data_1RKS
#
_model_server_result.job_id            PNAr5q70s7Koa2lZUGeFlw 
_model_server_result.datetime_utc      '2024-11-24 14:54:31' 
_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          1rks 
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_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"B","auth_seq_id":311}' 
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_entry.id    1RKS 
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_exptl.entry_id    1RKS 
_exptl.method      'X-RAY DIFFRACTION' 
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_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                     ? 
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_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         120 
_cell.entry_id            1RKS 
_cell.length_a            95.21 
_cell.length_b            95.21 
_cell.length_c            154.46 
_cell.Z_PDB               12 
_cell.pdbx_unique_axis    ? 
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_symmetry.entry_id                 1RKS 
_symmetry.cell_setting             hexagonal 
_symmetry.Int_Tables_number        178 
_symmetry.space_group_name_Hall    . 
_symmetry.space_group_name_H-M     'P 61 2 2' 
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_pdbx_struct_assembly.method_details        PISA,PQS 
_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 
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_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E 
_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' 9_555 -x,-x+y,-z+2/3 -0.5 -0.866025 0 -0.866025 0.5 0 0 0 -1 0 0 102.973333 
#
_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           '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 281 n n 
O5 HO5 RIB sing 282 n n 
C5 C4 RIB sing 283 n n 
C5 H51 RIB sing 284 n n 
C5 H52 RIB sing 285 n n 
C4 O4 RIB sing 286 n n 
C4 C3 RIB sing 287 n n 
C4 H4 RIB sing 288 n n 
O4 C1 RIB sing 289 n n 
C3 O3 RIB sing 290 n n 
C3 C2 RIB sing 291 n n 
C3 H3 RIB sing 292 n n 
O3 HO3 RIB sing 293 n n 
C2 O2 RIB sing 294 n n 
C2 C1 RIB sing 295 n n 
C2 H2 RIB sing 296 n n 
O2 HO2 RIB sing 297 n n 
C1 O1 RIB sing 298 n n 
C1 H1 RIB sing 299 n n 
O1 HO1 RIB sing 300 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                     1RKS 
_atom_sites.fract_transf_matrix[1][1]    0.010503 
_atom_sites.fract_transf_matrix[1][2]    0.006064 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.012128 
_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]    0.006474 
_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 RIB A 1 311 311 RIB RIB . 
C 3 PO4 A 1 312 312 PO4 PO4 . 
D 3 PO4 A 1 313 313 PO4 PO4 . 
E 4 HOH A 1 314 314 HOH HOH . 
E 4 HOH A 2 315 315 HOH HOH . 
E 4 HOH A 3 316 316 HOH HOH . 
E 4 HOH A 4 317 317 HOH HOH . 
E 4 HOH A 5 318 318 HOH HOH . 
E 4 HOH A 6 319 319 HOH HOH . 
E 4 HOH A 7 320 320 HOH HOH . 
E 4 HOH A 8 321 321 HOH HOH . 
E 4 HOH A 9 322 322 HOH HOH . 
E 4 HOH A 10 323 323 HOH HOH . 
E 4 HOH A 11 324 324 HOH HOH . 
E 4 HOH A 12 325 325 HOH HOH . 
E 4 HOH A 13 326 326 HOH HOH . 
E 4 HOH A 14 327 327 HOH HOH . 
E 4 HOH A 15 328 328 HOH HOH . 
E 4 HOH A 16 329 329 HOH HOH . 
E 4 HOH A 17 330 330 HOH HOH . 
E 4 HOH A 18 331 331 HOH HOH . 
E 4 HOH A 19 332 332 HOH HOH . 
E 4 HOH A 20 333 333 HOH HOH . 
E 4 HOH A 21 334 334 HOH HOH . 
E 4 HOH A 22 335 335 HOH HOH . 
E 4 HOH A 23 336 336 HOH HOH . 
E 4 HOH A 24 337 337 HOH HOH . 
E 4 HOH A 25 338 338 HOH HOH . 
E 4 HOH A 26 339 339 HOH HOH . 
E 4 HOH A 27 340 340 HOH HOH . 
E 4 HOH A 28 341 341 HOH HOH . 
E 4 HOH A 29 342 342 HOH HOH . 
E 4 HOH A 30 343 343 HOH HOH . 
E 4 HOH A 31 344 344 HOH HOH . 
E 4 HOH A 32 345 345 HOH HOH . 
E 4 HOH A 33 346 346 HOH HOH . 
E 4 HOH A 34 347 347 HOH HOH . 
E 4 HOH A 35 348 348 HOH HOH . 
E 4 HOH A 36 349 349 HOH HOH . 
E 4 HOH A 37 350 350 HOH HOH . 
E 4 HOH A 38 351 351 HOH HOH . 
E 4 HOH A 39 352 352 HOH HOH . 
E 4 HOH A 40 353 353 HOH HOH . 
E 4 HOH A 41 354 354 HOH HOH . 
E 4 HOH A 42 355 355 HOH HOH . 
E 4 HOH A 43 356 356 HOH HOH . 
E 4 HOH A 44 357 357 HOH HOH . 
E 4 HOH A 45 358 358 HOH HOH . 
E 4 HOH A 46 359 359 HOH HOH . 
E 4 HOH A 47 360 360 HOH HOH . 
E 4 HOH A 48 361 361 HOH HOH . 
E 4 HOH A 49 362 362 HOH HOH . 
E 4 HOH A 50 363 363 HOH HOH . 
E 4 HOH A 51 364 364 HOH HOH . 
E 4 HOH A 52 365 365 HOH HOH . 
E 4 HOH A 53 366 366 HOH HOH . 
E 4 HOH A 54 367 367 HOH HOH . 
E 4 HOH A 55 368 368 HOH HOH . 
E 4 HOH A 56 369 369 HOH HOH . 
E 4 HOH A 57 370 370 HOH HOH . 
E 4 HOH A 58 371 371 HOH HOH . 
E 4 HOH A 59 372 372 HOH HOH . 
E 4 HOH A 60 373 373 HOH HOH . 
E 4 HOH A 61 374 374 HOH HOH . 
E 4 HOH A 62 375 375 HOH HOH . 
E 4 HOH A 63 376 376 HOH HOH . 
E 4 HOH A 64 377 377 HOH HOH . 
E 4 HOH A 65 378 378 HOH HOH . 
E 4 HOH A 66 379 379 HOH HOH . 
E 4 HOH A 67 380 380 HOH HOH . 
E 4 HOH A 68 381 381 HOH HOH . 
E 4 HOH A 69 382 382 HOH HOH . 
E 4 HOH A 70 383 383 HOH HOH . 
E 4 HOH A 71 384 384 HOH HOH . 
E 4 HOH A 72 385 385 HOH HOH . 
E 4 HOH A 73 386 386 HOH HOH . 
E 4 HOH A 74 387 387 HOH HOH . 
E 4 HOH A 75 388 388 HOH HOH . 
E 4 HOH A 76 389 389 HOH HOH . 
E 4 HOH A 77 390 390 HOH HOH . 
E 4 HOH A 78 391 391 HOH HOH . 
E 4 HOH A 79 392 392 HOH HOH . 
E 4 HOH A 80 393 393 HOH HOH . 
E 4 HOH A 81 394 394 HOH HOH . 
E 4 HOH A 82 395 395 HOH HOH . 
E 4 HOH A 83 396 396 HOH HOH . 
E 4 HOH A 84 397 397 HOH HOH . 
E 4 HOH A 85 398 398 HOH HOH . 
E 4 HOH A 86 399 399 HOH HOH . 
E 4 HOH A 87 400 400 HOH HOH . 
E 4 HOH A 88 401 401 HOH HOH . 
E 4 HOH A 89 402 402 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 . . . B 2 -22.517 14.744 43.002 1 43.15 ? O5 RIB 311 A 1 
HETATM 2 C C5 RIB . . . B 2 -21.895 14.257 44.197 1 43.68 ? C5 RIB 311 A 1 
HETATM 3 C C4 RIB . . . B 2 -20.398 14.03 43.829 1 43.81 ? C4 RIB 311 A 1 
HETATM 4 O O4 RIB . . . B 2 -19.918 15.245 43.193 1 43.96 ? O4 RIB 311 A 1 
HETATM 5 C C3 RIB . . . B 2 -19.476 13.763 45.005 1 43.55 ? C3 RIB 311 A 1 
HETATM 6 O O3 RIB . . . B 2 -19.476 12.352 45.291 1 44.18 ? O3 RIB 311 A 1 
HETATM 7 C C2 RIB . . . B 2 -18.153 14.365 44.556 1 43.72 ? C2 RIB 311 A 1 
HETATM 8 O O2 RIB . . . B 2 -17.132 13.414 44.253 1 42.41 ? O2 RIB 311 A 1 
HETATM 9 C C1 RIB . . . B 2 -18.514 15.222 43.322 1 44.04 ? C1 RIB 311 A 1 
HETATM 10 O O1 RIB . . . B 2 -18.191 14.645 42.077 1 45.04 ? O1 RIB 311 A 1 
#
_model_server_stats.io_time_ms              9 
_model_server_stats.parse_time_ms           8 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           424 
_model_server_stats.encode_time_ms          19 
_model_server_stats.element_count           10 
#