data_4Y4H # _model_server_result.job_id SnOmPLs47STreO2NnS2qGg _model_server_result.datetime_utc '2024-10-18 12:28:47' _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 4y4h # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"N","auth_seq_id":301}' # _entry.id 4Y4H # _exptl.entry_id 4Y4H _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 6 _entity.src_method syn _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 96.38 _cell.angle_gamma 90 _cell.entry_id 4Y4H _cell.length_a 79.417 _cell.length_b 150.379 _cell.length_c 102.49 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4Y4H _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall . _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 ? 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,C,D,I,J,L,M 1 1 E,F,G,H,K,N,O,P 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 ? 6 L N N ? 6 N N N ? 6 O N N # _pdbx_entity_branch.entity_id 5 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 5 _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 NAG _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 O4 _pdbx_entity_branch_link.leaving_atom_id_2 HO4 _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 5 n I NAG 1 I 1 NAG A 501 NAG 5 n I NAG 2 I 2 NAG A 502 NAG 5 n J NAG 1 J 1 NAG A 503 NAG 5 n J NAG 2 J 2 NAG A 504 NAG 5 n K NAG 1 K 1 NAG E 503 NAG 5 n K NAG 2 K 2 NAG E 504 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 104 A CYS 104 1_555 A SG CYS 168 A CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.067 ? disulf ? disulf2 A SG CYS 208 A CYS 208 1_555 A SG CYS 263 A CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.037 ? disulf ? disulf3 B SG CYS 25 B CYS 25 1_555 B SG CYS 80 B CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf4 C SG CYS 24 C CYS 23 1_555 C SG CYS 91 C CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.045 ? disulf ? disulf5 C SG CYS 138 C CYS 137 1_555 C SG CYS 188 C CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.058 ? disulf ? disulf6 C SG CYS 163 C CYS 162 1_555 D SG CYS 169 D CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.051 ? disulf ? disulf7 D SG CYS 24 D CYS 23 1_555 D SG CYS 92 D CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 D SG CYS 143 D CYS 142 1_555 D SG CYS 208 D CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? disulf ? disulf9 E SG CYS 104 E CYS 104 1_555 E SG CYS 168 E CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.086 ? disulf ? disulf10 E SG CYS 208 E CYS 208 1_555 E SG CYS 263 E CYS 263 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.049 ? disulf ? disulf11 F SG CYS 25 F CYS 25 1_555 F SG CYS 80 F CYS 80 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.03 ? disulf ? disulf12 G SG CYS 24 G CYS 23 1_555 G SG CYS 91 G CYS 90 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.066 ? disulf ? disulf13 G SG CYS 138 G CYS 137 1_555 G SG CYS 188 G CYS 187 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.053 ? disulf ? disulf14 G SG CYS 163 G CYS 162 1_555 H SG CYS 169 H CYS 168 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.044 ? disulf ? disulf15 H SG CYS 24 H CYS 23 1_555 H SG CYS 92 H CYS 91 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.036 ? disulf ? disulf16 H SG CYS 143 H CYS 142 1_555 H SG CYS 208 H CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.024 ? covale ? covale1 A ND2 ASN 20 A ASN 20 1_555 L C1 NAG . A NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale2 A ND2 ASN 42 A ASN 42 1_555 I C1 NAG . I NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.449 ? covale ? covale3 A ND2 ASN 165 A ASN 165 1_555 J C1 NAG . J NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.427 ? covale ? covale4 E ND2 ASN 20 E ASN 20 1_555 N C1 NAG . E NAG 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.453 ? covale ? covale5 E ND2 ASN 42 E ASN 42 1_555 O C1 NAG . E NAG 302 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.446 ? covale ? covale6 E ND2 ASN 165 E ASN 165 1_555 K C1 NAG . K NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.448 ? covale ? covale7 I O4 NAG . I NAG 1 1_555 I C1 NAG . I NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.44 ? covale ? covale8 J O4 NAG . J NAG 1 1_555 J C1 NAG . J NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.454 ? covale ? covale9 K O4 NAG . K NAG 1 1_555 K C1 NAG . K NAG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.439 ? # _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 ? # 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 4Y4H _atom_sites.fract_transf_matrix[1][1] 0.012592 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.001407 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.00665 _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] 0.009818 _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 L 6 NAG A 1 301 500 NAG NAG . M 7 49X A 1 306 1 49X 152 . N 6 NAG E 1 301 500 NAG NAG . O 6 NAG E 1 302 501 NAG NAG . P 7 49X E 1 305 1 49X 152 . # 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 . . . N 6 13.4 -37.895 7.478 1 98.21 ? C1 NAG 301 E 1 HETATM 2 C C2 NAG . . . N 6 12.818 -37.452 6.117 1 103.78 ? C2 NAG 301 E 1 HETATM 3 C C3 NAG . . . N 6 11.839 -36.263 6.184 1 106.95 ? C3 NAG 301 E 1 HETATM 4 C C4 NAG . . . N 6 11.045 -36.147 7.488 1 105.82 ? C4 NAG 301 E 1 HETATM 5 C C5 NAG . . . N 6 11.949 -36.436 8.682 1 102.11 ? C5 NAG 301 E 1 HETATM 6 C C6 NAG . . . N 6 11.233 -36.283 10.027 1 100.66 ? C6 NAG 301 E 1 HETATM 7 C C7 NAG . . . N 6 14.248 -38.028 4.178 1 93.99 ? C7 NAG 301 E 1 HETATM 8 C C8 NAG . . . N 6 15.375 -37.599 3.27 1 82.57 ? C8 NAG 301 E 1 HETATM 9 N N2 NAG . . . N 6 13.889 -37.176 5.154 1 98.69 ? N2 NAG 301 E 1 HETATM 10 O O3 NAG . . . N 6 10.899 -36.4 5.142 1 112.45 ? O3 NAG 301 E 1 HETATM 11 O O4 NAG . . . N 6 10.425 -34.877 7.585 1 102.54 ? O4 NAG 301 E 1 HETATM 12 O O5 NAG . . . N 6 12.454 -37.751 8.525 1 100.84 ? O5 NAG 301 E 1 HETATM 13 O O6 NAG . . . N 6 10.354 -37.365 10.26 1 101.25 ? O6 NAG 301 E 1 HETATM 14 O O7 NAG . . . N 6 13.705 -39.127 4.005 1 91.04 ? O7 NAG 301 E 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 22 _model_server_stats.query_time_ms 310 _model_server_stats.encode_time_ms 7 _model_server_stats.element_count 14 #