data_1RI3 # _model_server_result.job_id 7mJcbr23zAhxoOVrr_GuGw _model_server_result.datetime_utc '2024-11-13 13:25:08' _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 1ri3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":299}' # _entry.id 1RI3 # _exptl.entry_id 1RI3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 384.411 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description S-ADENOSYL-L-HOMOCYSTEINE _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 120 _cell.entry_id 1RI3 _cell.length_a 63.341 _cell.length_b 63.341 _cell.length_c 111.937 _cell.Z_PDB 6 _cell.pdbx_unique_axis ? # _symmetry.entry_id 1RI3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 152 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 31 2 1' # _pdbx_struct_assembly.method_details ? _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _pdbx_struct_assembly.details author_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C _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 2 _struct_asym.id B _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _chem_comp.formula 'C14 H20 N6 O5 S' _chem_comp.formula_weight 384.411 _chem_comp.id SAH _chem_comp.mon_nstd_flag n _chem_comp.name S-ADENOSYL-L-HOMOCYSTEINE _chem_comp.type 'l-peptide linking' _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 N CA SAH sing 277 n n N HN1 SAH sing 278 n n N HN2 SAH sing 279 n n CA CB SAH sing 280 n n CA C SAH sing 281 n n CA HA SAH sing 282 n n CB CG SAH sing 283 n n CB HB1 SAH sing 284 n n CB HB2 SAH sing 285 n n CG SD SAH sing 286 n n CG HG1 SAH sing 287 n n CG HG2 SAH sing 288 n n SD C5' SAH sing 289 n n C O SAH doub 290 n n C OXT SAH sing 291 n n OXT HXT SAH sing 292 n n C5' C4' SAH sing 293 n n C5' "H5'1" SAH sing 294 n n C5' "H5'2" SAH sing 295 n n C4' O4' SAH sing 296 n n C4' C3' SAH sing 297 n n C4' H4' SAH sing 298 n n O4' C1' SAH sing 299 n n C3' O3' SAH sing 300 n n C3' C2' SAH sing 301 n n C3' H3' SAH sing 302 n n O3' HO3' SAH sing 303 n n C2' O2' SAH sing 304 n n C2' C1' SAH sing 305 n n C2' H2' SAH sing 306 n n O2' HO2' SAH sing 307 n n C1' N9 SAH sing 308 n n C1' H1' SAH sing 309 n n N9 C8 SAH sing 310 n y N9 C4 SAH sing 311 n y C8 N7 SAH doub 312 n y C8 H8 SAH sing 313 n n N7 C5 SAH sing 314 n y C5 C6 SAH sing 315 n y C5 C4 SAH doub 316 n y C6 N6 SAH sing 317 n n C6 N1 SAH doub 318 n y N6 HN61 SAH sing 319 n n N6 HN62 SAH sing 320 n n N1 C2 SAH sing 321 n y C2 N3 SAH doub 322 n y C2 H2 SAH sing 323 n n N3 C4 SAH sing 324 n y # _atom_sites.entry_id 1RI3 _atom_sites.fract_transf_matrix[1][1] 0.015788 _atom_sites.fract_transf_matrix[1][2] 0.009115 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.01823 _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] 0.008934 _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 SAH A 1 299 1 SAH SAH . C 3 HOH A 1 300 1 HOH WAT . C 3 HOH A 2 301 2 HOH WAT . C 3 HOH A 3 302 3 HOH WAT . C 3 HOH A 4 303 4 HOH WAT . C 3 HOH A 5 304 5 HOH WAT . C 3 HOH A 6 305 6 HOH WAT . C 3 HOH A 7 306 7 HOH WAT . C 3 HOH A 8 307 8 HOH WAT . C 3 HOH A 9 308 9 HOH WAT . C 3 HOH A 10 309 10 HOH WAT . C 3 HOH