data_4RR9 # _model_server_result.job_id ySWnUmXfistFDA4vfet-Vg _model_server_result.datetime_utc '2024-10-18 16:22:25' _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 4rr9 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 4RR9 # _exptl.entry_id 4RR9 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 353.334 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description "SERINE-3'-AMINOADENOSINE" _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 4RR9 _cell.length_a 47.871 _cell.length_b 47.871 _cell.length_c 113.74 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4RR9 _symmetry.cell_setting ? _symmetry.Int_Tables_number 92 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 41 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 _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 _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 8_555 -y,-x,-z+1/2 0 -1 0 -1 0 0 0 0 -1 0 0 56.87 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id B _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 C MG MG . A MG 202 1_555 D O HOH . A HOH 323 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.093 ? metalc ? metalc2 C MG MG . A MG 202 1_555 D O HOH . A HOH 341 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.1 ? metalc ? metalc3 C MG MG . A MG 202 1_555 D O HOH . A HOH 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc4 C MG MG . A MG 202 1_555 D O HOH . A HOH 370 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.195 ? metalc ? metalc5 C MG MG . A MG 202 1_555 D O HOH . A HOH 376 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.268 ? metalc ? metalc6 C MG MG . A MG 202 1_555 D O HOH . A HOH 379 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.192 ? # _chem_comp.formula 'C13 H19 N7 O5' _chem_comp.formula_weight 353.334 _chem_comp.id A3S _chem_comp.mon_nstd_flag . _chem_comp.name "SERINE-3'-AMINOADENOSINE" _chem_comp.type non-polymer _chem_comp.pdbx_synonyms "N'-L-SERYL-3'-AMINO-(3'-DEOXY)-ADENOSINE" # 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 O5' C5' A3S sing 1 n n O5' H5' A3S sing 2 n n C5' C4' A3S sing 3 n n C5' "H5'1" A3S sing 4 n n C5' "H5'2" A3S sing 5 n n C4' O4' A3S sing 6 n n C4' C3' A3S sing 7 n n C4' H4' A3S sing 8 n n O4' C1' A3S sing 9 n n C1' N9 A3S sing 10 n n C1' C2' A3S sing 11 n n C1' H1' A3S sing 12 n n N9 C4 A3S sing 13 n y N9 C8 A3S sing 14 n y C4 N3 A3S sing 15 n y C4 C5 A3S doub 16 n y N3 C2 A3S doub 17 n y C2 N1 A3S sing 18 n y C2 H2 A3S sing 19 n n N1 C6 A3S doub 20 n y C6 N6 A3S sing 21 n n C6 C5 A3S sing 22 n y N6 HN61 A3S sing 23 n n N6 HN62 A3S sing 24 n n C5 N7 A3S sing 25 n y N7 C8 A3S doub 26 n y C8 H8 A3S sing 27 n n C2' O2' A3S sing 28 n n C2' C3' A3S