data_1CS4 # _model_server_result.job_id uB1Fc4dRDDnawM9xUFsCDQ _model_server_result.datetime_utc '2024-10-24 04:22:22' _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 1cs4 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":1000}' # _entry.id 1CS4 # _exptl.entry_id 1CS4 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 539.246 _entity.id 10 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" _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 1CS4 _cell.length_a 118.5 _cell.length_b 134.5 _cell.length_c 71.3 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1CS4 _symmetry.cell_setting orthorhombic _symmetry.Int_Tables_number 18 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _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,E,F,G,H,I,J,K,L,M,N,O _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 10 _struct_asym.id L _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 OD1 ASP 41 A ASP 396 1_555 D MG MG . A MG 581 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.405 ? metalc ? metalc2 A O ILE 42 A ILE 397 1_555 D MG MG . A MG 581 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.202 ? metalc ? metalc3 A OD1 ASP 85 A ASP 440 1_555 D MG MG . A MG 581 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.346 ? metalc ? metalc4 D MG MG . A MG 581 1_555 G O2 POP . A POP 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.406 ? metalc ? metalc5 D MG MG . A MG 581 1_555 G O5 POP . A POP 1005 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.698 ? metalc ? metalc6 D MG MG . A MG 581 1_555 H O1P 101 . B 101 1082 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.782 ? metalc ? metalc7 C OG SER 54 C SER 54 1_555 J MG MG . C MG 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.204 ? metalc ? metalc8 C OG1 THR 204 C THR 204 1_555 J MG MG . C MG 396 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.125 ? metalc ? metalc9 J MG MG . C MG 396 1_555 L O2B GSP . C GSP 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.916 ? metalc ? metalc10 J MG MG . C MG 396 1_555 L O2G GSP . C GSP 1000 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? metalc ? metalc11 J MG MG . C MG 396 1_555 O O HOH . C HOH 1007 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc12 J MG MG . C MG 396 1_555 O O HOH . C HOH 1010 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.181 ? # _chem_comp.formula 'C10 H16 N5 O13 P3 S' _chem_comp.formula_weight 539.246 _chem_comp.id GSP _chem_comp.mon_nstd_flag . _chem_comp.name "5'-GUANOSINE-DIPHOSPHATE-MONOTHIOPHOSPHATE" _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 PG O3B GSP sing 232 n n PG S1G GSP doub 233 n n PG O2G GSP sing 234 n n PG O3G GSP sing 235 n n O3B PB GSP sing 236 n n O2G HOG2 GSP sing 237 n n O3G HOG3 GSP sing 238 n n PB O1B GSP doub 239 n n PB O2B GSP sing 240 n n PB O3A GSP sing 241 n n O2B HOB2 GSP sing 242 n n PA O1A GSP doub 243 n n PA O2A GSP sing 244 n n PA O3A GSP sing 245 n n PA O5' GSP sing 246 n n O2A HOA2 GSP sing 247 n n O5' C5' GSP sing 248 n n C5' C4' GSP sing 249 n n C5' "H5'1" GSP sing 250 n n C5' "H5'2" GSP sing 251 n n C4' O4' GSP sing 252 n n C4' C3' GSP sing 253 n n C4' H4' GSP sing 254 n n O4' C1' GSP sing 255 n n C3' O3' GSP sing 256 n n C3' C2' GSP sing 257 n n C3' H3' GSP sing 258 n n O3' HO3' GSP sing 259 n n C2' O2' GSP sing 260 n n C2' C1' GSP sing 261 n n C2' H2' GSP sing 262 n n O2' HO2' GSP sing 263 n n C1' N9 GSP sing 264 n n C1' H1' GSP sing 265 n n N9 C8 GSP sing 266 n y N9 C4 GSP sing 267 n y C8 N7 GSP doub 268 n y C8 H8 GSP sing 269 n n N7 C5 GSP sing 270 n y C5 C6 GSP sing 271 n n C5 C4 GSP doub 272 n y C6 O6 GSP doub 273 n n C6 N1 GSP sing 274 n n N1 C2 GSP sing 275 n n N1 HN1 GSP sing 276 n n C2 N2 GSP sing 277 n n C2 N3 GSP doub 278 n n N2 HN21 GSP sing 279 n n N2 HN22 GSP sing 280 n n N3 C4 GSP sing 281 n n # _atom_sites.entry_id 1CS4 _atom_sites.fract_transf_matrix[1][1] 0.008439 _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] 0.007435 _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] 0.014025 _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 D 4 MG A 1 581 397 MG MG . E 5 FOK A 1 1002 1002 FOK FOK . F 6 MES A 1 1003 1003 MES MES . G 7 POP A 1 1005 1005 POP POP . H 8 101 B 1 1082 1001 101 101 . I 6 MES B 1 1083 1004 MES MES . J 4 MG C 1 396 396 MG MG . K 9 CL C 1 398 398 CL CL . L 10 GSP C 1 1000 1000 GSP GSP . M 11 HOH A 1 11 11 HOH HOH . M 11 HOH A 2 20 20 HOH HOH . M 11 HOH A 3 23 23 HOH HOH . M 11 HOH A 4 24 24 HOH HOH . M 11 HOH A 5 30 30 HOH HOH . M 11 HOH A 6 31 31 HOH HOH . M 11 HOH A 7 33 33 HOH HOH . M 11 HOH A 8 57 57 HOH HOH . M 11 HOH A 9 59 59 HOH HOH . M 11 HOH A 10 61 61 HOH HOH . M 11 HOH A 11 82 82 HOH HOH . N 11 HOH B 1 8 8 HOH HOH . N 11 HOH B 2 9 9 HOH HOH . N 11 HOH B 3 12 12 HOH HOH . N 11 HOH B 4 13 13 HOH HOH . N 11 HOH B 5 14 14 HOH HOH . N 11 HOH B 6 15 15 HOH HOH . N 11 HOH B 7 16 16 HOH HOH . N 11 HOH B 8 17 17 HOH HOH . N 11 HOH B 9 18 18 HOH HOH . N 11 HOH B 10 19 19 HOH HOH . N 11 HOH B 11 21 21 HOH HOH . N 11 HOH B 12 22 22 HOH HOH . N 11 HOH B 13 25 25 HOH HOH . N 11 HOH B 14 26 26 HOH HOH . N 11 HOH B 15 27 27 HOH HOH . N 11 HOH B 16 28 28 HOH HOH . N 11 HOH B 17 32 32 HOH HOH . N 11 HOH B 18 34 34 HOH HOH . N 11 HOH B 19 35 35 HOH HOH . N 11 HOH B 20 36 36 HOH HOH . N 11 HOH B 21 37 37 HOH HOH . N 11 HOH B 22 38 38 HOH HOH . N 11 HOH B 23 54 54 HOH HOH . N 11 HOH B 24 55 55 HOH HOH . N 11 HOH B 25 56 56 HOH HOH . N 11 HOH B 26 58 58 HOH HOH . N 11 HOH B 27 60 60 HOH HOH . N 11 HOH B 28 62 62 HOH HOH . N 11 HOH B 29 63 63 HOH HOH . N 11 HOH B 30 67 67 HOH HOH . N 11 HOH B 31 78 78 HOH HOH . O 11 HOH C 1 1001 1 HOH HOH . O 11 HOH C 2 1002 2 HOH HOH . O 11 HOH C 3 1003 3 HOH HOH . O 11 HOH C 4 1004 4 HOH HOH . O 11 HOH C 5 1005 5 HOH HOH . O 11 HOH C 6 1006 7 HOH HOH . O 11 HOH C 7 1007 10 HOH HOH . O 11 HOH C 8 1008 29 HOH HOH . O 11 HOH C 9 1009 39 HOH HOH . O 11 HOH C 10 1010 40 HOH HOH . O 11 HOH C 11 1011 41 HOH HOH . O 11 HOH C 12 1012 42 HOH HOH . O 11 HOH C 13 1013 43 HOH HOH . O 11 HOH C 14 1014 44 HOH HOH . O 11 HOH C 15 1015 45 HOH HOH . O 11 HOH C 16 1016 46 HOH HOH . O 11 HOH C 17 1017 47 HOH HOH . O 11 HOH C 18 1018 48 HOH HOH . O 11 HOH C 19 1019 49 HOH HOH . O 11 HOH C 20 1020 50 HOH HOH . O 11 HOH C 21 1021 51 HOH HOH . O 11 HOH C 22 1022 52 HOH HOH . O 11 HOH C 23 1023 53 HOH HOH . O 11 HOH C 24 1024 64 HOH HOH . O 11 HOH C 25 1025 68 HOH HOH . O 11 HOH C 26 1026 69 HOH HOH . O 11 HOH C 27 1027 70 HOH HOH . O 11 HOH C 28 1028 71 HOH HOH . O 11 HOH C 29 1029 72 HOH HOH . O 11 HOH C 30 1030 73 HOH HOH . O 11 HOH C 31 1031 74 HOH HOH . O 11 HOH C 32 1032 75 HOH HOH . O 11 HOH C 33 1033 76 HOH HOH . O 11 HOH C 34 1034 77 HOH HOH . O 11 HOH C 35 1035 79 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 P PG GSP . . . L 10 23.652 3.086 28.951 1 49.34 ? PG GSP 1000 C 1 HETATM 2 O O3B GSP . . . L 10 22.508 3.216 27.969 1 40.31 ? O3B GSP 1000 C 1 HETATM 3 S S1G GSP . . . L 10 25.038 4.394 28.744 1 56.58 ? S1G GSP 1000 C 1 HETATM 4 O O2G GSP . . . L 10 23.111 3.286 30.325 1 53.03 ? O2G GSP 1000 C 1 HETATM 5 O O3G GSP . . . L 10 24.387 1.832 28.647 1 48.74 ? O3G GSP 1000 C 1 HETATM 6 P PB GSP . . . L 10 21.138 2.622 27.791 1 35.52 ? PB GSP 1000 C 1 HETATM 7 O O1B GSP . . . L 10 21.248 1.472 26.859 1 40.21 ? O1B GSP 1000 C 1 HETATM 8 O O2B GSP . . . L 10 20.552 2.401 29.131 1 35.64 ? O2B GSP 1000 C 1 HETATM 9 P PA GSP . . . L 10 19.076 4.412 27.42 1 29.38 ? PA GSP 1000 C 1 HETATM 10 O O1A GSP . . . L 10 18.04 3.406 27.751 1 32.23 ? O1A GSP 1000 C 1 HETATM 11 O O2A GSP . . . L 10 19.382 5.499 28.377 1 34.35 ? O2A GSP 1000 C 1 HETATM 12 O O3A GSP . . . L 10 20.349 3.694 27.102 1 36.36 ? O3A GSP 1000 C 1 HETATM 13 O O5' GSP . . . L 10 18.663 5.093 26.04 1 31.37 ? O5' GSP 1000 C 1 HETATM 14 C C5' GSP . . . L 10 19.357 6.237 25.552 1 31.94 ? C5' GSP 1000 C 1 HETATM 15 C C4' GSP . . . L 10 18.382 7.282 25.06 1 33.17 ? C4' GSP 1000 C 1 HETATM 16 O O4' GSP . . . L 10 17.725 6.848 23.844 1 35.89 ? O4' GSP 1000 C 1 HETATM 17 C C3' GSP . . . L 10 17.265 7.647 26.035 1 35.73 ? C3' GSP 1000 C 1 HETATM 18 O O3' GSP . . . L 10 17.079 9.058 26.012 1 35.05 ? O3' GSP 1000 C 1 HETATM 19 C C2' GSP . . . L 10 16.051 6.941 25.455 1 36.34 ? C2' GSP 1000 C 1 HETATM 20 O O2' GSP . . . L 10 14.824 7.588 25.71 1 41.09 ? O2' GSP 1000 C 1 HETATM 21 C C1' GSP . . . L 10 16.317 6.966 23.969 1 34.58 ? C1' GSP 1000 C 1 HETATM 22 N N9 GSP . . . L 10 15.707 5.829 23.288 1 34.26 ? N9 GSP 1000 C 1 HETATM 23 C C8 GSP . . . L 10 15.811 4.517 23.67 1 33.81 ? C8 GSP 1000 C 1 HETATM 24 N N7 GSP . . . L 10 15.158 3.701 22.89 1 33.38 ? N7 GSP 1000 C 1 HETATM 25 C C5 GSP . . . L 10 14.589 4.523 21.926 1 31.82 ? C5 GSP 1000 C 1 HETATM 26 C C6 GSP . . . L 10 13.783 4.195 20.821 1 28.04 ? C6 GSP 1000 C 1 HETATM 27 O O6 GSP . . . L 10 13.402 3.087 20.456 1 33.22 ? O6 GSP 1000 C 1 HETATM 28 N N1 GSP . . . L 10 13.414 5.316 20.106 1 28.68 ? N1 GSP 1000 C 1 HETATM 29 C C2 GSP . . . L 10 13.77 6.599 20.413 1 33.38 ? C2 GSP 1000 C 1 HETATM 30 N N2 GSP . . . L 10 13.284 7.553 19.591 1 33.04 ? N2 GSP 1000 C 1 HETATM 31 N N3 GSP . . . L 10 14.537 6.928 21.448 1 35.65 ? N3 GSP 1000 C 1 HETATM 32 C C4 GSP . . . L 10 14.91 5.841 22.158 1 33.16 ? C4 GSP 1000 C 1 # _model_server_stats.io_time_ms 9 _model_server_stats.parse_time_ms 8 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 327 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 32 #