A 11 310 11 HOH WAT . C 3 HOH A 12 311 12 HOH WAT . C 3 HOH A 13 312 13 HOH WAT . C 3 HOH A 14 313 14 HOH WAT . C 3 HOH A 15 314 15 HOH WAT . C 3 HOH A 16 315 16 HOH WAT . C 3 HOH A 17 316 17 HOH WAT . C 3 HOH A 18 317 18 HOH WAT . C 3 HOH A 19 318 19 HOH WAT . C 3 HOH A 20 319 21 HOH WAT . C 3 HOH A 21 320 22 HOH WAT . C 3 HOH A 22 321 24 HOH WAT . C 3 HOH A 23 322 25 HOH WAT . C 3 HOH A 24 323 26 HOH WAT . C 3 HOH A 25 324 27 HOH WAT . C 3 HOH A 26 325 28 HOH WAT . C 3 HOH A 27 326 30 HOH WAT . C 3 HOH A 28 327 31 HOH WAT . C 3 HOH A 29 328 32 HOH WAT . C 3 HOH A 30 329 33 HOH WAT . C 3 HOH A 31 330 34 HOH WAT . C 3 HOH A 32 331 35 HOH WAT . C 3 HOH A 33 332 36 HOH WAT . C 3 HOH A 34 333 37 HOH WAT . C 3 HOH A 35 334 38 HOH WAT . C 3 HOH A 36 335 39 HOH WAT . C 3 HOH A 37 336 40 HOH WAT . C 3 HOH A 38 337 41 HOH WAT . C 3 HOH A 39 338 42 HOH WAT . C 3 HOH A 40 339 43 HOH WAT . C 3 HOH A 41 340 44 HOH WAT . C 3 HOH A 42 341 45 HOH WAT . C 3 HOH A 43 342 46 HOH WAT . C 3 HOH A 44 343 47 HOH WAT . C 3 HOH A 45 344 48 HOH WAT . C 3 HOH A 46 345 49 HOH WAT . C 3 HOH A 47 346 50 HOH WAT . C 3 HOH A 48 347 51 HOH WAT . C 3 HOH A 49 348 54 HOH WAT . C 3 HOH A 50 349 55 HOH WAT . C 3 HOH A 51 350 56 HOH WAT . C 3 HOH A 52 351 57 HOH WAT . C 3 HOH A 53 352 58 HOH WAT . C 3 HOH A 54 353 59 HOH WAT . C 3 HOH A 55 354 60 HOH WAT . C 3 HOH A 56 355 61 HOH WAT . C 3 HOH A 57 356 62 HOH WAT . C 3 HOH A 58 357 63 HOH WAT . C 3 HOH A 59 358 64 HOH WAT . C 3 HOH A 60 359 65 HOH WAT . C 3 HOH A 61 360 66 HOH WAT . C 3 HOH A 62 361 67 HOH WAT . C 3 HOH A 63 362 68 HOH WAT . C 3 HOH A 64 363 69 HOH WAT . C 3 HOH A 65 364 70 HOH WAT . C 3 HOH A 66 365 71 HOH WAT . C 3 HOH A 67 366 73 HOH WAT . C 3 HOH A 68 367 74 HOH WAT . C 3 HOH A 69 368 75 HOH WAT . C 3 HOH A 70 369 76 HOH WAT . C 3 HOH A 71 370 77 HOH WAT . C 3 HOH A 72 371 78 HOH WAT . C 3 HOH A 73 372 79 HOH WAT . C 3 HOH A 74 373 80 HOH WAT . C 3 HOH A 75 374 81 HOH WAT . C 3 HOH A 76 375 82 HOH WAT . C 3 HOH A 77 376 83 HOH WAT . C 3 HOH A 78 377 84 HOH WAT . C 3 HOH A 79 378 85 HOH WAT . C 3 HOH A 80 379 86 HOH WAT . C 3 HOH A 81 380 87 HOH WAT . C 3 HOH A 82 381 88 HOH WAT . C 3 HOH A 83 382 89 HOH WAT . C 3 HOH A 84 383 90 HOH WAT . C 3 HOH A 85 384 91 HOH WAT . C 3 HOH A 86 385 92 HOH WAT . C 3 HOH A 87 386 93 HOH WAT . C 3 HOH A 88 387 94 HOH WAT . C 3 HOH A 89 388 95 HOH WAT . C 3 HOH A 90 389 96 HOH WAT . C 3 HOH A 91 390 97 HOH WAT . C 3 HOH A 92 391 98 HOH WAT . C 3 HOH A 93 392 99 HOH WAT . C 3 HOH A 94 393 101 HOH WAT . C 3 HOH A 95 394 102 HOH WAT . C 3 HOH A 96 395 103 HOH WAT . C 3 HOH A 97 396 104 HOH WAT . C 3 HOH A 98 397 105 HOH WAT . C 3 HOH A 99 398 106 HOH WAT . C 3 HOH A 100 399 107 HOH WAT . C 3 HOH A 101 400 108 HOH WAT . C 3 HOH A 102 401 109 HOH WAT . C 3 HOH A 103 402 110 HOH WAT . C 3 HOH A 104 403 111 HOH WAT . C 3 HOH A 105 404 112 HOH WAT . C 3 HOH A 106 405 113 HOH WAT . C 3 HOH A 107 406 114 HOH WAT . C 3 HOH A 108 407 115 HOH WAT . C 3 HOH A 109 408 117 HOH WAT . C 3 HOH A 110 409 118 HOH WAT . C 3 HOH A 111 410 119 HOH WAT . C 3 HOH A 112 411 121 HOH WAT . C 3 HOH A 