data_5K6I # _model_server_result.job_id PCeA2gCouhHj9IQJ6N4dfQ _model_server_result.datetime_utc '2025-08-21 03:04:00' _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 5k6i # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"G","auth_seq_id":606}' # _entry.id 5K6I # _exptl.entry_id 5K6I _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _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 90 _cell.angle_gamma 90 _cell.entry_id 5K6I _cell.length_a 169.561 _cell.length_b 169.561 _cell.length_c 169.561 _cell.Z_PDB 24 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5K6I _symmetry.cell_setting ? _symmetry.Int_Tables_number 213 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 41 3 2' # _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 _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' 5_663 z+1,x+1,y-2 0 0 1 1 0 0 0 1 0 169.561 169.561 -339.122 3 'crystal symmetry operation' 9_474 y-1,z+2,x-1 0 1 0 0 0 1 1 0 0 -169.561 339.122 -169.561 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 5 G N N ? 5 H 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 12 F CYS 37 1_555 A SG CYS 375 F CYS 439 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf2 A SG CYS 44 F CYS 69 1_555 A SG CYS 148 F CYS 212 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf3 A SG CYS 85 F CYS 149 1_555 A SG CYS 394 F CYS 458 5_663 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf4 A SG CYS 91 F CYS 155 1_555 A SG CYS 226 F CYS 290 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf5 A SG CYS 249 F CYS 313 1_555 A SG CYS 279 F CYS 343 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 A SG CYS 258 F CYS 322 1_555 A SG CYS 269 F CYS 333 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf7 A SG CYS 294 F CYS 358 1_555 A SG CYS 303 F CYS 367 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf8 A SG CYS 318 F CYS 382 1_555 A SG CYS 329 F CYS 393 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf9 A SG CYS 352 F CYS 416 1_555 A SG CYS 358 F CYS 422 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? covale ? covale1 A ND2 ASN 2 F ASN 27 1_555 G C1 NAG . F NAG 606 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale2 A ND2 ASN 45 F ASN 70 1_555 H C1 NAG . F NAG 607 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? metalc ? metalc1 A OE1 GLU 35 F GLU 60 1_555 B ZN ZN . F ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.499 ? metalc ? metalc2 A OE2 GLU 35 F GLU 60 1_555 B ZN ZN . F ZN 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.457 ? metalc ? metalc3 A ND1 HIS 253 F HIS 317 1_555 C ZN ZN . F ZN 602 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.367 ? metalc ? metalc4 C ZN ZN . F ZN 602 1_555 I O HOH . F HOH 719 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.206 ? # _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 246 n n C1 O1 NAG sing 247 n n C1 O5 NAG sing 248 n n C1 H1 NAG sing 249 n n C2 C3 NAG sing 250 n n C2 N2 NAG sing 251 n n C2 H2 NAG sing 252 n n C3 C4 NAG sing 253 n n C3 O3 NAG sing 254 n n C3 H3 NAG sing 255 n n C4 C5 NAG sing 256 n n C4 O4 NAG sing 257 n n C4 H4 NAG sing 258 n n C5 C6 NAG sing 259 n n C5 O5 NAG sing 260 n n C5 H5 NAG sing 261 n n C6 O6 NAG sing 262 n n C6 H61 NAG sing 263 n n C6 H62 NAG sing 264 n n C7 C8 NAG sing 265 n n C7 N2 NAG sing 266 n n C7 O7 NAG doub 267 n n C8 H81 NAG sing 268 n n C8 H82 NAG sing 269 n n C8 H83 NAG sing 270 n n N2 HN2 NAG sing 271 n n O1 HO1 NAG sing 272 n n O3 HO3 NAG sing 273 n n O4 HO4 NAG sing 274 n n O6 HO6 NAG sing 275 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 5K6I _atom_sites.fract_transf_matrix[1][1] 0.005898 _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] 0.005898 _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] 0.005898 _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 ZN F 1 601 601 ZN ZN . C 2 ZN F 1 602 602 ZN ZN . D 3 EDO F 1 603 603 EDO EDO . E 3 EDO F 1 604 604 EDO EDO . F 4 PO4 F 1 605 605 PO4 PO4 . G 5 NAG F 1 606 606 NAG NAG . H 5 NAG F 1 607 607 NAG NAG . I 6 HOH F 1 701 701 HOH HOH . I 6 HOH F 2 702 702 HOH HOH . I 6 HOH F 3 703 703 HOH HOH . I 6 HOH F 4 704 704 HOH HOH . I 6 HOH F 5 705 705 HOH HOH . I 6 HOH F 6 706 706 HOH HOH . I 6 HOH F 7 707 707 HOH HOH . I 6 HOH F 8 708 708 HOH HOH . I 6 HOH F 9 709 709 HOH HOH . I 6 HOH F 10 710 710 HOH HOH . I 6 HOH F 11 711 711 HOH HOH . I 6 HOH F 12 712 712 HOH HOH . I 6 HOH F 13 713 713 HOH HOH . I 6 HOH F 14 714 714 HOH HOH . I 6 HOH F 15 715 715 HOH HOH . I 6 HOH F 16 716 716 HOH HOH . I 6 HOH F 17 717 717 HOH HOH . I 6 HOH F 18 718 718 HOH HOH . I 6 HOH F 19 719 719 HOH HOH . I 6 HOH F 20 720 720 HOH HOH . I 6 HOH F 21 721 721 HOH HOH . I 6 HOH F 22 722 722 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 . . . G 5 159.109 338.34 40.423 1 144.53 ? C1 NAG 606 F 1 HETATM 2 C C2 NAG . . . G 5 159.579 337.324 41.465 1 156.28 ? C2 NAG 606 F 1 HETATM 3 C C3 NAG . . . G 5 158.381 336.628 42.105 1 163.91 ? C3 NAG 606 F 1 HETATM 4 C C4 NAG . . . G 5 157.4 337.654 42.657 1 166.5 ? C4 NAG 606 F 1 HETATM 5 C C5 NAG . . . G 5 157.012 338.648 41.567 1 164.14 ? C5 NAG 606 F 1 HETATM 6 C C6 NAG . . . G 5 156.13 339.767 42.073 1 159.41 ? C6 NAG 606 F 1 HETATM 7 C C7 NAG . . . G 5 161.68 336.055 41.386 1 144.96 ? C7 NAG 606 F 1 HETATM 8 C C8 NAG . . . G 5 162.477 335.024 40.645 1 130.52 ? C8 NAG 606 F 1 HETATM 9 N N2 NAG . . . G 5 160.48 336.348 40.873 1 153.27 ? N2 NAG 606 F 1 HETATM 10 O O3 NAG . . . G 5 158.832 335.776 43.152 1 163.61 ? O3 NAG 606 F 1 HETATM 11 O O4 NAG . . . G 5 156.23 337.003 43.138 1 164.97 ? O4 NAG 606 F 1 HETATM 12 O O5 NAG . . . G 5 158.191 339.263 41.028 1 157.03 ? O5 NAG 606 F 1 HETATM 13 O O6 NAG . . . G 5 155.357 340.334 41.024 1 154.75 ? O6 NAG 606 F 1 HETATM 14 O O7 NAG . . . G 5 162.103 336.597 42.403 1 143.38 ? O7 NAG 606 F 1 # _model_server_stats.io_time_ms 13 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 290 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 14 #