data_6X9H # _model_server_result.job_id '_O1Ht4Sob8fK88vWKGVFrA' _model_server_result.datetime_utc '2025-01-09 19:00:07' _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 6x9h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"I","auth_seq_id":501}' # _entry.id 6X9H # _exptl.entry_id 6X9H _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 3 _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 6X9H _cell.length_a 91.786 _cell.length_b 116.149 _cell.length_c 227.79 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6X9H _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # _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,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 ? 2 D N N ? 2 G N N ? 2 I 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 69 A CYS 94 1_555 A SG CYS 170 A CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.075 ? disulf ? disulf2 A SG CYS 148 A CYS 173 1_555 A SG CYS 155 A CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf3 A SG CYS 266 A CYS 291 1_555 A SG CYS 341 A CYS 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf4 A SG CYS 284 A CYS 309 1_555 A SG CYS 337 A CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf5 A SG CYS 288 A CYS 313 1_555 A SG CYS 335 A CYS 360 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf6 A SG CYS 297 A CYS 322 1_555 A SG CYS 319 A CYS 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? disulf ? disulf7 A SG CYS 299 A CYS 324 1_555 A SG CYS 311 A CYS 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf8 B SG CYS 69 B CYS 94 1_555 B SG CYS 170 B CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf9 B SG CYS 148 B CYS 173 1_555 B SG CYS 155 B CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.084 ? disulf ? disulf10 B SG CYS 266 B CYS 291 1_555 B SG CYS 341 B CYS 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.073 ? disulf ? disulf11 B SG CYS 284 B CYS 309 1_555 B SG CYS 337 B CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf12 B SG CYS 288 B CYS 313 1_555 B SG CYS 335 B CYS 360 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf13 B SG CYS 297 B CYS 322 1_555 B SG CYS 319 B CYS 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.055 ? disulf ? disulf14 B SG CYS 299 B CYS 324 1_555 B SG CYS 311 B CYS 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf15 C SG CYS 69 C CYS 94 1_555 C SG CYS 170 C CYS 195 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf16 C SG CYS 148 C CYS 173 1_555 C SG CYS 155 C CYS 180 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf17 C SG CYS 266 C CYS 291 1_555 C SG CYS 341 C CYS 366 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? disulf ? disulf18 C SG CYS 284 C CYS 309 1_555 C SG CYS 337 C CYS 362 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf19 C SG CYS 288 C CYS 313 1_555 C SG CYS 335 C CYS 360 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf20 C SG CYS 297 C CYS 322 1_555 C SG CYS 319 C CYS 344 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf21 C SG CYS 299 C CYS 324 1_555 C SG CYS 311 C CYS 336 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? covale ? covale1 A ND2 ASN 342 A ASN 367 1_555 D C1 NAG . A NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.414 ? covale ? covale2 B ND2 ASN 342 B ASN 367 1_555 G C1 NAG . B NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale3 C ND2 ASN 342 C ASN 367 1_555 I C1 NAG . C NAG 501 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? metalc ? metalc1 A OD1 ASP 408 A ASP 433 1_555 F NA NA . A NA 503 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.674 ? metalc ? metalc2 F NA NA . A NA 503 1_555 B OD1 ASP 408 B ASP 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.819 ? metalc ? metalc3 F NA NA . A NA 503 1_555 C OD1 ASP 408 C ASP 433 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.958 ? # _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 235 n n C1 O1 NAG sing 236 n n C1 O5 NAG sing 237 n n C1 H1 NAG sing 238 n n C2 C3 NAG sing 239 n n C2 N2 NAG sing 240 n n C2 H2 NAG sing 241 n n C3 C4 NAG sing 242 n n C3 O3 NAG sing 243 n n C3 H3 NAG sing 244 n n C4 C5 NAG sing 245 n n C4 O4 NAG sing 246 n n C4 H4 NAG sing 247 n n C5 C6 NAG sing 248 n n C5 O5 NAG sing 249 n n C5 H5 NAG sing 250 n n C6 O6 NAG sing 251 n n C6 H61 NAG sing 252 n n C6 H62 NAG sing 253 n n C7 C8 NAG sing 254 n n C7 N2 NAG sing 255 n n C7 O7 NAG doub 256 n n C8 H81 NAG sing 257 n n C8 H82 NAG sing 258 n n C8 H83 NAG sing 259 n n N2 HN2 NAG sing 260 n n O1 HO1 NAG sing 261 n n O3 HO3 NAG sing 262 n n O4 HO4 NAG sing 263 n n O6 HO6 NAG sing 264 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 6X9H _atom_sites.fract_transf_matrix[1][1] 0.010895 _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] 0.00861 _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] 0.00439 _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 2 NAG A 1 501 501 NAG NAG . E 3 UZG A 1 502 1 UZG LIG . F 4 NA A 1 503 1 NA NA . G 2 NAG B 1 501 501 NAG NAG . H 3 UZG B 1 502 1 UZG LIG . I 2 NAG C 1 501 501 NAG NAG . J 3 UZG C 1 502 1 UZG LIG . # 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 . . . I 2 -15.449 5.852 37.141 1 129.15 ? C1 NAG 501 C 1 HETATM 2 C C2 NAG . . . I 2 -16.886 6.194 36.743 1 132.31 ? C2 NAG 501 C 1 HETATM 3 C C3 NAG . . . I 2 -17.473 7.173 37.758 1 130.94 ? C3 NAG 501 C 1 HETATM 4 C C4 NAG . . . I 2 -17.346 6.599 39.168 1 135.28 ? C4 NAG 501 C 1 HETATM 5 C C5 NAG . . . I 2 -15.909 6.138 39.462 1 135.38 ? C5 NAG 501 C 1 HETATM 6 C C6 NAG . . . I 2 -15.773 5.394 40.776 1 136.71 ? C6 NAG 501 C 1 HETATM 7 C C7 NAG . . . I 2 -16.267 7.647 34.799 1 123.9 ? C7 NAG 501 C 1 HETATM 8 C C8 NAG . . . I 2 -16.609 7.974 33.373 1 113.02 ? C8 NAG 501 C 1 HETATM 9 N N2 NAG . . . I 2 -17.017 6.693 35.374 1 134.45 ? N2 NAG 501 C 1 HETATM 10 O O3 NAG . . . I 2 -18.84 7.436 37.454 1 132.23 ? O3 NAG 501 C 1 HETATM 11 O O4 NAG . . . I 2 -17.743 7.565 40.136 1 137.55 ? O4 NAG 501 C 1 HETATM 12 O O5 NAG . . . I 2 -15.445 5.244 38.437 1 128.14 ? O5 NAG 501 C 1 HETATM 13 O O6 NAG . . . I 2 -15.024 6.121 41.742 1 128.13 ? O6 NAG 501 C 1 HETATM 14 O O7 NAG . . . I 2 -15.358 8.22 35.392 1 124.29 ? O7 NAG 501 C 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 11 _model_server_stats.create_model_time_ms 11 _model_server_stats.query_time_ms 270 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #