data_5BQC # _model_server_result.job_id fBid9QjnJI2s7bDX53VImw _model_server_result.datetime_utc '2024-12-20 17:51:37' _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 5bqc # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"E","auth_seq_id":202}' # _entry.id 5BQC # _exptl.entry_id 5BQC _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _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 120 _cell.entry_id 5BQC _cell.length_a 119.136 _cell.length_b 119.136 _cell.length_c 119.151 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 5BQC _symmetry.cell_setting ? _symmetry.Int_Tables_number 178 _symmetry.space_group_name_Hall ? _symmetry.space_group_name_H-M 'P 61 2 2' # _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details tetrameric _pdbx_struct_assembly.oligomeric_count 4 _pdbx_struct_assembly.details software_defined_assembly _pdbx_struct_assembly.id 1 # _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1,2 # 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' 7_555 y,x,-z+1/3 -0.5 0.866025 0 0.866025 0.5 0 0 0 -1 0 0 39.717 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E 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 1 _pdbx_entity_branch_link.entity_branch_list_num_2 2 _pdbx_entity_branch_link.comp_id_1 GU4 _pdbx_entity_branch_link.comp_id_2 YYJ _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 O2 _pdbx_entity_branch_link.leaving_atom_id_2 HO2 _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 C GU4 1 C 1 GU4 C 1 SCR 3 n C YYJ 2 C 2 YYJ C 1 SCR # 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 7 B CYS 45 1_555 A SG CYS 68 B CYS 106 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.032 ? disulf ? disulf2 A SG CYS 15 B CYS 53 1_555 A SG CYS 61 B CYS 99 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf3 A SG CYS 52 B CYS 90 1_555 A SG CYS 90 B CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf4 A SG CYS 79 B CYS 117 1_555 A SG CYS 120 B CYS 158 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf5 A SG CYS 83 B CYS 121 1_555 A SG CYS 107 B CYS 145 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.031 ? disulf ? disulf6 B SG CYS 18 A CYS 39 1_555 B SG CYS 75 A CYS 96 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.009 ? disulf ? disulf7 B SG CYS 34 A CYS 55 1_555 B SG CYS 89 A CYS 110 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf8 B SG CYS 44 A CYS 65 1_555 B SG CYS 105 A CYS 126 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf9 B SG CYS 48 A CYS 69 1_555 B SG CYS 107 A CYS 128 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.01 ? disulf ? disulf10 B SG CYS 72 A CYS 93 1_555 B SG CYS 74 A CYS 95 7_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.996 ? covale ? covale1 A ND2 ASN 21 B ASN 59 1_555 E C1 NAG . B NAG 202 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale2 A ND2 ASN 106 B ASN 144 1_555 D C1 NAG . B NAG 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale3 A NE2 HIS 116 B HIS 154 1_555 C O29 GU4 . C GU4 1 10_444 ? ? ? ? ? ? ? ? ? ? ? ? 1.458 ? covale ? covale4 B NH1 ARG 86 A ARG 107 1_555 C C6 YYJ . C YYJ 2 10_444 ? ? ? ? ? ? ? ? ? ? ? ? 1.287 ? covale ? covale5 C C1 GU4 . C GU4 1 1_555 C O2 YYJ . C YYJ 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.37 sing # _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 275 n n C1 O1 NAG sing 276 n n C1 O5 NAG sing 277 n n C1 H1 NAG sing 278 n n C2 C3 NAG sing 279 n n C2 N2 NAG sing 280 n n C2 H2 NAG sing 281 n n C3 C4 NAG sing 282 n n C3 O3 NAG sing 283 n n C3 H3 NAG sing 284 n n C4 C5 NAG sing 285 n n C4 O4 NAG sing 286 n n C4 H4 NAG sing 287 n n C5 C6 NAG sing 288 n n C5 O5 NAG sing 289 n n C5 H5 NAG sing 290 n n C6 O6 NAG sing 291 n n C6 H61 NAG sing 292 n n C6 H62 NAG sing 293 n n C7 C8 NAG sing 294 n n C7 N2 NAG sing 295 n n C7 O7 NAG doub 296 n n C8 H81 NAG sing 297 n n C8 H82 NAG sing 298 n n C8 H83 NAG sing 299 n n N2 HN2 NAG sing 300 n n O1 HO1 NAG sing 301 n n O3 HO3 NAG sing 302 n n O4 HO4 NAG sing 303 n n O6 HO6 NAG sing 304 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 5BQC _atom_sites.fract_transf_matrix[1][1] 0.008394 _atom_sites.fract_transf_matrix[1][2] 0.004846 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.009692 _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] 0.008393 _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 D 4 NAG B 1 201 1 NAG NAG . E 4 NAG B 1 202 2 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 . . . E 4 -2.174 -37.999 10.543 1 102.22 ? C1 NAG 202 B 1 HETATM 2 C C2 NAG . . . E 4 -1.798 -39.038 11.602 1 104.53 ? C2 NAG 202 B 1 HETATM 3 C C3 NAG . . . E 4 -2.489 -40.35 11.255 1 106.5 ? C3 NAG 202 B 1 HETATM 4 C C4 NAG . . . E 4 -3.989 -40.133 11.089 1 104.52 ? C4 NAG 202 B 1 HETATM 5 C C5 NAG . . . E 4 -4.29 -38.909 10.222 1 109.88 ? C5 NAG 202 B 1 HETATM 6 C C6 NAG . . . E 4 -5.754 -38.495 10.266 1 113.04 ? C6 NAG 202 B 1 HETATM 7 C C7 NAG . . . E 4 0.126 -39.966 12.768 1 112.6 ? C7 NAG 202 B 1 HETATM 8 C C8 NAG . . . E 4 1.616 -40.128 12.857 1 98.68 ? C8 NAG 202 B 1 HETATM 9 N N2 NAG . . . E 4 -0.363 -39.239 11.76 1 110.33 ? N2 NAG 202 B 1 HETATM 10 O O3 NAG . . . E 4 -2.266 -41.306 12.268 1 107.71 ? O3 NAG 202 B 1 HETATM 11 O O4 NAG . . . E 4 -4.529 -41.289 10.491 1 104.25 ? O4 NAG 202 B 1 HETATM 12 O O5 NAG . . . E 4 -3.553 -37.807 10.709 1 110.42 ? O5 NAG 202 B 1 HETATM 13 O O6 NAG . . . E 4 -5.845 -37.127 10.6 1 119.02 ? O6 NAG 202 B 1 HETATM 14 O O7 NAG . . . E 4 -0.595 -40.504 13.61 1 120.09 ? O7 NAG 202 B 1 # _model_server_stats.io_time_ms 73 _model_server_stats.parse_time_ms 22 _model_server_stats.create_model_time_ms 5 _model_server_stats.query_time_ms 867 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #