data_2JF3 # _model_server_result.job_id DEgWsoAtRa1DCPyP2MawsQ _model_server_result.datetime_utc '2024-11-15 03:48:06' _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 2jf3 # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":1263}' # _entry.id 2JF3 # _exptl.entry_id 2JF3 _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 607.354 _entity.id 2 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE _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 2JF3 _cell.length_a 97.74 _cell.length_b 97.74 _cell.length_c 97.74 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 2JF3 _symmetry.cell_setting ? _symmetry.Int_Tables_number 198 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 21 3' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details trimeric _pdbx_struct_assembly.oligomeric_count 3 _pdbx_struct_assembly.details author_and_software_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 1,2,3 # 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 y,z,x 0 1 0 0 0 1 1 0 0 0 0 0 3 'crystal symmetry operation' 5_555 z,x,y 0 0 1 1 0 0 0 1 0 0 0 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 'C17 H27 N3 O17 P2' _chem_comp.formula_weight 607.354 _chem_comp.id UD1 _chem_comp.mon_nstd_flag . _chem_comp.name URIDINE-DIPHOSPHATE-N-ACETYLGLUCOSAMINE _chem_comp.type non-polymer _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 C1' C2' UD1 sing 330 n n C1' O1' UD1 sing 331 n n C1' O5' UD1 sing 332 n n C1' H1' UD1 sing 333 n n C2' C3' UD1 sing 334 n n C2' N2' UD1 sing 335 n n C2' H2' UD1 sing 336 n n C3' C4' UD1 sing 337 n n C3' O3' UD1 sing 338 n n C3' H3' UD1 sing 339 n n C4' C5' UD1 sing 340 n n C4' O4' UD1 sing 341 n n C4' H4' UD1 sing 342 n n C5' C6' UD1 sing 343 n n C5' O5' UD1 sing 344 n n C5' H5' UD1 sing 345 n n C6' O6' UD1 sing 346 n n C6' "H6'1" UD1 sing 347 n n C6' "H6'2" UD1 sing 348 n n C7' C8' UD1 sing 349 n n C7' N2' UD1 sing 350 n n C7' O7' UD1 doub 351 n n C8' "H8'1" UD1 sing 352 n n C8' "H8'2" UD1 sing 353 n n C8' "H8'3" UD1 sing 354 n n N2' HN2' UD1 sing 355 n n O1' PB UD1 sing 356 n n O3' HO3' UD1 sing 357 n n O4' HO4' UD1 sing 358 n n O6' HO6' UD1 sing 359 n n N1 C2 UD1 sing 360 n n N1 C6 UD1 sing 361 n n N1 C1B UD1 sing 362 n n C2 N3 UD1 sing 363 n n C2 O2 UD1 doub 364 n n N3 C4 UD1 sing 365 n n N3 HN3 UD1 sing 366 n n C4 C5 UD1 sing 367 n n C4 O4 UD1 doub 368 n n C5 C6 UD1 doub 369 n n C5 H5 UD1 sing 370 n n C6 H6 UD1 sing 371 n n C1B C2B UD1 sing 372 n n C1B O4B UD1 sing 373 n n C1B H1B UD1 sing 