data_3EWP # _model_server_result.job_id 7gr6XeftPc2am2PJvj8V3A _model_server_result.datetime_utc '2024-11-27 20:09:34' _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 3ewp # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":175}' # _entry.id 3EWP # _exptl.entry_id 3EWP _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 559.316 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description ADENOSINE-5-DIPHOSPHORIBOSE _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 78.25 _cell.angle_beta 79.45 _cell.angle_gamma 73.39 _cell.entry_id 3EWP _cell.length_a 41.364 _cell.length_b 43.985 _cell.length_c 49.266 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3EWP _symmetry.cell_setting ? _symmetry.Int_Tables_number 1 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 PISA monomeric 1 software_defined_assembly 2 PISA monomeric 1 software_defined_assembly 3 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F 1 1 A,C,E 2 1 B,D,F 3 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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 2 C N N ? 2 D N N # _chem_comp.formula 'C15 H23 N5 O14 P2' _chem_comp.formula_weight 559.316 _chem_comp.id APR _chem_comp.mon_nstd_flag . _chem_comp.name ADENOSINE-5-DIPHOSPHORIBOSE _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 N1 C2 APR sing 13 n y N1 C6 APR doub 14 n y C2 N3 APR doub 15 n y C2 H2 APR sing 16 n n N3 C4 APR sing 17 n y C4 C5 APR doub 18 n y C4 N9 APR sing 19 n y C5 C6 APR sing 20 n y C5 N7 APR sing 21 n y C6 N6 APR sing 22 n n N6 H61 APR sing 23 n n N6 H62 APR sing 24 n n N7 C8 APR doub 25 n y C8 N9 APR sing 26 n y C8 H8 APR sing 27 n n N9 C1' APR sing 28 n n C1' C2' APR sing 29 n n C1' O4' APR sing 30 n n C1' "H'1" APR sing 31 n n C2' O2' APR sing 32 n n C2' C3' APR sing 33 n n C2' "H'2" APR sing 34 n n O2' "HO'2" APR sing 35 n n C3' O3' APR sing 36 n n C3' C4' APR sing 37 n n C3' "H'3" APR sing 38 n n O3' "HO'3" APR sing 39 n n O4' C4' APR sing 40 n n C4' C5' APR sing 41 n n C4' "H'4" APR sing 42 n n C5' O5' APR sing 43 n n C5' "H5'1" APR sing 44 n n C5' "H5'2" APR sing 45 n n O5' PA APR sing 46 n n PA O1A APR doub 47 n n PA O2A APR sing 48 n n PA O3A APR sing 49 n n O2A HOA2 APR sing 50 n n O3A PB APR sing 51 n n PB O1B APR doub 52 n n PB O2B APR sing 53 n n PB O5D APR sing 54 n n O2B HOB2 APR sing 55 n n O5D C5D APR sing 56 n n C5D C4D APR sing 57 n n C5D H5R1 APR sing 58 n n C5D H5R2 APR sing 59 n n O4D C1D APR sing 60 n n O4D C4D APR sing 