data_8Z9L # _model_server_result.job_id da0Kg8bUuGx0k0fSK4cfYQ _model_server_result.datetime_utc '2025-07-14 16:25:51' _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 8z9l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"L","auth_seq_id":703}' # _entry.id 8Z9L # _exptl.entry_id 8Z9L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 10 _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 8Z9L _cell.length_a 63.736 _cell.length_b 129.479 _cell.length_c 563.525 _cell.Z_PDB 16 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8Z9L _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 21 21 21' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? tetrameric 4 author_defined_assembly 1 ? tetrameric 4 author_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,K,L,P,Q,R,S 1 1 C,D,G,H,I,J,M,N,O,T 2 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 K N N ? 4 L N N ? 4 M N N ? 4 N N N ? 4 O N N ? 4 P N N ? 4 Q N N ? 4 R N N ? 4 S N N ? 4 T 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 FUC _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 O6 _pdbx_entity_branch_link.leaving_atom_id_2 HO6 _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 I NAG 1 A 1 NAG A 1 NAG 3 n I FUC 2 A 2 FUC A 2 FUC 3 n J NAG 1 C 1 NAG C 1 NAG 3 n J FUC 2 C 2 FUC C 2 FUC # 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 513 B CYS 530 1_555 A SG CYS 525 B CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf2 B SG CYS 5 F CYS 336 1_555 B SG CYS 30 F CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.987 ? disulf ? disulf3 B SG CYS 48 F CYS 379 1_555 B SG CYS 101 F CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.059 ? disulf ? disulf4 B SG CYS 60 F CYS 391 1_555 B SG CYS 194 F CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf5 B SG CYS 149 F CYS 480 1_555 B SG CYS 157 F CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf6 C SG CYS 513 I CYS 530 1_555 C SG CYS 525 I CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf7 D SG CYS 5 L CYS 336 1_555 D SG CYS 30 L CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf8 D SG CYS 48 L CYS 379 1_555 D SG CYS 101 L CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf9 D SG CYS 60 L CYS 391 1_555 D SG CYS 194 L CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf10 E SG CYS 513 O CYS 530 1_555 E SG CYS 525 O CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.015 ? disulf ? disulf11 F SG CYS 5 R CYS 336 1_555 F SG CYS 30 R CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.017 ? disulf ? disulf12 F SG CYS 48 R CYS 379 1_555 F SG CYS 101 R CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.825 ? disulf ? disulf13 F SG CYS 60 R CYS 391 1_555 F SG CYS 194 R CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? disulf ? disulf14 G SG CYS 513 U CYS 530 1_555 G SG CYS 525 U CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf15 H SG CYS 5 X CYS 336 1_555 H SG CYS 30 X CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? disulf ? disulf16 H SG CYS 48 X CYS 379 1_555 H SG CYS 101 X CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.008 ? disulf ? disulf17 H SG CYS 60 X CYS 391 1_555 H SG CYS 194 X CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? covale ? covale1 A ND2 ASN 36 B ASN 53 1_555 K C1 NAG . B NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale2 D ND2 ASN 12 L ASN 343 1_555 O C1 NAG . L NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale3 E ND2 ASN 36 O ASN 53 1_555 Q C1 NAG . O NAG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.462 ? covale ? covale4 E ND2 ASN 305 O ASN 322 1_555 P C1 NAG . O NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale5 E ND2 ASN 529 O ASN 546 1_555 R C1 NAG . O NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale6 F ND2 ASN 12 R ASN 343 1_555 S C1 NAG . R NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale7 G ND2 ASN 36 U ASN 53 1_555 I C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? covale ? covale8 G ND2 ASN 305 U ASN 322 1_555 T C1 NAG . U NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale9 G ND2 ASN 529 U ASN 546 1_555 J C1 NAG . C NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale10 I O6 NAG . A NAG 1 1_555 I C1 FUC . A FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.404 ? covale ? covale11 J O6 NAG . C NAG 1 1_555 J C1 FUC . C FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.452 ? # _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 258 n n C1 O1 NAG sing 259 n n C1 O5 NAG sing 260 n n C1 H1 NAG sing 261 n n C2 C3 NAG sing 262 n n C2 N2 NAG sing 263 n n C2 H2 NAG sing 264 n n C3 C4 NAG sing 265 n n C3 O3 NAG sing 266 n n C3 H3 NAG sing 267 n n C4 C5 NAG sing 268 n n C4 O4 NAG sing 269 n n C4 H4 NAG sing 270 n n C5 C6 NAG sing 271 n n C5 O5 NAG sing 272 n n C5 H5 NAG sing 273 n n C6 O6 NAG sing 274 n n C6 H61 NAG sing 275 n n C6 H62 NAG sing 276 n n C7 C8 NAG sing 277 n n C7 N2 NAG sing 278 n n C7 O7 NAG doub 279 n n C8 H81 NAG sing 280 n n C8 H82 NAG sing 281 n n C8 H83 NAG sing 282 n n N2 HN2 NAG sing 283 n n O1 HO1 NAG sing 284 n n O3 HO3 NAG sing 285 n n O4 HO4 NAG sing 286 n n O6 HO6 NAG sing 287 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 8Z9L _atom_sites.fract_transf_matrix[1][1] 0.01569 _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] 0.007723 _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] 0.001775 _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 K 4 NAG B 1 701 616 NAG NAG . L 4 NAG B 1 703 903 NAG NAG . M 4 NAG I 1 701 616 NAG NAG . N 4 NAG I 1 703 903 NAG NAG . O 4 NAG L 1 601 529 NAG NAG . P 4 NAG O 1 701 616 NAG NAG . Q 4 NAG O 1 702 616 NAG NAG . R 4 NAG O 1 704 903 NAG NAG . S 4 NAG R 1 601 529 NAG NAG . T 4 NAG U 1 701 618 NAG NAG . # 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 C2 NAG . . . L 4 38.117 4.743 90.963 1 82.27 ? C2 NAG 703 B 1 HETATM 2 C C3 NAG . . . L 4 39.457 4.388 91.596 1 82.89 ? C3 NAG 703 B 1 HETATM 3 C C4 NAG . . . L 4 40.428 5.554 91.472 1 88.71 ? C4 NAG 703 B 1 HETATM 4 C C5 NAG . . . L 4 39.81 6.825 92.055 1 93.11 ? C5 NAG 703 B 1 HETATM 5 C C6 NAG . . . L 4 40.67 8.053 91.841 1 93.16 ? C6 NAG 703 B 1 HETATM 6 C C7 NAG . . . L 4 37.021 2.674 90.22 1 73.05 ? C7 NAG 703 B 1 HETATM 7 C C8 NAG . . . L 4 36.007 1.623 90.553 1 75.27 ? C8 NAG 703 B 1 HETATM 8 N N2 NAG . . . L 4 37.172 3.65 91.123 1 76.79 ? N2 NAG 703 B 1 HETATM 9 O O3 NAG . . . L 4 40 3.245 90.945 1 78.36 ? O3 NAG 703 B 1 HETATM 10 O O4 NAG . . . L 4 41.649 5.228 92.129 1 88.24 ? O4 NAG 703 B 1 HETATM 11 O O5 NAG . . . L 4 38.549 7.087 91.417 1 94.2 ? O5 NAG 703 B 1 HETATM 12 O O6 NAG . . . L 4 39.904 9.251 91.845 1 90.72 ? O6 NAG 703 B 1 HETATM 13 O O7 NAG . . . L 4 37.676 2.64 89.183 1 66.96 ? O7 NAG 703 B 1 # _model_server_stats.io_time_ms 59 _model_server_stats.parse_time_ms 19 _model_server_stats.create_model_time_ms 36 _model_server_stats.query_time_ms 313 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 13 #