374 n n C2B O2' UD1 sing 375 n n C2B C3B UD1 sing 376 n n C2B H2B UD1 sing 377 n n O2' HO2' UD1 sing 378 n n C3B C4B UD1 sing 379 n n C3B O3B UD1 sing 380 n n C3B H3B UD1 sing 381 n n C4B O4B UD1 sing 382 n n C4B C5B UD1 sing 383 n n C4B H4B UD1 sing 384 n n O3B HO3A UD1 sing 385 n n C5B O5B UD1 sing 386 n n C5B "H5'1" UD1 sing 387 n n C5B "H5'2" UD1 sing 388 n n O5B PA UD1 sing 389 n n PA O1A UD1 doub 390 n n PA O2A UD1 sing 391 n n PA O3A UD1 sing 392 n n O2A HOA2 UD1 sing 393 n n O3A PB UD1 sing 394 n n PB O1B UD1 doub 395 n n PB O2B UD1 sing 396 n n O2B HOB2 UD1 sing 397 n n # _atom_sites.entry_id 2JF3 _atom_sites.fract_transf_matrix[1][1] 0.010231 _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] 0.010231 _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] 0.010231 _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 UD1 A 1 1263 1263 UD1 UD1 . C 3 HOH A 1 2001 2001 HOH HOH . C 3 HOH A 2 2002 2002 HOH HOH . C 3 HOH A 3 2003 2003 HOH HOH . C 3 HOH A 4 2004 2004 HOH HOH . C 3 HOH A 5 2005 2005 HOH HOH . C 3 HOH A 6 2006 2006 HOH HOH . C 3 HOH A 7 2007 2007 HOH HOH . C 3 HOH A 8 2008 2008 HOH HOH . C 3 HOH A 9 2009 2009 HOH HOH . C 3 HOH A 10 2010 2010 HOH HOH . C 3 HOH A 11 2012 2012 HOH HOH . C 3 HOH A 12 2013 2013 HOH HOH . C 3 HOH A 13 2014 2014 HOH HOH . C 3 HOH A 14 2015 2015 HOH HOH . C 3 HOH A 15 2016 2016 HOH HOH . C 3 HOH A 16 2017 2017 HOH HOH . C 3 HOH A 17 2018 2018 HOH HOH . C 3 HOH A 18 2019 2019 HOH HOH . C 3 HOH A 19 2020 2020 HOH HOH . C 3 HOH A 20 2021 2021 HOH HOH . C 3 HOH A 21 2022 2022 HOH HOH . C 3 HOH A 22 2023 2023 HOH HOH . C 3 HOH A 23 2024 2024 HOH HOH . C 3 HOH A 24 2025 2025 HOH HOH . C 3 HOH A 25 2026 2026 HOH HOH . C 3 HOH A 26 2027 2027 HOH HOH . C 3 HOH A 27 2028 2028 HOH HOH . C 3 HOH A 28 2029 2029 HOH HOH . C 3 HOH A 29 2030 2030 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' UD1 . . . B 2 30.193 12.293 1.677 1 49.2 ? C1' UD1 1263 A 1 HETATM 2 C C2' UD1 . . . B 2 29.893 13.15 2.921 1 49.08 ? C2' UD1 1263 A 1 HETATM 3 C C3' UD1 . . . B 2 28.788 14.187 2.645 1 49.03 ? C3' UD1 1263 A 1 HETATM 4 C C4' UD1 . . . B 2 28.983 14.933 1.309 1 49.05 ? C4' UD1 1263 A 1 HETATM 5 C C5' UD1 . . . B 2 29.369 13.979 0.159 1 49.07 ? C5' UD1 1263 A 1 HETATM 6 C C6' UD1 . . . B 2 29.724 14.709 -1.146 1 49.06 ? C6' UD1 1263 A 1 HETATM 7 C C7' UD1 . . . B 2 30.351 11.785 4.934 1 48.96 ? C7' UD1 1263 A 1 HETATM 8 C C8' UD1 . . . B 2 29.715 10.908 6.015 1 48.94 ? C8' UD1 1263 A 1 HETATM 9 N N2' UD1 . . . B 2 29.49 12.282 4.043 1 49 ? N2' UD1 1263 A 1 HETATM 10 O O1' UD1 . . . B 2 29.081 11.425 1.363 1 49.44 ? O1' UD1 1263 A 1 HETATM 11 O O3' UD1 . . . B 2 28.753 15.137 3.714 1 48.99 ? O3' UD1 1263 A 1 HETATM 12 O O4' UD1 . . . B 2 27.773 15.622 0.98 1 49.09 ? O4' UD1 1263 A 1 HETATM 13 O O5' UD1 . . . B 2 30.498 13.148 0.546 1 49.16 ? O5' UD1 1263 A 1 HETATM 14 O O6' UD1 . . . B 2 31.023 15.303 -1.04 1 49.02 ? O6' UD1 1263 A 1 HETATM 15 O O7' UD1 . . . B 2 31.566 11.988 4.925 1 48.94 ? O7' UD1 1263 A 1 HETATM 16 N N1 UD1 . . . B 2 29.966 3.814 2.55 1 50.77 ? N1 UD1 1263 A 1 HETATM 17 C C2 UD1 . . . B 2 29.063 2.728 2.588 1 50.8 ? C2 UD1 1263 A 1 HETATM 18 N N3 UD1 . . . B 2 28.237 2.472 1.48 1 50.8 ? N3 UD1 1263 A 1 HETATM 19 C C4 UD1 . . . B 2 28.305 3.293 0.342 1 50.79 ? C4 UD1 1263 A 1 HETATM 20 C C5 UD1 . . . B 2 29.192 4.367 0.305 1 50.81 ? C5 UD1 1263 A 1 HETATM 21 C C6 UD1 . . . B 2 30.014 4.628 1.398 1 50.79 ? C6 UD1 1263 A 1 HETATM 22 O O2 UD1 . . . B 2 28.988 1.996 3.576 1 50.8 ? O2 UD1 1263 A 1 HETATM 23 O O4 UD1 . . . B 2 27.58 3.064 -0.624 1 50.8 ? O4 UD1 1263 A 1 HETATM 24 C C1B UD1 . . . B 2 30.849 4.11 3.719 1 50.72 ? C1B UD1 1263 A 1 HETATM 25 C C2B UD1 . . . B 2 32.319 4.376 3.373 1 50.69 ? C2B UD1 1263 A 1 HETATM 26 O O2' UD1 . . . B 2 33.075 3.168 3.512 1 50.73 ? O2' UD1 1263 A 1 HETATM 27 C C3B UD1 . . . B 2 32.752 5.396 4.428 1 50.63 ? C3B UD1 1263 A 1 HETATM 28 C C4B UD1 . . . B 2 31.463 6.148 4.781 1 50.55 ? C4B UD1 1263 A 1 HETATM 29 O O4B UD1 . . . B 2 30.345 5.337 4.319 1 50.61 ? O4B UD1 1263 A 1 HETATM 30 O O3B UD1 . . . B 2 33.251 4.735 5.598 1 50.62 ? O3B UD1 1263 A 1 HETATM 31 C C5B UD1 . . . B 2 31.422 7.512 4.068 1 50.39 ? C5B UD1 1263 A 1 HETATM 32 O O5B UD1 . . . B 2 30.881 7.365 2.748 1 50.17 ? O5B UD1 1263 A 1 HETATM 33 P PA UD1 . . . B 2 31.1 8.457 1.588 1 50.02 ? PA UD1 1263 A 1 HETATM 34 O O1A UD1 . . . B 2 31.448 7.743 0.343 1 49.99 ? O1A UD1 1263 A 1 HETATM 35 O O2A UD1 . . . B 2 31.989 9.531 2.084 1 50.02 ? O2A UD1 1263 A 1 HETATM 36 O O3A UD1 . . . B 2 29.603 9.016 1.433 1 49.79 ? O3A UD1 1263 A 1 HETATM 37 P PB UD1 . . . B 2 29.246 10.169 0.37 1 49.58 ? PB UD1 1263 A 1 HETATM 38 O O1B UD1 . . . B 2 27.92 9.859 -0.205 1 49.59 ? O1B UD1 1263 A 1 HETATM 39 O O2B UD1 . . . B 2 30.398 10.377 -0.537 1 49.56 ? O2B UD1 1263 A 1 # _model_server_stats.io_time_ms 44 _model_server_stats.parse_time_ms 6 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 266 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 39 #