data_3ILQ # _model_server_result.job_id c2ekoOEE1ZudaRy6w4FHbg _model_server_result.datetime_utc '2024-10-30 17:23:14' _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 3ilq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":501}' # _entry.id 3ILQ # _exptl.entry_id 3ILQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method man _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _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 106.94 _cell.angle_gamma 90 _cell.entry_id 3ILQ _cell.length_a 41.706 _cell.length_b 97.791 _cell.length_c 55.421 _cell.Z_PDB 2 _cell.pdbx_unique_axis ? # _symmetry.entry_id 3ILQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 1 21 1' # _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 _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 D N N ? 4 E N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 NAG _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 A 1 NAG E 520 NAG 3 n C NAG 2 A 2 NAG E 521 NAG # 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 disulf ? disulf1 A SG CYS 104 C CYS 104 1_555 A SG CYS 168 C CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? disulf ? disulf2 A SG CYS 208 C CYS 208 1_555 A SG CYS 263 C CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf3 B SG CYS 25 D CYS 25 1_555 B SG CYS 80 D CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.004 ? covale ? covale1 A ND2 ASN 20 C ASN 20 1_555 D C1 NAG . C NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale2 A ND2 ASN 42 C ASN 42 1_555 E C1 NAG . C NAG 510 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale3 A ND2 ASN 165 C ASN 165 1_555 C C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale4 C O4 NAG . A NAG 1 1_555 C C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # 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 NAG sing 370 n n C1 O1 NAG sing 371 n n C1 O5 NAG sing 372 n n C1 H1 NAG sing 373 n n C2 C3 NAG sing 374 n n C2 N2 NAG sing 375 n n C2 H2 NAG sing 376 n n C3 C4 NAG sing 377 n n C3 O3 NAG sing 378 n n C3 H3 NAG sing 379 n n C4 C5 NAG sing 380 n n C4 O4 NAG sing 381 n n C4 H4 NAG sing 382 n n C5 C6 NAG sing 383 n n C5 O5 NAG sing 384 n n C5 H5 NAG sing 385 n n C6 O6 NAG sing 386 n n C6 H61 NAG sing 387 n n C6 H62 NAG sing 388 n n C7 C8 NAG sing 389 n n C7 N2 NAG sing 390 n n C7 O7 NAG doub 391 n n C8 H81 NAG sing 392 n n C8 H82 NAG sing 393 n n C8 H83 NAG sing 394 n n N2 HN2 NAG sing 395 n n O1 HO1 NAG sing 396 n n O3 HO3 NAG sing 397 n n O4 HO4 NAG sing 398 n n O6 HO6 NAG sing 399 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 NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 3ILQ _atom_sites.fract_transf_matrix[1][1] 0.023977 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.007303 