data_7WBQ # _model_server_result.job_id dBCBRtO9GRW0p_wk4Uty-w _model_server_result.datetime_utc '2024-11-16 09:28:30' _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 7wbq # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"Q","auth_seq_id":705}' # _entry.id 7WBQ # _exptl.entry_id 7WBQ _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 5 _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 95.29 _cell.angle_gamma 90 _cell.entry_id 7WBQ _cell.length_a 89.773 _cell.length_b 143.654 _cell.length_c 106.414 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 7WBQ _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # 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 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,E,F,H,I,J,K,L 1 1 C,D,G,M,N,O,P,Q,R,S 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 ? 5 H N N ? 5 J N N ? 5 K N N ? 5 L N N ? 5 M N N ? 5 O N N ? 5 P N N ? 5 Q N N ? 5 R N N ? 5 S 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 ? 4 2 1 FUL NAG C1 O1 . O6 HO6 . 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 E NAG 1 E 1 NAG A 1022 NAG 3 n E NAG 2 E 2 NAG A 1023 NAG 4 n F NAG 1 F 1 NAG B 619 NAG 4 n F FUL 2 F 2 FUL B 620 FUL 3 n G NAG 1 G 1 NAG C 819 NAG 3 n G NAG 2 G 2 NAG C 1020 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 115 A CYS 133 1_555 A SG CYS 123 A CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf2 A SG CYS 326 A CYS 344 1_555 A SG CYS 343 A CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf3 A SG CYS 512 A CYS 530 1_555 A SG CYS 524 A CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 B SG CYS 18 B CYS 336 1_555 B SG CYS 43 B CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf5 B SG CYS 61 B CYS 379 1_555 B SG CYS 114 B CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf6 B SG CYS 73 B CYS 391 1_555 B SG CYS 207 B CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf7 B SG CYS 162 B CYS 480 1_555 B SG CYS 170 B CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 C SG CYS 115 C CYS 133 1_555 C SG CYS 123 C CYS 141 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf9 C SG CYS 326 C CYS 344 1_555 C SG CYS 343 C CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf10 C SG CYS 512 C CYS 530 1_555 C SG CYS 524 C CYS 542 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 D SG CYS 18 D CYS 336 1_555 D SG CYS 43 D CYS 361 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf12 D SG CYS 61 D CYS 379 1_555 D SG CYS 114 D CYS 432 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf13 D SG CYS 73 D CYS 391 1_555 D SG CYS 207 D CYS 525 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.028 ? disulf ? disulf14 D SG CYS 162 D CYS 480 1_555 D SG CYS 170 D CYS 488 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? covale ? covale1 A ND2 ASN 35 A ASN 53 1_555 J C1 NAG . A NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.433 ? covale ? covale2 A ND2 ASN 72 A ASN 90 1_555 E C1 NAG . E NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale3 A ND2 ASN 85 A ASN 103 1_555 L C1 NAG . A NAG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale4 A ND2 ASN 304 A ASN 322 1_555 H C1 NAG . A NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale5 A ND2 ASN 528 A ASN 546 1_555 K C1 NAG . A NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.46 ? covale ? covale6 B ND2 ASN 25 B ASN 343 1_555 F C1 NAG . F NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale7 C ND2 ASN 35 C ASN 53 1_555 M C1 NAG . C NAG 701 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale8 C ND2 ASN 72 C ASN 90 1_555 G C1 NAG . G NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale9 C ND2 ASN 85 C ASN 103 1_555 