sing 29 n n C2' H2' A3S sing 30 n n O2' H1 A3S sing 31 n n C3' N8 A3S sing 32 n n C3' H3' A3S sing 33 n n N8 C A3S sing 34 n n N8 HN8 A3S sing 35 n n N CA A3S sing 36 n n N HN1 A3S sing 37 n n N HN2 A3S sing 38 n n CA CB A3S sing 39 n n CA C A3S sing 40 n n CA HA A3S sing 41 n n CB OG A3S sing 42 n n CB HB1 A3S sing 43 n n CB HB2 A3S sing 44 n n OG HOG A3S sing 45 n n C O A3S doub 46 n n # _atom_sites.entry_id 4RR9 _atom_sites.fract_transf_matrix[1][1] 0.020889 _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] 0.020889 _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] 0.008792 _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 B 2 A3S A 1 201 500 A3S A3S . C 3 MG A 1 202 1 MG MG . D 4 HOH A 1 301 1 HOH HOH . D 4 HOH A 2 302 2 HOH HOH . D 4 HOH A 3 303 3 HOH HOH . D 4 HOH A 4 304 4 HOH HOH . D 4 HOH A 5 305 5 HOH HOH . D 4 HOH A 6 306 6 HOH HOH . D 4 HOH A 7 307 7 HOH HOH . D 4 HOH A 8 308 8 HOH HOH . D 4 HOH A 9 309 9 HOH HOH . D 4 HOH A 10 310 11 HOH HOH . D 4 HOH A 11 311 12 HOH HOH . D 4 HOH A 12 312 13 HOH HOH . D 4 HOH A 13 313 14 HOH HOH . D 4 HOH A 14 314 15 HOH HOH . D 4 HOH A 15 315 16 HOH HOH . D 4 HOH A 16 316 17 HOH HOH . D 4 HOH A 17 317 18 HOH HOH . D 4 HOH A 18 318 19 HOH HOH . D 4 HOH A 19 319 20 HOH HOH . D 4 HOH A 20 320 21 HOH HOH . D 4 HOH A 21 321 22 HOH HOH . D 4 HOH A 22 322 24 HOH HOH . D 4 HOH A 23 323 25 HOH HOH . D 4 HOH A 24 324 26 HOH HOH . D 4 HOH A 25 325 27 HOH HOH . D 4 HOH A 26 326 28 HOH HOH . D 4 HOH A 27 327 29 HOH HOH . D 4 HOH A 28 328 30 HOH HOH . D 4 HOH A 29 329 31 HOH HOH . D 4 HOH A 30 330 32 HOH HOH . D 4 HOH A 31 331 33 HOH HOH . D 4 HOH A 32 332 34 HOH HOH . D 4 HOH A 33 333 35 HOH HOH . D 4 HOH A 34 334 36 HOH HOH . D 4 HOH A 35 335 37 HOH HOH . D 4 HOH A 36 336 38 HOH HOH . D 4 HOH A 37 337 39 HOH HOH . D 4 HOH A 38 338 40 HOH HOH . D 4 HOH A 39 339 41 HOH HOH . D 4 HOH A 40 340 42 HOH HOH . D 4 HOH A 41 341 43 HOH HOH . D 4 HOH A 42 342 44 HOH HOH . D 4 HOH A 43 343 45 HOH HOH . D 4 HOH A 44 344 46 HOH HOH . D 4 HOH A 45 345 47 HOH HOH . D 4 HOH A 46 346 48 HOH HOH . D 4 HOH A 47 347 49 HOH HOH . D 4 HOH A 48 348 50 HOH HOH . D 4 HOH A 49 349 51 HOH HOH . D 4 HOH A 50 350 53 HOH HOH . D 4 HOH A 51 351 54 HOH HOH . D 4 HOH A 52 352 55 HOH HOH . D 4 HOH A 53 353 56 HOH HOH . D 4 HOH A 54 354 57 HOH HOH . D 4 HOH A 55 355 58 HOH HOH . D 4 HOH A 56 356 59 HOH HOH . D 4 HOH A 57 357 60 HOH HOH . D 4 HOH A 58 358 61 HOH HOH . D 4 HOH A 59 359 62 HOH HOH . D 4 HOH A 60 360 63 HOH HOH . D 4 HOH A 61 361 65 HOH HOH . D 4 HOH A 62 362 66 HOH HOH . D 4 HOH A 63 363 68 HOH HOH . D 4 HOH A 64 364 69 HOH HOH . D 4 HOH A 65 365 70 HOH HOH . D 4 HOH A 66 366 72 HOH HOH . D 4 HOH A 67 367 73 HOH HOH . D 4 HOH A 68 368 74 HOH HOH . D 4 HOH A 69 369 75 HOH HOH . D 4 HOH A 70 370 76 HOH HOH . D 4 HOH A 71 371 78 HOH HOH . D 4 HOH A 72 372 81 HOH HOH . D 4 HOH A 73 373 82 HOH HOH . D 4 HOH A 74 374 83 HOH HOH . D 4 HOH A 75 375 84 HOH HOH . D 4 HOH A 76 376 87 HOH HOH . D 4 HOH A 77 377 88 HOH HOH . D 4 HOH A 78 378 89 HOH HOH . D 4 HOH A 79 379 90 HOH HOH . D 4 HOH A 80 380 91 HOH HOH . D 4 HOH A 81 381 92 HOH HOH . D 4 HOH A 82 382 93 HOH HOH . D 4 HOH A 83 383 94 HOH HOH . D 4 HOH A 84 384 95 HOH HOH . D 4 HOH A 85 385 96 HOH HOH . D 4 HOH A 86 386 97 HOH HOH . D 4 HOH A 87 387 98 HOH HOH . D 4 HOH A 88 388 100 HOH HOH . D 4 HOH A 89 389 101 HOH HOH . D 4 HOH A 90 390 105 HOH HOH . D 4 HOH A 91 391 106 HOH HOH . D 4 HOH A 92 392 108 HOH HOH . D 4 HOH A 93 393 111 HOH HOH . D 4 HOH A 94 394 112 HOH HOH . D 4 HOH A 95 395 115 HOH HOH . D 4 HOH A 96 396 116 HOH HOH . D 4 HOH A 97 397 117 HOH HOH . D 4 HOH A 98 398 118 HOH HOH . D 4 HOH A 99 399 121 HOH HOH . D 4 HOH A 100 400 122 HOH HOH . D 4 HOH A 101 401 123 HOH HOH . D 4 HOH A 102 402 124 HOH HOH . D 4 HOH A 103 403 125 HOH HOH . D 4 HOH A 104 404 126 HOH HOH . D 4 HOH A 105 405 127 HOH HOH . D 4 HOH A 106 406 128 HOH HOH . D 4 HOH A 107 407 129 HOH HOH . D 4 HOH A 108 408 130 HOH HOH . D 4 HOH A 109 409 131 HOH HOH . D 4 HOH A 110 410 132 HOH HOH . D 4 HOH A 111 411 133 HOH HOH . D 4 HOH A 112 412 134 HOH HOH . D 4 HOH A 113 413 135 HOH HOH . D 4 HOH A 114 414 136 HOH HOH . D 4 HOH A 115 415 137 HOH HOH . D 4 HOH A 116 416 138 HOH HOH . D 4 HOH A 117 417 139 HOH HOH . D 4 HOH A 118 418 141 HOH HOH . D 4 HOH A 119 419 142 HOH HOH . D 4 HOH A 120 420 143 HOH HOH . D 4 HOH A 121 421 144 HOH HOH . D 4 HOH A 122 422 145 HOH HOH . D 4 HOH A 123 423 146 HOH HOH . D 4 HOH A 124 424 147 HOH HOH . D 4 HOH A 125 425 148 HOH HOH . D 4 HOH A 126 426 149 HOH HOH . D 4 HOH A 127 427 150 HOH HOH . D 4 HOH A 128 428 151 HOH HOH . D 4 HOH A 129 429 152 HOH HOH . D 4 HOH A 130 430 153 HOH HOH . D 4 HOH A 131 431 154 HOH HOH . D 4 HOH A 132 432 155 HOH HOH . D 4 HOH A 133 433 156 HOH HOH . D 4 HOH A 134 434 157 HOH HOH . D 4 HOH A 135 435 158 HOH HOH . D 4 HOH A 136 436 159 HOH HOH . D 4 HOH A 137 437 160 HOH HOH . D 4 HOH A 138 438 171 HOH HOH . D 4 HOH A 139 439 172 HOH HOH . D 4 HOH A 140 440 173 HOH HOH . D 4 HOH A 141 441 174 HOH HOH . D 4 HOH A 142 442 175 HOH HOH . D 4 HOH A 143 443 176 HOH HOH . D 4 HOH A 144 444 177 HOH HOH . D 4 HOH A 145 445 178 HOH HOH . D 4 HOH A 146 446 179 HOH HOH . D 4 HOH A 147 447 180 HOH HOH . D 4 HOH A 148 448 181 HOH HOH . D 4 HOH A 149 449 182 HOH HOH . D 4 HOH A 150 450 183 HOH HOH . D 4 HOH A 151 451 184 HOH HOH . D 4 HOH A 152 452 185 HOH HOH . D 4 HOH A 153 453 186 