data_8RUU # _model_server_result.job_id '_hDZ-JDPsp3cDK_CROhUbg' _model_server_result.datetime_utc '2024-11-26 05:35:04' _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 8ruu # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":201}' # _entry.id 8RUU # _exptl.entry_id 8RUU _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 1 _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 8RUU _cell.length_a 99.15 _cell.length_b 141.75 _cell.length_c 145.56 _cell.Z_PDB 8 _cell.pdbx_unique_axis ? # _symmetry.entry_id 8RUU _symmetry.cell_setting ? _symmetry.Int_Tables_number 19 _symmetry.space_group_name_Hall 'P 2ac 2ab' _symmetry.space_group_name_H-M 'P 21 21 21' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details hexameric _pdbx_struct_assembly.oligomeric_count 6 _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 _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 # _struct_asym.details ? _struct_asym.entity_id 5 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # _pdbx_entity_branch.entity_id 4 _pdbx_entity_branch.type 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 ? 4 2 1 NAG NAG C1 O1 . O4 HO4 . sing 2 ? 4 3 2 BMA NAG C1 O1 . O4 HO4 . sing 3 ? 4 4 3 MAN BMA C1 O1 . O3 HO3 . sing 4 ? 4 5 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 4 n G NAG 1 A 1 NAG A 1 NAG 4 n G NAG 2 A 2 NAG A 2 NAG 4 n G BMA 3 A 3 BMA A 3 BMA 4 n G MAN 4 A 4 MAN A 4 MAN 4 n G FUL 5 A 5 FUL A 5 FUL # 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 22 B CYS 22 1_555 A SG CYS 96 B CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf2 A SG CYS 152 B CYS 152 1_555 A SG CYS 208 B CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf3 B SG CYS 23 C CYS 23 1_555 B SG CYS 88 C CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.076 ? disulf ? disulf4 B SG CYS 134 C CYS 134 1_555 B SG CYS 194 C CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf5 C SG CYS 72 X CYS 72 1_555 C SG CYS 122 X CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.042 ? disulf ? disulf6 C SG CYS 77 X CYS 77 1_555 C SG CYS 124 X CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.035 ? disulf ? disulf7 D SG CYS 22 H CYS 22 1_555 D SG CYS 96 H CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf8 D SG CYS 152 H CYS 152 1_555 D SG CYS 208 H CYS 208 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.033 ? disulf ? disulf9 E SG CYS 23 L CYS 23 1_555 E SG CYS 88 L CYS 88 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf10 E SG CYS 134 L CYS 134 1_555 E SG CYS 194 L CYS 194 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf11 F SG CYS 72 Y CYS 72 1_555 F SG CYS 122 Y CYS 122 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.018 ? disulf ? disulf12 F SG CYS 77 Y CYS 77 1_555 F SG CYS 124 Y CYS 124 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.056 ? covale ? covale1 C ND2 ASN 53 X ASN 53 1_555 G C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.524 ? covale ? covale2 F ND2 ASN 53 Y ASN 53 1_555 H C1 NAG . Y NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.486 ? covale ? covale3 G O4 NAG . A NAG 1 1_555 G C1 NAG . A NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.396 ? covale ? covale4 G O6 NAG . A NAG 1 1_555 G C1 FUL . A FUL 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.4 ? covale ? covale5 G O4 NAG . A NAG 2 1_555 G C1 BMA . A BMA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.501 ? covale ? covale6 G O3 BMA . A BMA 3 1_555 G C1 MAN . A MAN 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.447 ? # _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 306 n n C1 O1 NAG sing 307 n n C1 