P C1 NAG . C NAG 704 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.442 ? covale ? covale10 C ND2 ASN 304 C ASN 322 1_555 R C1 NAG . C NAG 706 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.445 ? covale ? covale11 C ND2 ASN 414 C ASN 432 1_555 Q C1 NAG . C NAG 705 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.441 ? covale ? covale12 C ND2 ASN 528 C ASN 546 1_555 O C1 NAG . C NAG 703 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.451 ? covale ? covale13 D ND2 ASN 25 D ASN 343 1_555 S C1 NAG . D NAG 601 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.443 ? covale ? covale14 E O4 NAG . E NAG 1 1_555 E C1 NAG . E NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.456 ? covale ? covale15 F O6 NAG . F NAG 1 1_555 F C1 FUL . F FUL 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.437 ? covale ? covale16 G O4 NAG . G NAG 1 1_555 G C1 NAG . G NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? metalc ? metalc1 A NE2 HIS 356 A HIS 374 1_555 I ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.092 ? metalc ? metalc2 A NE2 HIS 360 A HIS 378 1_555 I ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.094 ? metalc ? metalc3 A OE2 GLU 384 A GLU 402 1_555 I ZN ZN . A ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.087 ? metalc ? metalc4 C NE2 HIS 356 C HIS 374 1_555 N ZN ZN . C ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.095 ? metalc ? metalc5 C NE2 HIS 360 C HIS 378 1_555 N ZN ZN . C ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.105 ? metalc ? metalc6 C OE2 GLU 384 C GLU 402 1_555 N ZN ZN . C ZN 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.09 ? # _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 7WBQ _atom_sites.fract_transf_matrix[1][1] 0.011139 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001031 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.006961 _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] 0.009437 _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 H 5 NAG A 1 701 919 NAG NAG . I 6 ZN A 1 702 1019 ZN ZN . J 5 NAG A 1 703 1020 NAG NAG . K 5 NAG A 1 704 1024 NAG NAG . L 5 NAG A 1 705 1025 NAG NAG . M 5 NAG C 1 701 719 NAG NAG . N 6 ZN C 1 702 1019 ZN ZN . O 5 NAG C 1 703 1022 NAG NAG . P 5 NAG C 1 704 1023 NAG NAG . Q 5 NAG C 1 705 1024 NAG NAG . R 5 NAG C 1 706 1025 NAG NAG . S 5 NAG D 1 601 619 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 C1 NAG . . . Q 5 39.1 74.024 -34.509 1 166.16 ? C1 NAG 705 C 1 HETATM 2 C C2 NAG . . . Q 5 37.893 74.87 -34.088 1 172.52 ? C2 NAG 705 C 1 HETATM 3 C C3 NAG . . . Q 5 37.178 75.483 -35.285 1 175.61 ? C3 NAG 705 C 1 HETATM 4 C C4 NAG . . . Q 5 38.181 76.247 -36.137 1 171.92 ? C4 NAG 705 C 1 HETATM 5 C C5 NAG . . . Q 5 39.333 75.328 -36.535 1 172.66 ? C5 NAG 705 C 1 HETATM 6 C C6 NAG . . . Q 5 40.382 76.085 -37.345 1 170.65 ? C6 NAG 705 C 1 HETATM 7 C C7 NAG . . . Q 5 37.171 73.889 -31.987 1 160.86 ? C7 NAG 705 C 1 HETATM 8 C C8 NAG . . . Q 5 36.724 72.565 -31.442 1 151.77 ? C8 NAG 705 C 1 HETATM 9 N N2 NAG . . . Q 5 36.968 74.082 -33.291 1 173.46 ? N2 NAG 705 C 1 HETATM 10 O O3 NAG . . . Q 5 36.147 76.37 -34.834 1 170.04 ? O3 NAG 705 C 1 HETATM 11 O O4 NAG . . . Q 5 37.528 76.768 -37.302 1 166.88 ? O4 NAG 705 C 1 HETATM 12 O O5 NAG . . . Q 5 39.962 74.766 -35.38 1 187.04 ? O5 NAG 705 C 1 HETATM 13 O O6 NAG . . . Q 5 39.815 76.516 -38.587 1 163.48 ? O6 NAG 705 C 1 HETATM 14 O O7 NAG . . . Q 5 37.7 74.732 -31.28 1 159.99 ? O7 NAG 705 C 1 # _model_server_stats.io_time_ms 287 _model_server_stats.parse_time_ms 30 _model_server_stats.create_model_time_ms 95 _model_server_stats.query_time_ms 499 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #