data_3GO7 # _model_server_result.job_id Kd5LPoyPN1PbOD1pejQ-lw _model_server_result.datetime_utc '2024-11-14 23:55:44' _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 3go7 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"C","auth_seq_id":305}' # _entry.id 3GO7 # _exptl.entry_id 3GO7 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 150.13 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description alpha-D-ribofuranose _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 115 _cell.angle_gamma 90 _cell.entry_id 3GO7 _cell.length_a 79.025 _cell.length_b 119.207 _cell.length_c 89.768 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3GO7 _symmetry.cell_setting ? _symmetry.Int_Tables_number 5 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'C 1 2 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 dimeric 2 author_and_software_defined_assembly 1 PISA tetrameric 4 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,D,F 1 1 B,E,G 1 2 A,B,C,D,E,F,G 2 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' 2_555 -x,y,-z -1 0 0 0 1 0 0 0 -1 0 0 0 # _struct_asym.details ? _struct_asym.entity_id 2 _struct_asym.id C _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 O ASP 242 A ASP 236 1_555 D MG MG . A MG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.787 ? metalc ? metalc2 A O ALA 244 A ALA 238 1_555 D MG MG . A MG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.671 ? metalc ? metalc3 A O ALA 282 A ALA 276 1_555 D MG MG . A MG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.857 ? metalc ? metalc4 A O VAL 285 A VAL 279 1_555 D MG MG . A MG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.736 ? metalc ? metalc5 A O GLY 287 A GLY 281 1_555 D MG MG . A MG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.755 ? metalc ? metalc6 B O ASP 242 B ASP 236 1_555 E MG MG . B MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.762 ? metalc ? metalc7 B O ALA 244 B ALA 238 1_555 E MG MG . B MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? metalc ? metalc8 B O ALA 282 B ALA 276 1_555 E MG MG . B MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.524 ? metalc ? metalc9 B O VAL 285 B VAL 279 1_555 E MG MG . B MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.625 ? metalc ? metalc10 B O GLY 287 B GLY 281 1_555 E MG MG . B MG 305 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.88 ? # _chem_comp.formula 'C5 H10 O5' _chem_comp.formula_weight 150.13 _chem_comp.id RIB _chem_comp.mon_nstd_flag . _chem_comp.name alpha-D-ribofuranose _chem_comp.type 'd-saccharide, alpha linking' _chem_comp.pdbx_synonyms alpha-D-ribose;D-ribose;ribose # 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 RIB sing 277 n n O5 HO5 RIB sing 278 n n C5 C4 RIB sing 279 n n C5 H51 RIB sing 280 n n C5 H52 RIB sing 281 n n C4 O4 RIB sing 282 n n C4 C3 RIB sing 283 n n C4 H4 RIB sing 284 n n O4 C1 RIB sing 285 n n C3 O3 RIB sing 286 n n C3 C2 RIB sing 287 