data_6IBJ # _model_server_result.job_id pc6Y5JbTb2QGbzqEeOhWQw _model_server_result.datetime_utc '2025-04-03 04:56:16' _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 6ibj # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"F","auth_seq_id":205}' # _entry.id 6IBJ # _exptl.entry_id 6IBJ _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-glucopyranose _entity.pdbx_number_of_molecules 4 _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 6IBJ _cell.length_a 74.92 _cell.length_b 74.92 _cell.length_c 64.39 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6IBJ _symmetry.cell_setting ? _symmetry.Int_Tables_number 96 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 21 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details monomeric _pdbx_struct_assembly.oligomeric_count 1 _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 _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 ? 2 B N N ? 2 C N N ? 2 E N N ? 2 F N N # 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 22 A CYS 22 1_555 A SG CYS 128 A CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.107 ? disulf ? disulf2 A SG CYS 93 A CYS 93 1_555 A SG CYS 145 A CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.081 ? covale ? covale1 A ND2 ASN 31 A ASN 31 1_555 C C1 NAG . A NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.402 ? covale ? covale2 A ND2 ASN 72 A ASN 72 1_555 E C1 NAG . A NAG 204 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale3 A ND2 ASN 111 A ASN 111 1_555 B C1 NAG . A NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale4 A ND2 ASN 147 A ASN 147 1_555 F C1 NAG . A NAG 205 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? metalc ? metalc1 A N HIS 1 A HIS 1 1_555 D CU CU . A CU 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? metalc ? metalc2 A ND1 HIS 1 A HIS 1 1_555 D CU CU . A CU 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? metalc ? metalc3 A NE2 HIS 49 A HIS 49 1_555 D CU CU . A CU 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? metalc ? metalc4 A OD2 ASP 122 A ASP 122 1_555 D CU CU . A CU 203 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.983 ? # _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 218 n n C1 O1 NAG sing 219 n n C1 O5 NAG sing 220 n n C1 H1 NAG sing 221 n n C2 C3 NAG sing 222 n n C2 N2 NAG sing 223 n n C2 H2 NAG sing 224 n n C3 C4 NAG sing 225 n n C3 O3 NAG sing 226 n n C3 H3 NAG sing 227 n n C4 C5 NAG sing 228 n n C4 O4 NAG sing 229 n n C4 H4 NAG sing 230 n n C5 C6 NAG sing 231 n n C5 O5 NAG sing 232 n n C5 H5 NAG sing 233 n n C6 O6 NAG sing 234 n n C6 H61 NAG sing 235 n n C6 H62 NAG sing 236 n n C7 C8 NAG sing 237 n n C7 N2 NAG sing 238 n n C7 O7 NAG doub 239 n n C8 H81 NAG sing 240 n n C8 H82 NAG sing 241 n n C8 H83 NAG sing 242 n n N2 HN2 NAG sing 243 n n O1 HO1 NAG sing 244 n n O3 HO3 NAG sing 245 n n O4 HO4 NAG sing 246 n n O6 HO6 NAG sing 247 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 6IBJ _atom_sites.fract_transf_matrix[1][1] 0.013348 _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] 0.013348 _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] 