113 412 122 HOH WAT . C 3 HOH A 114 413 124 HOH WAT . C 3 HOH A 115 414 126 HOH WAT . C 3 HOH A 116 415 127 HOH WAT . C 3 HOH A 117 416 128 HOH WAT . C 3 HOH A 118 417 129 HOH WAT . C 3 HOH A 119 418 130 HOH WAT . C 3 HOH A 120 419 131 HOH WAT . C 3 HOH A 121 420 132 HOH WAT . C 3 HOH A 122 421 133 HOH WAT . C 3 HOH A 123 422 134 HOH WAT . C 3 HOH A 124 423 135 HOH WAT . C 3 HOH A 125 424 136 HOH WAT . C 3 HOH A 126 425 137 HOH WAT . C 3 HOH A 127 426 138 HOH WAT . C 3 HOH A 128 427 139 HOH WAT . C 3 HOH A 129 428 140 HOH WAT . C 3 HOH A 130 429 141 HOH WAT . C 3 HOH A 131 430 142 HOH WAT . C 3 HOH A 132 431 143 HOH WAT . C 3 HOH A 133 432 144 HOH WAT . C 3 HOH A 134 433 145 HOH WAT . C 3 HOH A 135 434 146 HOH WAT . C 3 HOH A 136 435 147 HOH WAT . C 3 HOH A 137 436 148 HOH WAT . C 3 HOH A 138 437 149 HOH WAT . C 3 HOH A 139 438 150 HOH WAT . C 3 HOH A 140 439 151 HOH WAT . C 3 HOH A 141 440 152 HOH WAT . C 3 HOH A 142 441 154 HOH WAT . C 3 HOH A 143 442 155 HOH WAT . # 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 N SAH . . . B 2 13.238 29.927 91.134 1 50.02 ? N SAH 299 A 1 HETATM 2 C CA SAH . . . B 2 14.088 30.847 92.011 1 49.16 ? CA SAH 299 A 1 HETATM 3 C CB SAH . . . B 2 15.412 31.27 91.528 1 48.15 ? CB SAH 299 A 1 HETATM 4 C CG SAH . . . B 2 16.444 30.272 91.184 1 47.75 ? CG SAH 299 A 1 HETATM 5 S SD SAH . . . B 2 17.458 31.042 89.858 1 43.86 ? SD SAH 299 A 1 HETATM 6 C C SAH . . . B 2 13.274 32.153 92.295 1 50.96 ? C SAH 299 A 1 HETATM 7 O O SAH . . . B 2 12.137 32.292 91.816 1 53.79 ? O SAH 299 A 1 HETATM 8 O OXT SAH . . . B 2 13.884 33.021 93.04 1 49.55 ? OXT SAH 299 A 1 HETATM 9 C C5' SAH . . . B 2 17.572 29.736 88.72 1 46.23 ? C5' SAH 299 A 1 HETATM 10 C C4' SAH . . . B 2 17.828 28.339 89.415 1 46.16 ? C4' SAH 299 A 1 HETATM 11 O O4' SAH . . . B 2 17.917 27.453 88.342 1 47.56 ? O4' SAH 299 A 1 HETATM 12 C C3' SAH . . . B 2 19.15 28.192 90.163 1 46.45 ? C3' SAH 299 A 1 HETATM 13 O O3' SAH . . . B 2 18.887 27.954 91.533 1 45.61 ? O3' SAH 299 A 1 HETATM 14 C C2' SAH . . . B 2 19.811 26.988 89.39 1 48.87 ? C2' SAH 299 A 1 HETATM 15 O O2' SAH . . . B 2 20.607 26.163 90.221 1 50.34 ? O2' SAH 299 A 1 HETATM 16 C C1' SAH . . . B 2 18.588 26.277 88.827 1 48.2 ? C1' SAH 299 A 1 HETATM 17 N N9 SAH . . . B 2 18.834 25.401 87.869 1 48.56 ? N9 SAH 299 A 1 HETATM 18 C C8 SAH . . . B 2 19.606 25.384 86.728 1 49.96 ? C8 SAH 299 A 1 HETATM 19 N N7 SAH . . . B 2 19.56 24.275 86.059 1 52.28 ? N7 SAH 299 A 1 HETATM 20 C C5 SAH . . . B 2 18.668 23.454 86.806 1 51.77 ? C5 SAH 299 A 1 HETATM 21 C C6 SAH . . . B 2 18.196 22.115 86.602 1 53.03 ? C6 SAH 299 A 1 HETATM 22 N N6 SAH . . . B 2 18.564 21.347 85.57 1 55.1 ? N6 SAH 299 A 1 HETATM 23 N N1 SAH . . . B 2 17.313 21.661 87.565 1 52.07 ? N1 SAH 299 A 1 HETATM 24 C C2 SAH . . . B 2 16.91 22.403 88.63 1 50.39 ? C2 SAH 299 A 1 HETATM 25 N N3 SAH . . . B 2 17.344 23.676 88.863 1 51.34 ? N3 SAH 299 A 1 HETATM 26 C C4 SAH . . . B 2 18.212 24.139 87.902 1 50.6 ? C4 SAH 299 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 289 _model_server_stats.encode_time_ms 5 _model_server_stats.element_count 26 #