data_6S9J # _model_server_result.job_id dC5sDlGLs1rvH_1wtKUvAg _model_server_result.datetime_utc '2025-07-16 14:42:47' _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 6s9j # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"K","auth_seq_id":306}' # _entry.id 6S9J # _exptl.entry_id 6S9J _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 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 6S9J _cell.length_a 104.626 _cell.length_b 104.626 _cell.length_c 281.363 _cell.Z_PDB 32 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6S9J _symmetry.cell_setting ? _symmetry.Int_Tables_number 95 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 43 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id ? dimeric 2 author_defined_assembly 1 ? dimeric 2 author_defined_assembly 2 ? dimeric 2 author_defined_assembly 3 ? dimeric 2 author_defined_assembly 4 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,I,K,L,M,N,O 1 1 C,D,J,P,Q 2 1 E,F,R,S 3 1 G,H,T,U 4 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 ? 5 K N N ? 5 L N N ? 5 M N N # loop_ _pdbx_entity_branch.entity_id _pdbx_entity_branch.type 3 oligosaccharide 4 oligosaccharide # loop_ _pdbx_entity_branch_link.link_id _pdbx_entity_branch_link.details _pdbx_entity_branch_link.entity_id _pdbx_entity_branch_link.entity_branch_list_num_1 _pdbx_entity_branch_link.entity_branch_list_num_2 _pdbx_entity_branch_link.comp_id_1 _pdbx_entity_branch_link.comp_id_2 _pdbx_entity_branch_link.atom_id_1 _pdbx_entity_branch_link.leaving_atom_id_1 _pdbx_entity_branch_link.atom_stereo_config_1 _pdbx_entity_branch_link.atom_id_2 _pdbx_entity_branch_link.leaving_atom_id_2 _pdbx_entity_branch_link.atom_stereo_config_2 _pdbx_entity_branch_link.value_order 1 ? 3 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 3 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 3 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 3 5 3 MAN BMA C1 O1 . O6 HO6 . sing 5 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . 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 I 1 NAG B 305 NAG 3 n I NAG 2 I 2 NAG B 302 NAG 3 n I BMA 3 I 3 BMA B 301 BMA 3 n I MAN 4 I 4 MAN B 304 MAN 3 n I MAN 5 I 5 MAN B 303 MAN 4 n J NAG 1 J 1 NAG D 301 NAG 4 n J NAG 2 J 2 NAG D 302 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 8 B CYS 92 1_555 A SG CYS 153 B CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf2 A SG CYS 51 B CYS 135 1_555 A SG CYS 80 B CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf3 A SG CYS 123 B CYS 207 1_555 A SG CYS 129 B CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf4 A SG CYS 136 B CYS 220 1_555 A SG CYS 145 B CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf5 B SG CYS 138 A CYS 353 1_555 B SG CYS 148 A CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf6 C SG CYS 8 D CYS 92 1_555 C SG CYS 153 D CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.038 ? disulf ? disulf7 C SG CYS 51 D CYS 135 1_555 C SG CYS 80 D CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.026 ? disulf ? disulf8 C SG CYS 123 D CYS 207 1_555 C SG CYS 129 D CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf9 C SG CYS 136 D CYS 220 1_555 C SG CYS 145 D CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf10 D SG CYS 138 C CYS 353 1_555 D SG CYS 148 C CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.057 ? disulf ? disulf11 E SG CYS 8 F CYS 92 1_555 E SG CYS 153 F CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf12 E SG CYS 51 F CYS 135 1_555 E SG CYS 80 F CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf13 E SG CYS 123 F CYS 207 1_555 E SG CYS 129 F CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf14 E SG CYS 136 F CYS 220 1_555 E SG CYS 145 F CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf15 F SG CYS 138 E CYS 353 1_555 F SG CYS 148 E CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf16 G SG CYS 8 H CYS 92 1_555 G SG CYS 153 H CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf17 G SG CYS 51 H CYS 135 1_555 G SG CYS 80 H CYS 164 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf18 G SG CYS 123 H CYS 207 1_555 G SG CYS 129 H CYS 213 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf19 G SG CYS 136 H CYS 220 1_555 G SG CYS 145 H CYS 229 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf20 H SG CYS 138 G CYS 353 1_555 H SG CYS 148 G CYS 363 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? covale ? covale1 A ND2 ASN 11 B ASN 95 1_555 L C1 NAG . B NAG 307 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.444 ? covale ? covale2 A ND2 ASN 82 B ASN 166 1_555 K C1 NAG . B NAG 306 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale3 A ND2 ASN 94 B ASN 178 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale4 B ND2 ASN 62 A ASN 251 1_555 M C1 NAG . A NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale5 C ND2 ASN 94 D ASN 178 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale6 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale7 I O4 NAG . I NAG 2 1_555 I C1 BMA . I BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 I O3 BMA . I BMA 3 1_555 I C1 MAN . I MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale9 I O6 BMA . I BMA 3 1_555 I C1 MAN . I MAN 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.438 ? covale ? covale10 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? # _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 285 n n C1 O1 NAG sing 286 n n C1 O5 NAG sing 287 n n C1 H1 NAG sing 288 n n C2 C3 NAG sing 289 n n C2 N2 NAG sing 290 n n C2 H2 NAG sing 291 n n C3 C4 NAG sing 292 n n C3 O3 NAG sing 293 n n C3 H3 NAG sing 294 n n C4 C5 NAG sing 295 n n C4 O4 NAG sing 296 n n C4 H4 NAG sing 297 n n C5 C6 NAG sing 298 n n C5 O5 NAG sing 299 n n C5 H5 NAG sing 300 n n C6 O6 NAG sing 301 n n C6 H61 NAG sing 302 n n C6 H62 NAG sing 303 n n C7 C8 NAG sing 304 n n C7 N2 NAG sing 305 n n C7 O7 NAG doub 306 n n C8 H81 NAG sing 307 n n C8 H82 NAG sing 308 n n C8 H83 NAG sing 309 n n N2 HN2 NAG sing 310 n n O1 HO1 NAG sing 311 n n O3 HO3 NAG sing 312 n n O4 HO4 NAG sing 313 n n O6 HO6 NAG sing 314 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 6S9J _atom_sites.fract_transf_matrix[1][1] 0.009558 _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] 0.009558 _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] 0.003554 _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 5 NAG B 1 306 306 NAG NAG . L 5 NAG B 1 307 307 NAG NAG . M 5 NAG A 1 401 401 NAG NAG . N 6 HOH B 1 401 401 HOH HOH . N 6 HOH B 2 402 402 HOH HOH . N 6 HOH B 3 403 403 HOH HOH . N 6 HOH B 4 404 404 HOH HOH . N 6 HOH B 5 405 405 HOH HOH . N 6 HOH B 6 406 406 HOH HOH . N 6 HOH B 7 407 407 HOH HOH . N 6 HOH B 8 408 408 HOH HOH . O 6 HOH A 1 501 501 HOH HOH . O 6 HOH A 2 502 502 HOH HOH . O 6 HOH A 3 503 503 HOH HOH . O 6 HOH A 4 504 504 HOH HOH . O 6 HOH A 5 505 505 HOH HOH . O 6 HOH A 6 506 506 HOH HOH . O 6 HOH A 7 507 507 HOH HOH . O 6 HOH A 8 508 508 HOH HOH . P 6 HOH D 1 401 401 HOH HOH . P 6 HOH D 2 402 402 HOH HOH . Q 6 HOH C 1 401 401 HOH HOH . Q 6 HOH C 2 402 402 HOH HOH . Q 6 HOH C 3 403 403 HOH HOH . Q 6 HOH C 4 404 404 HOH HOH . Q 6 HOH C 5 405 405 HOH HOH . Q 6 HOH C 6 406 406 HOH HOH . Q 6 HOH C 7 407 407 HOH HOH . Q 6 HOH C 8 408 408 HOH HOH . Q 6 HOH C 9 409 409 HOH HOH . R 6 HOH F 1 301 301 HOH HOH . R 6 HOH F 2 302 302 HOH HOH . R 6 HOH F 3 303 303 HOH HOH . R 6 HOH F 4 304 304 HOH HOH . R 6 HOH F 5 305 305 HOH HOH . S 6 HOH E 1 401 401 HOH HOH . S 6 HOH E 2 402 402 HOH HOH . S 6 HOH E 3 403 403 HOH HOH . S 6 HOH E 4 404 404 HOH HOH . S 6 HOH E 5 405 405 HOH HOH . S 6 HOH E 6 406 406 HOH HOH . T 6 HOH H 1 301 301 HOH HOH . T 6 HOH H 2 302 302 HOH HOH . U 6 HOH G 1 401 401 HOH HOH . U 6 HOH G 2 402 402 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 . . . K 5 13.287 53.564 312.016 1 64.9 ? C1 NAG 306 B 1 HETATM 2 C C2 NAG . . . K 5 12.366 54.775 311.811 1 68.65 ? C2 NAG 306 B 1 HETATM 3 C C3 NAG . . . K 5 12.102 55.474 313.142 1 74.22 ? C3 NAG 306 B 1 HETATM 4 C C4 NAG . . . K 5 11.562 54.488 314.17 1 81.85 ? C4 NAG 306 B 1 HETATM 5 C C5 NAG . . . K 5 12.515 53.304 314.316 1 75.2 ? C5 NAG 306 B 1 HETATM 6 C C6 NAG . . . K 5 11.982 52.224 315.236 1 70.99 ? C6 NAG 306 B 1 HETATM 7 C C7 NAG . . . K 5 12.205 56.381 309.948 1 62.15 ? C7 NAG 306 B 1 HETATM 8 C C8 NAG . . . K 5 12.968 57.306 309.048 1 58.58 ? C8 NAG 306 B 1 HETATM 9 N N2 NAG . . . K 5 12.933 55.71 310.851 1 67.7 ? N2 NAG 306 B 1 HETATM 10 O O3 NAG . . . K 5 11.163 56.524 312.936 1 74.33 ? O3 NAG 306 B 1 HETATM 11 O O4 NAG . . . K 5 11.407 55.132 315.43 1 89.2 ? O4 NAG 306 B 1 HETATM 12 O O5 NAG . . . K 5 12.731 52.692 313.035 1 75.01 ? O5 NAG 306 B 1 HETATM 13 O O6 NAG . . . K 5 11.706 51.009 314.549 1 68.8 ? O6 NAG 306 B 1 HETATM 14 O O7 NAG . . . K 5 10.989 56.245 309.859 1 61.88 ? O7 NAG 306 B 1 # _model_server_stats.io_time_ms 21 _model_server_stats.parse_time_ms 20 _model_server_stats.create_model_time_ms 8 _model_server_stats.query_time_ms 263 _model_server_stats.encode_time_ms 4 _model_server_stats.element_count 14 #