0.01553 _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 NAG A 1 201 153 NAG NAG . C 2 NAG A 1 202 155 NAG NAG . D 3 CU A 1 203 200 CU CU . E 2 NAG A 1 204 202 NAG NAG . F 2 NAG A 1 205 203 NAG NAG . G 4 HOH A 1 301 17 HOH HOH . G 4 HOH A 2 302 20 HOH HOH . G 4 HOH A 3 303 42 HOH HOH . G 4 HOH A 4 304 38 HOH HOH . G 4 HOH A 5 305 21 HOH HOH . G 4 HOH A 6 306 53 HOH HOH . G 4 HOH A 7 307 23 HOH HOH . G 4 HOH A 8 308 16 HOH HOH . G 4 HOH A 9 309 51 HOH HOH . G 4 HOH A 10 310 12 HOH HOH . G 4 HOH A 11 311 10 HOH HOH . G 4 HOH A 12 312 48 HOH HOH . G 4 HOH A 13 313 47 HOH HOH . G 4 HOH A 14 314 6 HOH HOH . G 4 HOH A 15 315 52 HOH HOH . G 4 HOH A 16 316 36 HOH HOH . G 4 HOH A 17 317 24 HOH HOH . G 4 HOH A 18 318 7 HOH HOH . G 4 HOH A 19 319 22 HOH HOH . G 4 HOH A 20 320 34 HOH HOH . G 4 HOH A 21 321 13 HOH HOH . G 4 HOH A 22 322 4 HOH HOH . G 4 HOH A 23 323 37 HOH HOH . G 4 HOH A 24 324 2 HOH HOH . G 4 HOH A 25 325 5 HOH HOH . G 4 HOH A 26 326 19 HOH HOH . G 4 HOH A 27 327 14 HOH HOH . G 4 HOH A 28 328 41 HOH HOH . G 4 HOH A 29 329 9 HOH HOH . G 4 HOH A 30 330 8 HOH HOH . G 4 HOH A 31 331 11 HOH HOH . G 4 HOH A 32 332 35 HOH HOH . G 4 HOH A 33 333 15 HOH HOH . G 4 HOH A 34 334 3 HOH HOH . G 4 HOH A 35 335 33 HOH HOH . G 4 HOH A 36 336 25 HOH HOH . G 4 HOH A 37 337 46 HOH HOH . G 4 HOH A 38 338 1 HOH HOH . G 4 HOH A 39 339 50 HOH HOH . G 4 HOH A 40 340 39 HOH HOH . G 4 HOH A 41 341 28 HOH HOH . G 4 HOH A 42 342 18 HOH HOH . G 4 HOH A 43 343 29 HOH HOH . G 4 HOH A 44 344 30 HOH HOH . G 4 HOH A 45 345 27 HOH HOH . G 4 HOH A 46 346 32 HOH HOH . G 4 HOH A 47 347 31 HOH HOH . G 4 HOH A 48 348 43 HOH HOH . G 4 HOH A 49 349 54 HOH HOH . G 4 HOH A 50 350 45 HOH HOH . G 4 HOH A 51 351 44 HOH HOH . G 4 HOH A 52 352 49 HOH HOH . G 4 HOH A 53 353 26 HOH HOH . G 4 HOH A 54 354 55 HOH HOH . G 4 HOH A 55 355 40 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 . . . F 2 18.234 3.594 7.086 1 46.43 ? C1 NAG 205 A 1 HETATM 2 C C2 NAG . . . F 2 19.112 4.516 6.338 1 48.33 ? C2 NAG 205 A 1 HETATM 3 C C3 NAG . . . F 2 20.492 3.963 6.194 1 48.37 ? C3 NAG 205 A 1 HETATM 4 C C4 NAG . . . F 2 21.066 3.62 7.528 1 47.23 ? C4 NAG 205 A 1 HETATM 5 C C5 NAG . . . F 2 20.135 2.763 8.311 1 46.4 ? C5 NAG 205 A 1 HETATM 6 C C6 NAG . . . F 2 20.645 2.58 9.701 1 47.96 ? C6 NAG 205 A 1 HETATM 7 C C7 NAG . . . F 2 18.242 5.984 4.685 1 54.11 ? C7 NAG 205 A 1 HETATM 8 C C8 NAG . . . F 2 17.773 6.119 3.26 1 51.32 ? C8 NAG 205 A 1 HETATM 9 N N2 NAG . . . F 2 18.572 4.773 5.054 1 51.23 ? N2 NAG 205 A 1 HETATM 10 O O3 NAG . . . F 2 21.324 4.931 5.545 1 52.73 ? O3 NAG 205 A 1 HETATM 11 O O4 NAG . . . F 2 22.299 2.931 7.345 1 56.17 ? O4 NAG 205 A 1 HETATM 12 O O5 NAG . . . F 2 18.808 3.344 8.371 1 46.73 ? O5 NAG 205 A 1 HETATM 13 O O6 NAG . . . F 2 19.706 1.798 10.431 1 51.73 ? O6 NAG 205 A 1 HETATM 14 O O7 NAG . . . F 2 18.297 6.942 5.46 1 49.43 ? O7 NAG 205 A 1 # _model_server_stats.io_time_ms 12 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 14 _model_server_stats.query_time_ms 328 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #