.595 84.856 122.847 0.5 31.61 ? C8 1SY 401 B 1 HETATM 19 N N9 1SY . A . D 3 9.963 83.238 128.213 0.5 35.15 ? N9 1SY 401 B 1 HETATM 20 N N9 1SY . B . D 3 10.674 84.776 122.084 0.5 32.56 ? N9 1SY 401 B 1 HETATM 21 C C1' 1SY . A . D 3 9.637 81.913 128.438 0.5 33.36 ? C1' 1SY 401 B 1 HETATM 22 C C1' 1SY . B . D 3 11.062 83.665 121.356 0.5 28.95 ? C1' 1SY 401 B 1 HETATM 23 C C2' 1SY . A . D 3 8.591 81.494 127.452 0.5 31.81 ? C2' 1SY 401 B 1 HETATM 24 C C2' 1SY . B . D 3 12.132 82.907 122.083 0.5 29.02 ? C2' 1SY 401 B 1 HETATM 25 O O2' 1SY . A . D 3 7.864 80.407 127.988 0.5 27.85 ? O2' 1SY 401 B 1 HETATM 26 O O2' 1SY . B . D 3 12.896 82.179 121.138 0.5 22.45 ? O2' 1SY 401 B 1 HETATM 27 C C3' 1SY . A . D 3 9.403 81.032 126.327 0.5 30.69 ? C3' 1SY 401 B 1 HETATM 28 C C3' 1SY . B . D 3 11.349 81.976 122.897 0.5 29 ? C3' 1SY 401 B 1 HETATM 29 C C4' 1SY . A . D 3 10.423 80.249 127.008 0.5 31.89 ? C4' 1SY 401 B 1 HETATM 30 C C4' 1SY . B . D 3 10.348 81.526 121.944 0.5 30.58 ? C4' 1SY 401 B 1 HETATM 31 C C16 1SY . A . D 3 11.658 80.062 126.142 0.5 27.42 ? C16 1SY 401 B 1 HETATM 32 C C16 1SY . B . D 3 9.134 80.935 122.64 0.5 28.65 ? C16 1SY 401 B 1 HETATM 33 O O17 1SY . A . D 3 12.141 81.39 125.739 0.5 27.3 ? O17 1SY 401 B 1 HETATM 34 O O17 1SY . B . D 3 8.598 81.946 123.561 0.5 29.71 ? O17 1SY 401 B 1 HETATM 35 P P18 1SY . A . D 3 13.434 81.484 124.77 0.5 30.94 ? P18 1SY 401 B 1 HETATM 36 P P18 1SY . B . D 3 7.306 81.572 124.46 0.5 35.25 ? P18 1SY 401 B 1 HETATM 37 O O19 1SY . A . D 3 14.609 80.738 125.266 0.5 27.48 ? O19 1SY 401 B 1 HETATM 38 O O19 1SY . B . D 3 6.199 80.966 123.693 0.5 39.81 ? O19 1SY 401 B 1 HETATM 39 O O20 1SY . A . D 3 13.093 81.244 123.243 0.5 28.56 ? O20 1SY 401 B 1 HETATM 40 O O20 1SY . B . D 3 7.671 80.805 125.795 0.5 30.81 ? O20 1SY 401 B 1 HETATM 41 C C21 1SY . A . D 3 11.716 81.362 122.845 0.5 29.56 ? C21 1SY 401 B 1 HETATM 42 C C21 1SY . B . D 3 9.062 80.733 126.156 0.5 30.69 ? C21 1SY 401 B 1 HETATM 43 C C22 1SY . A . D 3 11.155 80.04 122.584 0.5 32.96 ? C22 1SY 401 B 1 HETATM 44 C C22 1SY . B . D 3 9.585 79.395 125.901 0.5 29.44 ? C22 1SY 401 B 1 HETATM 45 O O23 1SY . A . D 3 12.178 79.136 122.181 0.5 35.15 ? O23 1SY 401 B 1 HETATM 46 O O23 1SY . B . D 3 8.55 78.427 126.032 0.5 30.54 ? O23 1SY 401 B 1 HETATM 47 C C24 1SY . A . D 3 10.174 80.197 121.531 0.5 28.99 ? C24 1SY 401 B 1 HETATM 48 C C24 1SY . B . D 3 10.623 79.156 126.885 0.5 28.49 ? C24 1SY 401 B 1 HETATM 49 C C25 1SY . A . D 3 8.81 80.075 122.122 0.5 27.3 ? C25 1SY 401 B 1 HETATM 50 C C25 1SY . B . D 3 11.959 79.268 126.229 0.5 21.1 ? C25 1SY 401 B 1 HETATM 51 O O26 1SY . A . D 3 8.514 81.253 122.894 0.5 29.62 ? O26 1SY 401 B 1 HETATM 52 O O26 1SY . B . D 3 12.3 80.661 126.085 0.5 30.89 ? O26 1SY 401 B 1 HETATM 53 P P27 1SY . A . D 3 7.731 81.047 124.301 0.5 38.52 ? P27 1SY 401 B 1 HETATM 54 P P27 1SY . B . D 3 13.051 81.133 124.722 0.5 30.32 ? P27 1SY 401 B 1 HETATM 55 O O28 1SY . A . D 3 8.596 80.245 125.407 0.5 25.77 ? O28 1SY 401 B 1 HETATM 56 O O28 1SY . B . D 3 12.183 80.888 123.381 0.5 28.61 ? O28 1SY 401 B 1 HETATM 57 O O29 1SY . A . D 3 7.082 82.286 124.79 0.5 30.28 ? O29 1SY 401 B 1 HETATM 58 O O29 1SY . B . D 3 13.669 82.477 124.823 0.5 31.71 ? O29 1SY 401 B 1 HETATM 59 O O30 1SY . A . D 3 6.567 80.111 123.965 0.5 40.89 ? O30 1SY 401 B 1 HETATM 60 O O30 1SY . B . D 3 14.239 80.178 124.579 0.5 33.19 ? O30 1SY 401 B 1 HETATM 61 O O31 1SY . A . D 3 10.365 81.524 120.922 0.5 31.74 ? O31 1SY 401 B 1 HETATM 62 O O31 1SY . B . D 3 10.477 80.165 127.948 0.5 32.36 ? O31 1SY 401 B 1 HETATM 63 C C32 1SY . A . D 3 11.567 82.121 121.567 0.5 28.28 ? C32 1SY 401 B 1 HETATM 64 C C32 1SY . B . D 3 9.261 80.96 127.617 0.5 32.65 ? C32 1SY 401 B 1 HETATM 65 N N33 1SY . A . D 3 11.343 83.451 121.843 0.5 29.8 ? N33 1SY 401 B 1 HETATM 66 N N33 1SY . B . D 3 9.487 82.296 127.853 0.5 31.9 ? N33 1SY 401 B 1 HETATM 67 C C34 1SY . A . D 3 10.251 83.945 122.381 0.5 32.99 ? C34 1SY 401 B 1 HETATM 68 C C34 1SY . B . D 3 10.564 82.963 127.505 0.5 35.47 ? C34 1SY 401 B 1 HETATM 69 N N35 1SY . A . D 3 10.368 85.292 122.517 0.5 32.4 ? N35 1SY 401 B 1 HETATM 70 N N35 1SY . B . D 3 10.452 84.26 127.893 0.5 34.46 ? N35 1SY 401 B 1 HETATM 71 C C36 1SY . A . D 3 12.242 84.511 121.605 0.5 32.43 ? C36 1SY 401 B 1 HETATM 72 C C36 1SY . B . D 3 8.604 83.181 128.504 0.5 32.75 ? C36 1SY 401 B 1 HETATM 73 C C37 1SY . A . D 3 11.603 85.663 122.038 0.5 33.77 ? C37 1SY 401 B 1 HETATM 74 C C37 1SY . B . D 3 9.236 84.416 128.518 0.5 31.36 ? C37 1SY 401 B 1 HETATM 75 C C38 1SY . A . D 3 12.283 86.979 121.927 0.5 33.12 ? C38 1SY 401 B 1 HETATM 76 C C38 1SY . B . D 3 8.569 85.588 129.138 0.5 28.07 ? C38 1SY 401 B 1 HETATM 77 N N39 1SY . A . D 3 13.605 87.061 121.369 0.5 34.03 ? N39 1SY 401 B 1 HETATM 78 N N39 1SY . B . D 3 7.266 85.444 129.73 0.5 29.73 ? N39 1SY 401 B 1 HETATM 79 C C40 1SY . A . D 3 14.267 85.86 120.919 0.5 30.05 ? C40 1SY 401 B 1 HETATM 80 C C40 1SY . B . D 3 6.61 84.157 129.715 0.5 26.74 ? C40 1SY 401 B 1 HETATM 81 N N41 1SY . A . D 3 15.606 85.941 120.356 0.5 31.24 ? N41 1SY 401 B 1 HETATM 82 N N41 1SY . B . D 3 5.29 84.01 130.311 0.5 23.65 ? N41 1SY 401 B 1 HETATM 83 N N42 1SY . A . D 3 13.605 84.585 121.028 0.5 30.63 ? N42 1SY 401 B 1 HETATM 84 N N42 1SY . B . D 3 7.26 83.023 129.11 0.5 24.29 ? N42 1SY 401 B 1 HETATM 85 O O43 1SY . A . D 3 11.731 87.969 122.299 0.5 32.95 ? O43 1SY 401 B 1 HETATM 86 O O43 1SY . B . D 3 9.115 86.648 129.15 0.5 30.94 ? O43 1SY 401 B 1 HETATM 87 O O44 1SY . A . D 3 13.86 82.954 124.835 0.5 30.2 ? O44 1SY 401 B 1 HETATM 88 O O44 1SY . B . D 3 6.762 82.928 124.925 0.5 30.67 ? O44 1SY 401 B 1 HETATM 89 O O4' 1SY . A . D 3 10.764 81.049 128.178 0.5 34.94 ? O4' 1SY 401 B 1 HETATM 90 O O4' 1SY . B . D 3 9.965 82.735 121.228 0.5 26.28 ? O4' 1SY 401 B 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 296 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 90 #