61 n n O1D C1D APR sing 62 n n O1D HOR1 APR sing 63 n n C1D C2D APR sing 64 n n C1D "HR'1" APR sing 65 n n O2D C2D APR sing 66 n n O2D HOR2 APR sing 67 n n C2D C3D APR sing 68 n n C2D "HR'2" APR sing 69 n n O3D C3D APR sing 70 n n O3D HOR3 APR sing 71 n n C3D C4D APR sing 72 n n C3D "HR'3" APR sing 73 n n C4D "HR'4" APR sing 74 n n # _atom_sites.entry_id 3EWP _atom_sites.fract_transf_matrix[1][1] 0.024176 _atom_sites.fract_transf_matrix[1][2] -0.007212 _atom_sites.fract_transf_matrix[1][3] -0.003388 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023725 _atom_sites.fract_transf_matrix[2][3] -0.003861 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.020919 _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 APR A 1 175 175 APR APR . D 2 APR B 1 175 175 APR APR . E 3 HOH A 1 176 176 HOH HOH . E 3 HOH A 2 177 177 HOH HOH . E 3 HOH A 3 178 178 HOH HOH . E 3 HOH A 4 179 179 HOH HOH . E 3 HOH A 5 180 180 HOH HOH . E 3 HOH A 6 181 181 HOH HOH . E 3 HOH A 7 182 182 HOH HOH . E 3 HOH A 8 183 183 HOH HOH . E 3 HOH A 9 184 184 HOH HOH . E 3 HOH A 10 185 185 HOH HOH . E 3 HOH A 11 186 186 HOH HOH . E 3 HOH A 12 187 187 HOH HOH . E 3 HOH A 13 188 188 HOH HOH . E 3 HOH A 14 189 189 HOH HOH . E 3 HOH A 15 190 190 HOH HOH . E 3 HOH A 16 191 191 HOH HOH . E 3 HOH A 17 192 192 HOH HOH . E 3 HOH A 18 193 193 HOH HOH . E 3 HOH A 19 194 194 HOH HOH . E 3 HOH A 20 195 195 HOH HOH . E 3 HOH A 21 196 196 HOH HOH . E 3 HOH A 22 197 197 HOH HOH . E 3 HOH A 23 198 198 HOH HOH . E 3 HOH A 24 199 199 HOH HOH . E 3 HOH A 25 200 200 HOH HOH . E 3 HOH A 26 201 201 HOH HOH . E 3 HOH A 27 202 202 HOH HOH . E 3 HOH A 28 203 203 HOH HOH . E 3 HOH A 29 204 204 HOH HOH . E 3 HOH A 30 205 205 HOH HOH . E 3 HOH A 31 206 206 HOH HOH . E 3 HOH A 32 207 207 HOH HOH . E 3 HOH A 33 208 208 HOH HOH . E 3 HOH A 34 209 209 HOH HOH . E 3 HOH A 35 210 210 HOH HOH . E 3 HOH A 36 211 211 HOH HOH . E 3 HOH A 37 212 212 HOH HOH . E 3 HOH A 38 213 213 HOH HOH . E 3 HOH A 39 214 214 HOH HOH . E 3 HOH A 40 215 215 HOH HOH . E 3 HOH A 41 216 216 HOH HOH . E 3 HOH A 42 217 217 HOH HOH . E 3 HOH A 43 218 218 HOH HOH . E 3 HOH A 44 219 219 HOH HOH . E 3 HOH A 45 220 220 HOH HOH . E 3 HOH A 46 221 221 HOH HOH . E 3 HOH A 47 222 222 HOH HOH . E 3 HOH A 48 223 223 HOH HOH . E 3 HOH A 49 224 224 HOH HOH . E 3 HOH A 50 225 225 HOH HOH . E 3 HOH A 51 226 226 HOH HOH . E 3 HOH A 52 227 227 HOH HOH . E 3 HOH A 53 228 228 HOH HOH . E 3 HOH A 54 229 229 HOH HOH . E 3 HOH A 55 230 230 HOH HOH . E 3 HOH A 56 231 231 HOH HOH . E 3 HOH A 57 232 232 HOH HOH . E 3 HOH A 58 233 233 HOH HOH . E 3 HOH A 59 234 234 HOH HOH . E 3 HOH A 60 235 235 HOH HOH . E 3 HOH A 61 236 236 HOH HOH . E 3 HOH A 62 237 237 HOH HOH . E 3 HOH A 63 238 238 HOH HOH . E 3 HOH A 64 239 239 HOH HOH . E 3 HOH A 65 240 240 HOH HOH . E 3 HOH A 66 241 241 HOH HOH . E 3 HOH A 67 242 242 HOH HOH . E 3 HOH A 68 243 243 HOH HOH . E 3 HOH A 69 244 244 HOH HOH . E 3 HOH A 70 245 245 HOH HOH . E 3 HOH A 71 246 246 HOH HOH . E 3 HOH A 72 247 247 HOH HOH . E 3 HOH A 73 248 248 HOH HOH . E 3 HOH A 74 249 249 HOH HOH . E 3 HOH A 75 250 250 HOH HOH . E 3 HOH A 76 251 251 HOH HOH . E 3 HOH A 77 252 252 HOH HOH . E 3 HOH A 78 253 253 HOH HOH . E 3 HOH A 79 254 254 HOH HOH . E 3 HOH A 80 255 255 HOH HOH . E 3 HOH A 81 256 256 HOH HOH . E 3 HOH A 82 257 257 HOH HOH . E 3 HOH A 83 258 258 HOH HOH . E 3 HOH A 84 259 259 HOH HOH . E 3 HOH A 85 260 260 HOH HOH . E 3 HOH A 86 261 261 HOH HOH . E 3 HOH A 87 262 262 HOH HOH . E 3 HOH A 88 263 263 HOH HOH . E 3 HOH A 89 264 264 HOH HOH . E 3 HOH A 90 265 265 HOH HOH . E 3 HOH A 91 266 266 HOH HOH . E 3 HOH A 92 267 267 HOH HOH . E 3 HOH A 93 268 268 HOH HOH . E 3 HOH A 94 269 269 HOH HOH . E 3 HOH A 95 270 270 HOH HOH . E 3 HOH A 96 271 271 HOH HOH . E 3 HOH A 97 272 272 HOH HOH . E 3 HOH A 98 273 273 HOH HOH . E 3 HOH A 99 274 274 HOH HOH . E 3 HOH A 100 275 275 HOH HOH . E 3 HOH A 101 276 276 HOH HOH . E 3 HOH A 102 277 277 HOH HOH . E 3 HOH A 103 278 278 HOH HOH . E 3 HOH A 104 279 279 HOH HOH . E 3 HOH A 105 280 280 HOH HOH . E 3 HOH A 106 281 281 HOH HOH . E 3 HOH A 107 282 282 HOH HOH . E 3 HOH A 108 283 283 HOH HOH . E 3 HOH A 109 284 284 HOH HOH . E 3 HOH A 110 285 285 HOH HOH . E 3 HOH A 111 286 286 HOH HOH . E 3 HOH A 112 287 287 HOH HOH . E 3 HOH A 113 288 288 HOH HOH . E 3 HOH A 114 289 289 HOH HOH . E 3 HOH A 115 290 290 HOH HOH . E 3 HOH A 116 291 291 HOH HOH . E 3 HOH A 117 292 292 HOH HOH . E 3 HOH A 118 293 293 HOH HOH . F 3 HOH B 1 176 176 HOH HOH . F 3 HOH B 2 177 177 HOH HOH . F 3 HOH B 3 178 178 HOH HOH . F 3 HOH B 4 179 179 HOH HOH . F 3 HOH B 5 180 180 HOH HOH . F 3 HOH B 6 181 181 HOH HOH . F 3 HOH B 7 182 182 HOH HOH . F 3 HOH B 8 183 183 HOH HOH . F 3 HOH B 9 184 184 HOH HOH . F 3 HOH B 10 185 185 HOH HOH . F 3 HOH B 11 186 186 HOH HOH . F 3 HOH B 12 187 187 HOH HOH . F 3 HOH B 13 188 188 HOH HOH . F 3 HOH B 14 189 189 HOH HOH . F 3 HOH B 15 190 190 HOH HOH . F 3 HOH B 16 191 191 