n n C3 H3 RIB sing 288 n n O3 HO3 RIB sing 289 n n C2 O2 RIB sing 290 n n C2 C1 RIB sing 291 n n C2 H2 RIB sing 292 n n O2 HO2 RIB sing 293 n n C1 O1 RIB sing 294 n n C1 H1 RIB sing 295 n n O1 HO1 RIB sing 296 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version RIB DRibfa 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 RIB a-D-ribofuranose 'COMMON NAME' GMML 1 RIB a-D-Ribf 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 RIB Rib 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 3GO7 _atom_sites.fract_transf_matrix[1][1] 0.012654 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005901 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.008389 _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] 0.012291 _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 RIB A 1 305 301 RIB RIB . D 3 MG A 1 306 302 MG MG . E 3 MG B 1 305 301 MG MG . F 4 HOH A 1 307 1 HOH HOH . F 4 HOH A 2 308 2 HOH HOH . F 4 HOH A 3 309 3 HOH HOH . F 4 HOH A 4 310 6 HOH HOH . F 4 HOH A 5 311 10 HOH HOH . F 4 HOH A 6 312 12 HOH HOH . F 4 HOH A 7 313 14 HOH HOH . F 4 HOH A 8 314 15 HOH HOH . F 4 HOH A 9 315 17 HOH HOH . F 4 HOH A 10 316 18 HOH HOH . F 4 HOH A 11 317 19 HOH HOH . F 4 HOH A 12 318 22 HOH HOH . F 4 HOH A 13 319 27 HOH HOH . F 4 HOH A 14 320 29 HOH HOH . F 4 HOH A 15 321 30 HOH HOH . F 4 HOH A 16 322 31 HOH HOH . F 4 HOH A 17 323 34 HOH HOH . F 4 HOH A 18 324 36 HOH HOH . F 4 HOH A 19 325 38 HOH HOH . F 4 HOH A 20 326 42 HOH HOH . F 4 HOH A 21 327 44 HOH HOH . F 4 HOH A 22 328 46 HOH HOH . F 4 HOH A 23 329 47 HOH HOH . F 4 HOH A 24 330 48 HOH HOH . F 4 HOH A 25 331 51 HOH HOH . F 4 HOH A 26 332 52 HOH HOH . F 4 HOH A 27 333 54 HOH HOH . F 4 HOH A 28 334 55 HOH HOH . F 4 HOH A 29 335 58 HOH HOH . F 4 HOH A 30 336 59 HOH HOH . F 4 HOH A 31 337 62 HOH HOH . F 4 HOH A 32 338 67 HOH HOH . F 4 HOH A 33 339 68 HOH HOH . F 4 HOH A 34 340 73 HOH HOH . F 4 HOH A 35 341 77 HOH HOH . F 4 HOH A 36 342 82 HOH HOH . F 4 HOH A 37 343 83 HOH HOH . F 4 HOH A 38 344 84 HOH HOH . F 4 HOH A 39 345 85 HOH HOH . F 4 HOH A 40 346 87 HOH HOH . F 4 HOH A 41 347 91 HOH HOH . F 4 HOH A 42 348 92 HOH HOH . F 4 HOH A 43 349 96 HOH HOH . F 4 HOH A 44 350 97 HOH HOH . F 4 HOH A 45 351 98 HOH HOH . F 4 HOH A 46 352 101 HOH HOH . F 4 HOH A 47 353 103 HOH HOH . F 4 HOH A 48 354 105 HOH HOH . F 4 HOH A 49 355 107 HOH HOH . F 4 HOH A 50 356 109 HOH HOH . F 4 HOH A 51 357 110 HOH HOH . F 4 HOH A 52 358 111 HOH HOH . F 4 HOH A 53 359 112 HOH HOH . F 4 HOH A 54 360 114 HOH HOH . F 4 HOH A 55 361 115 HOH HOH . F 4 HOH A 56 362 117 HOH HOH . F 4 HOH A 57 363 118 HOH HOH . F 4 HOH A 58 364 119 HOH HOH . F 4 HOH A 59 365 120 HOH HOH . F 4 HOH A 60 366 121 HOH HOH . F 4 HOH A 61 367 122 HOH HOH . F 4 HOH A 62 368 123 HOH HOH . F 4 HOH A 63 369 125 HOH HOH . F 4 HOH A 64 370 126 HOH HOH . F 4 HOH A 65 371 127 HOH HOH . F 4 HOH A 66 372 128 HOH HOH . F 4 HOH A 67 373 130 HOH HOH . F 4 HOH A 68 374 135 HOH HOH . F 4 HOH A 69 375 136 HOH HOH . F 4 HOH A 70 376 138 HOH HOH . F 4 HOH A 71 377 141 HOH HOH . F 4 HOH A 72 378 143 HOH HOH . F 4 HOH A 73 379 146 HOH HOH . F 4 HOH A 74 380 149 HOH HOH . F 4 HOH A 75 381 151 HOH HOH . F 4 HOH A 76 382 152 HOH HOH . F 4 HOH A 77 383 154 HOH HOH . F 4 HOH A 78 384 155 HOH HOH . F 4 HOH A 79 385 156 HOH HOH . F 4 HOH A 80 386 163 HOH HOH . F 4 HOH A 81 387 164 HOH HOH . F 4 HOH A 82 388 165 HOH HOH . F 4 HOH A 83 389 169 HOH HOH . F 4 HOH A 84 390 173 HOH HOH . F 4 HOH A 85 391 175 HOH HOH . F 4 HOH A 86 392 176 HOH HOH . F 4 HOH A 87 393 178 HOH HOH . F 4 HOH A 88 394 179 HOH HOH . F 4 HOH A 89 395 181 HOH HOH . F 4 HOH A 90 396 182 HOH HOH . F 4 HOH A 91 397 183 HOH HOH . F 4 HOH A 92 398 186 HOH HOH . F 4 HOH A 93 399 189 HOH HOH . F 4 HOH A 94 400 191 HOH HOH . F 4 HOH A 95 401 193 HOH HOH . F 4 HOH A 96 402 194 HOH HOH . F 4 HOH A 97 403 195 HOH HOH . F 4 HOH A 98 404 197 HOH HOH . F 4 HOH A 99 405 202 HOH HOH . F 4 HOH A 100 406 203 HOH HOH . F 4 HOH A 101 407 206 HOH HOH . F 4 HOH A 102 408 208 HOH HOH . F 4 HOH A 103 409 210 HOH HOH . F 4 HOH A 104 410 213 HOH HOH . F 4 HOH A 105 411 215 HOH HOH . F 4 HOH A 106 412 216 HOH HOH . F 4 HOH A 107 413 217 HOH HOH . F 4 HOH A 108 414 219 HOH HOH . F 4 HOH A 109 415 222 HOH HOH . F 4 HOH A 110 416 225 HOH HOH . F 4 HOH A 111 417 226 HOH HOH . F 4 HOH A 112 418 229 HOH HOH . F 4 HOH A 113 419 230 HOH HOH . G 4 HOH B 1 306 4 HOH HOH . G 4 HOH B 2 307 5 HOH HOH . G 4 HOH B 3 308 7 HOH HOH . G 4 HOH B 4 309 8 HOH HOH . G 4 HOH B 5 310 9 HOH HOH . G 4 HOH B 6 311 11 HOH HOH . G 4 HOH B 7 312 13 HOH HOH . G 4 HOH B 8 313 16 HOH HOH . G 4 HOH B 9 314 20 HOH HOH . G 4 HOH B 10 315 21 HOH HOH . G 4 HOH B 11 316 23 HOH HOH . G 4 HOH B 12 317 24 HOH HOH . G 4 HOH B 13 318 25 HOH HOH . G 4 HOH B 14 319 26 HOH HOH . G 4 HOH B 15 320 28 HOH HOH . G 4 HOH B 16 321 32 HOH HOH . G 4 HOH B 17 322 33 HOH HOH . G 4 HOH B 18 323 35 HOH HOH . G 4 HOH B 19 324 37 HOH HOH . G 4 HOH B 20 325 39 HOH HOH . G 4 HOH B 21 326 40 HOH HOH . G 4 HOH B 22 327 41 HOH HOH . G 4 HOH B 23 328 43 HOH HOH . G 4 HOH B 24 329 45 HOH HOH . G 4 HOH B 25 330 49 HOH HOH . G 4 HOH B 26 331 50 HOH HOH . G 4 HOH B 27 332 53 HOH HOH . G 4 HOH B 28 333 56 HOH HOH . G 4 HOH B 29 334 60 HOH HOH . G 4 HOH B 30 335 61 HOH HOH . G 4 HOH B 31 336 63 HOH HOH . G 4 HOH B 32 337 64 HOH HOH . G 4 HOH B 33 338 65 HOH HOH . G 4 HOH B 34 339 69 HOH HOH . G 4 HOH B 35 340 70 HOH HOH . G 4 HOH B 36 341 71 HOH HOH . G 4 HOH B 37 342 72 HOH HOH . G 4 HOH B 38 343 74 HOH HOH . G 4 HOH B 39 344 75 HOH HOH . G 4 HOH B 40 345 76 HOH HOH . G 4 HOH B 41 346 78 HOH HOH . G 4 HOH B 42 347 79 HOH HOH . G 4 HOH B 43 348 80 HOH HOH . G 4 HOH B 44 349 81 HOH HOH . G 4 HOH B 45 350 86 HOH HOH . G 4 HOH B 46 351 88 HOH HOH . G 4 HOH B 47 352 89 HOH HOH . G 4 HOH B 48 353 90 HOH HOH . G 4 HOH B 49 354 93 HOH HOH . G 4 HOH B 50 355 94 HOH HOH . G 4 HOH B 51 356 95 HOH HOH . G 