data_3KVR # _model_server_result.job_id YzY4s79wA1GOTHnPkz8eLw _model_server_result.datetime_utc '2024-10-12 09:25:01' _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 3kvr # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":311}' # _entry.id 3KVR # _exptl.entry_id 3KVR _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 116.115 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2,5-anhydro-4-deoxy-D-erythro-pent-4-enitol _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 90 _cell.angle_gamma 90 _cell.entry_id 3KVR _cell.length_a 82.416 _cell.length_b 82.416 _cell.length_c 258.592 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3KVR _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,E,F,G,H,I,J _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 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 E N N ? 4 H N N # _chem_comp.formula 'C5 H8 O3' _chem_comp.formula_weight 116.115 _chem_comp.id R2G _chem_comp.mon_nstd_flag . _chem_comp.name 2,5-anhydro-4-deoxy-D-erythro-pent-4-enitol _chem_comp.type l-saccharide _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 O3 C3 R2G sing 277 n n C5 C4 R2G sing 278 n n C5 O5 R2G sing 279 n n C4 C3 R2G sing 280 n n C4 O4 R2G sing 281 n n C3 C2 R2G sing 282 n n C2 C1 R2G doub 283 n n O4 C1 R2G sing 284 n n C1 H1 R2G sing 285 n n C2 H2 R2G sing 286 n n C3 H3 R2G sing 287 n n O3 HO3 R2G sing 288 n n C4 H4 R2G sing 289 n n C5 H51 R2G sing 290 n n C5 H52 R2G sing 291 n n O5 HO5 R2G sing 292 n n # _atom_sites.entry_id 3KVR _atom_sites.fract_transf_matrix[1][1] 0.012134 _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] 0.012134 _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] 0.003867 _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 URF A 1 2001 2001 URF URF . D 3 SO4 A 1 310 310 SO4 SO4 . E 4 R2G A 1 311 311 R2G R2G . F 2 URF B 1 2011 2011 URF URF . G 3 SO4 B 1 310 310 SO4 SO4 . H 4 R2G B 1 311 311 R2G R2G . I 5 HOH A 1 312 312 HOH HOH . I 5 HOH A 2 313 313 HOH HOH . I 5 HOH A 3 314 314 HOH HOH . I 5 HOH A 4 315 315 HOH HOH . I 5 HOH A 5 316 316 HOH HOH . I 5 HOH A 6 317 317 HOH HOH . I 5 HOH A 7 318 318 HOH HOH . I 5 HOH A 8 319 319 HOH HOH . I 5 HOH A 9 320 320 HOH HOH . I 5 HOH A 10 321 321 HOH HOH . I 5 HOH A 11 322 322 HOH HOH . I 5 HOH A 12 323 323 HOH HOH . I 5 HOH A 13 324 324 HOH HOH . I 5 HOH A 14 325 325 HOH HOH . I 5 HOH A 15 326 326 HOH HOH . I 5 HOH A 16 327 327 HOH HOH . I 5 HOH A 17 328 328 HOH HOH . I 5 HOH A 18 329 329 HOH HOH . I 5 HOH A 19 330 330 HOH HOH . I 5 HOH A 20 331 331 HOH HOH . I 5 HOH A 21 332 332 HOH HOH . I 5 HOH A 22 333 333 HOH HOH . I 5 HOH A 23 334 334 HOH HOH . I 5 HOH A 24 335 335 HOH HOH . I 5 HOH A 25 336 336 HOH HOH . I 5 HOH A 26 337 337 HOH HOH . I 5 HOH A 27 338 338 HOH HOH . I 5 HOH A 28 339 339 HOH HOH . I 5 HOH A 29 340 340 HOH HOH . I 5 HOH A 30 341 341 HOH HOH . I 5 HOH A 31 342 342 HOH HOH . I 5 HOH A 32 343 343 HOH HOH . I 5 HOH A 33 344 344 HOH HOH . I 5 HOH A 34 345 345 HOH HOH . I 5 HOH A 35 346 346 HOH HOH . I 5 HOH A 36 347 347 HOH HOH . I 5 HOH A 37 348 348 HOH HOH . I 5 HOH A 38 349 349 HOH HOH . I 5 HOH A 39 350 350 HOH HOH . I 5 HOH A 40 351 351 HOH HOH . I 5 HOH A 41 352 352 HOH HOH . I 5 HOH A 42 353 353 HOH HOH . I 5 HOH A 43 354 354 HOH HOH . I 5 HOH A 44 355 355 HOH HOH . I 5 HOH A 45 356 356 HOH HOH . I 5 HOH A 46 357 357 HOH HOH . I 5 HOH A 47 358 358 HOH HOH . I 5 HOH A 48 359 359 HOH HOH . I 5 HOH A 49 360 360 HOH HOH . I 5 HOH A 50 361 361 HOH HOH . I 5 HOH A 51 362 362 HOH HOH . I 5 HOH A 52 363 363 HOH HOH . I 5 HOH A 53 364 364 HOH HOH . I 5 HOH A 54 365 365 HOH HOH . I 5 HOH A 55 366 366 HOH HOH . I 5 HOH A 56 367 367 HOH HOH . I 5 HOH A 57 368 368 HOH HOH . I 5 HOH A 58 369 369 HOH HOH . I 5 HOH A 59 370 370 HOH HOH . I 5 HOH A 60 371 371 HOH HOH . I 5 HOH A 61 372 372 HOH HOH . I 5 HOH A 62 373 373 HOH HOH . I 5 HOH A 63 374 374 HOH HOH . J 5 HOH B 1 312 312 HOH HOH . J 5 HOH B 2 313 313 HOH HOH . J 5 HOH B 3 314 314 HOH HOH . J 5 HOH B 4 315 315 HOH HOH . J 5 HOH B 5 316 316 HOH HOH . J 5 HOH B 6 317 317 HOH HOH . J 5 HOH B 7 318 318 HOH HOH . J 5 HOH B 8 319 319 HOH HOH . J 5 HOH B 9 320 320 HOH HOH . J 5 HOH B 10 321 321 HOH HOH . J 5 HOH B 11 322 322 HOH HOH . J 5 HOH B 12 323 323 HOH HOH . J 5 HOH B 13 324 324 HOH HOH . J 5 HOH B 14 325 325 HOH HOH . J 5 HOH B 15 326 326 HOH HOH . J 5 HOH B 16 327 327 HOH HOH . J 5 HOH B 17 328 328 HOH HOH . J 5 HOH B 18 329 329 HOH HOH . J 5 HOH B 19 330 330 HOH HOH . J 5 HOH B 20 331 331 HOH HOH . J 5 HOH B 21 332 332 HOH HOH . J 5 HOH B 22 333 333 HOH HOH . J 5 HOH B 23 334 334 HOH HOH . J 5 HOH B 24 335 335 HOH HOH . J 5 HOH B 25 336 336 HOH HOH . J 5 HOH B 26 337 337 HOH HOH . J 5 HOH B 27 338 338 HOH HOH . J 5 HOH B 28 339 339 HOH HOH . J 5 HOH B 29 340 340 HOH HOH . J 5 HOH B 30 341 341 HOH HOH . J 5 HOH B 31 342 342 HOH HOH . J 5 HOH B 32 343 343 HOH HOH . J 5 HOH B 33 344 344 HOH HOH . J 5 HOH B 34 345 345 HOH HOH . J 5 HOH B 35 346 346 HOH HOH . J 5 HOH B 36 347 347 HOH HOH . J 5 HOH B 37 348 348 HOH HOH . J 5 HOH B 38 349 349 HOH HOH . J 5 HOH B 39 350 350 HOH HOH . J 5 HOH B 40 351 351 HOH HOH . J 5 HOH B 41 352 352 HOH HOH . J 5 HOH B 42 353 353 HOH HOH . J 5 HOH B 43 354 354 HOH HOH . J 5 HOH B 44 355 355 HOH HOH . J 5 HOH B 45 356 356 HOH HOH . J 5 HOH B 46 357 357 HOH HOH . J 5 HOH B 47 358 358 HOH HOH . J 5 HOH B 48 359 359 HOH HOH . J 5 HOH B 49 360 360 HOH HOH . J 5 HOH B 50 361 361 HOH HOH . J 5 HOH B 51 362 362 HOH HOH . J 5 HOH B 52 363 363 HOH HOH . J 5 HOH B 53 364 364 HOH HOH . J 5 HOH B 54 365 365 HOH HOH . J 5 HOH B 55 366 366 HOH HOH . J 5 HOH B 56 367 367 HOH HOH . J 5 HOH B 57 375 375 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 C C1 R2G . . . H 4 5.305 41.605 -144.639 1 45.3 ? C1 R2G 311 B 1 HETATM 2 C C2 R2G . . . H 4 4.346 41.116 -143.812 1 44.88 ? C2 R2G 311 B 1 HETATM 3 C C3 R2G . . . H 4 4.299 42.239 -142.687 1 42.77 ? C3 R2G 311 B 1 HETATM 4 O O3 R2G . . . H 4 3.937 41.667 -141.462 1 40.21 ? O3 R2G 311 B 1 HETATM 5 C C4 R2G . . . H 4 5.785 42.618 -142.72 1 41.57 ? C4 R2G 311 B 1 HETATM 6 O O4 R2G . . . H 4 5.773 42.862 -144.162 1 42.14 ? O4 R2G 311 B 1 HETATM 7 C C5 R2G . . . H 4 6.596 43.645 -141.925 1 40.57 ? C5 R2G 311 B 1 HETATM 8 O O5 R2G . . . H 4 7.35 44.533 -142.8 1 39.56 ? O5 R2G 311 B 1 # _model_server_stats.io_time_ms 8 _model_server_stats.parse_time_ms 7 _model_server_stats.create_model_time_ms 21 _model_server_stats.query_time_ms 286 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 8 #