HOH HOH . F 3 HOH B 17 192 192 HOH HOH . F 3 HOH B 18 193 193 HOH HOH . F 3 HOH B 19 194 194 HOH HOH . F 3 HOH B 20 195 195 HOH HOH . F 3 HOH B 21 196 196 HOH HOH . F 3 HOH B 22 197 197 HOH HOH . F 3 HOH B 23 198 198 HOH HOH . F 3 HOH B 24 199 199 HOH HOH . F 3 HOH B 25 200 200 HOH HOH . F 3 HOH B 26 201 201 HOH HOH . F 3 HOH B 27 202 202 HOH HOH . F 3 HOH B 28 203 203 HOH HOH . F 3 HOH B 29 204 204 HOH HOH . F 3 HOH B 30 205 205 HOH HOH . F 3 HOH B 31 206 206 HOH HOH . F 3 HOH B 32 207 207 HOH HOH . F 3 HOH B 33 208 208 HOH HOH . F 3 HOH B 34 209 209 HOH HOH . F 3 HOH B 35 210 210 HOH HOH . F 3 HOH B 36 211 211 HOH HOH . F 3 HOH B 37 212 212 HOH HOH . F 3 HOH B 38 213 213 HOH HOH . F 3 HOH B 39 214 214 HOH HOH . F 3 HOH B 40 215 215 HOH HOH . F 3 HOH B 41 216 216 HOH HOH . F 3 HOH B 42 217 217 HOH HOH . F 3 HOH B 43 218 218 HOH HOH . F 3 HOH B 44 219 219 HOH HOH . F 3 HOH B 45 220 220 HOH HOH . F 3 HOH B 46 221 221 HOH HOH . F 3 HOH B 47 222 222 HOH HOH . F 3 HOH B 48 223 223 HOH HOH . F 3 HOH B 49 224 224 HOH HOH . F 3 HOH B 50 225 225 HOH HOH . F 3 HOH B 51 226 226 HOH HOH . F 3 HOH B 52 227 227 HOH HOH . F 3 HOH B 53 228 228 HOH HOH . F 3 HOH B 54 229 229 HOH HOH . F 3 HOH B 55 230 230 HOH HOH . F 3 HOH B 56 231 231 HOH HOH . F 3 HOH B 57 232 232 HOH HOH . F 3 HOH B 58 233 233 HOH HOH . F 3 HOH B 59 234 234 HOH HOH . F 3 HOH B 60 235 235 HOH HOH . F 3 HOH B 61 236 236 HOH HOH . F 3 HOH B 62 237 237 HOH HOH . F 3 HOH B 63 238 238 HOH HOH . F 3 HOH B 64 239 239 HOH HOH . F 3 HOH B 65 240 240 HOH HOH . F 3 HOH B 66 241 241 HOH HOH . F 3 HOH B 67 242 242 HOH HOH . F 3 HOH B 68 243 243 HOH HOH . F 3 HOH B 69 244 244 HOH HOH . F 3 HOH B 70 245 245 HOH HOH . F 3 HOH B 71 246 246 HOH HOH . F 3 HOH B 72 247 247 HOH HOH . F 3 HOH B 73 248 248 HOH HOH . F 3 HOH B 74 249 249 HOH HOH . F 3 HOH B 75 250 250 HOH HOH . F 3 HOH B 76 251 251 HOH HOH . F 3 HOH B 77 252 252 HOH HOH . F 3 HOH B 78 253 253 HOH HOH . F 3 HOH B 79 254 254 HOH HOH . F 3 HOH B 80 255 255 HOH HOH . F 3 HOH B 81 256 256 HOH HOH . F 3 HOH B 82 257 257 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 N1 APR . . . D 2 13.174 23.772 -15.404 1 33.98 ? N1 APR 175 B 1 HETATM 2 C C2 APR . . . D 2 13.899 23.568 -16.521 1 32.57 ? C2 APR 175 B 1 HETATM 3 N N3 APR . . . D 2 14.62 24.575 -17.068 1 33.13 ? N3 APR 175 B 1 HETATM 4 C C4 APR . . . D 2 14.612 25.836 -16.557 1 32.6 ? C4 APR 175 B 1 HETATM 5 C C5 APR . . . D 2 13.812 26.133 -15.354 1 31.91 ? C5 APR 175 B 1 HETATM 6 C C6 APR . . . D 2 13.065 24.979 -14.784 1 34.37 ? C6 APR 175 B 1 HETATM 7 N N6 APR . . . D 2 12.295 25.097 -13.675 1 35.3 ? N6 APR 175 B 1 HETATM 8 N N7 APR . . . D 2 13.995 27.44 -15.086 1 32.91 ? N7 APR 175 B 1 HETATM 9 C C8 APR . . . D 2 14.838 27.946 -16.027 1 33.89 ? C8 APR 175 B 1 HETATM 10 N N9 APR . . . D 2 15.193 26.975 -16.909 1 33.14 ? N9 APR 175 B 1 HETATM 11 C C1' APR . . . D 2 16.098 27.075 -18.077 1 34.95 ? C1' APR 175 B 1 HETATM 12 C C2' APR . . . D 2 15.863 28.249 -19.027 1 36 ? C2' APR 175 B 1 HETATM 13 O O2' APR . . . D 2 14.765 27.975 -19.878 1 34.15 ? O2' APR 175 B 1 HETATM 14 C C3' APR . . . D 2 17.223 28.327 -19.711 1 35.29 ? C3' APR 175 B 1 HETATM 15 O O3' APR . . . D 2 17.374 27.351 -20.751 1 36.34 ? O3' APR 175 B 1 HETATM 16 O O4' APR . . . D 2 17.459 27.209 -17.651 1 34.18 ? O4' APR 175 B 1 HETATM 17 C C4' APR . . . D 2 18.211 27.935 -18.613 1 36.49 ? C4' APR 175 B 1 HETATM 18 C C5' APR . . . D 2 18.921 29.091 -17.913 1 36.77 ? C5' APR 175 B 1 HETATM 19 O O5' APR . . . D 2 17.917 29.992 -17.431 1 40.09 ? O5' APR 175 B 1 HETATM 20 P PA APR . . . D 2 18.079 30.676 -15.973 1 42.19 ? PA APR 175 B 1 HETATM 21 O O1A APR . . . D 2 17.886 29.63 -14.882 1 41.29 ? O1A APR 175 B 1 HETATM 22 O O2A APR . . . D 2 17.265 31.939 -15.909 1 44.17 ? O2A APR 175 B 1 HETATM 23 O O3A APR . . . D 2 19.7 30.96 -15.97 1 43.08 ? O3A APR 175 B 1 HETATM 24 P PB APR . . . D 2 20.596 32.233 -16.413 1 41.15 ? PB APR 175 B 1 HETATM 25 O O1B APR . . . D 2 22.039 31.748 -16.582 1 39.7 ? O1B APR 175 B 1 HETATM 26 O O2B APR . . . D 2 19.891 33.04 -17.485 1 42.39 ? O2B APR 175 B 1 HETATM 27 O O5D APR . . . D 2 20.668 33.188 -15.118 1 40.34 ? O5D APR 175 B 1 HETATM 28 C C5D APR . . . D 2 21.432 32.84 -13.95 1 39.01 ? C5D APR 175 B 1 HETATM 29 O O4D APR . . . D 2 19.488 33.121 -12.628 1 40.93 ? O4D APR 175 B 1 HETATM 30 O O1D APR . . . D 2 18.581 33.3 -10.54 1 37.84 ? O1D APR 175 B 1 HETATM 31 C C1D APR . . . D 2 19.262 32.41 -11.394 1 36.39 ? C1D APR 175 B 1 HETATM 32 O O2D APR . . . D 2 20.664 31.986 -9.385 1 37.22 ? O2D APR 175 B 1 HETATM 33 C C2D APR . . . D 2 20.64 32.096 -10.821 1 36.26 ? C2D APR 175 B 1 HETATM 34 O O3D APR . . . D 2 21.497 34.296 -10.515 1 31.65 ? O3D APR 175 B 1 HETATM 35 C C3D APR . . . D 2 21.523 33.188 -11.4 1 35.26 ? C3D APR 175 B 1 HETATM 36 C C4D APR . . . D 2 20.848 33.556 -12.732 1 38.62 ? C4D APR 175 B 1 # _model_server_stats.io_time_ms 6 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 36 #