4 HOH B 52 357 99 HOH HOH . G 4 HOH B 53 358 100 HOH HOH . G 4 HOH B 54 359 102 HOH HOH . G 4 HOH B 55 360 104 HOH HOH . G 4 HOH B 56 361 106 HOH HOH . G 4 HOH B 57 362 108 HOH HOH . G 4 HOH B 58 363 113 HOH HOH . G 4 HOH B 59 364 116 HOH HOH . G 4 HOH B 60 365 124 HOH HOH . G 4 HOH B 61 366 129 HOH HOH . G 4 HOH B 62 367 131 HOH HOH . G 4 HOH B 63 368 132 HOH HOH . G 4 HOH B 64 369 133 HOH HOH . G 4 HOH B 65 370 134 HOH HOH . G 4 HOH B 66 371 137 HOH HOH . G 4 HOH B 67 372 139 HOH HOH . G 4 HOH B 68 373 140 HOH HOH . G 4 HOH B 69 374 142 HOH HOH . G 4 HOH B 70 375 144 HOH HOH . G 4 HOH B 71 376 145 HOH HOH . G 4 HOH B 72 377 147 HOH HOH . G 4 HOH B 73 378 148 HOH HOH . G 4 HOH B 74 379 150 HOH HOH . G 4 HOH B 75 380 153 HOH HOH . G 4 HOH B 76 381 157 HOH HOH . G 4 HOH B 77 382 158 HOH HOH . G 4 HOH B 78 383 159 HOH HOH . G 4 HOH B 79 384 160 HOH HOH . G 4 HOH B 80 385 161 HOH HOH . G 4 HOH B 81 386 162 HOH HOH . G 4 HOH B 82 387 166 HOH HOH . G 4 HOH B 83 388 167 HOH HOH . G 4 HOH B 84 389 168 HOH HOH . G 4 HOH B 85 390 170 HOH HOH . G 4 HOH B 86 391 171 HOH HOH . G 4 HOH B 87 392 172 HOH HOH . G 4 HOH B 88 393 174 HOH HOH . G 4 HOH B 89 394 177 HOH HOH . G 4 HOH B 90 395 180 HOH HOH . G 4 HOH B 91 396 184 HOH HOH . G 4 HOH B 92 397 185 HOH HOH . G 4 HOH B 93 398 187 HOH HOH . G 4 HOH B 94 399 188 HOH HOH . G 4 HOH B 95 400 190 HOH HOH . G 4 HOH B 96 401 192 HOH HOH . G 4 HOH B 97 402 196 HOH HOH . G 4 HOH B 98 403 198 HOH HOH . G 4 HOH B 99 404 199 HOH HOH . G 4 HOH B 100 405 200 HOH HOH . G 4 HOH B 101 406 201 HOH HOH . G 4 HOH B 102 407 204 HOH HOH . G 4 HOH B 103 408 205 HOH HOH . G 4 HOH B 104 409 207 HOH HOH . G 4 HOH B 105 410 209 HOH HOH . G 4 HOH B 106 411 211 HOH HOH . G 4 HOH B 107 412 212 HOH HOH . G 4 HOH B 108 413 214 HOH HOH . G 4 HOH B 109 414 218 HOH HOH . G 4 HOH B 110 415 220 HOH HOH . G 4 HOH B 111 416 221 HOH HOH . G 4 HOH B 112 417 223 HOH HOH . G 4 HOH B 113 418 224 HOH HOH . G 4 HOH B 114 419 227 HOH HOH . G 4 HOH B 115 420 228 HOH HOH . G 4 HOH B 116 421 231 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 RIB . . . C 2 22.363 5.571 5.895 1 32.86 ? O5 RIB 305 A 1 HETATM 2 C C5 RIB . . . C 2 21.762 4.455 5.204 1 35.26 ? C5 RIB 305 A 1 HETATM 3 C C4 RIB . . . C 2 20.23 4.614 5.294 1 34.32 ? C4 RIB 305 A 1 HETATM 4 O O4 RIB . . . C 2 19.788 5.705 4.491 1 35.17 ? O4 RIB 305 A 1 HETATM 5 C C3 RIB . . . C 2 19.425 3.429 4.799 1 33.05 ? C3 RIB 305 A 1 HETATM 6 O O3 RIB . . . C 2 19.049 2.602 5.899 1 32.32 ? O3 RIB 305 A 1 HETATM 7 C C2 RIB . . . C 2 18.22 4.038 4.071 1 33.13 ? C2 RIB 305 A 1 HETATM 8 O O2 RIB . . . C 2 16.933 3.686 4.599 1 31.04 ? O2 RIB 305 A 1 HETATM 9 C C1 RIB . . . C 2 18.437 5.535 4.072 1 32.13 ? C1 RIB 305 A 1 HETATM 10 O O1 RIB . . . C 2 17.573 6.205 4.987 1 32.42 ? O1 RIB 305 A 1 # _model_server_stats.io_time_ms 36 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 321 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 10 #