HOH HOH . D 4 HOH A 154 454 187 HOH HOH . D 4 HOH A 155 455 188 HOH HOH . D 4 HOH A 156 456 189 HOH HOH . D 4 HOH A 157 457 190 HOH HOH . D 4 HOH A 158 458 191 HOH HOH . D 4 HOH A 159 459 192 HOH HOH . D 4 HOH A 160 460 193 HOH HOH . D 4 HOH A 161 461 194 HOH HOH . D 4 HOH A 162 462 201 HOH HOH . D 4 HOH A 163 463 202 HOH HOH . D 4 HOH A 164 464 203 HOH HOH . D 4 HOH A 165 465 204 HOH HOH . D 4 HOH A 166 466 205 HOH HOH . D 4 HOH A 167 467 206 HOH HOH . D 4 HOH A 168 468 207 HOH HOH . D 4 HOH A 169 469 208 HOH HOH . D 4 HOH A 170 470 209 HOH HOH . D 4 HOH A 171 471 210 HOH HOH . D 4 HOH A 172 472 211 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 O5' A3S . . . B 2 16.414 2.014 34.017 1 30.86 ? O5' A3S 201 A 1 HETATM 2 C C5' A3S . . . B 2 16.116 3.413 34.117 1 27.64 ? C5' A3S 201 A 1 HETATM 3 C C4' A3S . . . B 2 15.856 4.048 32.726 1 25.89 ? C4' A3S 201 A 1 HETATM 4 O O4' A3S . . . B 2 17.08 3.892 31.958 1 23.65 ? O4' A3S 201 A 1 HETATM 5 C C1' A3S . . . B 2 16.679 3.377 30.58 1 23.9 ? C1' A3S 201 A 1 HETATM 6 N N9 A3S . . . B 2 17.436 2.086 30.408 1 23.7 ? N9 A3S 201 A 1 HETATM 7 C C4 A3S . . . B 2 17.28 1.202 29.391 1 22.82 ? C4 A3S 201 A 1 HETATM 8 N N3 A3S . . . B 2 16.375 1.176 28.364 1 23.12 ? N3 A3S 201 A 1 HETATM 9 C C2 A3S . . . B 2 16.506 0.067 27.541 1 19.44 ? C2 A3S 201 A 1 HETATM 10 N N1 A3S . . . B 2 17.414 -0.903 27.68 1 19.65 ? N1 A3S 201 A 1 HETATM 11 C C6 A3S . . . B 2 18.326 -0.894 28.696 1 20 ? C6 A3S 201 A 1 HETATM 12 N N6 A3S . . . B 2 19.226 -1.831 28.793 1 21.43 ? N6 A3S 201 A 1 HETATM 13 C C5 A3S . . . B 2 18.212 0.186 29.59 1 21.3 ? C5 A3S 201 A 1 HETATM 14 N N7 A3S . . . B 2 18.961 0.487 30.715 1 22.68 ? N7 A3S 201 A 1 HETATM 15 C C8 A3S . . . B 2 18.463 1.64 31.169 1 23.84 ? C8 A3S 201 A 1 HETATM 16 C C2' A3S . . . B 2 15.183 3.495 30.52 1 23.23 ? C2' A3S 201 A 1 HETATM 17 O O2' A3S . . . B 2 14.838 4.833 30.117 1 22.8 ? O2' A3S 201 A 1 HETATM 18 C C3' A3S . . . B 2 14.799 3.205 31.97 1 26.57 ? C3' A3S 201 A 1 HETATM 19 N N8 A3S . . . B 2 13.468 3.724 32.207 1 26.94 ? N8 A3S 201 A 1 HETATM 20 N N A3S . . . B 2 10.065 3.013 31.3 1 30.92 ? N A3S 201 A 1 HETATM 21 C CA A3S . . . B 2 11.016 3.559 32.292 1 29.3 ? CA A3S 201 A 1 HETATM 22 C CB A3S . . . B 2 10.564 3.44 33.78 1 31.78 ? CB A3S 201 A 1 HETATM 23 O OG A3S . . . B 2 9.419 4.363 34.013 1 33.03 ? OG A3S 201 A 1 HETATM 24 C C A3S . . . B 2 12.392 2.931 32.058 1 28.85 ? C A3S 201 A 1 HETATM 25 O O A3S . . . B 2 12.499 1.653 31.638 1 27.86 ? O A3S 201 A 1 # _model_server_stats.io_time_ms 5 _model_server_stats.parse_time_ms 5 _model_server_stats.create_model_time_ms 1 _model_server_stats.query_time_ms 233 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 25 #