data_3C0G # _model_server_result.job_id -XAFE1yQSCpGGskmKuWjtA _model_server_result.datetime_utc '2024-11-22 22:20:32' _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 3c0g # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":338}' # _entry.id 3C0G # _exptl.entry_id 3C0G _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 347.221 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description '[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-2-(hydroxymethyl)oxolan-3-yl] dihydrogen phosphate' _entity.pdbx_number_of_molecules 2 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 106.49 _cell.angle_gamma 105.8 _cell.entry_id 3C0G _cell.length_a 55.328 _cell.length_b 60.267 _cell.length_c 60.553 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3C0G _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 PISA monomeric 1 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,C,E 1 1 B,D,F 2 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 'C10 H14 N5 O7 P' _chem_comp.formula_weight 347.221 _chem_comp.id 3AM _chem_comp.mon_nstd_flag . _chem_comp.name '[(2R,3S,4R,5R)-5-(6-aminopurin-9-yl)-4-hydroxy-2-(hydroxymethyl)oxolan-3-yl] dihydrogen phosphate' _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "3'-AMP" # 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 O1P P 3AM doub 1 n n P O2P 3AM sing 2 n n P O3P 3AM sing 3 n n P O3' 3AM sing 4 n n O2' C2' 3AM sing 5 n n C2' C3' 3AM sing 6 n n C2' C1' 3AM sing 7 n n C3' O3' 3AM sing 8 n n C3' C4' 3AM sing 9 n n C1' O4' 3AM sing 10 n n C1' N9 3AM sing 11 n n O4' C4' 3AM sing 12 n n C4' C5' 3AM sing 13 n n C5' O5' 3AM sing 14 n n N9 C8 3AM sing 15 n y N9 C4 3AM sing 16 n y C8 N7 3AM doub 17 n y N7 C5 3AM sing 18 n y C5 C6 3AM doub 19 n y C5 C4 3AM sing 20 n y C6 N6 3AM sing 21 n n C6 N1 3AM sing 22 n y C4 N3 3AM doub 23 n y N3 C2 3AM sing 24 n y C2 N1 3AM doub 25 n y O2P HO2P 3AM sing 26 n n O3P HO3P 3AM sing 27 n n O2' HO2' 3AM sing 28 n n C2' H2' 3AM sing 29 n n C3' H3' 3AM sing 30 n n C1' H1' 3AM sing 31 n n C4' H4' 3AM sing 32 n n C5' H5' 3AM sing 33 n n C5' "H5'A" 3AM sing 34 n n O5' HO5' 3AM sing 35 n n C8 H8 3AM sing 36 n n N6 HN6 3AM sing 37 n n N6 HN6A 3AM sing 38 n n C2 H2 3AM sing 39 n n # _atom_sites.entry_id 3C0G _atom_sites.fract_transf_matrix[1][1] 0.018074 _atom_sites.fract_transf_matrix[1][2] 0.005115 _atom_sites.fract_transf_matrix[1][3] 0.0058 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.017245 _atom_sites.fract_transf_matrix[2][3] 0.00145 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.017284 _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 3AM A 1 338 1 3AM 3AM . D 2 3AM B 1 338 1 3AM 3AM . E 3 HOH A 1 339 12 HOH HOH . E 3 HOH A 2 340 13 HOH HOH . E 3 HOH A 3 341 14 HOH HOH . E 3 HOH A 4 342 15 HOH HOH . E 3 HOH A 5 343 16 HOH HOH . E 3 HOH A 6 344 17 HOH HOH . E 3 HOH A 7 345 18 HOH HOH . E 3 HOH A 8 346 19 HOH HOH . E 3 HOH A 9 347 20 HOH HOH . E 3 HOH A 10 348 21 HOH HOH . E 3 HOH A 11 349 22 HOH HOH . E 3 HOH A 12 350 23 HOH HOH . E 3 HOH A 13 351 24 HOH HOH . E 3 HOH A 14 352 25 HOH HOH . E 3 HOH A 15 353 29 HOH HOH . E 3 HOH A 16 354 31 HOH HOH . E 3 HOH A 17 355 32 HOH HOH . E 3 HOH A 18 356 33 HOH HOH . E 3 HOH A 19 357 35 HOH HOH . E 3 HOH A 20 358 36 HOH HOH . E 3 HOH A 21 359 37 HOH HOH . E 3 HOH A 22 360 38 HOH HOH . E 3 HOH A 23 361 39 HOH HOH . E 3 HOH A 24 362 40 HOH HOH . E 3 HOH A 25 363 41 HOH HOH . E 3 HOH A 26 364 42 HOH HOH . E 3 HOH A 27 365 43 HOH HOH . E 3 HOH A 28 366 44 HOH HOH . E 3 HOH A 29 367 45 HOH HOH . E 3 HOH A 30 368 48 HOH HOH . E 3 HOH A 31 369 49 HOH HOH . E 3 HOH A 32 370 50 HOH HOH . E 3 HOH A 33 371 54 HOH HOH . E 3 HOH A 34 372 55 HOH HOH . E 3 HOH A 35 373 59 HOH HOH . E 3 HOH A 36 374 62 HOH HOH . E 3 HOH A 37 375 63 HOH HOH . E 3 HOH A 38 376 68 HOH HOH . E 3 HOH A 39 377 69 HOH HOH . E 3 HOH A 40 378 71 HOH HOH . E 3 HOH A 41 379 73 HOH HOH . E 3 HOH A 42 380 74 HOH HOH . E 3 HOH A 43 381 75 HOH HOH . E 3 HOH A 44 382 78 HOH HOH . E 3 HOH A 45 383 80 HOH HOH . E 3 HOH A 46 384 82 HOH HOH . E 3 HOH A 47 385 84 HOH HOH . E 3 HOH A 48 386 89 HOH HOH . E 3 HOH A 49 387 91 HOH HOH . E 3 HOH A 50 388 92 HOH HOH . E 3 HOH A 51 389 95 HOH HOH . E 3 HOH A 52 390 96 HOH HOH . E 3 HOH A 53 391 97 HOH HOH . E 3 HOH A 54 392 98 HOH HOH . E 3 HOH A 55 393 100 HOH HOH . E 3 HOH A 56 394 101 HOH HOH . E 3 HOH A 57 395 105 HOH HOH . E 3 HOH A 58 396 106 HOH HOH . E 3 HOH A 59 397 108 HOH HOH . E 3 HOH A 60 398 112 HOH HOH . E 3 HOH A 61 399 115 HOH HOH . E 3 HOH A 62 400 116 HOH HOH . E 3 HOH A 63 401 118 HOH HOH . E 3 HOH A 64 402 121 HOH HOH . E 3 HOH A 65 403 127 HOH HOH . E 3 HOH A 66 404 128 HOH HOH . E 3 HOH A 67 405 130 HOH HOH . E 3 HOH A 68 406 131 HOH HOH . E 3 HOH A 69 407 132 HOH HOH . E 3 HOH A 70 408 136 HOH HOH . E 3 HOH A 71 409 139 HOH HOH . E 3 HOH A 72 410 141 HOH HOH . E 3 HOH A 73 411 142 HOH HOH . E 3 HOH A 74 412 144 HOH HOH . E 3 HOH A 75 413 146 HOH HOH . E 3 HOH A 76 414 147 HOH HOH . E 3 HOH A 77 415 148 HOH HOH . E 3 HOH A 78 416 152 HOH HOH . E 3 HOH A 79 417 154 HOH HOH . E 3 HOH A 80 418 156 HOH HOH . E 3 HOH A 81 419 157 HOH HOH . E 3 HOH A 82 420 158 HOH HOH . E 3 HOH A 83 421 159 HOH HOH . E 3 HOH A 84 422 164 HOH HOH . E 3 HOH A 85 423 167 HOH HOH . E 3 HOH A 86 424 168 HOH HOH . E 3 HOH A 87 425 171 HOH HOH . E 3 HOH A 88 426 173 HOH HOH . E 3 HOH A 89 427 176 HOH HOH . E 3 HOH A 90 428 177 HOH HOH . E 3 HOH A 91 429 178 HOH HOH . E 3 HOH A 92 430 180 HOH HOH . E 3 HOH A 93 431 181 HOH HOH . E 3 HOH A 94 432 183 HOH HOH . E 3 HOH A 95 433 184 HOH HOH . E 3 HOH A 96 434 185 HOH HOH . E 3 HOH A 97 435 187 HOH HOH . E 3 HOH A 98 436 188 HOH HOH . E 3 HOH A 99 437 189 HOH HOH . E 3 HOH A 100 438 190 HOH HOH . E 3 HOH A 101 439 191 HOH HOH . E 3 HOH A 102 440 192 HOH HOH . E 3 HOH A 103 441 193 HOH HOH . E 3 HOH A 104 442 195 HOH HOH . E 3 HOH A 105 443 198 HOH HOH . E 3 HOH A 106 444 204 HOH HOH . E 3 HOH A 107 445 205 HOH HOH . E 3 HOH A 108 446 206 HOH HOH . E 3 HOH A 109 447 208 HOH HOH . E 3 HOH A 110 448 211 HOH HOH . E 3 HOH A 111 449 213 HOH HOH . E 3 HOH A 112 450 215 HOH HOH . E 3 HOH A 113 451 216 HOH HOH . E 3 HOH A 114 452 217 HOH HOH . E 3 HOH A 115 453 218 HOH HOH . E 3 HOH A 116 454 219 HOH HOH . E 3 HOH A 117 455 220 HOH HOH . E 3 HOH A 118 456 221 HOH HOH . E 3 HOH A 119 457 222 HOH HOH . E 3 HOH A 120 458 227 HOH HOH . E 3 HOH A 121 459 233 HOH HOH . E 3 HOH A 122 460 242 HOH HOH . E 3 HOH A 123 461 243 HOH HOH . E 3 HOH A 124 462 248 HOH HOH . E 3 HOH A 125 463 250 HOH HOH . E 3 HOH A 126 464 251 HOH HOH . E 3 HOH A 127 465 252 HOH HOH . E 3 HOH A 128 466 34 HOH HOH . E 3 HOH A 129 467 104 HOH HOH . E 3 HOH A 130 468 123 HOH HOH . E 3 HOH A 131 469 225 HOH HOH . E 3 HOH A 132 470 226 HOH HOH . E 3 HOH A 133 471 240 HOH HOH . F 3 HOH B 1 339 1 HOH HOH . F 3 HOH B 2 340 2 HOH HOH . F 3 HOH B 3 341 3 HOH HOH . F 3 HOH B 4 342 4 HOH HOH . F 3 HOH B 5 343 5 HOH HOH . F 3 HOH B 6 344 6 HOH HOH . F 3 HOH B 7 345 7 HOH HOH . F 3 HOH B 8 346 8 HOH HOH . F 3 HOH B 9 347 9 HOH HOH . F 3 HOH B 10 348 10 HOH HOH . F 3 HOH B 11 349 11 HOH HOH . F 3 HOH B 12 350 26 HOH HOH . F 3 HOH B 13 351 27 HOH HOH . F 3 HOH B 14 352 28 HOH HOH . F 3 HOH B 15 353 30 HOH HOH . F 3 HOH B 16 355 46 HOH HOH . F 3 HOH B 17 356 47 HOH HOH . F 3 HOH B 18 357 51 HOH HOH . F 3 HOH B 19 358 52 HOH HOH . F 3 HOH B 20 359 53 HOH HOH . F 3 HOH B 21 360 56 HOH HOH . F 3 HOH B 22 361 57 HOH HOH . F 3 HOH B 23 362 58 HOH HOH . F 3 HOH B 24 363 60 HOH HOH . F 3 HOH B 25 364 61 HOH HOH . F 3 HOH B 26 365 64 HOH HOH . F 3 HOH B 27 366 65 HOH HOH . F 3 HOH B 28 367 66 HOH HOH . F 3 HOH B 29 368 67 HOH HOH . F 3 HOH B 30 369 70 HOH HOH . F 3 HOH B 31 370 72 HOH HOH . F 3 HOH B 32 371 76 HOH HOH . F 3 HOH B 33 372 77 HOH HOH . F 3 HOH B 34 373 79 HOH HOH . F 3 HOH B 35 374 81 HOH HOH . F 3 HOH B 36 375 83 HOH HOH . F 3 HOH B 37 376 85 HOH HOH . F 3 HOH B 38 377 86 HOH HOH . F 3 HOH B 39 378 87 HOH HOH . F 3 HOH B 40 379 88 HOH HOH . F 3 HOH B 41 380 90 HOH HOH . F 3 HOH B 42 381 93 HOH HOH . F 3 HOH B 43 382 94 HOH HOH . F 3 HOH B 44 383 99 HOH HOH . F 3 HOH B 45 384 102 HOH HOH . F 3 HOH B 46 385 103 HOH HOH . F 3 HOH B 47 387 107 HOH HOH . F 3 HOH B 48 388 109 HOH HOH . F 3 HOH B 49 389 110 HOH HOH . F 3 HOH B 50 390 111 HOH HOH . F 3 HOH B 51 391 113 HOH HOH . F 3 HOH B 52 392 114 HOH HOH . F 3 HOH B 53 393 117 HOH HOH . F 3 HOH B 54 394 119 HOH HOH . F 3 HOH B 55 395 120 HOH HOH . F 3 HOH B 56 396 122 HOH HOH . F 3 HOH B 57 398 124 HOH HOH . F 3 HOH B 58 399 125 HOH HOH . F 3 HOH B 59 400 126 HOH HOH . F 3 HOH B 60 401 129 HOH HOH . F 3 HOH B 61 402 133 HOH HOH . F 3 HOH B 62 403 134 HOH HOH . F 3 HOH B 63 404 135 HOH HOH . F 3 HOH B 64 405 137 HOH HOH . F 3 HOH B 65 406 138 HOH HOH . F 3 HOH B 66 407 140 HOH HOH . F 3 HOH B 67 408 143 HOH HOH . F 3 HOH B 68 409 145 HOH HOH . F 3 HOH B 69 410 149 HOH HOH . F 3 HOH B 70 411 150 HOH HOH . F 3 HOH B 71 412 151 HOH HOH . F 3 HOH B 72 413 153 HOH HOH . F 3 HOH B 73 414 155 HOH HOH . F 3 HOH B 74 415 160 HOH HOH . F 3 HOH B 75 416 161 HOH HOH . F 3 HOH B 76 417 162 HOH HOH . F 3 HOH B 77 418 163 HOH HOH . F 3 HOH B 78 419 165 HOH HOH . F 3 HOH B 79 420 166 HOH HOH . F 3 HOH B 80 421 169 HOH HOH . F 3 HOH B 81 422 170 HOH HOH . F 3 HOH B 82 423 172 HOH HOH . F 3 HOH B 83 424 174 HOH HOH . F 3 HOH B 84 425 175 HOH HOH . F 3 HOH B 85 426 179 HOH HOH . F 3 HOH B 86 427 182 HOH HOH . F 3 HOH B 87 428 186 HOH HOH . F 3 HOH B 88 429 194 HOH HOH . F 3 HOH B 89 430 196 HOH HOH . F 3 HOH B 90 431 197 HOH HOH . F 3 HOH B 91 432 199 HOH HOH . F 3 HOH B 92 433 200 HOH HOH . F 3 HOH B 93 434 201 HOH HOH . F 3 HOH B 94 435 202 HOH HOH . F 3 HOH B 95 436 203 HOH HOH . F 3 HOH B 96 437 207 HOH HOH . F 3 HOH B 97 438 209 HOH HOH . F 3 HOH B 98 439 210 HOH HOH . F 3 HOH B 99 440 212 HOH HOH . F 3 HOH B 100 441 214 HOH HOH . F 3 HOH B 101 442 223 HOH HOH . F 3 HOH B 102 443 224 HOH HOH . F 3 HOH B 103 446 228 HOH HOH . F 3 HOH B 104 447 229 HOH HOH . F 3 HOH B 105 448 230 HOH HOH . F 3 HOH B 106 449 231 HOH HOH . F 3 HOH B 107 450 232 HOH HOH . F 3 HOH B 108 451 234 HOH HOH . F 3 HOH B 109 452 235 HOH HOH . F 3 HOH B 110 453 236 HOH HOH . F 3 HOH B 111 454 237 HOH HOH . F 3 HOH B 112 455 238 HOH HOH . F 3 HOH B 113 456 239 HOH HOH . F 3 HOH B 114 458 241 HOH HOH . F 3 HOH B 115 459 244 HOH HOH . F 3 HOH B 116 460 245 HOH HOH . F 3 HOH B 117 461 246 HOH HOH . F 3 HOH B 118 462 247 HOH HOH . F 3 HOH B 119 463 249 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 O O1P 3AM . . . D 2 19.794 -18.31 -22.148 1 74.73 ? O1P 3AM 338 B 1 HETATM 2 P P 3AM . . . D 2 19.578 -18.863 -20.76 1 71.42 ? P 3AM 338 B 1 HETATM 3 O O2P 3AM . . . D 2 18.969 -20.244 -20.861 1 71.17 ? O2P 3AM 338 B 1 HETATM 4 O O3P 3AM . . . D 2 18.644 -17.926 -20.027 1 73.32 ? O3P 3AM 338 B 1 HETATM 5 O O2' 3AM . . . D 2 23.543 -18.737 -19.24 1 58.29 ? O2' 3AM 338 B 1 HETATM 6 C C2' 3AM . . . D 2 22.628 -19.183 -18.257 1 58.82 ? C2' 3AM 338 B 1 HETATM 7 C C3' 3AM . . . D 2 21.317 -19.673 -18.86 1 62.17 ? C3' 3AM 338 B 1 HETATM 8 O O3' 3AM . . . D 2 21.021 -18.916 -20.026 1 68.82 ? O3' 3AM 338 B 1 HETATM 9 C C1' 3AM . . . D 2 22.152 -18.054 -17.344 1 53.12 ? C1' 3AM 338 B 1 HETATM 10 O O4' 3AM . . . D 2 20.834 -18.397 -16.935 1 57.98 ? O4' 3AM 338 B 1 HETATM 11 C C4' 3AM . . . D 2 20.276 -19.377 -17.784 1 58 ? C4' 3AM 338 B 1 HETATM 12 C C5' 3AM . . . D 2 19.835 -20.597 -16.973 1 57.74 ? C5' 3AM 338 B 1 HETATM 13 O O5' 3AM . . . D 2 20.903 -21.135 -16.221 1 58.26 ? O5' 3AM 338 B 1 HETATM 14 N N9 3AM . . . D 2 22.948 -17.814 -16.124 1 49.69 ? N9 3AM 338 B 1 HETATM 15 C C8 3AM . . . D 2 23.58 -16.633 -15.833 1 47.65 ? C8 3AM 338 B 1 HETATM 16 N N7 3AM . . . D 2 24.185 -16.76 -14.632 1 47.86 ? N7 3AM 338 B 1 HETATM 17 C C5 3AM . . . D 2 23.941 -17.994 -14.138 1 46 ? C5 3AM 338 B 1 HETATM 18 C C6 3AM . . . D 2 24.323 -18.624 -12.954 1 48.59 ? C6 3AM 338 B 1 HETATM 19 N N6 3AM . . . D 2 25.077 -17.981 -12.063 1 49.19 ? N6 3AM 338 B 1 HETATM 20 C C4 3AM . . . D 2 23.155 -18.676 -15.065 1 48.34 ? C4 3AM 338 B 1 HETATM 21 N N3 3AM . . . D 2 22.761 -19.957 -14.813 1 46.32 ? N3 3AM 338 B 1 HETATM 22 C C2 3AM . . . D 2 23.134 -20.59 -13.642 1 45.82 ? C2 3AM 338 B 1 HETATM 23 N N1 3AM . . . D 2 23.914 -19.924 -12.713 1 48.3 ? N1 3AM 338 B 1 # _model_server_stats.io_time_ms 16 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 262 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 23 #