O5 NAG sing 308 n n C1 H1 NAG sing 309 n n C2 C3 NAG sing 310 n n C2 N2 NAG sing 311 n n C2 H2 NAG sing 312 n n C3 C4 NAG sing 313 n n C3 O3 NAG sing 314 n n C3 H3 NAG sing 315 n n C4 C5 NAG sing 316 n n C4 O4 NAG sing 317 n n C4 H4 NAG sing 318 n n C5 C6 NAG sing 319 n n C5 O5 NAG sing 320 n n C5 H5 NAG sing 321 n n C6 O6 NAG sing 322 n n C6 H61 NAG sing 323 n n C6 H62 NAG sing 324 n n C7 C8 NAG sing 325 n n C7 N2 NAG sing 326 n n C7 O7 NAG doub 327 n n C8 H81 NAG sing 328 n n C8 H82 NAG sing 329 n n C8 H83 NAG sing 330 n n N2 HN2 NAG sing 331 n n O1 HO1 NAG sing 332 n n O3 HO3 NAG sing 333 n n O4 HO4 NAG sing 334 n n O6 HO6 NAG sing 335 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 8RUU _atom_sites.fract_transf_matrix[1][1] 0.010086 _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] 0.007055 _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] 0.00687 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # _pdbx_nonpoly_scheme.asym_id H _pdbx_nonpoly_scheme.entity_id 5 _pdbx_nonpoly_scheme.mon_id NAG _pdbx_nonpoly_scheme.pdb_strand_id Y _pdbx_nonpoly_scheme.ndb_seq_num 1 _pdbx_nonpoly_scheme.pdb_seq_num 201 _pdbx_nonpoly_scheme.auth_seq_num 201 _pdbx_nonpoly_scheme.pdb_mon_id NAG _pdbx_nonpoly_scheme.auth_mon_id NAG _pdbx_nonpoly_scheme.pdb_ins_code . # 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 . . . H 5 -10.609 25.444 2.347 1 104.75 ? C1 NAG 201 Y 1 HETATM 2 C C2 NAG . . . H 5 -11.484 25.911 3.442 1 93.28 ? C2 NAG 201 Y 1 HETATM 3 C C3 NAG . . . H 5 -11.122 25.187 4.744 1 103.03 ? C3 NAG 201 Y 1 HETATM 4 C C4 NAG . . . H 5 -11.362 23.674 4.652 1 120.14 ? C4 NAG 201 Y 1 HETATM 5 C C5 NAG . . . H 5 -10.689 23.049 3.379 1 109.31 ? C5 NAG 201 Y 1 HETATM 6 C C6 NAG . . . H 5 -11.371 21.723 2.918 1 112.95 ? C6 NAG 201 Y 1 HETATM 7 C C7 NAG . . . H 5 -11.946 28.319 2.927 1 107.85 ? C7 NAG 201 Y 1 HETATM 8 C C8 NAG . . . H 5 -12.785 27.901 1.722 1 97.45 ? C8 NAG 201 Y 1 HETATM 9 N N2 NAG . . . H 5 -11.335 27.343 3.631 1 106.91 ? N2 NAG 201 Y 1 HETATM 10 O O3 NAG . . . H 5 -11.818 25.769 5.854 1 94.08 ? O3 NAG 201 Y 1 HETATM 11 O O4 NAG . . . H 5 -10.958 23.068 5.903 1 113.55 ? O4 NAG 201 Y 1 HETATM 12 O O5 NAG . . . H 5 -10.738 23.912 2.204 1 114.52 ? O5 NAG 201 Y 1 HETATM 13 O O6 NAG . . . H 5 -11.808 21.651 1.543 1 103.51 ? O6 NAG 201 Y 1 HETATM 14 O O7 NAG . . . H 5 -11.829 29.501 3.256 1 103.93 ? O7 NAG 201 Y 1 HETATM 15 H H2 NAG . . . H 5 -12.409 25.703 3.211 1 112.09 ? H2 NAG 201 Y 1 HETATM 16 H H3 NAG . . . H 5 -10.166 25.313 4.895 1 123.79 ? H3 NAG 201 Y 1 HETATM 17 H H4 NAG . . . H 5 -12.31 23.477 4.529 1 144.32 ? H4 NAG 201 Y 1 HETATM 18 H H5 NAG . . . H 5 -9.751 22.917 3.613 1 131.32 ? H5 NAG 201 Y 1 HETATM 19 H H61 NAG . . . H 5 -12.153 21.581 3.485 1 135.69 ? H61 NAG 201 Y 1 HETATM 20 H H62 NAG . . . H 5 -10.734 20.998 3.064 1 135.69 ? H62 NAG 201 Y 1 HETATM 21 H H81 NAG . . . H 5 -13.229 28.685 1.347 1 117.1 ? H81 NAG 201 Y 1 HETATM 22 H H82 NAG . . . H 5 -13.455 27.25 2.002 1 117.1 ? H82 NAG 201 Y 1 HETATM 23 H H83 NAG . . . H 5 -12.205 27.501 1.045 1 117.1 ? H83 NAG 201 Y 1 HETATM 24 H HN2 NAG . . . H 5 -10.769 27.611 4.294 1 128.45 ? HN2 NAG 201 Y 1 HETATM 25 H HO3 NAG . . . H 5 -11.882 25.168 6.502 1 113.05 ? HO3 NAG 201 Y 1 HETATM 26 H HO4 NAG . . . H 5 -11.65 23.061 6.447 1 136.42 ? HO4 NAG 201 Y 1 HETATM 27 H HO6 NAG . . . H 5 -11.478 22.318 1.07 1 124.36 ? HO6 NAG 201 Y 1 # _model_server_stats.io_time_ms 35 _model_server_stats.parse_time_ms 21 _model_server_stats.create_model_time_ms 17 _model_server_stats.query_time_ms 315 _model_server_stats.encode_time_ms 2 _model_server_stats.element_count 27 #