data_6L6D # _model_server_result.job_id J-Q2p28y9CP6mQmTH79Vrw _model_server_result.datetime_utc '2024-11-20 08:34:30' _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 6l6d # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"B","auth_seq_id":201}' # _entry.id 6L6D # _exptl.entry_id 6L6D _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 2 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-galactopyranose _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 6L6D _cell.length_a 48.9 _cell.length_b 48.9 _cell.length_c 261.66 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6L6D _symmetry.cell_setting ? _symmetry.Int_Tables_number 179 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 65 2 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 _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' 11_555 -x+y,y,-z+1/2 -1 0 0 0 1 0 0 0 -1 0 0 130.83 # _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 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NGA _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-galactopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-galactosamine;2-acetamido-2-deoxy-beta-D-galactose;2-acetamido-2-deoxy-D-galactose;2-acetamido-2-deoxy-galactose;N-ACETYL-D-GALACTOSAMINE # 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 NGA sing 237 n n C1 O1 NGA sing 238 n n C1 O5 NGA sing 239 n n C1 H1 NGA sing 240 n n C2 C3 NGA sing 241 n n C2 N2 NGA sing 242 n n C2 H2 NGA sing 243 n n C3 C4 NGA sing 244 n n C3 O3 NGA sing 245 n n C3 H3 NGA sing 246 n n C4 C5 NGA sing 247 n n C4 O4 NGA sing 248 n n C4 H4 NGA sing 249 n n C5 C6 NGA sing 250 n n C5 O5 NGA sing 251 n n C5 H5 NGA sing 252 n n C6 O6 NGA sing 253 n n C6 H61 NGA sing 254 n n C6 H62 NGA sing 255 n n C7 C8 NGA sing 256 n n C7 N2 NGA sing 257 n n C7 O7 NGA doub 258 n n C8 H81 NGA sing 259 n n C8 H82 NGA sing 260 n n C8 H83 NGA sing 261 n n N2 HN2 NGA sing 262 n n O1 HO1 NGA sing 263 n n O3 HO3 NGA sing 264 n n O4 HO4 NGA sing 265 n n O6 HO6 NGA sing 266 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 NGA DGalpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NGA N-acetyl-b-D-galactopyranosamine 'COMMON NAME' GMML 1 NGA b-D-GalpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NGA GalNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 6L6D _atom_sites.fract_transf_matrix[1][1] 0.02045 _atom_sites.fract_transf_matrix[1][2] 0.011807 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.023614 _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] 0.003822 _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 NGA A 1 201 201 NGA NGA . C 3 HOH A 1 301 56 HOH HOH . C 3 HOH A 2 302 49 HOH HOH . C 3 HOH A 3 303 67 HOH HOH . C 3 HOH A 4 304 25 HOH HOH . C 3 HOH A 5 305 24 HOH HOH . C 3 HOH A 6 306 43 HOH HOH . C 3 HOH A 7 307 39 HOH HOH . C 3 HOH A 8 308 64 HOH HOH . C 3 HOH A 9 309 19 HOH HOH . C 3 HOH A 10 310 23 HOH HOH . C 3 HOH A 11 311 42 HOH HOH . C 3 HOH A 12 312 44 HOH HOH . C 3 HOH A 13 313 2 HOH HOH . C 3 HOH A 14 314 63 HOH HOH . C 3 HOH A 15 315 3 HOH HOH . C 3 HOH A 16 316 29 HOH HOH . C 3 HOH A 17 317 45 HOH HOH . C 3 HOH A 18 318 17 HOH HOH . C 3 HOH A 19 319 60 HOH HOH . C 3 HOH A 20 320 58 HOH HOH . C 3 HOH A 21 321 59 HOH HOH . C 3 HOH A 22 322 13 HOH HOH . C 3 HOH A 23 323 27 HOH HOH . C 3 HOH A 24 324 40 HOH HOH . C 3 HOH A 25 325 18 HOH HOH . C 3 HOH A 26 326 6 HOH HOH . C 3 HOH A 27 327 10 HOH HOH . C 3 HOH A 28 328 53 HOH HOH . C 3 HOH A 29 329 26 HOH HOH . C 3 HOH A 30 330 46 HOH HOH . C 3 HOH A 31 331 69 HOH HOH . C 3 HOH A 32 332 62 HOH HOH . C 3 HOH A 33 333 7 HOH HOH . C 3 HOH A 34 334 15 HOH HOH . C 3 HOH A 35 335 16 HOH HOH . C 3 HOH A 36 336 11 HOH HOH . C 3 HOH A 37 337 14 HOH HOH . C 3 HOH A 38 338 47 HOH HOH . C 3 HOH A 39 339 36 HOH HOH . C 3 HOH A 40 340 50 HOH HOH . C 3 HOH A 41 341 54 HOH HOH . C 3 HOH A 42 342 52 HOH HOH . C 3 HOH A 43 343 4 HOH HOH . C 3 HOH A 44 344 34 HOH HOH . C 3 HOH A 45 345 21 HOH HOH . C 3 HOH A 46 346 35 HOH HOH . C 3 HOH A 47 347 1 HOH HOH . C 3 HOH A 48 348 41 HOH HOH . C 3 HOH A 49 349 12 HOH HOH . C 3 HOH A 50 350 55 HOH HOH . C 3 HOH A 51 351 57 HOH HOH . C 3 HOH A 52 352 30 HOH HOH . C 3 HOH A 53 353 31 HOH HOH . C 3 HOH A 54 354 8 HOH HOH . C 3 HOH A 55 355 28 HOH HOH . C 3 HOH A 56 356 38 HOH HOH . C 3 HOH A 57 357 5 HOH HOH . C 3 HOH A 58 358 20 HOH HOH . C 3 HOH A 59 359 70 HOH HOH . C 3 HOH A 60 360 68 HOH HOH . C 3 HOH A 61 361 9 HOH HOH . C 3 HOH A 62 362 33 HOH HOH . C 3 HOH A 63 363 48 HOH HOH . C 3 HOH A 64 364 65 HOH HOH . C 3 HOH A 65 365 22 HOH HOH . C 3 HOH A 66 366 61 HOH HOH . C 3 HOH A 67 367 51 HOH HOH . C 3 HOH A 68 368 66 HOH HOH . C 3 HOH A 69 369 32 HOH HOH . C 3 HOH A 70 370 37 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 NGA . . . B 2 16.369 24.589 80.892 1 20.76 ? C1 NGA 201 A 1 HETATM 2 C C2 NGA . . . B 2 16.475 25.949 81.589 1 20.16 ? C2 NGA 201 A 1 HETATM 3 C C3 NGA . . . B 2 15.784 27.029 80.736 1 20.35 ? C3 NGA 201 A 1 HETATM 4 C C4 NGA . . . B 2 16.34 27.045 79.322 1 20.24 ? C4 NGA 201 A 1 HETATM 5 C C5 NGA . . . B 2 16.185 25.653 78.734 1 20.62 ? C5 NGA 201 A 1 HETATM 6 C C6 NGA . . . B 2 16.699 25.582 77.298 1 21.6 ? C6 NGA 201 A 1 HETATM 7 C C7 NGA . . . B 2 16.59 26.071 84.037 1 19.08 ? C7 NGA 201 A 1 HETATM 8 C C8 NGA . . . B 2 15.823 26.007 85.332 1 18.79 ? C8 NGA 201 A 1 HETATM 9 N N2 NGA . . . B 2 15.888 25.878 82.923 1 19.55 ? N2 NGA 201 A 1 HETATM 10 O O1 NGA . . . B 2 17.046 23.494 81.574 1 20.56 ? O1 NGA 201 A 1 HETATM 11 O O3 NGA . . . B 2 16.003 28.342 81.249 1 21.66 ? O3 NGA 201 A 1 HETATM 12 O O4 NGA . . . B 2 17.719 27.455 79.408 1 18.4 ? O4 NGA 201 A 1 HETATM 13 O O5 NGA . . . B 2 16.908 24.729 79.575 1 20.82 ? O5 NGA 201 A 1 HETATM 14 O O6 NGA . . . B 2 16.627 24.221 76.871 1 22.92 ? O6 NGA 201 A 1 HETATM 15 O O7 NGA . . . B 2 17.794 26.293 83.993 1 19.07 ? O7 NGA 201 A 1 # _model_server_stats.io_time_ms 46 _model_server_stats.parse_time_ms 16 _model_server_stats.create_model_time_ms 2 _model_server_stats.query_time_ms 288 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 15 #