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.010226 _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] 0.018862 _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 D 4 NAG C 1 501 501 NAG NAG . E 4 NAG C 1 510 510 NAG NAG . F 5 1O2 C 1 286 1 1O2 1O2 . G 6 HOH C 1 287 1 HOH HOH . G 6 HOH C 2 288 3 HOH HOH . G 6 HOH C 3 289 4 HOH HOH . G 6 HOH C 4 290 7 HOH HOH . G 6 HOH C 5 291 9 HOH HOH . G 6 HOH C 6 292 12 HOH HOH . G 6 HOH C 7 293 13 HOH HOH . G 6 HOH C 8 294 14 HOH HOH . G 6 HOH C 9 295 15 HOH HOH . G 6 HOH C 10 296 20 HOH HOH . G 6 HOH C 11 297 21 HOH HOH . G 6 HOH C 12 298 26 HOH HOH . G 6 HOH C 13 299 29 HOH HOH . G 6 HOH C 14 300 31 HOH HOH . G 6 HOH C 15 301 33 HOH HOH . G 6 HOH C 16 302 34 HOH HOH . G 6 HOH C 17 303 35 HOH HOH . G 6 HOH C 18 304 36 HOH HOH . G 6 HOH C 19 305 40 HOH HOH . G 6 HOH C 20 306 41 HOH HOH . G 6 HOH C 21 307 44 HOH HOH . G 6 HOH C 22 308 45 HOH HOH . G 6 HOH C 23 309 46 HOH HOH . G 6 HOH C 24 310 47 HOH HOH . G 6 HOH C 25 311 48 HOH HOH . G 6 HOH C 26 312 50 HOH HOH . G 6 HOH C 27 313 51 HOH HOH . G 6 HOH C 28 314 52 HOH HOH . G 6 HOH C 29 315 53 HOH HOH . G 6 HOH C 30 316 57 HOH HOH . G 6 HOH C 31 317 58 HOH HOH . G 6 HOH C 32 318 59 HOH HOH . G 6 HOH C 33 319 60 HOH HOH . G 6 HOH C 34 320 61 HOH HOH . G 6 HOH C 35 321 63 HOH HOH . G 6 HOH C 36 322 64 HOH HOH . G 6 HOH C 37 323 66 HOH HOH . G 6 HOH C 38 324 67 HOH HOH . G 6 HOH C 39 325 69 HOH HOH . G 6 HOH C 40 326 71 HOH HOH . G 6 HOH C 41 327 72 HOH HOH . G 6 HOH C 42 328 74 HOH HOH . G 6 HOH C 43 329 75 HOH HOH . G 6 HOH C 44 330 76 HOH HOH . G 6 HOH C 45 331 77 HOH HOH . G 6 HOH C 46 332 78 HOH HOH . G 6 HOH C 47 333 79 HOH HOH . G 6 HOH C 48 334 80 HOH HOH . G 6 HOH C 49 335 81 HOH HOH . G 6 HOH C 50 336 82 HOH HOH . G 6 HOH C 51 337 83 HOH HOH . G 6 HOH C 52 338 86 HOH HOH . G 6 HOH C 53 339 90 HOH HOH . G 6 HOH C 54 340 93 HOH HOH . G 6 HOH C 55 341 95 HOH HOH . G 6 HOH C 56 342 97 HOH HOH . G 6 HOH C 57 343 98 HOH HOH . G 6 HOH C 58 344 99 HOH HOH . G 6 HOH C 59 345 100 HOH HOH . G 6 HOH C 60 346 102 HOH HOH . G 6 HOH C 61 347 103 HOH HOH . G 6 HOH C 62 348 105 HOH HOH . G 6 HOH C 63 349 106 HOH HOH . G 6 HOH C 64 350 107 HOH HOH . G 6 HOH C 65 351 108 HOH HOH . G 6 HOH C 66 352 109 HOH HOH . G 6 HOH C 67 353 112 HOH HOH . G 6 HOH C 68 354 115 HOH HOH . G 6 HOH C 69 355 118 HOH HOH . G 6 HOH C 70 356 119 HOH HOH . G 6 HOH C 71 357 121 HOH HOH . G 6 HOH C 72 358 122 HOH HOH . G 6 HOH C 73 359 125 HOH HOH . G 6 HOH C 74 360 126 HOH HOH . G 6 HOH C 75 361 127 HOH HOH . G 6 HOH C 76 362 130 HOH HOH . G 6 HOH C 77 363 131 HOH HOH . G 6 HOH C 78 364 132 HOH HOH . G 6 HOH C 79 365 133 HOH HOH . G 6 HOH C 80 366 134 HOH HOH . G 6 HOH C 81 367 135 HOH HOH . G 6 HOH C 82 368 136 HOH HOH . G 6 HOH C 83 369 138 HOH HOH . G 6 HOH C 84 370 139 HOH HOH . G 6 HOH C 85 371 140 HOH HOH . G 6 HOH C 86 372 142 HOH HOH . H 6 HOH D 1 100 5 HOH HOH . H 6 HOH D 2 101 101 HOH HOH . H 6 HOH D 3 102 6 HOH HOH . H 6 HOH D 4 103 8 HOH HOH . H 6 HOH D 5 104 10 HOH HOH . H 6 HOH D 6 105 16 HOH HOH . H 6 HOH D 7 106 19 HOH HOH . H 6 HOH D 8 107 23 HOH HOH . H 6 HOH D 9 108 25 HOH HOH . H 6 HOH D 10 109 28 HOH HOH . H 6 HOH D 11 110 110 HOH HOH . H 6 HOH D 12 111 111 HOH HOH . H 6 HOH D 13 112 30 HOH HOH . H 6 HOH D 14 113 113 HOH HOH . H 6 HOH D 15 114 114 HOH HOH . H 6 HOH D 16 115 32 HOH HOH . H 6 HOH D 17 116 116 HOH HOH . H 6 HOH D 18 117 117 HOH HOH . H 6 HOH D 19 118 37 HOH HOH . H 6 HOH D 20 119 38 HOH HOH . H 6 HOH D 21 120 120 HOH HOH . H 6 HOH D 22 121 39 HOH HOH . H 6 HOH D 23 122 42 HOH HOH . H 6 HOH D 24 123 123 HOH HOH . H 6 HOH D 25 124 124 HOH HOH . H 6 HOH D 26 125 43 HOH HOH . H 6 HOH D 27 126 54 HOH HOH . H 6 HOH D 28 127 55 HOH HOH . H 6 HOH D 29 128 128 HOH HOH . H 6 HOH D 30 129 129 HOH HOH . H 6 HOH D 31 130 56 HOH HOH . H 6 HOH D 32 131 62 HOH HOH . H 6 HOH D 33 132 65 HOH HOH . H 6 HOH D 34 133 68 HOH HOH . H 6 HOH D 35 134 70 HOH HOH . H 6 HOH D 36 135 73 HOH HOH . H 6 HOH D 37 136 85 HOH HOH . H 6 HOH D 38 137 137 HOH HOH . H 6 HOH D 39 138 87 HOH HOH . H 6 HOH D 40 139 88 HOH HOH . H 6 HOH D 41 140 92 HOH HOH . H 6 HOH D 42 141 141 HOH HOH . H 6 HOH D 43 142 94 HOH HOH . H 6 HOH D 44 143 143 HOH HOH . H 6 HOH D 45 144 96 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 NAG . . . D 4 -8.948 26.278 23.279 1 82.33 ? C1 NAG 501 C 1 HETATM 2 C C2 NAG . . . D 4 -9.1 27.172 22.058 1 88.39 ? C2 NAG 501 C 1 HETATM 3 C C3 NAG . . . D 4 -10.546 27.62 21.994 1 90.01 ? C3 NAG 501 C 1 HETATM 4 C C4 NAG . . . D 4 -11.368 26.381 21.702 1 86.76 ? C4 NAG 501 C 1 HETATM 5 C C5 NAG . . . D 4 -11.107 25.256 22.708 1 82.56 ? C5 NAG 501 C 1 HETATM 6 C C6 NAG . . . D 4 -11.502 23.922 22.089 1 80.85 ? C6 NAG 501 C 1 HETATM 7 C C7 NAG . . . D 4 -7.552 28.672 20.913 1 95.68 ? C7 NAG 501 C 1 HETATM 8 C C8 NAG . . . D 4 -7.808 27.899 19.639 1 94.8 ? C8 NAG 501 C 1 HETATM 9 N N2 NAG . . . D 4 -8.183 28.296 22.038 1 91.36 ? N2 NAG 501 C 1 HETATM 10 O O3 NAG . . . D 4 -10.729 28.533 20.942 1 95.37 ? O3 NAG 501 C 1 HETATM 11 O O4 NAG . . . D 4 -12.73 26.737 21.709 1 87.73 ? O4 NAG 501 C 1 HETATM 12 O O5 NAG . . . D 4 -9.752 25.122 23.12 1 81.41 ? O5 NAG 501 C 1 HETATM 13 O O6 NAG . . . D 4 -10.416 23.414 21.344 1 80.68 ? O6 NAG 501 C 1 HETATM 14 O O7 NAG . . . D 4 -6.775 29.628 20.878 1 97.67 ? O7 NAG 501 C 1 # _model_server_stats.io_time_ms 51 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 7 _model_server_stats.query_time_ms 331 _model_server_stats.encode_time_ms 6 _model_server_stats.element_count 14 #